BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= gi|15645364|ref|NP_207538.1| conserved hypothetical
protein [Helicobacter pylori 26695]
(327 letters)
Database: /home/scwang/download_20020708_db/nr
1,026,957 sequences; 324,149,939 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_207538.1| (NC_000915) conserved hypothetical protein... 644 0.0
ref|NP_223400.1| (NC_000921) putative [Helicobacter pylori ... 605 e-172
ref|NP_282427.1| (NC_002163) putative ribosomal pseudouridi... 286 3e-76
ref|NP_623145.1| (NC_003869) Pseudouridylate synthase, 23S ... 170 2e-41
ref|NP_214204.1| (NC_000918) hypothetical protein [Aquifex ... 168 9e-41
ref|NP_228272.1| (NC_000853) conserved hypothetical protein... 167 1e-40
ref|NP_267154.1| (NC_002662) pseudouridine synthase [Lactoc... 162 5e-39
ref|NP_471291.1| (NC_003212) similar to conserved hypotheti... 161 1e-38
ref|NP_562766.1| (NC_003366) conserved hypothetical protein... 160 2e-38
ref|NP_539294.1| (NC_003317) RIBOSOMAL LARGE SUBUNIT PSEUDO... 159 3e-38
ref|NP_465368.1| (NC_003210) similar to conserved hypotheti... 159 5e-38
ref|NP_604269.1| (NC_003454) Ribosomal large subunit pseudo... 158 9e-38
ref|NP_348732.1| (NC_003030) Predicted pseudouridylate synt... 158 9e-38
ref|NP_221194.1| (NC_000963) SFHB PROTEIN HOMOLOG (sfhB) [R... 157 1e-37
ref|NP_657862.1| (NC_003995) PseudoU_synth_2, RNA pseudouri... 156 3e-37
ref|NP_484566.1| (NC_003272) probable pseudouridine synthas... 155 5e-37
ref|NP_243408.1| (NC_002570) BH2542~unknown conserved prote... 153 2e-36
ref|NP_345413.1| (NC_003028) ribosomal large subunit pseudo... 153 3e-36
ref|NP_358424.1| (NC_003098) 23S rRNA pseudouridine synthas... 152 4e-36
ref|NP_326129.1| (NC_002771) RIBOSOMAL LARGE SUBUNIT PSEUDO... 149 3e-35
sp|Q45480|YLYB_BACSU Hypothetical protein ylyB >gi|1373157|... 149 6e-35
ref|NP_360947.1| (NC_003103) sfhB protein homolog [Ricketts... 148 7e-35
ref|NP_072871.1| (NC_000908) sfhB protein, putative [Mycopl... 146 3e-34
ref|NP_109980.1| (NC_000912) similar to RIBOSOMAL LARGE SUB... 146 3e-34
ref|NP_607042.1| (NC_003485) conserved hypothetical protein... 144 2e-33
ref|NP_269039.1| (NC_002737) conserved hypothetical protein... 143 2e-33
ref|NP_371721.1| (NC_002758) conserved hypothetical protein... 141 9e-33
ref|NP_441760.1| (NC_000911) hypothetical protein [Synechoc... 140 3e-32
gb|AAC69264.1| (AF025979) conserved hypothetical protein [H... 139 4e-32
ref|NP_078147.1| (NC_002162) pseudouridine synthase (uracil... 139 4e-32
ref|NP_645897.1| (NC_003923) conserved hypothetical protein... 138 7e-32
ref|NP_563038.1| (NC_003366) conserved hypothetical protein... 137 1e-31
ref|NP_177732.1| (NM_106254) RNA pseudouridylate synthase, ... 137 2e-31
ref|NP_212152.1| (NC_001318) conserved hypothetical protein... 134 1e-30
sp|P70870|RLUD_BORBU Ribosomal large subunit pseudouridine ... 134 1e-30
ref|NP_355395.1| (NC_003062) AGR_C_4432p [Agrobacterium tum... 132 5e-30
ref|NP_295512.1| (NC_001263) ribosomal large subunit pseudo... 132 7e-30
emb|CAA70352.1| (Y09142) product homologous to E.coli YfiI ... 132 7e-30
ref|NP_228748.1| (NC_000853) ribosomal large subunit pseudo... 130 2e-29
sp|O50310|YBC5_CHLVI Hypothetical 36.7 kDa protein in BCHI ... 130 2e-29
ref|NP_533115.1| (NC_003304) pseudouridine synthase homolog... 130 3e-29
ref|NP_386831.1| (NC_003047) PUTATIVE RIBOSOMAL LARGE SUBUN... 129 5e-29
sp|P50513|RLUD_ZYMMO RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE ... 129 6e-29
ref|NP_389429.1| (NC_000964) alternate gene name: ylmL~simi... 129 6e-29
ref|NP_104781.1| (NC_002678) pseudouridine synthase [Mesorh... 129 6e-29
ref|NP_273746.1| (NC_003112) ribosomal large subunit pseudo... 127 2e-28
ref|NP_283696.1| (NC_003116) putative ribosomal large subun... 127 2e-28
gb|AAG10501.1|AF279106_63 (AF279106) predicted ribosomal la... 127 2e-28
ref|NP_298229.1| (NC_002488) ribosomal large subunit pseudo... 126 3e-28
gb|AAF26765.1|AC007396_14 (AC007396) T4O12.25 [Arabidopsis ... 125 7e-28
sp|Q45826|YMDA_CHLAU Hypothetical protein in MDH 5'region (... 123 3e-27
ref|NP_603548.1| (NC_003454) Ribosomal large subunit pseudo... 122 6e-27
ref|NP_643525.1| (NC_003919) ribosomal large subunit pseudo... 122 7e-27
ref|NP_253234.1| (NC_002516) pseudouridine synthase [Pseudo... 122 7e-27
ref|NP_662187.1| (NC_002932) ribosomal large subunit pseudo... 122 7e-27
ref|NP_638435.1| (NC_003902) ribosomal large subunit pseudo... 121 9e-27
ref|NP_419272.1| (NC_002696) ribosomal large subunit pseudo... 121 1e-26
ref|NP_470305.1| (NC_003212) similar to ribosomal large sub... 121 1e-26
ref|NP_347897.1| (NC_003030) Pseudouridylate synthase famil... 119 4e-26
ref|NP_230358.1| (NC_002505) ribosomal large subunit pseudo... 119 5e-26
ref|NP_464494.1| (NC_003210) similar to ribosomal large sub... 119 5e-26
ref|NP_296413.1| (NC_002620) ribosomal large subunit pseudo... 118 8e-26
ref|NP_660729.1| (NC_004061) ribosomal large subunit pseudo... 118 8e-26
ref|NP_519749.1| (NC_003295) PROBABLE RIBOSOMAL LARGE SUBUN... 117 2e-25
ref|NP_623370.1| (NC_003869) Pseudouridylate synthase, 23S ... 116 3e-25
ref|NP_231662.1| (NC_002505) ribosomal large subunit pseudo... 116 3e-25
ref|NP_607212.1| (NC_003485) conserved hypothetical protein... 115 5e-25
ref|NP_438574.1| (NC_000907) conserved hypothetical protein... 115 7e-25
ref|NP_345571.1| (NC_003028) ribosomal large subunit pseudo... 114 2e-24
ref|NP_269281.1| (NC_002737) conserved hypothetical protein... 114 2e-24
ref|NP_655191.1| (NC_003995) PseudoU_synth_2, RNA pseudouri... 114 2e-24
ref|NP_224915.1| (NC_000922) predicted Pseudouridine Syntha... 113 3e-24
ref|NP_220177.1| (NC_000117) (Pseudouridine Synthase) [Chla... 112 4e-24
dbj|BAB13516.1| (AB037369) pseudouridine synthase homolog [... 112 8e-24
ref|NP_417085.1| (NC_000913) suppressor of ftsH mutation [E... 110 2e-23
ref|NP_311484.1| (NC_002695) suppressor of ftsH mutation [E... 110 2e-23
ref|NP_388802.1| (NC_000964) similar to hypothetical protei... 109 4e-23
ref|NP_289149.1| (NC_002655) suppressor of ftsH mutation [E... 109 4e-23
ref|NP_245929.1| (NC_002663) RluC [Pasteurella multocida] >... 108 6e-23
ref|NP_240167.1| (NC_002528) ribosomal large subunit pseudo... 108 8e-23
ref|NP_389044.1| (NC_000964) similar to hypothetical protei... 108 8e-23
ref|NP_415604.1| (NC_000913) orf, hypothetical protein [Esc... 108 8e-23
ref|NP_246658.1| (NC_002663) SfB [Pasteurella multocida] >g... 108 1e-22
ref|NP_240218.1| (NC_002528) ribosomal large subunit pseudo... 108 1e-22
ref|NP_287220.1| (NC_002655) orf, hypothetical protein [Esc... 107 1e-22
gb|AAL79727.1|AC091774_18 (AC091774) putative ribosomal lar... 107 1e-22
ref|NP_218779.1| (NC_000919) conserved hypothetical protein... 107 1e-22
ref|NP_455681.1| (NC_003198) ribosomal large subunit pseudo... 107 2e-22
ref|NP_660679.1| (NC_004061) ribosomal large subunit pseudo... 107 2e-22
ref|NP_216056.1| (NC_000962) hypothetical protein Rv1540 [M... 106 3e-22
ref|NP_460157.1| (NC_003197) 23S rRNA pseudouridylate synth... 106 3e-22
ref|NP_406747.1| (NC_003143) ribosomal large subunit pseudo... 105 5e-22
gb|AAF78056.1|AF263561_1 (AF263561) 23S rRNA pseudouridine ... 105 7e-22
ref|NP_273256.1| (NC_003112) ribosomal large subunit pseudo... 105 9e-22
ref|NP_457133.1| (NC_003198) ftsH suppressor protein SfhB [... 104 1e-21
ref|NP_601339.1| (NC_003450) COG0564:Pseudouridylate syntha... 104 1e-21
ref|NP_626332.1| (NC_003888) putative ribosomal large subun... 103 3e-21
ref|NP_282921.1| (NC_003116) ribosomal large subunit pseudo... 103 3e-21
ref|NP_655109.1| (NC_003995) PseudoU_synth_2, RNA pseudouri... 102 5e-21
ref|NP_301874.1| (NC_002677) putative pseudouridine synthas... 102 5e-21
ref|NP_346438.1| (NC_003028) ribosomal large subunit pseudo... 102 8e-21
ref|NP_438344.1| (NC_000907) sfhB protein (sfhB) [Haemophil... 101 1e-20
ref|NP_268269.1| (NC_002662) pseudouridine synthase [Lactoc... 101 1e-20
ref|NP_359416.1| (NC_003098) Ribosomal large subunit pseudo... 100 3e-20
ref|NP_405172.1| (NC_003143) ribosomal large subunit pseudo... 99 9e-20
ref|NP_281244.1| (NC_002163) putative ribosomal pseudouridi... 99 9e-20
dbj|BAA16479.1| (D90887) similar to [SwissProt Accession Nu... 98 1e-19
ref|NP_243713.1| (NC_002570) BH2847~unknown conserved prote... 97 2e-19
ref|NP_603923.1| (NC_003454) tRNA pseudouridine synthase A ... 97 2e-19
ref|NP_471677.1| (NC_003212) similar to putative ribosomal ... 97 3e-19
pir||B23747 ORFX protein, 5' of ams - Escherichia coli (fra... 96 4e-19
ref|NP_347651.1| (NC_003030) Pseudouridylate synthase [Clos... 96 6e-19
ref|NP_465768.1| (NC_003210) similar to putative ribosomal ... 96 7e-19
ref|NP_562120.1| (NC_003366) ribosomal large subunit pseudo... 96 7e-19
ref|NP_608079.1| (NC_003485) conserved hypothetical protein... 95 9e-19
ref|NP_270003.1| (NC_002737) conserved hypothetical protein... 94 2e-18
gb|AAF32394.1|AF224466_1 (AF224466) putative pseudouridylat... 92 1e-17
ref|NP_519162.1| (NC_003295) PROBABLE RIBOSOMAL LARGE SUBUN... 91 2e-17
ref|NP_420787.1| (NC_002696) ribosomal large subunit pseudo... 90 3e-17
ref|NP_207748.1| (NC_000915) conserved hypothetical protein... 90 4e-17
ref|NP_299883.1| (NC_002488) pseudouridylate synthase [Xyle... 90 4e-17
ref|NP_251665.1| (NC_002516) ribosomal large subunit pseudo... 89 5e-17
ref|NP_266520.1| (NC_002662) pseudouridine synthase [Lactoc... 89 9e-17
ref|NP_014575.1| (NC_001147) Riboflavin biosynthesis; Rib2p... 88 2e-16
ref|NP_223608.1| (NC_000921) putative [Helicobacter pylori ... 87 2e-16
ref|NP_356602.1| (NC_003063) AGR_L_1625p [Agrobacterium tum... 86 4e-16
ref|NP_637448.1| (NC_003902) pseudouridylate synthase [Xant... 85 1e-15
ref|NP_077944.1| (NC_002162) pseudouridine synthase (uracil... 84 2e-15
ref|NP_212949.1| (NC_001318) conserved hypothetical protein... 84 3e-15
ref|NP_073042.1| (NC_000908) conserved hypothetical protein... 84 3e-15
gb|AAD12509.1| (U02214) Homology to M62747 [Mycoplasma geni... 82 6e-15
ref|NP_359981.1| (NC_003103) ribosomal large subunit pseudo... 82 8e-15
ref|NP_251936.1| (NC_002516) pseudouridine synthase RluA [P... 82 1e-14
ref|NP_488120.1| (NC_003272) ribosomal large chain pseudour... 82 1e-14
ref|NP_220643.1| (NC_000963) unknown [Rickettsia prowazekii... 82 1e-14
ref|NP_642429.1| (NC_003919) pseudouridylate synthase [Xant... 81 1e-14
ref|NP_493778.1| (NM_061377) K07E8.7.p [Caenorhabditis eleg... 81 2e-14
ref|NP_420097.1| (NC_002696) ribosomal large subunit pseudo... 81 2e-14
ref|NP_385495.1| (NC_003047) PROBABLE RIBOSOMAL LARGE SUBUN... 80 3e-14
ref|NP_010248.1| (NC_001136) Hypothetical ORF; Ydl036cp [Sa... 80 3e-14
pir||S26602 hypothetical protein 185 - Pseudomonas aerugino... 80 4e-14
ref|NP_296760.1| (NC_002620) RNA pseudouridylate synthase f... 80 4e-14
ref|NP_354476.1| (NC_003062) AGR_C_2714p [Agrobacterium tum... 79 5e-14
ref|NP_532161.1| (NC_003304) ribosomal large subunit pseudo... 79 5e-14
ref|NP_232505.1| (NC_002506) ribosomal large subunit pseudo... 79 7e-14
ref|NP_102152.1| (NC_002678) ribosomal large subunit pseudo... 79 7e-14
ref|NP_325948.1| (NC_002771) RIBOSOMAL LARGE SUBUNIT PSEUDO... 78 1e-13
ref|NP_246775.1| (NC_002663) RsuA [Pasteurella multocida] >... 78 1e-13
ref|NP_599568.1| (NC_003450) COG0564:Pseudouridylate syntha... 78 2e-13
ref|NP_219609.1| (NC_000117) predicted pseudouridine synthe... 77 2e-13
ref|NP_232134.1| (NC_002505) ribosomal large subunit pseudo... 77 3e-13
ref|NP_454707.1| (NC_003198) ribosomal large subunit pseudo... 77 3e-13
ref|NP_459100.1| (NC_003197) 23S rRNA pseudouridylate 746 s... 77 3e-13
ref|NP_230535.1| (NC_002505) pseudouridine synthase Rlu fam... 75 1e-12
ref|NP_539900.1| (NC_003317) RIBOSOMAL LARGE SUBUNIT PSEUDO... 74 2e-12
sp|O66114|YLP4_ZYMMO Hypothetical 24.4 kDa protein in LPD 3... 74 2e-12
ref|NP_110237.1| (NC_000912) pseudouridine synthase [Mycopl... 74 3e-12
sp|Q47417|YQCB_ERWCA Exoenzyme regulation regulon ORF1 >gi|... 73 5e-12
ref|NP_635620.1| (NC_003902) pseudouridylate synthase [Xant... 72 7e-12
ref|NP_281880.1| (NC_002163) putative ribosomal pseudouridi... 72 9e-12
ref|NP_640600.1| (NC_003919) pseudouridylate synthase [Xant... 72 1e-11
ref|NP_438215.1| (NC_000907) conserved hypothetical protein... 72 1e-11
ref|NP_440308.1| (NC_000911) hypothetical protein [Synechoc... 70 3e-11
ref|NP_414600.1| (NC_000913) pseudouridylate synthase; orf,... 70 3e-11
ref|NP_285754.1| (NC_002655) orf, hypothetical protein [Esc... 70 4e-11
ref|NP_478072.1| (NM_058192) ribosomal large subunit pseudo... 70 4e-11
ref|NP_245416.1| (NC_002663) unknown [Pasteurella multocida... 69 6e-11
ref|NP_438775.1| (NC_000907) conserved hypothetical protein... 69 7e-11
ref|XP_128468.1| (XM_128468) RIKEN cDNA 2310051D06 gene [Mu... 69 7e-11
ref|XP_031554.2| (XM_031554) similar to CG6187 gene product... 69 1e-10
ref|NP_372374.1| (NC_002758) conserved hypothetical protein... 69 1e-10
gb|AAH07697.1|AAH07697 (BC007697) Unknown (protein for IMAG... 69 1e-10
ref|NP_275010.1| (NC_003112) conserved hypothetical protein... 68 1e-10
ref|NP_283249.1| (NC_003116) putative psedouridine synthase... 68 1e-10
ref|NP_295407.1| (NC_001263) pseudouridine synthase, putati... 68 1e-10
gb|AAF52959.1| (AE003628) CG7475 gene product [Drosophila m... 68 2e-10
ref|NP_207145.1| (NC_000915) conserved hypothetical protein... 67 3e-10
ref|NP_231304.1| (NC_002505) pseudouridine synthase Rlu fam... 67 3e-10
ref|XP_130420.1| (XM_130420) similar to CG6187 gene product... 67 4e-10
gb|EAA14556.1| (AAAB01008980) ebiP4675 [Anopheles gambiae s... 66 5e-10
gb|AAF52961.1| (AE003628) CG6187 gene product [Drosophila m... 66 6e-10
ref|NP_609411.1| (NM_135567) CG6187 gene product [Drosophil... 66 6e-10
ref|NP_645706.1| (NC_003923) conserved hypothetical protein... 66 6e-10
ref|NP_011685.1| (NC_001139) RNA:Psi-synthase; Pus6p [Sacch... 66 6e-10
ref|XP_134644.1| (XM_134644) RIKEN cDNA 2410001E19 [Mus mus... 65 1e-09
ref|NP_223040.1| (NC_000921) putative [Helicobacter pylori ... 65 1e-09
gb|AAM61068.1| (AY084499) unknown [Arabidopsis thaliana] 65 1e-09
ref|NP_199927.1| (NM_124493) putative protein [Arabidopsis ... 64 2e-09
gb|AAL31256.1| (AY061753) AT5g51140/MWD22_8 [Arabidopsis th... 64 2e-09
ref|NP_371532.1| (NC_002758) conserved hypothetical protein... 64 2e-09
ref|NP_289346.1| (NC_002655) Z4107 gene product [Escherichi... 64 2e-09
ref|NP_417271.1| (NC_000913) orf, hypothetical protein [Esc... 64 2e-09
ref|NP_404651.1| (NC_003143) Conserved hypothetical protein... 64 2e-09
ref|NP_404140.1| (NC_003143) ribosomal large subunit pseudo... 63 4e-09
ref|NP_457360.1| (NC_003198) putative RNA pseudouridylate s... 63 5e-09
ref|NP_190794.1| (NM_115086) pseudouridine synthase, putati... 62 7e-09
ref|NP_461885.1| (NC_003197) putative synthase [Salmonella ... 62 7e-09
sp|P44197|YQCB_HAEIN Hypothetical protein HI1435 60 3e-08
ref|NP_245570.1| (NC_002663) unknown [Pasteurella multocida... 60 4e-08
ref|NP_294685.1| (NC_001263) ribosomal large subunit pseudo... 59 6e-08
gb|AAF77202.1|AC005801_8 (AC005801) 511.8 [Leishmania major] 59 6e-08
gb|AAA64631.1| (U02459) C-terminal sequence of ORF C produc... 59 8e-08
gb|EAA09234.1| (AAAB01008898) agCP13979 [Anopheles gambiae ... 59 1e-07
ref|NP_283855.1| (NC_003116) hypothetical protein NMA1085 [... 58 2e-07
ref|NP_273908.1| (NC_003112) YabO/YceC/SfhB family protein ... 58 2e-07
ref|NP_602133.1| (NC_003450) COG0564:Pseudouridylate syntha... 55 1e-06
gb|AAF08596.1|U38836_1 (U38836) the hypothetical protein;si... 54 2e-06
ref|XP_165571.1| (XM_165571) hypothetical protein FLJ14494 ... 54 2e-06
ref|NP_116184.1| (NM_032795) hypothetical protein FLJ14494 ... 54 2e-06
ref|NP_188575.1| (NM_112831) unknown protein [Arabidopsis t... 54 2e-06
gb|AAG24942.1|AF128845_1 (AF128845) RluD [Sinorhizobium mel... 52 7e-06
ref|NP_218671.1| (NC_000919) conserved hypothetical protein... 52 9e-06
gb|AAL47436.1| (AY069882) AT3g52260/T25B15_30 [Arabidopsis ... 52 9e-06
emb|CAB46588.1| (AJ132945) hypothetical protein [Yersinia e... 52 1e-05
ref|NP_592881.1| (NC_003424) hypothetical protein [Schizosa... 51 2e-05
gb|AAC69259.1| (AF025970) hypothetical protein [Helicobacte... 47 3e-04
ref|NP_213389.1| (NC_000918) hypothetical protein [Aquifex ... 45 0.001
gb|AAB09035.1| (U68242) orfEU5; uncharacterized orf upstrea... 45 0.001
gb|AAA03374.1| (U02220) unknown [Mycoplasma genitalium] 44 0.002
ref|NP_218593.1| (NC_000919) conserved hypothetical protein... 44 0.002
ref|NP_439399.1| (NC_000907) 16s pseudouridylate 516 syntha... 44 0.003
ref|NP_013266.1| (NC_001144) Pus5p [Saccharomyces cerevisia... 44 0.003
ref|NP_439586.1| (NC_000907) conserved hypothetical protein... 44 0.003
ref|NP_224603.1| (NC_000922) predicted pseudouridine synthe... 43 0.004
ref|NP_646513.1| (NC_003923) ORFID:MW1696~hypothetical prot... 43 0.004
ref|NP_178012.1| (NM_106540) hypothetical protein [Arabidop... 43 0.004
ref|NP_047053.1| (NC_001905) L2759.7 [Leishmania major] >gi... 42 0.007
ref|NP_372277.1| (NC_002758) hypothetical protein [Staphylo... 42 0.007
dbj|BAB26589.1| (AK009926) data source:SPTR, source key:Q9U... 42 0.007
ref|NP_346306.1| (NC_003028) ribosomal large subunit pseudo... 42 0.010
ref|NP_606662.1| (NC_003485) putative hypothetical protein ... 42 0.010
gb|AAH12951.1|AAH12951 (BC012951) Unknown (protein for IMAG... 42 0.010
>ref|NP_207538.1| (NC_000915) conserved hypothetical protein [Helicobacter pylori
26695]
sp|O25441|Y745_HELPY Hypothetical protein HP0745
pir||A64613 conserved hypothetical protein HP0745 - Helicobacter pylori
(strain 26695)
gb|AAD07795.1| (AE000587) conserved hypothetical protein [Helicobacter pylori
26695]
Length = 327
Score = 644 bits (1662), Expect = 0.0
Identities = 327/327 (100%), Positives = 327/327 (100%)
Query: 1 MQKVFIALTDHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITL 60
MQKVFIALTDHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITL
Sbjct: 1 MQKVFIALTDHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITL 60
Query: 61 LTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYEL 120
LTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYEL
Sbjct: 61 LTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYEL 120
Query: 121 SNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEK 180
SNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEK
Sbjct: 121 SNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEK 180
Query: 181 MSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQI 240
MSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQI
Sbjct: 181 MSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQI 240
Query: 241 RAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLE 300
RAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLE
Sbjct: 241 RAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLE 300
Query: 301 YLKKVFDKENLDEVLDEEKILHAFIAK 327
YLKKVFDKENLDEVLDEEKILHAFIAK
Sbjct: 301 YLKKVFDKENLDEVLDEEKILHAFIAK 327
>ref|NP_223400.1| (NC_000921) putative [Helicobacter pylori J99]
sp|Q9ZL98|Y745_HELPJ Hypothetical protein JHP0682
pir||B71900 hypothetical protein jhp0682 - Helicobacter pylori (strain J99)
gb|AAD06270.1| (AE001500) putative [Helicobacter pylori J99]
Length = 327
Score = 605 bits (1561), Expect = e-172
Identities = 309/327 (94%), Positives = 315/327 (95%)
Query: 1 MQKVFIALTDHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITL 60
MQKVFIA T +KR+DEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGD ITL
Sbjct: 1 MQKVFIAPTHYKRIDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDAITL 60
Query: 61 LTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYEL 120
LTPKI PKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKA SVKEPTLVDWL+ +NYEL
Sbjct: 61 LTPKIVPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKAPSVKEPTLVDWLKSQNYEL 120
Query: 121 SNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEK 180
SNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHV LSEQLKTKMMGRYYIALLSTPLKEEK
Sbjct: 121 SNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVCLSEQLKTKMMGRYYIALLSTPLKEEK 180
Query: 181 MSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQI 240
MSVECYLTRNPNNRLKMIALKA KKEKSRYSKSEF SLLTSQN ++LIGAKLFTGRTHQI
Sbjct: 181 MSVECYLTRNPNNRLKMIALKAAKKEKSRYSKSEFTSLLTSQNGMDLIGAKLFTGRTHQI 240
Query: 241 RAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLE 300
RAHLEYLNRHIIGDNLYGLNG L KEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLE
Sbjct: 241 RAHLEYLNRHIIGDNLYGLNGVLSKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLE 300
Query: 301 YLKKVFDKENLDEVLDEEKILHAFIAK 327
YLKKVFDKENLDEVLDEEKILHAFIAK
Sbjct: 301 YLKKVFDKENLDEVLDEEKILHAFIAK 327
>ref|NP_282427.1| (NC_002163) putative ribosomal pseudouridine synthase
[Campylobacter jejuni]
pir||B81336 pseudouridylate synthase (EC 4.2.1.70) rRNA-specific Cj1280c
[imported] - Campylobacter jejuni (strain NCTC 11168)
emb|CAB73534.1| (AL139077) putative ribosomal pseudouridine synthase [Campylobacter
jejuni]
Length = 322
Score = 286 bits (731), Expect = 3e-76
Identities = 166/318 (52%), Positives = 222/318 (69%), Gaps = 13/318 (4%)
Query: 10 DHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITP-- 67
++ RLD FLAK+L S+NQV LI++ V K K LK GD I++ + K+
Sbjct: 8 ENSRLDVFLAKKLNQSRNQVALLIEKDCVQVNDKIQDKNSFKLKNGDIISIASLKLCNEI 67
Query: 68 KPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKE 127
KP + E+D +I+V++EDEDLLVLNKP NLVVH A SVK TLVDWL K Y LSNLG +
Sbjct: 68 KP-QFEVDFDIDVLYEDEDLLVLNKPSNLVVHGASSVKNATLVDWLIEKKYTLSNLGGEI 126
Query: 128 RYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYL 187
R G+VHRLDKDTSG I+IAKNNFTH LSEQL K MGR Y+AL+ PLKE+K+ VE +L
Sbjct: 127 RAGLVHRLDKDTSGAILIAKNNFTHQKLSEQLADKSMGRIYLALIDLPLKEDKIIVEKFL 186
Query: 188 TRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYL 247
R+P+N +K IA+ K S+ +KS FI+++ ++ NL L+ AKLFTGRTHQIRAHL L
Sbjct: 187 MRSPSNAIKKIAIDKENK-FSKNAKSAFINVVKTE-NLTLMAAKLFTGRTHQIRAHLASL 244
Query: 248 NRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKKVFD 307
NR+I+GD+LYG G K + RIMLHAY + F HP++++++ K PL++D + +F+
Sbjct: 245 NRYILGDSLYGYKG---KYDCRIMLHAYFLYFIHPKTKEQIFVKAPLMED---FKNIMFE 298
Query: 308 KENLDEVLDEEKILHAFI 325
+ NL E ++EKI F+
Sbjct: 299 QINLGE--NDEKISLEFL 314
>ref|NP_623145.1| (NC_003869) Pseudouridylate synthase, 23S RNA-specific
[Thermoanaerobacter tengcongensis]
gb|AAM24749.1| (AE013110) Pseudouridylate synthase, 23S RNA-specific
[Thermoanaerobacter tengcongensis]
Length = 309
Score = 170 bits (431), Expect = 2e-41
Identities = 108/301 (35%), Positives = 172/301 (56%), Gaps = 12/301 (3%)
Query: 12 KRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLK 71
KR+D FLA EL S++ + LI+EGLV K VK +KE DE+ + + +
Sbjct: 18 KRIDVFLASELDYSRSYIKKLIEEGLVLVNGKNVKPS-YKVKEDDEVIVNIKEAEKIEVV 76
Query: 72 KELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI 131
E ++ +++++EDED++V+NKP +VVH A TLV+ L + LS + R GI
Sbjct: 77 PE-NIPLDILYEDEDIIVINKPQGMVVHPAPGNYSGTLVNALLYHCKNLSGINGILRPGI 135
Query: 132 VHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNP 191
VHRLDKDTSG +V+AKN+ H+ LS Q+K + + + Y+A++ +KEE+ +E + R+P
Sbjct: 136 VHRLDKDTSGVMVVAKNDKAHMSLSNQIKERSVLKKYVAIVEGVIKEEEGKIEAPIGRHP 195
Query: 192 NNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHI 251
+R +M + + RY+ + + L +NN + A + TGRTHQIR HL Y+ +
Sbjct: 196 VDRKRMAVV-----QDGRYALTLYKVLERFKNN-TFVEATIKTGRTHQIRVHLSYIGHPV 249
Query: 252 IGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPL---LKDMLEYLKKVFDK 308
+GD +YG K E + LH+ ++ F HP + F+ PL +LE L+ D+
Sbjct: 250 VGDPVYGYKKQKFKLEGQ-ALHSKVLGFIHPTKGVYMEFEAPLPDYFTRLLEILRAEKDR 308
Query: 309 E 309
+
Sbjct: 309 D 309
>ref|NP_214204.1| (NC_000918) hypothetical protein [Aquifex aeolicus]
sp|O67638|YH58_AQUAE Hypothetical protein AQ_1758
pir||D70451 conserved hypothetical protein aq_1758 - Aquifex aeolicus
gb|AAC07603.1| (AE000754) hypothetical protein [Aquifex aeolicus]
Length = 316
Score = 168 bits (425), Expect = 9e-41
Identities = 100/290 (34%), Positives = 168/290 (57%), Gaps = 12/290 (4%)
Query: 10 DHKRLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPK 68
+ +RLD+FLA+ S++ + L+KEGLV+ +EV+K L+EG+ + L P+ P
Sbjct: 14 EEERLDKFLARAYPDFSRSYIKKLVKEGLVYVNGEEVRKPSRKLREGERVILHVPEPEPL 73
Query: 69 PLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKER 128
+K E ++ I +I+EDED+ V+ KP LVVH + TLV+ L + +LS++G ER
Sbjct: 74 DVKPE-NIPINIIYEDEDIAVVEKPCGLVVHPSPGYTSGTLVNALLYHIKDLSSIGGVER 132
Query: 129 YGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLT 188
GIVHRLDK+T+G +VIAKNN H +L Q + + ++Y L+ +K++ +++ +
Sbjct: 133 PGIVHRLDKETAGVMVIAKNNTAHRNLVRQFQERKTEKFYKVLVKGLVKKDYGAIDTPIA 192
Query: 189 RNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLN 248
R+P +R + K K+ + Y ++ + + L+ K+ TGRTHQIR H +
Sbjct: 193 RHPVDRKRFWVRKEGKEALTEY----WVLKRYEKYEITLLKVKIHTGRTHQIRVHFASIG 248
Query: 249 RHIIGDNLYGL-NGALPKEEIRI-----MLHAYLIEFKHPRSEQKLRFKV 292
++GD YG + ++PKE + + ML AY + F HP + + F++
Sbjct: 249 HPVLGDRTYGFKSSSVPKELLSLMGECNMLIAYHLGFYHPTKGEWMVFEI 298
>ref|NP_228272.1| (NC_000853) conserved hypothetical protein [Thermotoga maritima]
pir||F72373 conserved hypothetical protein - Thermotoga maritima (strain MSB8)
gb|AAD35547.1|AE001724_5 (AE001724) conserved hypothetical protein [Thermotoga maritima]
Length = 311
Score = 167 bits (424), Expect = 1e-40
Identities = 107/302 (35%), Positives = 174/302 (57%), Gaps = 17/302 (5%)
Query: 13 RLDEFLAKELQ--ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
RLD+FL ++ IS++ + IKEG V ++KK LKEG+ + + P+ +
Sbjct: 14 RLDQFLKEKTPSWISRSMIQKAIKEGKVKVNG-QIKKPSYKLKEGEIVEVDLPEKPQEAT 72
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG 130
+ ++E++V++ED D++V++KP +++VH S TLV+ L +L +G K R G
Sbjct: 73 VQPEEIELKVLYEDRDIIVIDKPGDMIVHPVPSKLSGTLVNALLHHCKDLQGVGGKLRPG 132
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
IVHRLDK+TSG IV+AKN+F H LS+Q K + + + YI L+ +K ++ ++ L R+
Sbjct: 133 IVHRLDKETSGVIVVAKNDFAHQSLSKQFKDRKVKKTYILLVKGKMKNDEGVIDLPLARH 192
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
P R+KM + E + + +E+ L + L+ A TGRTHQIR H++ L
Sbjct: 193 PVLRIKMAVV-----ETGKEAITEYRVLKRFDDVATLVLAFPKTGRTHQIRVHMKSLGHP 247
Query: 251 IIGDNLYGLNGALPKEE-----IRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKKV 305
I+GD +YG PKE+ R MLHA + F HPR+ + + F PL +D E ++++
Sbjct: 248 IMGDKIYG----KPKEDEIFGIKRQMLHALKLGFFHPRTGEWMEFVSPLPEDFKEAIRRI 303
Query: 306 FD 307
+
Sbjct: 304 HE 305
>ref|NP_267154.1| (NC_002662) pseudouridine synthase [Lactococcus lactis subsp.
lactis]
gb|AAK05096.1|AE006334_2 (AE006334) pseudouridine synthase [Lactococcus lactis subsp.
lactis]
Length = 301
Score = 162 bits (410), Expect = 5e-39
Identities = 104/293 (35%), Positives = 157/293 (53%), Gaps = 9/293 (3%)
Query: 13 RLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKK 72
RLD+ LA + + S++ + LIK VF E KK +K GD I P+ +
Sbjct: 14 RLDKALANQTEYSRSLLTELIKNDKVFVNS-EAKKAKYKVKVGDRIEFEVPEAEVLDIVA 72
Query: 73 ELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIV 132
E DL +E+I+ED D+ V+NKP +VVH A TLV+ + + +LS++ R GIV
Sbjct: 73 E-DLPLEIIYEDSDVAVVNKPQGMVVHPAAGHASGTLVNAIMYHIKDLSSINGVIRPGIV 131
Query: 133 HRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPN 192
HR+DKDTSG ++IAKN+ H L+ QLK K R Y+A++ + +K ++E + RN
Sbjct: 132 HRIDKDTSGLLMIAKNDKAHESLAAQLKDKTSKRRYLAIVHGEIANDKGTIEAPIGRNLK 191
Query: 193 NRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHII 252
+R K + K + + +L LI +L TGRTHQIR H+ Y+ +
Sbjct: 192 DRKKQAVVSGGKPAVTHF------EVLERFYGYTLIALRLETGRTHQIRVHMNYIGHPVA 245
Query: 253 GDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKKV 305
GD LYG N L + + LHA + F HP + + + F+V + E L+K+
Sbjct: 246 GDPLYGPNKTLTPNKGQ-FLHAETLGFDHPTTGEFMEFQVDAPEIFNEQLEKL 297
>ref|NP_471291.1| (NC_003212) similar to conserved hypothetical proteins [Listeria
innocua]
emb|CAC97187.1| (AL596170) similar to conserved hypothetical proteins [Listeria
innocua]
Length = 302
Score = 161 bits (407), Expect = 1e-38
Identities = 105/302 (34%), Positives = 167/302 (54%), Gaps = 17/302 (5%)
Query: 12 KRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLK 71
+R+D+ +A+ ++ S++ + ++K G + E+ K ++ GDEI + +
Sbjct: 15 ERVDKVIAEMMEKSRSAIQLMLKNGDITVNG-ELAKPNYKVQVGDEIRYEAREPEELEIL 73
Query: 72 KELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI 131
E D+ +++ FED+D+LV+NKP +VVH + TLV+ L F +LS + K R GI
Sbjct: 74 AE-DIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCDDLSGINGKIRPGI 132
Query: 132 VHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNP 191
VHR+DKDTSG +++AKN+ H L++QLK K R YIAL+ + +K ++E + R
Sbjct: 133 VHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKGTIEAPIGRAK 192
Query: 192 NNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHI 251
+R KM ++ K+ ++ + E + T LI KL TGRTHQIR HL+Y+ +
Sbjct: 193 EDRQKMAVVRDGKEARTHFEVIERLPGYT------LINCKLDTGRTHQIRVHLKYIGHPL 246
Query: 252 IGDNLYGLNGALPKEEIR---IMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKKVFDK 308
GD YG PK I+ LHA + F HP + +++ F+ P L D E K +
Sbjct: 247 AGDPKYG-----PKNTIKGNGQFLHAAKLGFDHPTTNERMTFEAP-LPDSFEQALKSLRQ 300
Query: 309 EN 310
EN
Sbjct: 301 EN 302
>ref|NP_562766.1| (NC_003366) conserved hypothetical protein [Clostridium
perfringens]
dbj|BAB81556.1| (AP003192) conserved hypothetical protein [Clostridium perfringens]
Length = 306
Score = 160 bits (405), Expect = 2e-38
Identities = 105/313 (33%), Positives = 172/313 (54%), Gaps = 18/313 (5%)
Query: 1 MQKVFIALTDHK---RLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGD 56
+ K I +T+ + R D+FLA ++ +S+N + L +G + K +KG L GD
Sbjct: 3 LSKEVIKITEEEKGIRADKFLALKIDGVSRNFIQGLFDDGKILINGK-AEKGKYKLSVGD 61
Query: 57 EITLLTPKITPKPLKKEL-DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEF 115
+ + P+ P+ LK E D+ + +++EDED++V+NKP +VVH A TLV+ L
Sbjct: 62 CVEVEIPE--PEELKVEAEDIPLNIVYEDEDVIVVNKPKGMVVHPAPGNYTGTLVNALLH 119
Query: 116 KNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTP 175
+LS + R GIVHR+DKDTSG +V+AKN+ H L+EQ K + R Y A++
Sbjct: 120 HCDDLSGINGVIRPGIVHRIDKDTSGILVVAKNDNAHQKLAEQFKDHSIKREYYAIVEGR 179
Query: 176 LKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTG 235
K+E +++ L R+ +RLK +K K+ + Y +L N+ +L+ L TG
Sbjct: 180 FKKEGGTIDAPLGRHHRDRLKYAVVKDGKRAVTHY------EVLKVFNSCSLVKCTLETG 233
Query: 236 RTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLL 295
RTHQIR H+ ++ ++GD +YGL + +LHA + F HP + + + F
Sbjct: 234 RTHQIRVHMAFIGHPLLGDTVYGLKKQKKLSQEGQVLHAKTLGFIHPTTGEYVEFD---- 289
Query: 296 KDMLEYLKKVFDK 308
++ EY +K+ +K
Sbjct: 290 SELPEYFEKIVEK 302
>ref|NP_539294.1| (NC_003317) RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE D
[Brucella melitensis]
gb|AAL51558.1| (AE009479) RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE D
[Brucella melitensis]
Length = 347
Score = 159 bits (403), Expect = 3e-38
Identities = 112/316 (35%), Positives = 179/316 (56%), Gaps = 25/316 (7%)
Query: 12 KRLDEFLAKEL--QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKP 69
KRLD++LA L ++S+++V +LI +G V ++ L+EG I ++ P+ P
Sbjct: 26 KRLDQWLAAALGPELSRSRVQSLIADGHVTIDGAPARETKQKLREGMNIAIVLPEPEPAE 85
Query: 70 LKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFK-NYELSNLGLKER 128
+ E ++ +++++ED+DL+V+NKP LVVH TLV+ L ++ LS +G R
Sbjct: 86 PQGE-NIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNALIYQCGDSLSGIGGIRR 144
Query: 129 YGIVHRLDKDTSGGIVIAKNNFTHVHLSEQL----KTKMMGRYYIALLSTPLKEEKMSVE 184
GIVHRLDKDTSG +V+AKN+ H HLSEQ +T + R Y+AL+ + + +V+
Sbjct: 145 PGIVHRLDKDTSGVMVVAKNDRAHRHLSEQFADHGRTGDLERAYLALVWGMTERPQGTVD 204
Query: 185 CYLTRNPNNRLKMIALKAVKKEK----SRYSKSEFISLLTSQNNL-NLIGAKLFTGRTHQ 239
YL R+ +R K + +++ + Y+ E S L +L+ +L TGRTHQ
Sbjct: 205 AYLGRSHRDRTKQAVVHEEREDARHAITHYATVEKFSPREDATALASLVECRLETGRTHQ 264
Query: 240 IRAHLEYLNRHIIGDNLYG-----LNGALP---KEEI----RIMLHAYLIEFKHPRSEQK 287
IR H+ ++ ++GD YG LP KE + R LHA+L+ F HP +E+
Sbjct: 265 IRVHMAHIGHPLVGDMDYGSAYKTKANKLPEPLKEAVQGFHRQALHAWLLAFTHPITEEL 324
Query: 288 LRFKVPLLKDMLEYLK 303
+RF+ PL +DM + L+
Sbjct: 325 MRFEAPLPEDMEQLLE 340
>ref|NP_465368.1| (NC_003210) similar to conserved hypothetical proteins [Listeria
monocytogenes EGD-e]
emb|CAC99921.1| (AL591981) similar to conserved hypothetical proteins [Listeria
monocytogenes]
Length = 303
Score = 159 bits (401), Expect = 5e-38
Identities = 103/301 (34%), Positives = 166/301 (54%), Gaps = 16/301 (5%)
Query: 12 KRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLK 71
+R+D+ +A+ + S++ + ++K G + E+ K ++ GDEI + +
Sbjct: 15 ERVDKVIAEMMGKSRSAIQLMLKNGDITVNG-ELAKPNYKVQVGDEIHYEVREPEELEVL 73
Query: 72 KELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI 131
E D+ +++ FED+D+LV+NKP +VVH + TLV+ L F +LS + K R GI
Sbjct: 74 AE-DIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCDDLSGINGKIRPGI 132
Query: 132 VHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNP 191
VHR+DKDTSG +++AKN+ H L++QLK K R YIAL+ + +K ++E + R
Sbjct: 133 VHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKGTIEAPIGRAK 192
Query: 192 NNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHI 251
+R KM ++ K+ ++ + E + T LI KL TGRTHQIR HL+Y+ +
Sbjct: 193 EDRQKMAVVRDGKEARTHFEVLERLPGYT------LINCKLDTGRTHQIRVHLKYIGHPL 246
Query: 252 IGDNLYGLNGALPKEEIR---IMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKKVFDK 308
GD YG PK I+ LHA + F HP + +++ F+ PL + LK + +
Sbjct: 247 AGDPKYG-----PKNTIKGNGQFLHAAKLGFDHPTTNERMTFEAPLPSSFEKALKSLRQE 301
Query: 309 E 309
E
Sbjct: 302 E 302
>ref|NP_604269.1| (NC_003454) Ribosomal large subunit pseudouridine synthase D
[Fusobacterium nucleatum subsp. nucleatum ATCC 25586]
gb|AAL95568.1| (AE010641) Ribosomal large subunit pseudouridine synthase D
[Fusobacterium nucleatum subsp. nucleatum ATCC 25586]
Length = 319
Score = 158 bits (399), Expect = 9e-38
Identities = 99/306 (32%), Positives = 170/306 (55%), Gaps = 14/306 (4%)
Query: 13 RLDEFLAKELQISKNQVLN-LIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLK 71
RLD++L+++++ + L LI V K + K G LK G++I +L P+ ++
Sbjct: 25 RLDKYLSEQIEEATRSYLEKLIDNNFVKVNSKIINKNGRKLKLGEKIEVLIPEEENIDIE 84
Query: 72 KELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI 131
E ++ + +++E++D +++NK +VVH A TLV+ L + LS++ R GI
Sbjct: 85 PE-NIPLNIVYENDDFILINKSYGMVVHPAYGNYTGTLVNALLYYTNNLSSVNGNIRPGI 143
Query: 132 VHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMS--VECYLTR 189
+HRLDKDTSG I++AKNN+ H L+ K + + Y+ ++ EE +S +E + R
Sbjct: 144 IHRLDKDTSGLILVAKNNYAHAKLASMFIDKTIHKTYLCIVKGNFSEENLSGRIENLIGR 203
Query: 190 NPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNR 249
+ +R KM + KE + + S + ++ +L+ + TGRTHQIR H++ +N
Sbjct: 204 DSKDRKKM----TIVKENGKIAISNY-KVVEQVEGYSLVEVAIETGRTHQIRVHMKSINH 258
Query: 250 HIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKKVFDKE 309
I+GD++YG K R MLHAY +EF +P +K FK L D +E K++ K
Sbjct: 259 VILGDSVYGTE---DKNVKRQMLHAYKLEFLNPLDNKKYIFKGKLFDDFIEVAKRL--KF 313
Query: 310 NLDEVL 315
N+++ +
Sbjct: 314 NIEKYI 319
>ref|NP_348732.1| (NC_003030) Predicted pseudouridylate synthase, YLYB B.subtilis
ortholog [Clostridium acetobutylicum]
gb|AAK80072.1|AE007712_8 (AE007712) Predicted pseudouridylate synthase, YLYB B.subtilis
ortholog [Clostridium acetobutylicum]
Length = 305
Score = 158 bits (399), Expect = 9e-38
Identities = 100/286 (34%), Positives = 160/286 (54%), Gaps = 16/286 (5%)
Query: 10 DHKRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPK 68
+++R+D +LA+E + IS++ + +LI + VF K VK LK D + P
Sbjct: 13 ENQRIDVYLAQEFENISRSHIQDLIGKKKVFVNGKAVKSN-YKLKSRDNVEFEIPDNEEL 71
Query: 69 PLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKER 128
++ E ++ +++++ED D++V+NK +VVH A TLV+ L + +LS + R
Sbjct: 72 KIEAE-NIPLDIVYEDRDIVVVNKAQGMVVHPAPGNYNGTLVNALLYHCKDLSGINGVLR 130
Query: 129 YGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLT 188
GIVHR+DKDTSG +V+AKN+ H +L+ QLK M R Y A++ +KE++ +V+ L
Sbjct: 131 PGIVHRIDKDTSGILVVAKNDAAHKNLANQLKEHSMNRVYRAVVEGIIKEDEGTVDKPLA 190
Query: 189 RNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLN 248
R+P R+K+ +K + + Y +L N LI KL TGRTHQIR H+ Y+
Sbjct: 191 RHPVERVKIAVVKGGRNAVTHY------KVLERYRNSTLIECKLETGRTHQIRVHMAYIG 244
Query: 249 RHIIGDNLYGLNGALPKEEIRI---MLHAYLIEFKHPRSEQKLRFK 291
++GD LYG K+ + MLHA + F HP + + F+
Sbjct: 245 HALVGDPLYGYK----KQRFNLEGQMLHAQKLGFIHPTKGKYMEFE 286
>ref|NP_221194.1| (NC_000963) SFHB PROTEIN HOMOLOG (sfhB) [Rickettsia prowazekii]
pir||F71646 sfhB protein homolog (sfhB) RP846 - Rickettsia prowazekii
emb|CAA15270.1| (AJ235273) SFHB PROTEIN HOMOLOG (sfhB) [Rickettsia prowazekii]
Length = 313
Score = 157 bits (398), Expect = 1e-37
Identities = 108/306 (35%), Positives = 167/306 (54%), Gaps = 18/306 (5%)
Query: 10 DHKRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPK 68
++ RLD+ L+ L+ +S+NQV IK V + + +KE D T+L P+
Sbjct: 11 NNTRLDKALSLLLKKVSRNQVQKAIKNYCVQVNGVIISDSDVLVKEND--TILFSFKEPE 68
Query: 69 PLK-KELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKE 127
LK ++ +++I+ED+DL+V+NK + VH + + TLV+ L LS++G E
Sbjct: 69 ELKITAANITLDIIYEDDDLIVINKAAGMTVHPGIRHHDNTLVNALLHHTKYLSDIGSAE 128
Query: 128 RYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYL 187
R GIVHRLDKDT+G +V+AKNN TH+ L+ Q+K + + R Y AL+ + + ++ +
Sbjct: 129 RPGIVHRLDKDTTGLMVVAKNNKTHILLANQIKQRQVIRKYKALVWGVINPLEGIIKNNV 188
Query: 188 TRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYL 247
RN NNR KM LK K+ Y K+ L L+++ KL TGRTHQIR L L
Sbjct: 189 GRNRNNRKKMTILKYGGKKAVTYYKT---LELFYGGTLSMVECKLSTGRTHQIRVQLSNL 245
Query: 248 NRHIIGDNLYGLN-----GALPKEEIRIM------LHAYLIEFKHPRSEQKLRFKVPLLK 296
++GD YG N + PK + +++ LH++ + F HP S + F L +
Sbjct: 246 KHSVVGDQTYGNNNRKIINSPPKLKAKLIAFKRQALHSWYLSFTHPTSNDIMAFSCELPR 305
Query: 297 DMLEYL 302
DM E +
Sbjct: 306 DMQEII 311
>ref|NP_657862.1| (NC_003995) PseudoU_synth_2, RNA pseudouridylate synthase [Bacillus
anthracis A2012] [Bacillus anthracis str. A2012]
Length = 302
Score = 156 bits (394), Expect = 3e-37
Identities = 102/301 (33%), Positives = 168/301 (54%), Gaps = 20/301 (6%)
Query: 11 HKRLDEFLAK-ELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKP 69
++R+D+F+A + S+ QV IK+ +V K VK G ++E DEIT+ P+
Sbjct: 15 NERIDKFVAGINNEWSRTQVQQWIKDDVVTVNGKAVK-GNYKVRENDEITVTIPEPEELD 73
Query: 70 LKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERY 129
++ E D+ +E+ +ED D+LV+NKP ++VVH A TLV+ L +LS + R
Sbjct: 74 IQPE-DMNLEIYYEDADVLVVNKPRSMVVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRP 132
Query: 130 GIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTR 189
GIVHR+DKDTSG +++AKN+ H L QL K + R Y A++ + +K +++ + R
Sbjct: 133 GIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIAR 192
Query: 190 NPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNR 249
+ R M E +++ + F +L + L+ +L TGRTHQIR H++Y+
Sbjct: 193 DKKERQSMTV-----DENGKHAVTHF-QVLERFKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 250 HIIGDNLYGLNGALPKEEIRI---MLHAYLIEFKHPRSEQKLRFKVPL---LKDMLEYLK 303
+ GD YG PK+ + + LHA ++ F HPR+ + ++F+ P+ +D L L+
Sbjct: 247 PLAGDPKYG-----PKKTLDMNGQALHAGILGFDHPRTGEYIQFEAPIPEVFEDALNILR 301
Query: 304 K 304
K
Sbjct: 302 K 302
>ref|NP_484566.1| (NC_003272) probable pseudouridine synthase [Nostoc sp. PCC 7120]
gb|AAG09315.1| (AF178757) hypothetical protein [Nostoc sp. PCC 7120]
dbj|BAB72480.1| (AP003582) ORF_ID:alr0522~probable pseudouridine synthase [Nostoc
sp. PCC 7120]
Length = 312
Score = 155 bits (393), Expect = 5e-37
Identities = 97/274 (35%), Positives = 149/274 (53%), Gaps = 5/274 (1%)
Query: 10 DHKRLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPK 68
D R+D +LA+EL +S++++ LI++G V K + LK GD ITL P+ P
Sbjct: 12 DSARIDRYLAEELPDLSRSRIQQLIEQGKVQVNGKVCTSKKINLKVGDRITLEVPEAQPL 71
Query: 69 PLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKER 128
++ E D+ +++++ED+ LL+LNKP LVVH A TLV+ L +L +G +R
Sbjct: 72 EIQAE-DIPLDILYEDDQLLILNKPAGLVVHPAPGHSHGTLVNALLAHCPDLPGIGGVQR 130
Query: 129 YGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLT 188
GIVHRLDKDT+G I IAK + + H+ QL+ K R Y+ ++ K V+ +
Sbjct: 131 PGIVHRLDKDTTGAIAIAKTDIAYKHIQAQLQAKTARREYLGVVYGAPKTASGKVDLPIG 190
Query: 189 RNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLN 248
R+P +R KM + + +S + + L N LI +L TGRTHQIR H +
Sbjct: 191 RHPQDRKKMAVVPIEEGGRSAITHWQIQERL---GNFTLIHFQLETGRTHQIRVHSAKMG 247
Query: 249 RHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHP 282
I+GD +YG ++ LHA+ + +HP
Sbjct: 248 HPIVGDPVYGSGRSVGVNLPGQALHAWRLRLQHP 281
>ref|NP_243408.1| (NC_002570) BH2542~unknown conserved protein [Bacillus halodurans]
dbj|BAB06261.1| (AP001515) BH2542~unknown conserved protein [Bacillus halodurans]
Length = 305
Score = 153 bits (387), Expect = 2e-36
Identities = 103/298 (34%), Positives = 169/298 (56%), Gaps = 16/298 (5%)
Query: 12 KRLDEFL-AKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
+R+D+FL A+ + S+ QV IK+G V + +K ++ GD + L P+ +
Sbjct: 16 ERIDKFLTAQGEEWSRTQVQQWIKDGHVLINGRTIKSN-YKVETGDTLELFVPEPEVLEV 74
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG 130
E ++ IE+I+EDED+ V+NKP +VVH A TLV+ L + +LS++ R G
Sbjct: 75 VPE-NIPIEIIYEDEDVAVVNKPRGMVVHPAPGHTTGTLVNALMYHCNDLSSINGVVRPG 133
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
IVHR+DKDTSG ++IAKN+ H L QLK K R Y A++ + + +++ + R+
Sbjct: 134 IVHRIDKDTSGLLMIAKNDRAHESLVNQLKAKTTERVYQAIVHGNIPHDHGTIDAPIGRD 193
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
+R M V +E SR + + F ++L + + +L TGRTHQIR H +Y+
Sbjct: 194 KVDRQSM----TVTEENSRDAVTHF-TVLERFGDFTFVECQLETGRTHQIRVHFKYIGFP 248
Query: 251 IIGDNLYGLNGALPKEEIRI---MLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKKV 305
+ GD YG PK+ + I LHA + F+HPR+ + +RFKV + ++M + ++++
Sbjct: 249 LAGDPKYG-----PKKTLSIDGQALHAQKLGFEHPRTGEFMRFKVEMPEEMKKLIRQL 301
>ref|NP_345413.1| (NC_003028) ribosomal large subunit pseudouridine synthase D
[Streptococcus pneumoniae TIGR4]
gb|AAK75053.1| (AE007398) ribosomal large subunit pseudouridine synthase D
[Streptococcus pneumoniae TIGR4]
Length = 295
Score = 153 bits (386), Expect = 3e-36
Identities = 102/299 (34%), Positives = 165/299 (55%), Gaps = 21/299 (7%)
Query: 13 RLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKK 72
RLD+ L+ ++S++ IK G V +VKK ++EGD +T P+ P+ L+
Sbjct: 11 RLDKALSDLSELSRSLANEQIKSGQVLVNG-QVKKAKYTVQEGDVVTYHVPE--PEVLEY 67
Query: 73 EL-DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI 131
DL +E++++DED+ V+NKP +VVH + TLV+ L + +LS + R GI
Sbjct: 68 VAEDLPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGI 127
Query: 132 VHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNP 191
VHR+DKDTSG ++IAKN+ H+ L+++LK K R Y A++ L ++ +E + R+
Sbjct: 128 VHRIDKDTSGLLMIAKNDDAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSE 187
Query: 192 NNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHI 251
+R K K +R+ +L + +L+ +L TGRTHQIR H+ Y+ +
Sbjct: 188 KDRKKQAVTAKGKPAVTRF------HVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 252 IGDNLYGLNGALPKEEIR---IMLHAYLIEFKHPRSEQKLRFKV---PLLKDMLEYLKK 304
GD +YG P++ ++ LHA + F HPR+ + L FK + K+ LE L+K
Sbjct: 242 AGDEVYG-----PRKTLKGHGQFLHAKTLGFTHPRTGKTLEFKADIPEIFKETLERLRK 295
>ref|NP_358424.1| (NC_003098) 23S rRNA pseudouridine synthase (supresses ftsH(ts)
mutants) [Streptococcus pneumoniae R6]
gb|AAK99634.1| (AE008458) 23S rRNA pseudouridine synthase (supresses ftsH(ts)
mutants) [Streptococcus pneumoniae R6]
Length = 295
Score = 152 bits (385), Expect = 4e-36
Identities = 102/299 (34%), Positives = 165/299 (55%), Gaps = 21/299 (7%)
Query: 13 RLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKK 72
RLD+ L+ ++S++ IK G V +VKK ++EGD +T P+ P+ L+
Sbjct: 11 RLDKALSDLSELSRSLANEQIKSGQVLVNG-QVKKAKYTVQEGDVVTYHVPE--PEVLEY 67
Query: 73 EL-DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI 131
DL +E++++DED+ V+NKP +VVH + TLV+ L + +LS + R GI
Sbjct: 68 VAEDLPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGI 127
Query: 132 VHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNP 191
VHR+DKDTSG ++IAKN+ H+ L+++LK K R Y A++ L ++ +E + R+
Sbjct: 128 VHRIDKDTSGLLMIAKNDDAHLVLAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSE 187
Query: 192 NNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHI 251
+R K K +R+ +L + +L+ +L TGRTHQIR H+ Y+ +
Sbjct: 188 KDRKKQAVTAKGKPAVTRF------HVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 252 IGDNLYGLNGALPKEEIR---IMLHAYLIEFKHPRSEQKLRFKV---PLLKDMLEYLKK 304
GD +YG P++ ++ LHA + F HPR+ + L FK + K+ LE L+K
Sbjct: 242 AGDEVYG-----PRKTLKGHGQFLHAKTLGFTHPRTGKTLEFKADIPEIFKETLERLRK 295
>ref|NP_326129.1| (NC_002771) RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE D
(PSEUDOURIDYLATE SYNTHASE) (URACIL HYDROLYASE)
[Mycoplasma pulmonis]
emb|CAC13471.1| (AL445564) RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE D
(PSEUDOURIDYLATE SYNTHASE) (URACIL HYDROLYASE)
[Mycoplasma pulmonis]
Length = 296
Score = 149 bits (377), Expect = 3e-35
Identities = 98/285 (34%), Positives = 155/285 (54%), Gaps = 10/285 (3%)
Query: 12 KRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLK 71
+R+D++++ IS+N + +LI E VF K ++K LK EI ++ K+ K +
Sbjct: 10 ERIDKYISDNSAISRNDIKSLILEKAVFVNGKVIQKPNFILKPDAEIEVI--KVIDKTID 67
Query: 72 -KELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG 130
K +++++++EDE L+V+NKP LVVH A TLV+ L + LSN R G
Sbjct: 68 LKPEKMDLDIVYEDEHLIVINKPSGLVVHPAPGHYSQTLVNGLIYHFKNLSNENGLLRPG 127
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
IVHR+DKDTSG ++IAK N H L++ LK + R YIA++ + + + + + R+
Sbjct: 128 IVHRIDKDTSGLLIIAKTNQVHQLLAKMLKNHEIKRSYIAIVEGFFENKIVHLNLPIGRS 187
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFI-SLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNR 249
+R KM K+ + I + L+L+ +L TGRTHQIR HL Y
Sbjct: 188 QKDRKKMEITN--NNSKNAITHVYLIKQFYYEKQPLSLVECQLETGRTHQIRVHLNYFKH 245
Query: 250 HIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPL 294
+ D LYG + + + LHAY + F HP + Q+L F++P+
Sbjct: 246 PVWNDPLYGKSFS----DYGQYLHAYKLFFVHPITNQELTFEIPM 286
>sp|Q45480|YLYB_BACSU Hypothetical protein ylyB
gb|AAB57767.1| (U48870) orf-X; hypothetical protein; Method: conceptual
translation supplied by author [Bacillus subtilis]
Length = 303
Score = 149 bits (375), Expect = 6e-35
Identities = 96/298 (32%), Positives = 161/298 (53%), Gaps = 17/298 (5%)
Query: 12 KRLDEFLAK-ELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
+R+D+FLA E S+ QV +K+G V VK ++ GD++T+ P+ +
Sbjct: 15 ERIDKFLASTENDWSRTQVQQWVKDGQVVVNGSAVK-ANYKIQPGDQVTVTVPEPEALDV 73
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG 130
E +++++ +ED+D+LV+NKP +VVH A TLV+ L +LS + R G
Sbjct: 74 LAE-PMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCTDLSGINGVMRPG 132
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
IVHR+DKDTSG +++AKN+ H L QL K + R Y A++ + + +++ + R+
Sbjct: 133 IVHRIDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRD 192
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
+R M + K + + +L + L+ +L TGRTHQIR H++Y+
Sbjct: 193 KKDRQSMTVTRDGKNAVTHF------HVLERFQDFTLVECQLETGRTHQIRVHMKYIGFP 246
Query: 251 IIGDNLYGLNGALPKEEIRI---MLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKKV 305
+ GD YG P++ I LHA ++ F HPR+ + + F+ PL +DM E ++ +
Sbjct: 247 LAGDPKYG-----PRKTIDFNGQALHAGVLGFDHPRTGEYVEFEAPLPEDMAELIENL 299
>ref|NP_360947.1| (NC_003103) sfhB protein homolog [Rickettsia conorii]
gb|AAL03848.1| (AE008677) sfhB protein homolog [Rickettsia conorii]
Length = 313
Score = 148 bits (374), Expect = 7e-35
Identities = 101/303 (33%), Positives = 167/303 (54%), Gaps = 18/303 (5%)
Query: 13 RLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLK 71
RLD+ L+ L+ S+NQ+ IK+ V + + +KE D I L + K P+ LK
Sbjct: 14 RLDKALSSLLENASRNQIQKAIKDSQVLVNDVIISDPDVLVKEND-IILFSFK-EPEELK 71
Query: 72 -KELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG 130
++ +++I+ED+DL+V+NK + VH + TLV+ L LS++G ER G
Sbjct: 72 IAAANVALDIIYEDDDLIVINKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSERPG 131
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
IVHRLDKDT+G +V+AKNN H+ L+ Q++ + + R Y L+ + + ++ + R+
Sbjct: 132 IVHRLDKDTTGLMVVAKNNKAHMLLANQIEQRQVIRKYKVLVWGVINPLEGVIKNNIGRS 191
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
++R KM LK KE + K I L + +++++ KL TGRTHQIR L +L
Sbjct: 192 RSDRQKMTILKYGGKEAVTHYK---ILELFYKGSISMVECKLSTGRTHQIRVQLSHLKHS 248
Query: 251 IIGDNLYGLNG-----ALPKEEIRIM------LHAYLIEFKHPRSEQKLRFKVPLLKDML 299
++GD YG N + P+ + +++ LH++ + F HP S + + F L +DM
Sbjct: 249 VVGDQTYGNNDRKIAHSPPELKAKLIDFKRQALHSWYLSFTHPTSNEIMEFSCELPRDME 308
Query: 300 EYL 302
E +
Sbjct: 309 EII 311
>ref|NP_072871.1| (NC_000908) sfhB protein, putative [Mycoplasma genitalium]
sp|P47451|Y209_MYCGE Hypothetical protein MG209
pir||A64223 probable pseudouridine synthase - Mycoplasma genitalium
gb|AAC71427.1| (U39700) sfhB protein, putative [Mycoplasma genitalium]
Length = 308
Score = 146 bits (369), Expect = 3e-34
Identities = 97/297 (32%), Positives = 153/297 (50%), Gaps = 16/297 (5%)
Query: 1 MQKVFIALTDHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITL 60
M++ F+ T KRLD LA L +S+ +V+ LI G + +K K L + + D I +
Sbjct: 1 MKQCFVVTTT-KRLDSLLASLLNLSRVKVVKLIMNGQIKVNEKLTFKNSLIVAKDDVIKV 59
Query: 61 LTPKITPKPLKKELD---LEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKN 117
T ++ L++EV+FED+DL+V+NKP L+ H ++ +L+ F N
Sbjct: 60 EIHDETTSDFITSVEPYNLKLEVLFEDKDLMVINKPSGLLTHPTTFNEKASLLAACIFHN 119
Query: 118 YELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLK 177
K +VHRLD+DTSG IV+ KN + ++L QL+ + + RYY+AL+ P
Sbjct: 120 N-------KNPVYLVHRLDRDTSGAIVVCKNQASLLNLQNQLQNRTLKRYYVALVHFPFN 172
Query: 178 EEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRT 237
S+ L R NN+ + K + K++ + ++F ++ LI +L TGRT
Sbjct: 173 ALTGSINAPLARVNNNK---VMFKIAQTAKAKQAITKF-KVINQNEKAALISLELLTGRT 228
Query: 238 HQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPL 294
HQIR HL+++ + D LYG+ K+ LHA I F HP + + F PL
Sbjct: 229 HQIRVHLKFIQHPVYNDPLYGIKSE-KKDSYGQFLHANRICFIHPTLNKPMDFHAPL 284
>ref|NP_109980.1| (NC_000912) similar to RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE
SYNTHASE D [Mycoplasma pneumoniae]
sp|P75485|Y209_MYCPN Hypothetical protein MG209 homolog (H10_orf309)
pir||S73869 hypothetical protein yceC - Mycoplasma pneumoniae (strain ATCC
29342)
gb|AAB96191.1| (AE000053) similar to RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE
SYNTHASE D [Mycoplasma pneumoniae]
Length = 309
Score = 146 bits (369), Expect = 3e-34
Identities = 97/305 (31%), Positives = 161/305 (51%), Gaps = 15/305 (4%)
Query: 1 MQKVFIALTDHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITL 60
M++ F ++T +RLD FLA L +S+ +V LI +GLV K++ K G ++ D + +
Sbjct: 1 MEQTF-SVTTAQRLDTFLATLLNLSRVKVAKLIVDGLVSVNGKKITKNGWLVQPEDRVHV 59
Query: 61 LTPKITPKPLKKEL---DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKN 117
+ + + E+ D +++++EDE ++V+NKP L+ H + +L+ F
Sbjct: 60 NWSEELFEKVPVEVQPYDFPLDILYEDEQIMVVNKPNGLISHPTSFNESESLLGAALFHC 119
Query: 118 YELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLK 177
+ +VHRLD+DTSG I++AKN + +HL +QL+ ++M RYY+AL+ PL
Sbjct: 120 NH-------QPVFLVHRLDRDTSGVIMLAKNQSSLLHLQKQLQQRVMKRYYLALVHFPLD 172
Query: 178 EEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRT 237
++ L R NN++ + K K+ ++K ++L LI +L TGRT
Sbjct: 173 SLSGTISAPLERVGNNKVMWKVGNSSNKAKNAFTK---FTVLNQNEKAALIKCELLTGRT 229
Query: 238 HQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKD 297
HQIR HL+++ + D LYGL E LHA I F HP +++ F+ L K
Sbjct: 230 HQIRVHLQFIKHPVYNDPLYGLKSE-QATEYGQYLHAQQISFIHPTLNKEMGFEAQLDKT 288
Query: 298 MLEYL 302
+ L
Sbjct: 289 FSDKL 293
>ref|NP_607042.1| (NC_003485) conserved hypothetical protein [Streptococcus pyogenes
MGAS8232]
gb|AAL97541.1| (AE010018) conserved hypothetical protein [Streptococcus pyogenes
MGAS8232]
Length = 296
Score = 144 bits (362), Expect = 2e-33
Identities = 94/300 (31%), Positives = 162/300 (53%), Gaps = 13/300 (4%)
Query: 8 LTDHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITP 67
+T +RLD+ LA +S+ Q + IK+GLV ++ KK ++ GD I PK
Sbjct: 6 ITSGQRLDKALADLSPLSRGQANDQIKQGLVLVNGQQ-KKAKYTVQAGDVICFELPKEEV 64
Query: 68 KPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKE 127
+ + ++ +++I+ED+ L ++NKP +VVH + T+V+ L + +LS++
Sbjct: 65 LEYQAQ-NIPLDIIYEDDALAIINKPQGMVVHPSAGHPSETMVNALMYHIKDLSSINGVV 123
Query: 128 RYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYL 187
R GIVHR+DKDTSG +++AK + H L+E+LK K R Y+A++ L ++ +E +
Sbjct: 124 RPGIVHRIDKDTSGLLMVAKTDAAHQALTEELKAKKSLRKYLAIVHGNLPNDRGMIEAPI 183
Query: 188 TRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYL 247
R+ +R K K+ +R+ ++L + +L+ +L TGRTHQIR H+ Y+
Sbjct: 184 GRSEKDRKKQAVTAKGKEAVTRF------TVLERFGDYSLVELQLETGRTHQIRVHMAYI 237
Query: 248 NRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKV---PLLKDMLEYLKK 304
+ GD LYG L LHA + HP + +++ F V + + +L+ L+K
Sbjct: 238 GHPVAGDPLYGPRKTLSGH--GQFLHAKTLGLTHPMTGKEMIFTVEAPEIFQKVLKLLRK 295
>ref|NP_269039.1| (NC_002737) conserved hypothetical protein [Streptococcus pyogenes]
[Streptococcus pyogenes M1 GAS]
gb|AAK33760.1| (AE006533) conserved hypothetical protein [Streptococcus pyogenes
M1 GAS]
Length = 296
Score = 143 bits (361), Expect = 2e-33
Identities = 94/300 (31%), Positives = 162/300 (53%), Gaps = 13/300 (4%)
Query: 8 LTDHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITP 67
+T +RLD+ LA +S+ Q + IK+GLV ++ KK ++ GD I PK
Sbjct: 6 ITSGQRLDKALADLSPLSRGQANDQIKQGLVLVNGQQ-KKAKYTVQAGDVICFELPKEEV 64
Query: 68 KPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKE 127
+ + ++ +++I+ED+ L ++NKP +VVH + T+V+ L + +LS++
Sbjct: 65 LEYQAQ-NIPLDIIYEDDALAIINKPQGMVVHPSAGHPSGTMVNALMYHIKDLSSINGVV 123
Query: 128 RYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYL 187
R GIVHR+DKDTSG +++AK + H L+E+LK K R Y+A++ L ++ +E +
Sbjct: 124 RPGIVHRIDKDTSGLLMVAKTDAAHQALAEELKAKKSLRKYLAIVHGNLPNDRGMIEAPI 183
Query: 188 TRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYL 247
R+ +R K K+ +R+ ++L + +L+ +L TGRTHQIR H+ Y+
Sbjct: 184 GRSEKDRKKQAVTAKGKEAVTRF------TVLERFGDYSLVELQLETGRTHQIRVHMAYI 237
Query: 248 NRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKV---PLLKDMLEYLKK 304
+ GD LYG L LHA + HP + +++ F V + + +L+ L+K
Sbjct: 238 GHPVAGDPLYGPRKTLSGH--GQFLHAKTLGLTHPMTGKEMIFTVEAPEIFQKVLKLLRK 295
>ref|NP_371721.1| (NC_002758) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus Mu50]
ref|NP_374313.1| (NC_002745) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus N315]
dbj|BAB42292.1| (AP003132) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus N315]
dbj|BAB57359.1| (AP003361) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus Mu50]
Length = 305
Score = 141 bits (356), Expect = 9e-33
Identities = 94/286 (32%), Positives = 156/286 (53%), Gaps = 19/286 (6%)
Query: 25 SKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKKELDLEIEVIFED 84
S+NQ+ + IK GLV K VK +K D I + ++ + E +L +++ +ED
Sbjct: 30 SRNQIQDWIKAGLVVANDKVVKSN-YKVKLNDHIVVTEKEVVEADILPE-NLNLDIYYED 87
Query: 85 EDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIV 144
+D+ V+ KP +VVH + TLV+ L ++ LS + + R GIVHR+D DTSG ++
Sbjct: 88 DDVAVVYKPKGMVVHPSPGHYTNTLVNGLMYQIKNLSGINGEIRPGIVHRIDMDTSGLLM 147
Query: 145 IAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVK 204
+AKN+ H L EQL K + R YIAL+ + + +++ + RN N+R M + K
Sbjct: 148 VAKNDIAHRGLVEQLMDKSVKRKYIALVHGNIPHDYGTIDAPIGRNKNDRQSMAVVDDGK 207
Query: 205 KEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALP 264
+ + + ++L + L+ +L TGRTHQIR H++Y+ ++GD YG P
Sbjct: 208 EAVTHF------NVLEHFKDYTLVECQLETGRTHQIRVHMKYIGFPLVGDPKYG-----P 256
Query: 265 KEEIRI---MLHAYLIEFKHPRSEQKLRFKVPL---LKDMLEYLKK 304
K+ + I LHA LI F+HP + + + L +D+L+ ++K
Sbjct: 257 KKTLDIGGQALHAGLIGFEHPVTGEYIERHAELPQDFEDLLDTIRK 302
>ref|NP_441760.1| (NC_000911) hypothetical protein [Synechocystis sp. PCC 6803]
sp|P74346|YG29_SYNY3 Hypothetical protein slr1629
pir||S76181 hypothetical protein - Synechocystis sp. (strain PCC 6803)
dbj|BAA18440.1| (D90914) ORF_ID:slr1629~hypothetical protein [Synechocystis sp. PCC
6803]
Length = 327
Score = 140 bits (352), Expect = 3e-32
Identities = 96/296 (32%), Positives = 159/296 (53%), Gaps = 8/296 (2%)
Query: 13 RLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLK 71
RLD++LA++L ++S+++ LI+ G V + L LK GD + + P++ P +
Sbjct: 33 RLDKWLAEQLPELSRSRCQKLIESGQVQRNGLVCQDKNLILKTGDRLVVNIPELIPLDVV 92
Query: 72 KELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI 131
+ ++ +++++EDE L+++NKP LVVH + T+V+ L +L+ +G +R GI
Sbjct: 93 AQ-NIPLDILYEDEQLIIINKPAGLVVHPGPGHPDGTVVNALLAHCPDLAGIGGVQRPGI 151
Query: 132 VHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNP 191
VHRLDKDT+G +V+AK +L QLK K R Y ++ KE + +V + R+P
Sbjct: 152 VHRLDKDTTGAMVVAKTELALHNLQVQLKEKTARRLYWGIVYGSPKEIQGTVNLPVGRHP 211
Query: 192 NNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHI 251
+R KM V EK LL N + + +L TGRTHQIR H + + +
Sbjct: 212 GDRQKM---GIVPVEKGGREAVTHWRLLERIGNHSWLEFQLETGRTHQIRVHSKQMGHPL 268
Query: 252 IGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPL---LKDMLEYLKK 304
+GDNLY G++ LHA+ + HP S + + P+ + +L YL++
Sbjct: 269 VGDNLYTSPGSVNVNLPGQALHAHQLSLIHPVSGEIITAIAPMPAHFEKLLVYLRQ 324
>gb|AAC69264.1| (AF025979) conserved hypothetical protein [Helicobacter pylori]
Length = 73
Score = 139 bits (350), Expect = 4e-32
Identities = 70/72 (97%), Positives = 71/72 (98%)
Query: 1 MQKVFIALTDHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITL 60
MQKVFIALTDHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGD ITL
Sbjct: 1 MQKVFIALTDHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDAITL 60
Query: 61 LTPKITPKPLKK 72
LTP+ITPKPLKK
Sbjct: 61 LTPQITPKPLKK 72
>ref|NP_078147.1| (NC_002162) pseudouridine synthase (uracil hydrolase) [Ureaplasma
urealyticum]
pir||H82907 pseudouridine synthase (uracil hydrolase) UU313 [imported] -
Ureaplasma urealyticum
gb|AAF30722.1|AE002128_10 (AE002128) pseudouridine synthase (uracil hydrolase) [Ureaplasma
urealyticum]
Length = 299
Score = 139 bits (350), Expect = 4e-32
Identities = 87/307 (28%), Positives = 153/307 (49%), Gaps = 17/307 (5%)
Query: 3 KVFIALTDHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLT 62
K+ +L +R+D+FL + S+ + ++ + L+ + K LK+ D I +
Sbjct: 2 KILYSLMSSQRIDKFLVENTNYSRTLIKKMLDQNLILVNDNFISKASYLLKKNDYIQINN 61
Query: 63 PKITPKPLKKELDL--EIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYEL 120
+ KK L +E+IFED+DLL++NKP ++VH ++ TL + L+ Y L
Sbjct: 62 ELPIVQEQKKLLPFVYSLEIIFEDQDLLIVNKPSGMLVHPTSFHEQNTLANALK---YYL 118
Query: 121 SNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEK 180
+ + I HRLDK+TSG I+I KN L +Q K + + Y A++ +
Sbjct: 119 KT----DNFYITHRLDKNTSGLIIICKNQIALNSLQQQFMQKTIRKSYYAIVHNRFDMQH 174
Query: 181 MSVECYLTRNPNNRLKMIALKAVKKEKSRYSKS--EFISLLTSQNNLNLIGAKLFTGRTH 238
+ ++ P L+ +K S+ +K + +L N L+ + TGRTH
Sbjct: 175 LH---FMINEPIGHSYQDKLR-MKTGNSKNTKEAISIVKVLEQYKNTALVEVSIITGRTH 230
Query: 239 QIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDM 298
QIR H+ Y+N + D LYG+ + E LH++ I F HP + +K+ FK+ + K+
Sbjct: 231 QIRVHMRYINHPVYNDPLYGI--SKHTTEYEQYLHSFYISFNHPSTNKKVEFKINMPKEF 288
Query: 299 LEYLKKV 305
+E ++++
Sbjct: 289 MELIREL 295
>ref|NP_645897.1| (NC_003923) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus MW2]
dbj|BAB94945.1| (AP004825) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus MW2]
Length = 305
Score = 138 bits (348), Expect = 7e-32
Identities = 93/286 (32%), Positives = 155/286 (53%), Gaps = 19/286 (6%)
Query: 25 SKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKKELDLEIEVIFED 84
S+NQ+ + IK GLV K VK +K D I + ++ + E +L +++ +ED
Sbjct: 30 SRNQIQDWIKAGLVVANDKVVKSN-YKVKLNDHIVVTEKEVVEADILPE-NLNLDIYYED 87
Query: 85 EDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIV 144
+D+ V+ K +VVH + TLV+ L ++ LS + + R GIVHR+D DTSG ++
Sbjct: 88 DDVAVVYKTKGMVVHPSPGHYTNTLVNGLMYQIKNLSGINGEIRPGIVHRIDMDTSGLLM 147
Query: 145 IAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVK 204
+AKN+ H L EQL K + R YIAL+ + + +++ + RN N+R M + K
Sbjct: 148 VAKNDIAHRGLVEQLMDKSVKRKYIALVHGNIPHDYGTIDAPIGRNKNDRQSMAVVDDGK 207
Query: 205 KEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALP 264
+ + + ++L + L+ +L TGRTHQIR H++Y+ ++GD YG P
Sbjct: 208 EAVTHF------NVLEHFKDYTLVECQLETGRTHQIRVHMKYIGFPLVGDPKYG-----P 256
Query: 265 KEEIRI---MLHAYLIEFKHPRSEQKLRFKVPL---LKDMLEYLKK 304
K+ + I LHA LI F+HP + + + L +D+L+ ++K
Sbjct: 257 KKTLDIGGQALHAGLIGFEHPVTGEYIERHAELPQDFEDLLDTIRK 302
>ref|NP_563038.1| (NC_003366) conserved hypothetical protein [Clostridium
perfringens]
dbj|BAB81828.1| (AP003193) conserved hypothetical protein [Clostridium perfringens]
Length = 298
Score = 137 bits (346), Expect = 1e-31
Identities = 98/307 (31%), Positives = 166/307 (53%), Gaps = 29/307 (9%)
Query: 10 DHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALK------EGDEITLLTP 63
D +++ EFL +EL +S LI+ + K +K G+A+K G+EI +
Sbjct: 13 DKRKIREFLKEELGLSSR----LIRSAAI---DKRIKVDGVAVKMNYVVKTGEEIKIELS 65
Query: 64 KITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNL 123
K + ++ E ++IE+++ED D+LVLNK P +VVH S TL + + + ++ SN
Sbjct: 66 KKESQNIEPE-KMDIEIVYEDSDILVLNKKPFMVVHPTRSHPNGTLANGILYY-FKESNQ 123
Query: 124 GLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSV 183
R +V RLD +TSG I+I KN + H+ LS ++KT + Y+A++ L+E++ ++
Sbjct: 124 DCIVR--LVSRLDMNTSGLIIIGKNQYAHMVLSNEMKTDKFQKRYLAIVHGNLEEKEGTI 181
Query: 184 ECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAH 243
+ R + +K + + ++ + Y ++ S N +L+ L TGRTHQIR H
Sbjct: 182 NRPIYRPAEDTIKRVVDERGQESITHY------KVIESYNGADLVECLLETGRTHQIRVH 235
Query: 244 LEYLNRHIIGDNLYGLNGALPKEEI--RIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEY 301
L L I GD+LYG E+ R LHAY ++F P++++ L + L +DM E
Sbjct: 236 LSSLGHPIFGDSLYGTE----DEDFISRQALHAYGLDFYSPKTKEPLSLRADLPEDMKEL 291
Query: 302 LKKVFDK 308
+ K+ +K
Sbjct: 292 INKLKNK 298
>ref|NP_177732.1| (NM_106254) RNA pseudouridylate synthase, putative [Arabidopsis
thaliana]
Length = 430
Score = 137 bits (344), Expect = 2e-31
Identities = 99/339 (29%), Positives = 173/339 (50%), Gaps = 52/339 (15%)
Query: 13 RLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLK 71
RLD +++ + +S+ +V + I+ GLV + V K +K GDE+ ++ P +
Sbjct: 83 RLDSWISSRINGVSRARVQSSIRLGLVTVNGRVVDKVSHNVKSGDEVNCTISELQPLKAE 142
Query: 72 KELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWL---------EFKNYE--- 119
E D+ +++++ED+ +LV+NKP ++VVH A TLV+ + ++ N E
Sbjct: 143 AE-DIPLDIVYEDKHVLVVNKPAHMVVHPAPGNPTGTLVNGILHHCSLPCVDYSNSEEDD 201
Query: 120 ----------------LSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKM 163
S+ R GIVHRLDK T+G +V+AK+ +H HL+EQ K
Sbjct: 202 DSDEETFSDDEEMTTSPSSYAASVRPGIVHRLDKGTTGLLVVAKDEHSHAHLAEQFKLHT 261
Query: 164 MGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALK-AVKKEKSRYSKSEFISLLT-S 221
+ R Y++L + + +E + R+ +NR++M A+ V+ ++R++ S + + T +
Sbjct: 262 IERVYVSLTTGVPSPPQGRIEIPIGRDSSNRIRMAAIPGGVRGGRARHAASRYKVIETFA 321
Query: 222 QNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGLNGAL------------PKEEI- 268
L+ +L TGRTHQIRAH +Y+ ++GD +YG ++ +EEI
Sbjct: 322 GGGSALVEWRLETGRTHQIRAHAKYMGVPLLGDEVYGGTKSMALSLLQKRVSRSDQEEII 381
Query: 269 -------RIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLE 300
R LHA ++ F HP + + ++F P D+ E
Sbjct: 382 ELISRMDRPCLHAIVLGFTHPCTGEIVKFSCPPPSDLAE 420
>ref|NP_212152.1| (NC_001318) conserved hypothetical protein [Borrelia burgdorferi]
pir||B70102 conserved hypothetical protein BB0018 - Lyme disease spirochete
gb|AAC66413.1| (AE001116) conserved hypothetical protein [Borrelia burgdorferi]
Length = 336
Score = 134 bits (337), Expect = 1e-30
Identities = 84/245 (34%), Positives = 146/245 (59%), Gaps = 11/245 (4%)
Query: 75 DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEF--KNYELSNLGLKERYGIV 132
++ I +I+ED +++VLNKP ++ H +S + T+V++L + K+ +++ K R GIV
Sbjct: 91 NIPIAIIYEDSNVIVLNKPQGILSHPGISHWDDTVVNFLLYHIKSLKINFNEEKIRPGIV 150
Query: 133 HRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPN 192
HRLDKDTSG ++ AKN T L++Q K K + YIA++ S+E ++ R+ +
Sbjct: 151 HRLDKDTSGVLICAKNISTLRFLAQQFKDKRTNKVYIAIVKGNFNSFFGSIESFIDRDKH 210
Query: 193 NRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHII 252
NR K +V K++ + + +E+ LL + +L+ K TGRTHQ+R H++YLN I+
Sbjct: 211 NRKKF----SVSKDRGKKALTEY-RLLLNFGEYSLLALKPKTGRTHQLRVHMKYLNFPIL 265
Query: 253 GDNLYG-LNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKKVFDKENL 311
GD +YG ++G+L K I +MLH+Y +E ++ K +F K + +L + + L
Sbjct: 266 GDEVYGRVDGSLKK--ITLMLHSYKLEIDVGKNSFK-KFISEFPKRFVIFLSNFYKSDEL 322
Query: 312 DEVLD 316
+ ++D
Sbjct: 323 NLIID 327
>sp|P70870|RLUD_BORBU Ribosomal large subunit pseudouridine synthase D (Pseudouridylate
synthase) (Uracil hydrolyase)
Length = 326
Score = 134 bits (337), Expect = 1e-30
Identities = 84/245 (34%), Positives = 146/245 (59%), Gaps = 11/245 (4%)
Query: 75 DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEF--KNYELSNLGLKERYGIV 132
++ I +I+ED +++VLNKP ++ H +S + T+V++L + K+ +++ K R GIV
Sbjct: 81 NIPIAIIYEDSNVIVLNKPQGILSHPGISHWDDTVVNFLLYHIKSLKINFNEEKIRPGIV 140
Query: 133 HRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPN 192
HRLDKDTSG ++ AKN T L++Q K K + YIA++ S+E ++ R+ +
Sbjct: 141 HRLDKDTSGVLICAKNISTLRFLAQQFKDKRTNKVYIAIVKGNFNSFFGSIESFIDRDKH 200
Query: 193 NRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHII 252
NR K +V K++ + + +E+ LL + +L+ K TGRTHQ+R H++YLN I+
Sbjct: 201 NRKKF----SVSKDRGKKALTEY-RLLLNFGEYSLLALKPKTGRTHQLRVHMKYLNFPIL 255
Query: 253 GDNLYG-LNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKKVFDKENL 311
GD +YG ++G+L K I +MLH+Y +E ++ K +F K + +L + + L
Sbjct: 256 GDEVYGRVDGSLKK--ITLMLHSYKLEIDVGKNSFK-KFISEFPKRFVIFLSNFYKSDEL 312
Query: 312 DEVLD 316
+ ++D
Sbjct: 313 NLIID 317
>ref|NP_355395.1| (NC_003062) AGR_C_4432p [Agrobacterium tumefaciens] [Agrobacterium
tumefaciens str. C58 (Cereon)]
gb|AAK88180.1| (AE008157) AGR_C_4432p [Agrobacterium tumefaciens str. C58
(Cereon)]
Length = 340
Score = 132 bits (332), Expect = 5e-30
Identities = 110/333 (33%), Positives = 172/333 (51%), Gaps = 45/333 (13%)
Query: 2 QKVFIALTDHK-RLDEFLAKEL--QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEI 58
+KV IA D + R+D +L E+ +S++++ LI++G V + V + + GD +
Sbjct: 12 RKVLIAGEDAEGRIDVWLVGEVGSDLSRSRLKALIEQGAVLLNGQPVTEPKKKVHPGDRV 71
Query: 59 TLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFK-N 117
++ P+ P+ + D+ ++V +EDEDL+VL KP LVVH TLV+ L +
Sbjct: 72 EIVMPE-PEDPVPQGEDIPLDVEYEDEDLIVLVKPAGLVVHPGAGNWTGTLVNALIYHCG 130
Query: 118 YELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQL----KTKMMGRYYIALLS 173
LS +G +R GIVHRLDK+TSG +V+AKN+ H HL+ Q +T + R Y A++
Sbjct: 131 DSLSGIGGVKRPGIVHRLDKETSGVMVVAKNDNAHRHLAAQFADHGRTGPLERAYKAVVW 190
Query: 174 TPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKS--------------RYSKSEFISLL 219
+ + +V+ L R +R K +AVK E S R+ + S L
Sbjct: 191 GRPRTLRGTVDAALGRG-TDRTK----RAVKNEDSFDAREAITHYEVMERFHEKPDASCL 245
Query: 220 TSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYG----LNGALPKEEIRI----- 270
S ++ +L TGRTHQIR H+ ++ +IGD YG L E R
Sbjct: 246 AS-----MVECRLETGRTHQIRVHMAHIGHPLIGDPEYGAAFRTKANLLDEPARSTVNRF 300
Query: 271 ---MLHAYLIEFKHPRSEQKLRFKVPLLKDMLE 300
LHAYL+ F+HPR+ + + F+ + +DM E
Sbjct: 301 PRQALHAYLLAFEHPRTGEVMEFETDMPEDMEE 333
>ref|NP_295512.1| (NC_001263) ribosomal large subunit pseudouridine synthase D
[Deinococcus radiodurans]
pir||C75353 ribosomal large subunit pseudouridine synthase D - Deinococcus
radiodurans (strain R1)
gb|AAF11343.1|AE002020_2 (AE002020) ribosomal large subunit pseudouridine synthase D
[Deinococcus radiodurans]
Length = 338
Score = 132 bits (331), Expect = 7e-30
Identities = 101/305 (33%), Positives = 152/305 (49%), Gaps = 29/305 (9%)
Query: 10 DHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKP 69
D RLD ++ +S++QV I+ GLV + K L+ G+ + + P +
Sbjct: 29 DPGRLDAVVSLLSGVSRSQVAGWIEAGLVEIDGRAASKASQKLRGGEALRVSPPPLPSAQ 88
Query: 70 LKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKE-- 127
++ E D+ ++VIFEDE L+ +NKPP +V H A V TLV+ L L + L E
Sbjct: 89 VEPE-DVPLDVIFEDEHLIAINKPPGMVTHPAPGVISGTLVNAL------LGRMSLPEQQ 141
Query: 128 --------RYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEE 179
R GIVHRLDKDTSG IV+AK H L+ K + + Y+A+ + K E
Sbjct: 142 DFDGPDGYRPGIVHRLDKDTSGVIVVAKTVAAHARLAAAFKDRETKKTYLAIAAGAWKAE 201
Query: 180 K-MSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQN----NLNLIGAKLFT 234
+ + V+ + R+ R +M V +R +++ F L + L L+ A+ T
Sbjct: 202 RPVQVDAPIGRHQIQRQRM----TVGGAGAREAQTLFTPLDAHPDGHGRTLALVRAQPRT 257
Query: 235 GRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPL 294
GRTHQIR HL +L I+GD +YG + R LHA +E HP S L + +
Sbjct: 258 GRTHQIRVHLAHLGSPILGDAVYGRASEIMP---RHALHAQFLEVPHPVSGDILHLQAAV 314
Query: 295 LKDML 299
+D+L
Sbjct: 315 PEDLL 319
>emb|CAA70352.1| (Y09142) product homologous to E.coli YfiI [Borrelia burgdorferi]
Length = 309
Score = 132 bits (331), Expect = 7e-30
Identities = 78/207 (37%), Positives = 132/207 (63%), Gaps = 10/207 (4%)
Query: 75 DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEF--KNYELSNLGLKERYGIV 132
++ I +I+ED +++VLNKP ++ H +S + T+V++L + K+ +++ K R GIV
Sbjct: 81 NIPIAIIYEDSNVIVLNKPQGILSHPGISHWDDTVVNFLLYHIKSLKINFNEEKIRPGIV 140
Query: 133 HRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPN 192
HRLDKDTSG ++ AKN T L++Q K K + + YIA++ S+E ++ R+ +
Sbjct: 141 HRLDKDTSGVLICAKNISTLRFLAQQFKDKRINKVYIAIVKGNFNSFFGSIESFIDRDKH 200
Query: 193 NRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHII 252
NR K +V K++ + + +E+ LL + +L+ K TGRTHQ+R H++YLN I+
Sbjct: 201 NRKKF----SVSKDRGKKALTEY-RLLLNFGEYSLLALKPKTGRTHQLRVHMKYLNFPIL 255
Query: 253 GDNLYG-LNGALPKEEIRIMLHAYLIE 278
GD +YG ++G+L E+I +MLH+Y +E
Sbjct: 256 GDEVYGRVDGSL--EKITLMLHSYKLE 280
>ref|NP_228748.1| (NC_000853) ribosomal large subunit pseudouridine synthase C
[Thermotoga maritima]
pir||D72316 ribosomal large subunit pseudouridine synthase C - Thermotoga
maritima (strain MSB8)
gb|AAD36021.1|AE001757_14 (AE001757) ribosomal large subunit pseudouridine synthase C
[Thermotoga maritima]
Length = 304
Score = 130 bits (328), Expect = 2e-29
Identities = 98/319 (30%), Positives = 163/319 (50%), Gaps = 40/319 (12%)
Query: 11 HKRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKP 69
++RLD+FL +L+ + + + LI++G V+ +K VK L+EGD + L + P
Sbjct: 11 YRRLDKFLRNQLKDVPLSVIYKLIRKGKVYVNRKRVKDPSFDLEEGDVVELRYVNLENLP 70
Query: 70 LKKE------LDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNL 123
+ E + ++++V++ED+ LVLNKPPN+ +H V TL++ L + E
Sbjct: 71 KRSEKKDLTPVPMKLDVLYEDDHYLVLNKPPNIAIHPGKGVHVATLIEGLLYYGQEKGFS 130
Query: 124 GLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSV 183
+VHRLDK+TSG +V+AKN L+E K + + + Y+ L+
Sbjct: 131 PF-----LVHRLDKETSGLLVVAKNREAARILTELFKGRNIEKEYVTLVRGV-------- 177
Query: 184 ECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAH 243
P N +K I + +E + SE +S + +++L+ K+ TGR HQIR H
Sbjct: 178 -------PENNMK-ITIPLDGQE----AVSEIVS-VKPLKDVSLLRVKIHTGRKHQIRRH 224
Query: 244 LEYLNRHIIGDNLYG---LNGALPKEE--IRIMLHAYLIEFKHPRSEQKLRFKVPLLKDM 298
L + ++GD+ YG N K R LH+Y ++F P +E++ F+ PL D+
Sbjct: 225 LSQIGFPVVGDDTYGDRHFNREFRKRYGLKRQFLHSYRMKFIDPWTEEEKDFRAPLPDDL 284
Query: 299 LEYLKKVFDKENLDEVLDE 317
L L + +E DE L+E
Sbjct: 285 LSVLNLL--EERSDEWLEE 301
>sp|O50310|YBC5_CHLVI Hypothetical 36.7 kDa protein in BCHI 5'region
pir||T17190 conserved hypothetical protein CAB06297 - Chlorobium vibrioforme
emb|CAB06297.1| (Z83933) hypothetical protein [Chlorobium vibrioforme]
Length = 327
Score = 130 bits (327), Expect = 2e-29
Identities = 101/314 (32%), Positives = 161/314 (51%), Gaps = 29/314 (9%)
Query: 13 RLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEI--TLLTPKITPKP 69
R+D +L ++++ +++N+V I+EG V K VK +K D I T L P P P
Sbjct: 13 RIDRYLTQQVENMTRNKVQAAIEEGRVLVNGKPVKSN-YRVKSCDHIHLTFLRP---PAP 68
Query: 70 LKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDW-LEFKNYELSNLGLKE- 127
D+ I +++ED+DL+V++K +VVH A TL + L + L E
Sbjct: 69 ELAPEDIPITILYEDDDLMVIDKEAGMVVHPAFGNWTGTLANAILHHLGKDADELDKTEM 128
Query: 128 RYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYL 187
R GIVHRLDKDTSG I+IAKN L+ Q + + + Y A++ K E +++ +
Sbjct: 129 RPGIVHRLDKDTSGLIIIAKNPTALHKLARQFANRQVEKVYKAIVWGVPKAESGTIKTNI 188
Query: 188 TRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYL 247
R+ NR K++A + + +++ +++ ++ +L+ L TGRTHQIR HL++L
Sbjct: 189 GRSHKNR-KVMANFPYEGAEGKHAITDY-QVVEDLGYFSLMDVTLHTGRTHQIRVHLQHL 246
Query: 248 NRHIIGDNLYGLNGALPKE----------------EIRIMLHAYLIEFKHPRSEQKLRFK 291
I+GD YG GA P+ R LHA + F+ P + + L F
Sbjct: 247 GHSILGDETYG--GATPRTLPFSKSEPFTRNLLELMSRQALHAQTLRFRQPTTGEPLSFS 304
Query: 292 VPLLKDMLEYLKKV 305
PL +DM L+K+
Sbjct: 305 APLPEDMELVLEKI 318
>ref|NP_533115.1| (NC_003304) pseudouridine synthase homolog [Agrobacterium
tumefaciens str. C58 (U. Washington)]
gb|AAL43431.1| (AE009191) pseudouridine synthase homolog [Agrobacterium
tumefaciens str. C58 (U. Washington)]
Length = 325
Score = 130 bits (326), Expect = 3e-29
Identities = 105/321 (32%), Positives = 165/321 (50%), Gaps = 44/321 (13%)
Query: 13 RLDEFLAKEL--QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
R+D +L E+ +S++++ LI++G V + V + + GD + ++ P+ P+
Sbjct: 9 RIDVWLVGEVGSDLSRSRLKALIEQGAVLLNGQPVTEPKKKVHPGDRVEIVMPE-PEDPV 67
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFK-NYELSNLGLKERY 129
+ D+ ++V +EDEDL+VL KP LVVH TLV+ L + LS +G +R
Sbjct: 68 PQGEDIPLDVEYEDEDLIVLVKPAGLVVHPGAGNWTGTLVNALIYHCGDSLSGIGGVKRP 127
Query: 130 GIVHRLDKDTSGGIVIAKNNFTHVHLSEQL----KTKMMGRYYIALLSTPLKEEKMSVEC 185
GIVHRLDK+TSG +V+AKN+ H HL+ Q +T + R Y A++ + + +V+
Sbjct: 128 GIVHRLDKETSGVMVVAKNDNAHRHLAAQFADHGRTGPLERAYKAVVWGRPRTLRGTVDA 187
Query: 186 YLTRNPNNRLKMIALKAVKKEKS--------------RYSKSEFISLLTSQNNLNLIGAK 231
L R +R K +AVK E S R+ + S L S ++ +
Sbjct: 188 ALGRG-TDRTK----RAVKNEDSFDAREAITHYEVMERFHEKPDASCLAS-----MVECR 237
Query: 232 LFTGRTHQIRAHLEYLNRHIIGDNLYG----LNGALPKEEIRI--------MLHAYLIEF 279
L TGRTHQIR H+ ++ +IGD YG L E R LHAYL+ F
Sbjct: 238 LETGRTHQIRVHMAHIGHPLIGDPEYGAAFRTKANLLDEPARSTVNRFPRQALHAYLLAF 297
Query: 280 KHPRSEQKLRFKVPLLKDMLE 300
+HPR+ + + F+ + +DM E
Sbjct: 298 EHPRTGEVMEFETDMPEDMEE 318
>ref|NP_386831.1| (NC_003047) PUTATIVE RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE
PROTEIN [Sinorhizobium meliloti]
emb|CAC47304.1| (AL591791) PUTATIVE RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE
PROTEIN [Sinorhizobium meliloti]
Length = 343
Score = 129 bits (324), Expect = 5e-29
Identities = 105/318 (33%), Positives = 160/318 (50%), Gaps = 34/318 (10%)
Query: 13 RLDEFLAKEL--QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
RLD FL + L + S+N++ +LI++G V V + + GD + P+ P
Sbjct: 24 RLDAFLTEALAGEFSRNRIKSLIEQGAVSINGATVTEPKRKVHPGDSFRIALPE-PEDPE 82
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWL-EFKNYELSNLGLKERY 129
K + ++V++ED DL+VL KP LVVH TLV+ L LS +G +R
Sbjct: 83 PKGEAIPLDVLYEDADLIVLVKPAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGGVKRP 142
Query: 130 GIVHRLDKDTSGGIVIAKNNFTHVHLSEQL----KTKMMGRYYIALLSTPLKEEKMSVEC 185
GIVHRLDKDTSG +V+AKN+ H HLS+Q + + R Y A++ ++ K ++
Sbjct: 143 GIVHRLDKDTSGVMVVAKNDAAHRHLSDQFADHGRNGPLERAYRAVVWGRPRQLKGKIDA 202
Query: 186 YLTRNPNNRLKMIALKAVKKEKS--------RYSKSEFISLLTSQNNL-NLIGAKLFTGR 236
L R +R K +AVK+E S Y E +L + + L TGR
Sbjct: 203 PLGR-AGDRTK----RAVKREDSDDAREAITHYEVVERYHEKPDGTSLASTVECHLETGR 257
Query: 237 THQIRAHLEYLNRHIIGDNLYGL-----NGALPKEE-------IRIMLHAYLIEFKHPRS 284
THQIR H+ ++ +IGD YG LP+ R LHA++++F+HP +
Sbjct: 258 THQIRVHMAHIGHPLIGDPDYGAAFRTKANLLPEPARAAVNRFPRQALHAFMLQFEHPAT 317
Query: 285 EQKLRFKVPLLKDMLEYL 302
+ + F+ P+ DM E +
Sbjct: 318 GETMHFETPVPADMQELI 335
>sp|P50513|RLUD_ZYMMO RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE D (PSEUDOURIDYLATE
SYNTHASE) (URACIL HYDROLYASE)
pir||S60168 hypothetical protein X - Zymomonas mobilis
dbj|BAA09443.1| (D50832) homologue of E. coli ClpB5' ORF [Zymomonas mobilis]
Length = 317
Score = 129 bits (323), Expect = 6e-29
Identities = 100/296 (33%), Positives = 152/296 (50%), Gaps = 17/296 (5%)
Query: 13 RLDEFLAKEL-QISKNQVLNLIKEGLVF-CQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
RLD LA + ++S+ ++ NLI G V Q V+ +K D T+ P P+P
Sbjct: 16 RLDRALASLITRLSRERLKNLISSGCVSNSQGALVRDPAFKIKSLDCFTVDIP--LPRPA 73
Query: 71 KKE-LDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNY-ELSNLGLKER 128
E D+ +E++FEDE LLV+NKP +VVH A + TLV+ L + +LS +G R
Sbjct: 74 HNEPQDIPLEIVFEDEHLLVVNKPAGMVVHPAAGNYDNTLVNALLYHCAGKLSGIGGVAR 133
Query: 129 YGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLT 188
GIVHR+DKDTSG +V+AK + H L+ Q + R Y A++ + V+ L
Sbjct: 134 PGIVHRIDKDTSGLLVVAKTDPAHAGLAAQFADHSINRRYRAIVDGN-PSLQGHVDAPLA 192
Query: 189 RNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLN 248
R+ NR KM A+ + ++T N +LI +L TGRTHQ+R H+ +
Sbjct: 193 RSSVNRQKM----AIVSDGRGKRAVTHYCMITPLKNASLIECRLETGRTHQVRVHMSSIG 248
Query: 249 RHIIGDNLYGLNGALPKEEI------RIMLHAYLIEFKHPRSEQKLRFKVPLLKDM 298
++GD +YG + + R LHA + F HP S +++ F + +DM
Sbjct: 249 HSLLGDPVYGRSKKAHHALLQSLAFQRQALHAAHLGFIHPISGKQVDFDAEMPQDM 304
>ref|NP_389429.1| (NC_000964) alternate gene name: ylmL~similar to hypothetical
proteins [Bacillus subtilis]
pir||B69883 conserved hypothetical protein ylyB - Bacillus subtilis
emb|CAB13420.1| (Z99112) alternate gene name: ylmL~similar to hypothetical proteins
[Bacillus subtilis]
Length = 273
Score = 129 bits (323), Expect = 6e-29
Identities = 81/248 (32%), Positives = 134/248 (53%), Gaps = 9/248 (3%)
Query: 12 KRLDEFLAK-ELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
+R+D+FLA E S+ QV +K+G V VK ++ GD++T+ P+ +
Sbjct: 15 ERIDKFLASTENDWSRTQVQQWVKDGQVVVNGSAVK-ANYKIQPGDQVTVTVPEPEALDV 73
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG 130
E +++++ +ED+D+LV+NKP +VVH A TLV+ L +LS + R G
Sbjct: 74 LAE-PMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCTDLSGINGVMRPG 132
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
IVHR+DKDTSG +++AKN+ H L QL K + R Y A++ + + +++ + R+
Sbjct: 133 IVHRIDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRD 192
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
+R M + K + + +L + L+ +L TGRTHQIR H++Y+
Sbjct: 193 KKDRQSMTVTRDGKNAVTHF------HVLEGFQDFTLVECQLETGRTHQIRVHMKYIGFP 246
Query: 251 IIGDNLYG 258
+ GD YG
Sbjct: 247 LAGDPKYG 254
>ref|NP_104781.1| (NC_002678) pseudouridine synthase [Mesorhizobium loti]
dbj|BAB50567.1| (AP003002) pseudouridine synthase [Mesorhizobium loti]
Length = 329
Score = 129 bits (323), Expect = 6e-29
Identities = 99/314 (31%), Positives = 164/314 (51%), Gaps = 28/314 (8%)
Query: 12 KRLDEFLAKEL--QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKP 69
+RLD++LA L +S+++V LI++G V K + + G+ +++ P+ P
Sbjct: 11 QRLDQWLAASLGPDMSRSRVQMLIRQGAVSVDGKPADETKRKMSAGESVSIAMPEPEPAA 70
Query: 70 LKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWL-EFKNYELSNLGLKER 128
+ E + ++V++ED+ L+V+NKP LVVH TLV+ L LS +G R
Sbjct: 71 PQGEA-IALDVLYEDDALIVINKPAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGGVRR 129
Query: 129 YGIVHRLDKDTSGGIVIAKNNFTHVHLSEQL----KTKMMGRYYIALLSTPLKEEKMSVE 184
GIVHRLDK+TSG +V+AK + H LSE +T + R Y+AL+ + +V+
Sbjct: 130 PGIVHRLDKETSGVMVVAKTDRAHKALSEAFADHGRTGDLERAYLALVWGIPQRPTGTVD 189
Query: 185 CYLTRNPNNRLKMIALKAVKKEKSRYSKSEF-ISLLTSQN-----NLNLIGAKLFTGRTH 238
L R + + + + ++ +R++ + F + +N +L+ +L TGRTH
Sbjct: 190 APLGRAADRVRRAVVPEG--RDDARHAVTHFAVQERFGENQQEFATASLVECRLETGRTH 247
Query: 239 QIRAHLEYLNRHIIGDNLYG-----LNGALP-------KEEIRIMLHAYLIEFKHPRSEQ 286
QIR H+ ++ +IGD YG LP K R LHA+L+ F+HP +
Sbjct: 248 QIRVHMAHIGHPVIGDPDYGQAFRTKANRLPEPLKSQVKAFSRQALHAWLLAFRHPDTHL 307
Query: 287 KLRFKVPLLKDMLE 300
+RF+ P+ +DM E
Sbjct: 308 TMRFEAPIPRDMEE 321
>ref|NP_273746.1| (NC_003112) ribosomal large subunit pseudouridine synthase D
[Neisseria meningitidis MC58]
pir||A81168 ribosomal large chain pseudouridine synthase D NMB0704 [imported] -
Neisseria meningitidis (group B strain MD58)
gb|AAF41121.1| (AE002425) ribosomal large subunit pseudouridine synthase D
[Neisseria meningitidis MC58]
Length = 374
Score = 127 bits (318), Expect = 2e-28
Identities = 102/322 (31%), Positives = 162/322 (49%), Gaps = 30/322 (9%)
Query: 13 RLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLK 71
RLD LAK L S++++ + IKEG V K + + G++I +T +P +
Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKPSQPKDKMIG-GEQIC-----VTVRPSE 93
Query: 72 KEL-----DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLK 126
+ L + +++++ED+ ++V+NKP LVVH A TL++ L ELS +
Sbjct: 94 ENLAFVPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQV--- 150
Query: 127 ERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECY 186
R GIVHRLDK+TSG +V+AK L QL+ + + R Y A+ + + + +E
Sbjct: 151 PRAGIVHRLDKETSGLMVVAKTLPAQNSLVRQLQERTVKRIYRAVANGIVPFDG-KIETQ 209
Query: 187 LTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEY 246
+ R+P+NRLKM +K K + + +L + I L TGRTHQIR H+
Sbjct: 210 IGRDPHNRLKMAVVKFGGKPAVTH-----VKVLERYLTHSYIECSLETGRTHQIRVHMRE 264
Query: 247 LNRHIIGDNLYGLN----GALPKEEIRIM-----LHAYLIEFKHPRSEQKLRFKVPLLKD 297
N + D +YG G KE ++ + LHAY + F HP S + + F+ P+ D
Sbjct: 265 ANHPLAADPVYGNPRHPCGDTVKEAVKSLGARQALHAYRLSFTHPESGETVSFEAPIPND 324
Query: 298 MLEYLKKVFDKENLDEVLDEEK 319
+ L + + LD L E+
Sbjct: 325 IYHLLSVLRLEAGLDSSLSNEE 346
>ref|NP_283696.1| (NC_003116) putative ribosomal large subunit pseudouridine synthase
D [Neisseria meningitidis Z2491]
pir||D81937 probable ribosomal large subunit pseudouridine synthase D NMA0908
[imported] - Neisseria meningitidis (group A strain
Z2491)
emb|CAB84185.1| (AL162754) putative ribosomal large subunit pseudouridine synthase
D [Neisseria meningitidis Z2491]
Length = 374
Score = 127 bits (318), Expect = 2e-28
Identities = 103/322 (31%), Positives = 163/322 (49%), Gaps = 30/322 (9%)
Query: 13 RLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLK 71
RLD LAK L S++++ IKEG V K + + G++I ++T +P +
Sbjct: 40 RLDAVLAKLLPDYSRSRLTLWIKEGAVIVNDKPSQPKDKMIG-GEQI-----RVTVRPSE 93
Query: 72 KEL-----DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLK 126
+ L + +++++ED+ ++V+NKP LVVH A TL++ L ELS +
Sbjct: 94 ENLAFVPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQI--- 150
Query: 127 ERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECY 186
R GIVHRLDK+TSG +V+AK L QL+ + + R Y A+ + + + +E
Sbjct: 151 PRAGIVHRLDKETSGLMVVAKTLPAQNSLVWQLQERTVKRIYRAVANGIVPFDG-KIETQ 209
Query: 187 LTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEY 246
+ R+P+NRLKM +K K + + +L + I L TGRTHQIR H+
Sbjct: 210 IGRDPHNRLKMAVVKFGGKPAVTH-----VKVLERYLAHSYIECSLETGRTHQIRVHMRE 264
Query: 247 LNRHIIGDNLYGLN----GALPKEEIRIM-----LHAYLIEFKHPRSEQKLRFKVPLLKD 297
N + GD +YG G KE ++ + LHAY + F HP S + + F+ P+ D
Sbjct: 265 ANHPLAGDPVYGNPRHPCGDTVKEAVKSLGARQALHAYRLSFTHPESGETVSFEAPIPDD 324
Query: 298 MLEYLKKVFDKENLDEVLDEEK 319
+ L + + LD L E+
Sbjct: 325 IYHLLSVLRLEAGLDSSLSNEE 346
>gb|AAG10501.1|AF279106_63 (AF279106) predicted ribosomal large subunit pseudouridine synthase
D [uncultured proteobacterium EBAC31A08]
Length = 310
Score = 127 bits (318), Expect = 2e-28
Identities = 97/303 (32%), Positives = 159/303 (52%), Gaps = 26/303 (8%)
Query: 13 RLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLK 71
RLD+ A+ S+ Q+ I+EG V EV + + E D+I L +PK K
Sbjct: 14 RLDKATAEMFTDYSRTQIKKWIEEGRVLING-EVSQPRDKVYENDQIEL-SPKEEQKVSW 71
Query: 72 KELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI 131
+ D++ E+ FE+ED +++NKP L++H + TL + L +K EL N+ R GI
Sbjct: 72 EAQDIDFEIHFENEDFIIINKPAGLIMHPGSGCYDGTLANGLIYKFPELINI---PRSGI 128
Query: 132 VHRLDKDTSGGIVIAKN-NFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
VHRLDKDTSG +++A+N +F + ++E + +++ +Y ++ + L S+E + R+
Sbjct: 129 VHRLDKDTSGILLVARNESFRNFFINEMQERRVVKKYTSIVIGSTL--GSFSIEEPIGRD 186
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
NNR KM A++++ F+ L + N +++ ++ TGRTHQIR HL
Sbjct: 187 KNNRTKM----AIREDGK--DALTFVKLKENIGNYSVLDIRIETGRTHQIRVHLSSKKLP 240
Query: 251 IIGDNLYGLNGAL----PKEEIRIM-------LHAYLIEFKHPRSEQKLRFKVPLLKDML 299
IIGD Y + ++ P+E I I+ LHA + F ++ F +P DM
Sbjct: 241 IIGDKTYDPSRSIARDTPEELINIIRGFPRQALHATHLSFNDQKTNNIFSFDIPTPNDME 300
Query: 300 EYL 302
E L
Sbjct: 301 ELL 303
>ref|NP_298229.1| (NC_002488) ribosomal large subunit pseudouridine synthase D
[Xylella fastidiosa 9a5c]
pir||F82742 ribosomal large subunit pseudouridine synthase D XF0939 [imported]
- Xylella fastidiosa (strain 9a5c)
gb|AAF83749.1|AE003933_1 (AE003933) ribosomal large subunit pseudouridine synthase D
[Xylella fastidiosa 9a5c]
Length = 331
Score = 126 bits (317), Expect = 3e-28
Identities = 97/305 (31%), Positives = 156/305 (50%), Gaps = 28/305 (9%)
Query: 12 KRLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLL--TPKITPK 68
+R D LA+ + S++++ IK G V V+ G E+ L P I
Sbjct: 25 RRFDAVLAELFPEFSRSRLTEWIKSGDVLLNGVLVRPRDPVY--GGEVVRLQVVPDIRTD 82
Query: 69 PLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKER 128
+ + D+ +++++EDE + VLNKP LVVH + TLV+ L ++ L+ + R
Sbjct: 83 AVPQ--DIPLDILYEDEHVFVLNKPAGLVVHPGAGNPDGTLVNALLHRDPALAAV---PR 137
Query: 129 YGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLT 188
G+VHRLDKDTSG +V+A+ L EQL ++ + R Y+A++ + L +V +
Sbjct: 138 AGVVHRLDKDTSGVMVVARTLQAQTALVEQLSSRQVHRQYLAVVVSALVSGG-TVNAAIE 196
Query: 189 RNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLN 248
R+P +RL+M K+ + Y E T+ + +L TGRTHQIR H+ +L
Sbjct: 197 RHPRDRLRMAVSDTGKEAVTHYRLRERFRAHTA------LECRLDTGRTHQIRVHMAHLR 250
Query: 249 RHIIGDNLYGLNGALPK---EEIRIM--------LHAYLIEFKHPRSEQKLRFKVPLLKD 297
I+GD LYG + LPK + + +M LHA ++EF HP +R P+ +D
Sbjct: 251 HPIVGDRLYGGSLKLPKVGTDALVVMLRGFKRQALHAEVLEFLHPVGALPVRIVAPVPED 310
Query: 298 MLEYL 302
+ + L
Sbjct: 311 LCQLL 315
>gb|AAF26765.1|AC007396_14 (AC007396) T4O12.25 [Arabidopsis thaliana]
Length = 980
Score = 125 bits (314), Expect = 7e-28
Identities = 88/299 (29%), Positives = 152/299 (50%), Gaps = 51/299 (17%)
Query: 52 LKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVD 111
+K GDE+ ++ P + E D+ +++++ED+ +LV+NKP ++VVH A TLV+
Sbjct: 673 VKSGDEVNCTISELQPLKAEAE-DIPLDIVYEDKHVLVVNKPAHMVVHPAPGNPTGTLVN 731
Query: 112 WL---------EFKNYE-------------------LSNLGLKERYGIVHRLDKDTSGGI 143
+ ++ N E S+ R GIVHRLDK T+G +
Sbjct: 732 GILHHCSLPCVDYSNSEEDDDSDEETFSDDEEMTTSPSSYAASVRPGIVHRLDKGTTGLL 791
Query: 144 VIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALK-A 202
V+AK+ +H HL+EQ K + R Y++L + + +E + R+ +NR++M A+
Sbjct: 792 VVAKDEHSHAHLAEQFKLHTIERVYVSLTTGVPSPPQGRIEIPIGRDSSNRIRMAAIPGG 851
Query: 203 VKKEKSRYSKSEFISLLT-SQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGLNG 261
V+ ++R++ S + + T + L+ +L TGRTHQIRAH +Y+ ++GD +YG
Sbjct: 852 VRGGRARHAASRYKVIETFAGGGSALVEWRLETGRTHQIRAHAKYMGVPLLGDEVYGGTK 911
Query: 262 AL------------PKEEI--------RIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLE 300
++ +EEI R LHA ++ F HP + + ++F P D+ E
Sbjct: 912 SMALSLLQKRVSRSDQEEIIELISRMDRPCLHAIVLGFTHPCTGEIVKFSCPPPSDLAE 970
>sp|Q45826|YMDA_CHLAU Hypothetical protein in MDH 5'region (ORFA)
emb|CAA61435.1| (X89038) ORFA [Chloroflexus aurantiacus]
Length = 253
Score = 123 bits (308), Expect = 3e-27
Identities = 88/261 (33%), Positives = 141/261 (53%), Gaps = 18/261 (6%)
Query: 52 LKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVD 111
++ G I L P P L E + ++V++ED D+ V+NKP +VVH A TLV+
Sbjct: 3 VRPGAVIQLTIPPPIPTELVAE-PIPLDVVYEDADIAVINKPAGMVVHPAPGHPRGTLVN 61
Query: 112 WLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIAL 171
L + +L+ +G + R GIVHRLD+DTSG +VIA+++ L +Q + + M + Y AL
Sbjct: 62 ALLARYPDLA-IGGELRPGIVHRLDRDTSGLLVIARHDQAMRSLVDQQQARRMRKIYQAL 120
Query: 172 LSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAK 231
+ E +++ + R+P +RL+M + + ++ Y LL + + +L+ +
Sbjct: 121 V-IGRPPETGTIDAPIGRDPRDRLRMAVVPDGRPARTHYR------LLDTFGDYSLLEVQ 173
Query: 232 LFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEE----IRIMLHAYLIEFKHPRSEQK 287
L TGRTHQIR HL +L I+GD +YG P+ R LHA + HPRS +
Sbjct: 174 LETGRTHQIRVHLRHLGYPIVGDPVYG-----PRRSHLHLSRQFLHAAYLGLVHPRSGRW 228
Query: 288 LRFKVPLLKDMLEYLKKVFDK 308
F PL D+ L+++ D+
Sbjct: 229 QEFTAPLPADLQIVLRQLQDR 249
>ref|NP_603548.1| (NC_003454) Ribosomal large subunit pseudouridine synthase D
[Fusobacterium nucleatum subsp. nucleatum ATCC 25586]
gb|AAL94847.1| (AE010576) Ribosomal large subunit pseudouridine synthase D
[Fusobacterium nucleatum subsp. nucleatum ATCC 25586]
Length = 288
Score = 122 bits (306), Expect = 6e-27
Identities = 82/268 (30%), Positives = 146/268 (53%), Gaps = 16/268 (5%)
Query: 38 VFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLV 97
++ K +K +K+ + I ++ + + K +D+ I++ +EDE+LL++NK P ++
Sbjct: 35 IYLNGKRIKNNAKKIKKLNRIVVIEKEKSTGI--KAMDIPIDIAYEDENLLIVNKEPYII 92
Query: 98 VHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSE 157
VH + TL + + NY LG +RLD +TSG I+IAKN +T L +
Sbjct: 93 VHPTQKKVDKTLANAVV--NYFEKTLGKTLVPRFYNRLDMNTSGLIIIAKNAYTQAFLQD 150
Query: 158 QLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFIS 217
+ + K + Y + S ++++ ++ + + ++ L+ I L +E S I
Sbjct: 151 KTEVK---KTYKVIASGIIEKDDFFIKIPIGKVGDD-LRRIELS---EENGGKSAKTHIK 203
Query: 218 LLTS--QNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAY 275
+L + N+ + A+L+TGRTHQIRAHL + ++GD LYG + L K R MLHAY
Sbjct: 204 VLEKNYEKNITFLEARLYTGRTHQIRAHLSLIGHSLVGDELYGGDMKLAK---RQMLHAY 260
Query: 276 LIEFKHPRSEQKLRFKVPLLKDMLEYLK 303
+EF++P++ + L+ ++ + DM E LK
Sbjct: 261 KLEFQNPKTLENLKIEIDIPVDMKEVLK 288
>ref|NP_643525.1| (NC_003919) ribosomal large subunit pseudouridine synthase D
[Xanthomonas axonopodis pv. citri str. 306]
gb|AAM38061.1| (AE011967) ribosomal large subunit pseudouridine synthase D
[Xanthomonas axonopodis pv. citri str. 306]
Length = 331
Score = 122 bits (305), Expect = 7e-27
Identities = 95/299 (31%), Positives = 150/299 (49%), Gaps = 24/299 (8%)
Query: 12 KRLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
+R D LA+ + S++++ IK G E+ + L+ G+ + + T
Sbjct: 25 RRFDAVLAELFPEFSRSRLSEWIKSGDALLDG-EMARPRDTLRGGESVQVQVVLETQTHA 83
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG 130
+ D+ + V++EDE +LV++KP LVVH + TLV+ L F++ L+++ R G
Sbjct: 84 APQ-DIPLSVLYEDEQVLVIDKPAGLVVHPGAGNPDRTLVNALLFRDPALASV---PRAG 139
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
+VHRLDKDTSG +V+A+ L EQL + + R Y+A++ L + + R+
Sbjct: 140 VVHRLDKDTSGVMVVARTVQAQTALVEQLSAREVHRQYLAVVVGALVSGG-TANAPIDRH 198
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
P +RLKM + + Y E T+ + +L TGRTHQIR H+ +L
Sbjct: 199 PRDRLKMAVRDDGRDAVTHYRLRERFRAHTA------LECRLETGRTHQIRVHMAHLKSP 252
Query: 251 IIGDNLYGLNGALPK-------EEIRIM----LHAYLIEFKHPRSEQKLRFKVPLLKDM 298
I+GD LYG LPK E+R LHA +EF HP S + +R P+ D+
Sbjct: 253 IVGDPLYGGALKLPKGATDELVHELRTFKRQALHAETLEFLHPVSGEPVRASAPVPADL 311
>ref|NP_253234.1| (NC_002516) pseudouridine synthase [Pseudomonas aeruginosa]
sp|P33640|RLUD_PSEAE Ribosomal large subunit pseudouridine synthase D (Pseudouridylate
synthase) (Uracil hydrolyase)
pir||F83077 pseudouridine synthase PA4544 [imported] - Pseudomonas aeruginosa
(strain PAO1)
gb|AAG07932.1|AE004868_3 (AE004868) pseudouridine synthase [Pseudomonas aeruginosa]
Length = 320
Score = 122 bits (305), Expect = 7e-27
Identities = 79/236 (33%), Positives = 127/236 (53%), Gaps = 21/236 (8%)
Query: 75 DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHR 134
D+E+E+++EDE +LV++KP LVVH A ++ TL++ L + +++N+ R GIVHR
Sbjct: 80 DIELEIVYEDEHILVIDKPAGLVVHPAAGHQDGTLLNALLYHVPDIANV---PRAGIVHR 136
Query: 135 LDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNR 194
LDKDT+G +V+AK H L QL+ + + R Y A++ + +++ + R+ R
Sbjct: 137 LDKDTTGLMVVAKTLEAHTKLVAQLQARSVSRIYEAIVIGVITSGG-TIDAPIGRHGVQR 195
Query: 195 LKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGD 254
KM + A K S Y E T KL TGRTHQIR H+ ++ ++GD
Sbjct: 196 QKMAVVDAGKVAVSHYRVLERFRAHTHTR------VKLETGRTHQIRVHMSHIGYPLVGD 249
Query: 255 NLYGLNGALP-----------KEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDML 299
+YG +P +E R LHA +E HP + +++++ PL +D L
Sbjct: 250 PVYGGRFRIPPVASQTLVQTLREFPRQALHARFLELDHPATGVRMKWESPLPEDFL 305
>ref|NP_662187.1| (NC_002932) ribosomal large subunit pseudouridine synthase D
[Chlorobium tepidum TLS]
gb|AAM72529.1| (AE012889) ribosomal large subunit pseudouridine synthase D
[Chlorobium tepidum TLS]
Length = 329
Score = 122 bits (305), Expect = 7e-27
Identities = 98/314 (31%), Positives = 160/314 (50%), Gaps = 29/314 (9%)
Query: 13 RLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEI--TLLTPKITPKP 69
R+D +L ++++ ++N+V I+E V K VK +K D I T L P P P
Sbjct: 13 RIDRYLTQQVENATRNKVQKAIEEQRVLVNGKPVKSN-YRIKSCDHIHITFLRP---PAP 68
Query: 70 LKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDW-LEFKNYELSNLGLKE- 127
D+ I +++ED+DL+V++K +VVH A TL + L + +L E
Sbjct: 69 ELAPEDIPISILYEDDDLMVIDKEAGMVVHPAFGNWTGTLANAILHHLGKDADDLDKTEM 128
Query: 128 RYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYL 187
R GIVHRLDKDTSG I++AKN L+ Q + + + Y A++ +++ +
Sbjct: 129 RPGIVHRLDKDTSGLIIVAKNPVALHKLATQFARRQVEKVYKAIVWGVPNPPSGTIKTNI 188
Query: 188 TRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYL 247
R+ NR K++A + + +++ ++++ ++ L+ L TGRTHQIR HL++L
Sbjct: 189 GRSHKNR-KVMANFPFEGAEGKHAITDYL-VVEDLAYFALMDMTLHTGRTHQIRVHLQHL 246
Query: 248 NRHIIGDNLYGLNGALPKE--------------EI--RIMLHAYLIEFKHPRSEQKLRFK 291
I+GD YG GA P+ E+ R LHA + F+ P + + L F
Sbjct: 247 GHPILGDQTYG--GATPRTLPFSKSEPFTHNLLELMGRQALHAETLRFRQPTTGEPLAFT 304
Query: 292 VPLLKDMLEYLKKV 305
PL +DM L+K+
Sbjct: 305 APLPEDMKTVLEKI 318
>ref|NP_638435.1| (NC_003902) ribosomal large subunit pseudouridine synthase D
[Xanthomonas campestris pv. campestris str. ATCC 33913]
gb|AAM42359.1| (AE012424) ribosomal large subunit pseudouridine synthase D
[Xanthomonas campestris pv. campestris str. ATCC 33913]
Length = 331
Score = 121 bits (304), Expect = 9e-27
Identities = 82/235 (34%), Positives = 122/235 (51%), Gaps = 21/235 (8%)
Query: 75 DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHR 134
D+ + V++ED+ +LV++KP LVVH + TLV+ L F++ NL R G+VHR
Sbjct: 87 DIPLNVLYEDDHVLVIDKPAGLVVHPGAGNPDGTLVNALLFRD---PNLAAVPRAGVVHR 143
Query: 135 LDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNR 194
LDKDTSG +V+A+ L EQL + + R Y+A++ L + + + R+P +R
Sbjct: 144 LDKDTSGVMVVARTLQAQTALVEQLSARDVHRQYLAVVVGALVSGG-TADAPIDRHPRDR 202
Query: 195 LKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGD 254
LKM + + Y E T+ + +L TGRTHQIR H+ +L I+GD
Sbjct: 203 LKMAVRDDGRDAVTHYRLRERFRAHTA------LECRLETGRTHQIRVHMAHLKSPIVGD 256
Query: 255 NLYGLNGALPKEEI-----------RIMLHAYLIEFKHPRSEQKLRFKVPLLKDM 298
LYG LPK R LHA +EF HP S + +R P+ +D+
Sbjct: 257 PLYGGALKLPKGATDTLVAELRGFKRQALHAETLEFLHPVSGEPIRASAPVPEDL 311
>ref|NP_419272.1| (NC_002696) ribosomal large subunit pseudouridine synthase d
[Caulobacter crescentus CB15]
gb|AAK22440.1| (AE005719) ribosomal large subunit pseudouridine synthase d
[Caulobacter crescentus CB15]
Length = 342
Score = 121 bits (303), Expect = 1e-26
Identities = 96/297 (32%), Positives = 143/297 (47%), Gaps = 12/297 (4%)
Query: 12 KRLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
+RLD+ LA +S+ ++ LI EG + + V + G ++ P P
Sbjct: 38 QRLDKVLAPLFPDLSRARLQALIAEGRLTFDGETVADASRKARAGVYSLVVPPPAPADPE 97
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVD-WLEFKNYELSNLGLKERY 129
+ L L I ++ED L+V++K + VH A TLV+ L LS +G R
Sbjct: 98 PEALPLSI--LYEDAHLIVVDKAAGMAVHPAPGTYNGTLVNALLHHCGASLSGVGGVARP 155
Query: 130 GIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTR 189
GIVHRLDKDTSG +V AK++ H LS T + R Y+AL +++ + R
Sbjct: 156 GIVHRLDKDTSGVMVAAKSDAAHRGLSTLFATHDIDRLYVALTRGAPNPPTGTIQTQIGR 215
Query: 190 NPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNR 249
+P +R KM L+A +E + + E + + +L TGRTHQIR H+
Sbjct: 216 SPGDRKKMAVLRAGGREAITHYRVEAAFGPADRPLAARVACRLETGRTHQIRVHMASKGS 275
Query: 250 HIIGDNLYGL--NGALPKEEI------RIMLHAYLIEFKHPRSEQKLRFKVPLLKDM 298
+GD +YG A +E I R LHA ++ F HP + + LRF+ PL DM
Sbjct: 276 PCLGDPVYGAAQPAAAVRERIEAAGLRRQALHAAVLGFVHPITGETLRFETPLPADM 332
>ref|NP_470305.1| (NC_003212) similar to ribosomal large subunit pseudouridine
synthetase [Listeria innocua]
emb|CAC96199.1| (AL596167) similar to ribosomal large subunit pseudouridine
synthetase [Listeria innocua]
Length = 296
Score = 121 bits (303), Expect = 1e-26
Identities = 79/253 (31%), Positives = 135/253 (53%), Gaps = 12/253 (4%)
Query: 52 LKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVD 111
+K D++ L P ++EV+FED+ LL++NKP + + ++ +
Sbjct: 54 VKTDDKVRLTFPTEQQNDRLLAEHTDLEVVFEDDFLLIINKPAGMASIPSQYHPTGSVAN 113
Query: 112 WLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIAL 171
+++ +YE N GL IV RLD++TSG ++IAKN + H LS L+ ++ R Y A
Sbjct: 114 FVK-GHYE--NQGLTSAIHIVTRLDRETSGLMLIAKNRYAHARLSSFLQQGLLKRRYQAF 170
Query: 172 LSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAK 231
S L+EE S+E P R + ++ + +Y+K+ + +L N + + +
Sbjct: 171 TSGTLEEEAGSIEA-----PIGRKDVSIMERFVTPEGKYAKTNY-EVLMRYNGFDHLAIQ 224
Query: 232 LFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFK 291
L TGRTHQIR H Y+ +IGD++YG + L K + H +L+ HP +E+ + F
Sbjct: 225 LETGRTHQIRVHFSYIGHPLIGDDMYGGDQELLKRQALHSCHLHLV---HPVTEEYMAFD 281
Query: 292 VPLLKDMLEYLKK 304
+PL +DM + ++K
Sbjct: 282 LPLPEDMEQIIQK 294
>ref|NP_347897.1| (NC_003030) Pseudouridylate synthase family protein, yabo
B.subtilis ortholog [Clostridium acetobutylicum]
gb|AAK79237.1|AE007639_10 (AE007639) Pseudouridylate synthase family protein, yabo B.subtilis
ortholog [Clostridium acetobutylicum]
Length = 299
Score = 119 bits (299), Expect = 4e-26
Identities = 79/252 (31%), Positives = 134/252 (52%), Gaps = 13/252 (5%)
Query: 54 EGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWL 113
EGD+I + K + + E +++ +++ED D++VLNKP N++VH + + TL + L
Sbjct: 58 EGDKIEVDVNKPESQNVDPE-KMDLNIVYEDSDIIVLNKPANMIVHPTKNYQHGTLSNGL 116
Query: 114 EFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLS 173
Y G +V+RLD DTSG +++AKN F+H+ L+ +K + YIA++
Sbjct: 117 L---YYFREKGENCIVRLVNRLDMDTSGLVLVAKNQFSHMALARDMKLDTFKKEYIAVVR 173
Query: 174 TPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLF 233
L K +++ P + + ++ ++ + S + F ++ N + + L
Sbjct: 174 GNLSSLKGTID-----KPIYKEEEEPIRRTIDDRGQESITHF-EVVERYKNADKVKLVLE 227
Query: 234 TGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVP 293
TGRTHQIR HL + IIGD+LYG L K R LHA+ ++F HPR + + +V
Sbjct: 228 TGRTHQIRVHLSSIGNPIIGDSLYGEESELIK---RQALHAFKLQFPHPRDGRIVNIEVK 284
Query: 294 LLKDMLEYLKKV 305
L +D+ + KV
Sbjct: 285 LPEDIENLISKV 296
>ref|NP_230358.1| (NC_002505) ribosomal large subunit pseudouridine synthase D
[Vibrio cholerae]
pir||G82289 ribosomal large chain pseudouridine synthase D VC0709 [imported] -
Vibrio cholerae (group O1 strain N16961)
gb|AAF93874.1| (AE004157) ribosomal large subunit pseudouridine synthase D [Vibrio
cholerae]
Length = 324
Score = 119 bits (298), Expect = 5e-26
Identities = 87/301 (28%), Positives = 152/301 (49%), Gaps = 23/301 (7%)
Query: 12 KRLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
+RLD+ +A+ S++++ + EG + + K + G+ IT+ ++ +
Sbjct: 18 QRLDQAVAELFTDFSRSRLKEWLLEGKIAVNGDVITKPRTKVMGGEVITVQA-ELEDEQR 76
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG 130
+ DL + +++ED+D++V+NKP + VVH + T+++ L F ++ + R G
Sbjct: 77 WEAQDLPLNIVYEDDDIIVINKPRDFVVHPGAGQADKTVLNALLFHYSPIAEV---PRAG 133
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
IVHRLDKDT+G +V+AK L L+ + + R Y A++ + M ++ + R+
Sbjct: 134 IVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRDVTREYEAIVIGTMTAGGM-IDKPIGRH 192
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
R M K + Y +E T + +L TGRTHQIR H+ YL
Sbjct: 193 STKRTLMSVSPMGKHAVTHYRVAEHFREHTR------LRLRLETGRTHQIRVHMAYLQHP 246
Query: 251 IIGDNLYGLNGALPK---EEI--------RIMLHAYLIEFKHPRSEQKLRFKVPLLKDML 299
++GD YG +PK EE+ R LHA +++F+HP + ++L F P+ DM+
Sbjct: 247 LLGDTAYGGRARIPKGATEELTEMIRDFDRQALHAVMLKFEHPVTGEELEFHAPVPDDMV 306
Query: 300 E 300
E
Sbjct: 307 E 307
>ref|NP_464494.1| (NC_003210) similar to ribosomal large subunit pseudouridine
synthetase [Listeria monocytogenes EGD-e]
emb|CAC99047.1| (AL591977) similar to ribosomal large subunit pseudouridine
synthetase [Listeria monocytogenes]
Length = 296
Score = 119 bits (298), Expect = 5e-26
Identities = 78/253 (30%), Positives = 134/253 (52%), Gaps = 12/253 (4%)
Query: 52 LKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVD 111
+K GD++ L P ++++FED+ LL++NKP + + ++ +
Sbjct: 54 VKVGDKVRLTFPTEQQNERLLAEYTNLDIVFEDDFLLIINKPAGMASIPSQYHPNGSVAN 113
Query: 112 WLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIAL 171
+++ +YE GL IV RLD++TSG ++IAKN F H LS L+ ++ R Y A
Sbjct: 114 FVK-GHYEAQ--GLTNAIHIVTRLDRETSGLMLIAKNRFAHARLSTFLQKGLLKRRYQAF 170
Query: 172 LSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAK 231
+S L E+K S+E P R ++ ++ + +Y+K+ + +L + + +
Sbjct: 171 ISGVLVEQKGSIEA-----PIGRKEVSIMERFVTPEGKYAKTNY-EVLARYRAFDHVAIQ 224
Query: 232 LFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFK 291
L TGRTHQIR H Y+ +IGD++YG + L K + H +L+ HP +E+ + F
Sbjct: 225 LETGRTHQIRVHFSYIGHPLIGDDMYGGDTNLLKRQALHSCHLHLV---HPLTEEYMAFD 281
Query: 292 VPLLKDMLEYLKK 304
+PL DM E ++K
Sbjct: 282 LPLPADMEEIIQK 294
>ref|NP_296413.1| (NC_002620) ribosomal large subunit pseudouridine synthase D
[Chlamydia muridarum]
pir||A81748 ribosomal large chain pseudouridine synthase D TC0029 [imported] -
Chlamydia muridarum (strain Nigg)
gb|AAF38920.1| (AE002271) ribosomal large subunit pseudouridine synthase D
[Chlamydia muridarum]
Length = 345
Score = 118 bits (296), Expect = 8e-26
Identities = 86/265 (32%), Positives = 135/265 (50%), Gaps = 20/265 (7%)
Query: 52 LKEGDEITL-LTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLV 110
L +GD + L L + TP L E ++ ++ ++ED +LV+NKP N+VVH A + T+V
Sbjct: 73 LSQGDLVDLELVEEETPSSLTPE-NIPLDKVYEDNMILVINKPRNMVVHPAPGHVQGTVV 131
Query: 111 DWLEFKNYELSNLGLKE---RYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRY 167
L + E E R GIVHRLDKDTSG ++ K SE +K M +
Sbjct: 132 HALLHEIGERLKQEFPEEPWRPGIVHRLDKDTSGLLITVKTRRAKAVYSELFSSKQMKKM 191
Query: 168 YIAL-LSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLN 226
YIA+ +++P ++ + + R+P R +M L K + +L S L+
Sbjct: 192 YIAICINSPAQKH---IHTRIARHPVKRKEMTVLS--KDTEGGKEAITHCHVLASNGRLS 246
Query: 227 LIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGLNG-----ALPKEEIRIMLHAYLIEFKH 281
++ TGRTHQ+R H+++L I+GD +YG+ L K++ LHAY + F H
Sbjct: 247 VVALYPETGRTHQLRVHMKHLGTPILGDPVYGVPSINFRYGLDKQQ----LHAYSLVFTH 302
Query: 282 PRSEQKLRFKVPLLKDMLEYLKKVF 306
P S +++ L DM ++K F
Sbjct: 303 PESAERVELVTKLPDDMTSLIEKEF 327
>ref|NP_660729.1| (NC_004061) ribosomal large subunit pseudouridine synthase d
[Buchnera aphidicola str. Sg (Schizaphis graminum)]
gb|AAM67940.1| (AE014115) ribosomal large subunit pseudouridine synthase d
[Buchnera aphidicola str. Sg (Schizaphis graminum)]
Length = 315
Score = 118 bits (296), Expect = 8e-26
Identities = 95/309 (30%), Positives = 155/309 (49%), Gaps = 27/309 (8%)
Query: 12 KRLDEFLAKE-LQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
KRLD+ L+K +Q S++ + I V+ K + + G++IT+ + P+
Sbjct: 18 KRLDQILSKLFMQYSRSCLKKWIIMNNVYINGKIENQPDKKILGGEKITIYSTD-EKLPI 76
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG 130
++ + I+ED ++L++NKPP LVVH ++ T+++ L ++ +S++ R G
Sbjct: 77 NLPQNIALNTIYEDSNILIINKPPGLVVHPGAGNQDGTILNALLYRYTNISSI---PRCG 133
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
I+HRLDKDTSG +VIAK F++ L LK + + R Y ++ + + V + R+
Sbjct: 134 IIHRLDKDTSGLMVIAKTIFSYNKLVTLLKKRKIIRKYQGIIKGNMISGGI-VNYPIMRH 192
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
P R+ M KK + Y T + +L TGRTHQIR H+ ++
Sbjct: 193 PFKRICMTTDSLGKKSITHYKIINRFKFHTH------VSFRLETGRTHQIRVHMLHIGYP 246
Query: 251 IIGDNL-----YGLNGALPKEEI-------RIMLHAYLIEFKHPRSEQKLRFKVPL---L 295
++GD L YG N I R LHA IEF HP +++ + + L +
Sbjct: 247 LLGDPLYGGIDYGCNYFQENRNIYRKFNLFRQALHADYIEFIHPFTQKVMSWSASLPQDM 306
Query: 296 KDMLEYLKK 304
KD+L YLKK
Sbjct: 307 KDILLYLKK 315
>ref|NP_519749.1| (NC_003295) PROBABLE RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE
D PROTEIN [Ralstonia solanacearum]
emb|CAD15330.1| (AL646065) PROBABLE RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE
D PROTEIN [Ralstonia solanacearum]
Length = 358
Score = 117 bits (292), Expect = 2e-25
Identities = 93/312 (29%), Positives = 157/312 (49%), Gaps = 36/312 (11%)
Query: 12 KRLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKE------GDEITLLTPK 64
+RLD+ LAK L S++++ I G V + GG A++ GD I ++ +
Sbjct: 50 ERLDKALAKLLPDYSRSRLQQWIDAGAV-------RVGGAAVRPRAAVCGGDRIEVVPQR 102
Query: 65 ITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLG 124
+ ++++V++ED+ LLV+NKP LVVH A T+++ L + + + L
Sbjct: 103 ADDENAFVAEPVDLDVVYEDDTLLVINKPAGLVVHPAAGNWSGTVLNGLLHRYPQAAGL- 161
Query: 125 LKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALL--STPLKEEKMS 182
R GIVHRLDK+TSG +V+A+ L QL+ + + R Y+AL+ TP E +
Sbjct: 162 --PRAGIVHRLDKETSGLMVVARTLPAQTDLVRQLQARTVKRTYLALVWGETP---EAGT 216
Query: 183 VECYLTRNPNNRLKMIALKAV--KKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQI 240
++ + R+P +R +M ++ K ++ + + + L +Q ++L+ +L TGRTHQI
Sbjct: 217 IDAPIGRDPRDRTRMAIIETASGKPARTHFKTLDVVDLGRAQ--VSLVQCQLETGRTHQI 274
Query: 241 RAHLEYLNRHIIGDNLYGLN----------GALPKEEIRIMLHAYLIEFKHPRSEQKLRF 290
R H E ++GD +Y N LP R LHA + HP S Q + +
Sbjct: 275 RVHFESEGHPLLGDPVYTRNFRRGRPQTIKAPLPAPFARQALHAVRLGLVHPASGQSVHW 334
Query: 291 KVPLLKDMLEYL 302
+ D+ E +
Sbjct: 335 HAGVPDDLAELM 346
>ref|NP_623370.1| (NC_003869) Pseudouridylate synthase, 23S RNA-specific
[Thermoanaerobacter tengcongensis]
gb|AAM24974.1| (AE013131) Pseudouridylate synthase, 23S RNA-specific
[Thermoanaerobacter tengcongensis]
Length = 268
Score = 116 bits (291), Expect = 3e-25
Identities = 87/268 (32%), Positives = 139/268 (51%), Gaps = 27/268 (10%)
Query: 41 QKKEVKKGGLALKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHK 100
+K+ VK+ LKEGD I L + L +E+DL I +ED+++L+++KP +VVH
Sbjct: 25 EKENVKR---VLKEGDVIELSLFDTSSDILPQEMDLSI--CYEDDEILIVDKPAGMVVHP 79
Query: 101 ALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLK 160
+E TL + + Y G+K V+RLDK TSG ++ AK F +L
Sbjct: 80 TRRYREGTLANGVA---YYFEKKGIKTLIRPVNRLDKGTSGIVIFAKEPFMQYYLQI--- 133
Query: 161 TKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLT 220
K M ++Y A+++ L+ E + P R + ++ E+ + + + SL
Sbjct: 134 VKPMSKFYYAIVNGKLEGEG------IIDVPIKRKSFMTIEREVSEEGDRAITYYKSLKA 187
Query: 221 SQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEI-RIMLHAYLIEF 279
++ +L+ K+ TGRTHQIR HL Y+ I+GD+LYG P I R LHAY + F
Sbjct: 188 TEE-FSLLKIKIATGRTHQIRVHLNYIGHPIVGDDLYG----EPTSYIERPALHAYRVTF 242
Query: 280 KHPRSEQKLRFKVPLLKDMLEYLKKVFD 307
HP E+ + PL +D +K++F+
Sbjct: 243 FHPLKEKVISVYAPLPED----IKRLFE 266
>ref|NP_231662.1| (NC_002505) ribosomal large subunit pseudouridine synthase C
[Vibrio cholerae]
sp|Q9KQH0|RLUC_VIBCH Ribosomal large subunit pseudouridine synthase C (Pseudouridylate
synthase) (Uracil hydrolyase)
pir||G82126 ribosomal large chain pseudouridine synthase C VC2028 [imported] -
Vibrio cholerae (group O1 strain N16961)
gb|AAF95176.1| (AE004277) ribosomal large subunit pseudouridine synthase C [Vibrio
cholerae]
Length = 315
Score = 116 bits (291), Expect = 3e-25
Identities = 99/310 (31%), Positives = 149/310 (47%), Gaps = 33/310 (10%)
Query: 12 KRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGD-----EITLLTPKI 65
+R+D FL +L+ I K+ V ++++G V KK VK L+ GD +T+ +
Sbjct: 20 QRIDNFLRNQLKNIPKSVVYRILRKGEVRVNKKRVK-AEYKLEAGDVVRVPPVTVEVKEN 78
Query: 66 TPKP----LKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYE-L 120
P P L K +LE +++ED+ LL+LNKP VH L F E L
Sbjct: 79 EPAPPSTKLSKVAELEHCIVYEDDHLLILNKPSGTAVHGGSG---------LHFGAIEAL 129
Query: 121 SNLGLKERY-GIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEE 179
L + R+ +VHR+D+DTSG +++AK HL Q + K + +YY AL+ E
Sbjct: 130 RALRPQARFLELVHRIDRDTSGILLVAKKRSALRHLQAQFREKTVQKYYYALVMGHWDAE 189
Query: 180 KMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQ 239
V L +N N + + + S++ F +L L+ A TGRTHQ
Sbjct: 190 CKVVNAPLLKNEVNSIVRV------NPNGKPSETRF-RILEKFAEATLVQASPVTGRTHQ 242
Query: 240 IRAHLEYLNRHIIGDNLYG---LNGALPKEEI-RIMLHAYLIEFKHPRSEQKLRFKVPLL 295
IR H +Y+ I D+ YG + + I R+ LHA I+F HP SE+KL PL
Sbjct: 243 IRVHTQYMGHPIAWDDRYGDRRFDAYTAQFGIERLFLHAANIQFVHPASEKKLEIHAPLE 302
Query: 296 KDMLEYLKKV 305
+ + L K+
Sbjct: 303 AHLEQALTKM 312
>ref|NP_607212.1| (NC_003485) conserved hypothetical protein [Streptococcus pyogenes
MGAS8232]
gb|AAL97711.1| (AE010035) conserved hypothetical protein [Streptococcus pyogenes
MGAS8232]
Length = 301
Score = 115 bits (289), Expect = 5e-25
Identities = 84/297 (28%), Positives = 144/297 (48%), Gaps = 24/297 (8%)
Query: 3 KVFIALTDHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLT 62
KV L H LAK N ++N I++ ++ L+ GD +T+
Sbjct: 12 KVKTLLKSHDVSKGLLAKIKYKGGNILVNGIEQNAIYL-----------LQVGDVVTIDI 60
Query: 63 PKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSN 122
P P + + +++++ ED+ LV+NKP + ++ T+ +++ K Y + N
Sbjct: 61 PNEEPFEKLEAIPFDLDIVHEDDHFLVINKPIGFASIPS-AIHSNTIANFI--KAYYVDN 117
Query: 123 LGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLST--PLKEEK 180
L ++ IV RLD+DTSG ++ AK+ + H L +QL+T+ + + Y AL+S L +E
Sbjct: 118 HYLDQQVHIVTRLDRDTSGLMLFAKHGYAHARLDKQLQTRSIEKRYFALVSGNGTLPDEG 177
Query: 181 MSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQI 240
+ P R K + +Y+K+ + + N++L+ KL TGRTHQI
Sbjct: 178 DIIA------PIGRSKDSIITRAVDPMGKYAKTSYKVVARYSENVHLVDIKLHTGRTHQI 231
Query: 241 RAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKD 297
R H ++ ++GD+LYG G L R LH + + FK P +E + + L D
Sbjct: 232 RVHFAHIGFPLLGDDLYG--GRLDLGITRQALHCHYLNFKDPFTESDCSYAIHLTDD 286
>ref|NP_438574.1| (NC_000907) conserved hypothetical protein [Haemophilus influenzae
Rd]
sp|P44433|RLUC_HAEIN Ribosomal large subunit pseudouridine synthase C (Pseudouridylate
synthase) (Uracil hydrolyase)
pir||G64151 hypothetical protein HI0412 - Haemophilus influenzae (strain Rd
KW20)
gb|AAC22071.1| (U32724) conserved hypothetical protein [Haemophilus influenzae Rd]
Length = 322
Score = 115 bits (288), Expect = 7e-25
Identities = 92/306 (30%), Positives = 157/306 (51%), Gaps = 24/306 (7%)
Query: 12 KRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPK-- 68
+R+D +L +L+ + K+ + ++++G V K +K L+ GD + + ++ K
Sbjct: 25 QRIDNYLLAKLKGVPKSLIYRIVRKGEVRVNKGRIKPE-YKLQTGDVVRIPPVRVAEKND 83
Query: 69 -PLKKELD----LEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNL 123
P+ K L+ LE +++FED+ L++LNKP + VH + +++ L E L
Sbjct: 84 APISKNLNKVAALENQILFEDDCLIILNKPSGIAVHGGSGLNFG-VIEALRALRPEARFL 142
Query: 124 GLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSV 183
L VHRLD+DTSG ++IAK +L EQL+ K + + Y+AL+ + +
Sbjct: 143 EL------VHRLDRDTSGILLIAKKRSALRNLHEQLRVKTVQKDYLALVRGQWQSHIKVI 196
Query: 184 ECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAH 243
+ L +N + + I + E+ + S++ F S+ N L+ A TGRTHQIR H
Sbjct: 197 QASLLKNELSSGERIVRVS---EQGKPSETRF-SIEERYINATLVKASPVTGRTHQIRVH 252
Query: 244 LEYLNRHIIGDNLYG-LNGALPKEEI---RIMLHAYLIEFKHPRSEQKLRFKVPLLKDML 299
+Y I D+ YG + E+ R+ LHA+ I F+HP++ + LRF L M
Sbjct: 253 TQYAGHPIALDDKYGDKDFDKQMNELGLNRLFLHAFSIRFEHPKNGETLRFNASLDHQMK 312
Query: 300 EYLKKV 305
L+K+
Sbjct: 313 AILQKL 318
>ref|NP_345571.1| (NC_003028) ribosomal large subunit pseudouridine synthase, RluD
subfamily [Streptococcus pneumoniae TIGR4]
ref|NP_358600.1| (NC_003098) 23S rRNA pseudouridine synthase [Streptococcus
pneumoniae R6]
gb|AAK75211.1| (AE007411) ribosomal large subunit pseudouridine synthase, RluD
subfamily [Streptococcus pneumoniae TIGR4]
gb|AAK99810.1| (AE008473) 23S rRNA pseudouridine synthase [Streptococcus
pneumoniae R6]
Length = 298
Score = 114 bits (285), Expect = 2e-24
Identities = 84/298 (28%), Positives = 149/298 (49%), Gaps = 14/298 (4%)
Query: 1 MQKVFIALTDHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITL 60
M+ FIA +H ++ FL K ++SK + + G + + L GD +T+
Sbjct: 1 MRFEFIA-DEHVKVKTFLKKH-EVSKGLLAKIKFRGGAILVNNQPQNATYLLDVGDYVTI 58
Query: 61 LTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYEL 120
P + ++L +++++ED+ LVLNKP + +++ T+ +++ K Y +
Sbjct: 59 DIPAEKGFETLEAIELPLDILYEDDHFLVLNKPYGVASIPSVNHSN-TIANFI--KGYYV 115
Query: 121 SNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLK-EE 179
++ IV RLD+DTSG ++ AK+ + H L +QL+ K + + Y AL+ E
Sbjct: 116 KQNYENQQVHIVTRLDRDTSGLMLFAKHGYAHARLDKQLQKKSIEKRYFALVKGDGHLEP 175
Query: 180 KMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQ 239
+ + + R+ ++ + K K + Y ++ S N++L+ L TGRTHQ
Sbjct: 176 EGEIIAPIARDEDSIITRRVAKGGKYAHTSYK------IVASYGNIHLVYIHLHTGRTHQ 229
Query: 240 IRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKD 297
IR H ++ ++GD+LYG G+L R LH + + F HP EQ L+ + PL D
Sbjct: 230 IRVHFSHIGFPLLGDDLYG--GSLEDGIQRQALHCHYLSFYHPFLEQDLQLESPLPDD 285
>ref|NP_269281.1| (NC_002737) conserved hypothetical protein [Streptococcus pyogenes]
[Streptococcus pyogenes M1 GAS]
gb|AAK34002.1| (AE006555) conserved hypothetical protein [Streptococcus pyogenes
M1 GAS]
Length = 301
Score = 114 bits (284), Expect = 2e-24
Identities = 74/248 (29%), Positives = 128/248 (50%), Gaps = 13/248 (5%)
Query: 52 LKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVD 111
L+ GD +T+ P P + + +++++ ED+ LV+NKP + ++ T+ +
Sbjct: 50 LQVGDVVTIDIPNEEPFEKLEAIPFDLDIVHEDDHFLVINKPIGFASIPS-AIHSNTIAN 108
Query: 112 WLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIAL 171
++ K Y + N L ++ IV RLD+DTSG ++ AK+ + H L +QL+T+ + + Y AL
Sbjct: 109 FI--KAYYVDNHYLDQQVHIVTRLDRDTSGLMLFAKHGYAHARLDKQLQTRSIEKRYFAL 166
Query: 172 LSTP--LKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIG 229
+S L +E + P R K + +Y+K+ + + N++L+
Sbjct: 167 VSGNGMLPDEGDIIA------PIGRSKDSIITRAVDPMGKYAKTSYKVVARYSENVHLVD 220
Query: 230 AKLFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLR 289
KL TGRTHQIR H ++ ++GD+LYG G L R LH + + FK P +E
Sbjct: 221 IKLHTGRTHQIRVHFAHIGFPLLGDDLYG--GRLDLGITRQALHCHYLNFKDPFTESDCS 278
Query: 290 FKVPLLKD 297
+ + L D
Sbjct: 279 YAIHLTDD 286
>ref|NP_655191.1| (NC_003995) PseudoU_synth_2, RNA pseudouridylate synthase [Bacillus
anthracis A2012] [Bacillus anthracis str. A2012]
Length = 307
Score = 114 bits (284), Expect = 2e-24
Identities = 75/265 (28%), Positives = 137/265 (51%), Gaps = 14/265 (5%)
Query: 44 EVKKGGLALKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALS 103
E ++ LKEGD++ + ++ E E++V++ED+ +L++NKP + H A
Sbjct: 52 EQRRWNELLKEGDKLQVHMFMEEEYDVEPEYG-ELDVVYEDDHVLIVNKPEKMDTHPAEK 110
Query: 104 VKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKM 163
TL + + F +Y++ L K R+ +HRLDKDT+GG+V AK+ + L +
Sbjct: 111 GGMGTLANLVAF-HYQMKGLETKVRH--IHRLDKDTTGGVVFAKHRIAGAIMDRLLMERK 167
Query: 164 MGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQN 223
+ R Y AL+ +K+++ +++ + R+ ++ + + + Y E+ +
Sbjct: 168 IKRTYAALVEGKVKKKQGTIDAAIGRDRHHATRRRVSPKGDQAITYYKVEEYF----KKQ 223
Query: 224 NLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPR 283
N+ + +L TGRTHQIR H+ Y ++GD LY G K R LHA I F HP
Sbjct: 224 NVTFVTLQLETGRTHQIRVHMSYNGNPLVGDVLY---GGQTKYMSRQALHAMKINFLHPI 280
Query: 284 SEQKLRFKVPL---LKDMLEYLKKV 305
+++++ +P L D ++ ++V
Sbjct: 281 TKEEIEVDIPFPTKLNDTMKEFQRV 305
>ref|NP_224915.1| (NC_000922) predicted Pseudouridine Synthase [Chlamydophila
pneumoniae CWL029]
ref|NP_300775.1| (NC_002491) pseudouridine synthase [Chlamydophila pneumoniae J138]
ref|NP_444579.1| (NC_002179) ribosomal large subunit pseudouridine synthase D
[Chlamydophila pneumoniae AR39]
pir||G72043 ribosomal large chain pseudouridine synthase D CP0027 [imported] -
Chlamydophila pneumoniae (strains CWL029 and AR39)
gb|AAD18858.1| (AE001653) predicted Pseudouridine Synthase [Chlamydophila
pneumoniae CWL029]
gb|AAF37922.1| (AE002166) ribosomal large subunit pseudouridine synthase D
[Chlamydophila pneumoniae AR39]
dbj|BAA98926.1| (AP002547) pseudouridine synthase [Chlamydophila pneumoniae J138]
Length = 325
Score = 113 bits (283), Expect = 3e-24
Identities = 89/288 (30%), Positives = 139/288 (47%), Gaps = 49/288 (17%)
Query: 52 LKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVD 111
++E +E+ L P+ P ++ ++ED +LV+NKP ++VVH A TLV
Sbjct: 66 IQEKEELLELLPEAIP----------LDKVYEDGMILVINKPRDMVVHPAPGHFHGTLVH 115
Query: 112 WLEFKNYELSNLG--LKERY-------GIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTK 162
L L +G LKE + GIVHRLDKDTSG I+ AK SE TK
Sbjct: 116 AL------LHEIGERLKEEFPEEPWRPGIVHRLDKDTSGLIITAKTRQAKKVFSELFSTK 169
Query: 163 MMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQ 222
+ + Y+A+ K ++ +++R+ N R +M K+ + +L
Sbjct: 170 RLKKSYLAVCIG--KPRSTTIHTHISRHQNKRKEMTVSSQGKEAVTH------CQVLAFN 221
Query: 223 NNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGL-----NGALPKEEIRIMLHAYLI 277
L+ + TGRTHQ+R H+++L I+GD +YG+ + L K++ LHAY +
Sbjct: 222 GKLSFVALSPETGRTHQLRVHMKHLGTPILGDPVYGIPSMNSSYGLDKQQ----LHAYSV 277
Query: 278 EFKHPRSEQKLRFKVPLLKDMLEYLKKVF-------DKENLDEVLDEE 318
+F HP + Q K L +DM L K F +K L+ +L E+
Sbjct: 278 DFTHPETRQFCSLKAGLPEDMRSLLIKEFRNETTILNKNLLESILKEQ 325
>ref|NP_220177.1| (NC_000117) (Pseudouridine Synthase) [Chlamydia trachomatis]
pir||D71487 probable (pseudouridine synthase) - Chlamydia trachomatis
(serotype D, strain UW3/Cx)
gb|AAC68253.1| (AE001336) (Pseudouridine Synthase) [Chlamydia trachomatis]
Length = 334
Score = 112 bits (281), Expect = 4e-24
Identities = 81/265 (30%), Positives = 133/265 (49%), Gaps = 18/265 (6%)
Query: 50 LALKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTL 109
L+L + E+ L+ + P L E D+ ++ ++ED+ +LV+NKP ++VVH A + T+
Sbjct: 62 LSLGDVVEVELIEEE-EPSSLIPE-DIPLDKVYEDDMMLVINKPRDMVVHPAPGHTQGTV 119
Query: 110 VDWLEFKNYELSNLGLKE---RYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGR 166
V L + E E R GIVHRLDKDTSG ++ K SE TK + +
Sbjct: 120 VHALLHEIGERLKQEFPEEPWRPGIVHRLDKDTSGLLITVKTRRAKALYSELFATKQVKK 179
Query: 167 YYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLN 226
Y+A+ +E+ + + R+P R +M L + +L + L+
Sbjct: 180 LYVAICINAPSQER--IHTRIARHPLKRKEMTVLST--HAEGGKEAITHCQVLATNGRLS 235
Query: 227 LIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGLNG-----ALPKEEIRIMLHAYLIEFKH 281
++ TGRTHQ+R H+++L I+GD +YG+ L K++ LHAY + F H
Sbjct: 236 VVALYPETGRTHQLRVHMKHLGTPILGDPVYGIPSINFRYGLDKQQ----LHAYSLVFAH 291
Query: 282 PRSEQKLRFKVPLLKDMLEYLKKVF 306
P S ++++ L DM ++K F
Sbjct: 292 PESAERVKLVTKLPDDMTSLIEKEF 316
>dbj|BAB13516.1| (AB037369) pseudouridine synthase homolog [Sinorhizobium meliloti]
Length = 264
Score = 112 bits (279), Expect = 8e-24
Identities = 89/260 (34%), Positives = 132/260 (50%), Gaps = 31/260 (11%)
Query: 69 PLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWL-EFKNYELSNLGLKE 127
P K + ++V++ED DL+VL KP LVVH TLV+ L LS +G +
Sbjct: 2 PEPKGEAIPLDVLYEDADLIVLVKPAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGGVK 61
Query: 128 RYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQL----KTKMMGRYYIALLSTPLKEEKMSV 183
R GIVHRLDKDTSG +V+AKN+ H HLS+Q + + R Y A++ ++ K +
Sbjct: 62 RPGIVHRLDKDTSGVMVVAKNDAAHRHLSDQFADHGRNGPLERAYRAVVWGRPRQLKGKI 121
Query: 184 ECYLTRNPNNRLKMIALKAVKKEKS--------RYSKSEFISLLTSQNNL-NLIGAKLFT 234
+ L R +R K +AVK+E S Y E +L + + L T
Sbjct: 122 DAPLGR-AGDRTK----RAVKREDSDDAREAITHYEVVERYHEKPDGTSLASTVECHLET 176
Query: 235 GRTHQIRAHLEYLNRHIIGDNLYGL-----NGALPKEE-------IRIMLHAYLIEFKHP 282
GRTHQIR H+ ++ +IGD YG LP+ R LHA++++F+HP
Sbjct: 177 GRTHQIRVHMAHIGHPLIGDPDYGAAFRTKANLLPEPARAAVNRFPRQALHAFMLQFEHP 236
Query: 283 RSEQKLRFKVPLLKDMLEYL 302
+ + + F+ P+ DM E +
Sbjct: 237 ATGETMHFETPVPADMQELI 256
>ref|NP_417085.1| (NC_000913) suppressor of ftsH mutation [Escherichia coli K12]
sp|P33643|RLUD_ECOLI Ribosomal large subunit pseudouridine synthase D (Pseudouridylate
synthase) (Uracil hydrolyase)
pir||E65037 ftsH suppressor protein SfhB - Escherichia coli (strain K-12)
gb|AAA92957.1| (U50134) SfhB [Escherichia coli]
gb|AAC75643.1| (AE000346) suppressor of ftsH mutation [Escherichia coli K12]
Length = 326
Score = 110 bits (275), Expect = 2e-23
Identities = 87/317 (27%), Positives = 159/317 (49%), Gaps = 25/317 (7%)
Query: 12 KRLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
+RLD+ LA+ S++++ I + V K K + G+++ + +I +
Sbjct: 18 QRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAI-NAEIEEEAR 76
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG 130
+ D+ +++++EDED++++NKP +LVVH + T+++ L ++++ R G
Sbjct: 77 FEPQDIPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV---PRAG 133
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
IVHRLDKDT+G +V+AK L E L+ + + R Y A+ + +V+ ++R+
Sbjct: 134 IVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGG-TVDEPISRH 192
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
P R M K + Y E + T + +L TGRTHQIR H+ ++
Sbjct: 193 PTKRTHMAVHPMGKPAVTHYRIMEHFRVHTR------LRLRLETGRTHQIRVHMAHITHP 246
Query: 251 IIGDNLYGLNGALPK-----------EEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDML 299
++GD +YG PK + R LHA ++ HP S ++ + P+ +DM+
Sbjct: 247 LVGDPVYGGRPRPPKGASEAFISTLRKFDRQALHATMLRLYHPISGIEMEWHAPIPQDMV 306
Query: 300 EYLK--KVFDKENLDEV 314
E ++ + +E+ DEV
Sbjct: 307 ELIEVMRADFEEHKDEV 323
>ref|NP_311484.1| (NC_002695) suppressor of ftsH mutation [Escherichia coli O157:H7]
dbj|BAB36880.1| (AP002562) suppressor of ftsH mutation [Escherichia coli O157:H7]
Length = 326
Score = 110 bits (275), Expect = 2e-23
Identities = 88/317 (27%), Positives = 159/317 (49%), Gaps = 25/317 (7%)
Query: 12 KRLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
+RLD+ LA+ S++++ I + V K K + G+++ + +I +
Sbjct: 18 QRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKLCDKPKEKVLGGEQVAI-NAEIEEEAR 76
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG 130
+ D+ +++++EDED++V+NKP +LVVH + T+++ L ++++ R G
Sbjct: 77 FEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV---PRAG 133
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
IVHRLDKDT+G +V+AK L E L+ + + R Y A+ + +V+ ++R+
Sbjct: 134 IVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGG-TVDEPISRH 192
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
P R M K + Y E + T + +L TGRTHQIR H+ ++
Sbjct: 193 PTKRTHMAVHPMGKPAVTHYRIMEHFRVHTR------LRLRLETGRTHQIRVHMAHITHP 246
Query: 251 IIGDNLYGLNGALPK-----------EEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDML 299
++GD +YG PK + R LHA ++ HP S ++ + P+ +DM+
Sbjct: 247 LVGDPVYGGRPRPPKGASEAFISTLRKFDRQALHATMLRLYHPISGIEMEWHAPIPQDMV 306
Query: 300 EYLK--KVFDKENLDEV 314
E ++ + +E+ DEV
Sbjct: 307 ELIEVMRADFEEHKDEV 323
>ref|NP_388802.1| (NC_000964) similar to hypothetical proteins [Bacillus subtilis]
sp|P54604|YHCT_BACSU Hypothetical protein yhcT
pir||H69823 conserved hypothetical protein yhcT - Bacillus subtilis
emb|CAA65704.1| (X96983) hypothetical protein [Bacillus subtilis]
emb|CAB12749.1| (Z99108) similar to hypothetical proteins [Bacillus subtilis]
Length = 302
Score = 109 bits (273), Expect = 4e-23
Identities = 72/257 (28%), Positives = 130/257 (50%), Gaps = 11/257 (4%)
Query: 50 LALKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTL 109
+ +K+GD + + + + E E++++FED +L++NKP + H + TL
Sbjct: 56 MIVKKGDRVFIDLQESEASSVIPEYG-ELDILFEDNHMLIINKPAGIATHPNEDGQTGTL 114
Query: 110 VDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYI 169
+ + + +Y+++ K R+ VHRLD+DTSG IV AK+ H L +QL+ K + R Y
Sbjct: 115 ANLIAY-HYQINGETCKVRH--VHRLDQDTSGAIVFAKHRLAHAILDQQLEKKTLKRTYT 171
Query: 170 ALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIG 229
A+ L+ +K ++ + R+ ++ + + + + + ++ L+L+
Sbjct: 172 AIAEGKLRTKKGTINPPIGRDRSHPTRRRVSPGGQTAVTHFK----VMASNAKERLSLVE 227
Query: 230 AKLFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLR 289
+L TGRTHQIR HL L + GD+LYG L R LHA ++ HP +++ +
Sbjct: 228 LELETGRTHQIRVHLASLGHPLTGDSLYGGGSKLLN---RQALHANKVQAVHPITDELIV 284
Query: 290 FKVPLLKDMLEYLKKVF 306
+ P DM + F
Sbjct: 285 AEAPFPADMKNLCRTYF 301
>ref|NP_289149.1| (NC_002655) suppressor of ftsH mutation [Escherichia coli O157:H7
EDL933]
gb|AAG57707.1|AE005490_2 (AE005490) suppressor of ftsH mutation [Escherichia coli O157:H7
EDL933]
Length = 326
Score = 109 bits (273), Expect = 4e-23
Identities = 88/317 (27%), Positives = 158/317 (49%), Gaps = 25/317 (7%)
Query: 12 KRLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
+RLD+ LA+ S++++ I + V K K + G+++ + +I +
Sbjct: 18 QRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKLCDKPKEKVLGGEQVAI-NAEIEEEAR 76
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG 130
+ D+ +++++EDED++V+NKP +LVVH + T ++ L ++++ R G
Sbjct: 77 FEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTXLNALLHYYPPIADV---PRAG 133
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
IVHRLDKDT+G +V+AK L E L+ + + R Y A+ + +V+ ++R+
Sbjct: 134 IVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGG-TVDEPISRH 192
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
P R M K + Y E + T + +L TGRTHQIR H+ ++
Sbjct: 193 PTKRTHMAVHPMGKPAVTHYRIMEHFRVHTR------LRLRLETGRTHQIRVHMAHITHP 246
Query: 251 IIGDNLYGLNGALPK-----------EEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDML 299
++GD +YG PK + R LHA ++ HP S ++ + P+ +DM+
Sbjct: 247 LVGDPVYGGRPRPPKGASEAFISTLRKFDRQALHATMLRLYHPISGIEMEWHAPIPQDMV 306
Query: 300 EYLK--KVFDKENLDEV 314
E ++ + +E+ DEV
Sbjct: 307 ELIEVMRADFEEHKDEV 323
>ref|NP_245929.1| (NC_002663) RluC [Pasteurella multocida]
sp|Q9CM51|RLUC_PASMU Ribosomal large subunit pseudouridine synthase C (Pseudouridylate
synthase) (Uracil hydrolyase)
gb|AAK03076.1| (AE006138) RluC [Pasteurella multocida]
Length = 326
Score = 108 bits (271), Expect = 6e-23
Identities = 92/305 (30%), Positives = 152/305 (49%), Gaps = 28/305 (9%)
Query: 12 KRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKP- 69
+R+D +L +L+ + K+ + ++++G V K +K L+ D + + +++ K
Sbjct: 26 QRIDNYLLAKLKGVPKSLIYRILRKGEVRVNKGRIKPE-YKLQANDIVRVPPVRVSEKEH 84
Query: 70 ------LKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYE-LSN 122
L K LE +++FEDE LLVLNKP + VH L F E L
Sbjct: 85 APISTKLNKVSQLEKQILFEDECLLVLNKPSGIAVHGGSG---------LSFGVIEALRT 135
Query: 123 LGLKERY-GIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKM 181
L R+ +VHRLD+DTSG +++AK L EQL+ K + + Y+AL+ +
Sbjct: 136 LRPDARFLELVHRLDRDTSGILLVAKKRSALRSLHEQLREKTVQKDYLALVRGQWQSHCK 195
Query: 182 SVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIR 241
V+ L +N + + I + E+ + S++ F S+ L+ A TGRTHQIR
Sbjct: 196 VVKAPLLKNELSSGERIVRVS---EQGKPSETRF-SIEERYEYATLVKASPVTGRTHQIR 251
Query: 242 AHLEYLNRHIIGDNLYG---LNGALPKEEI-RIMLHAYLIEFKHPRSEQKLRFKVPLLKD 297
H +Y I D+ YG + + + + R+ LHA+ I F+HP++ + LR PL +
Sbjct: 252 VHTQYAGHPIALDDKYGDKHFDEQMTQLGLTRLFLHAFSIRFEHPKTGETLRINAPLDPE 311
Query: 298 MLEYL 302
M + L
Sbjct: 312 MKKIL 316
>ref|NP_240167.1| (NC_002528) ribosomal large subunit pseudouridine synthase C
[Buchnera sp. APS]
sp|P57430|RLUC_BUCAI Ribosomal large subunit pseudouridine synthase C (Pseudouridylate
synthase) (Uracil hydrolyase)
dbj|BAB13053.1| (AP001119) ribosomal large subunit pseudouridine synthase C
[Buchnera sp. APS]
Length = 314
Score = 108 bits (270), Expect = 8e-23
Identities = 91/309 (29%), Positives = 150/309 (48%), Gaps = 28/309 (9%)
Query: 11 HKRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKI---- 65
++R+D F+ + + + K+ + +I+ G + KK +K LK GD + + KI
Sbjct: 19 NQRIDNFMRSKFKSVPKSMIYRIIRTGKIRINKKRIKPH-YKLKIGDILKIPPIKILCDI 77
Query: 66 --TPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNL 123
T PL +L +++ED LL++NKP + VH + + + + +
Sbjct: 78 KNTFFPLNHSTNLLNRILYEDSHLLIINKPSGIAVHGGSGLNFGVIEYFRKLRP------ 131
Query: 124 GLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLS--TPLKEEKM 181
L + +VHR+D+DTSG +++AK + V L EQL+ K + + YIAL+ P +K+
Sbjct: 132 -LNKFLELVHRIDRDTSGVLILAKKRTSLVSLHEQLREKKIKKEYIALVHGLWPDHIKKI 190
Query: 182 SVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIR 241
S E L N+ KM+ + KK K + + +S L++I TGRTHQIR
Sbjct: 191 S-EPLLKIQFKNKQKMVLID--KKGKPSETYFQIKKKFSSSTLLSIIPK---TGRTHQIR 244
Query: 242 AHLEYLNRHIIGDNLYGLN----GALPKEEI-RIMLHAYLIEFKHPRSEQKLRFKVPLLK 296
H + I D YG N +I R++LH+ + F HP++ K+ K PL
Sbjct: 245 VHALHAGHPIFFDKRYGKNDLDADIKNNHKINRLLLHSSGVHFIHPKNGNKIYIKAPLDI 304
Query: 297 DMLEYLKKV 305
D YL +
Sbjct: 305 DFQNYLNTI 313
>ref|NP_389044.1| (NC_000964) similar to hypothetical proteins [Bacillus subtilis]
sp|O31613|YJBO_BACSU Hypothetical protein yjbO
pir||G69844 conserved hypothetical protein yjbO - Bacillus subtilis
emb|CAB13019.1| (Z99110) similar to hypothetical proteins [Bacillus subtilis]
Length = 283
Score = 108 bits (270), Expect = 8e-23
Identities = 69/252 (27%), Positives = 134/252 (52%), Gaps = 12/252 (4%)
Query: 52 LKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVD 111
LKEGD + + P+ + +++++EDE +LV+NK P + + ++ +
Sbjct: 40 LKEGDLLIVKFPEEQVSETLLAEPVPLDILYEDEHVLVINKQPYVSSIPSREHPSGSIAN 99
Query: 112 WLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIAL 171
+ +Y+ + G++ +V RLD+DTSG +++AK+ F H LS K ++ R Y A+
Sbjct: 100 GI-IDHYQTT--GVRATVHLVTRLDRDTSGIMLVAKHRFAHSILSSAQKNGLVKRRYAAV 156
Query: 172 LSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAK 231
+ + + + +V+ + R+P++ ++ +K + + + + +++ + +
Sbjct: 157 VHGRMAQMEGTVDAPIGRHPDSIIERTVTPDGQKAVTHF------YVTCANDDMTSVALQ 210
Query: 232 LFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFK 291
L TGRTHQIR H+ YL + GD LY G +E R LH+ + F HP +++ +RF
Sbjct: 211 LETGRTHQIRVHMSYLGHPLCGDTLY---GGTRQEIGRQALHSEHLSFIHPLTQENMRFH 267
Query: 292 VPLLKDMLEYLK 303
PL +DM + +K
Sbjct: 268 APLPQDMSKLIK 279
>ref|NP_415604.1| (NC_000913) orf, hypothetical protein [Escherichia coli K12]
sp|P23851|RLUC_ECOLI Ribosomal large subunit pseudouridine synthase C (Pseudouridylate
synthase) (Uracil hydrolyase)
pir||C64852 probable pseudouridylate synthase yceC - Escherichia coli
gb|AAC74170.1| (AE000209) orf, hypothetical protein [Escherichia coli K12]
dbj|BAA35894.1| (D90744) Hypothetical 36.0 kd protein in rne-rpmF intergenic region
(orfx). [Escherichia coli]
Length = 319
Score = 108 bits (270), Expect = 8e-23
Identities = 88/311 (28%), Positives = 152/311 (48%), Gaps = 32/311 (10%)
Query: 12 KRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKP- 69
+R+D FL +L+ + K+ + ++++G V KK +K L+ GDE+ + ++ +
Sbjct: 20 QRIDNFLRTQLKGVPKSMIYRILRKGEVRVNKKRIKPE-YKLEAGDEVRIPPVRVAEREE 78
Query: 70 ------LKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNL 123
L+K L +++ED+ +LVLNKP VH + +++ L E L
Sbjct: 79 EAVSPHLQKVAALADVILYEDDHILVLNKPSGTAVHGGSGLSFG-VIEGLRALRPEARFL 137
Query: 124 GLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSV 183
L VHRLD+DTSG +++AK L EQL+ K M + Y+AL+ + SV
Sbjct: 138 EL------VHRLDRDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRGQWQSHVKSV 191
Query: 184 ECYLTRN---PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQI 240
+ L +N R+ ++ + K ++R+ E + T L+ TGRTHQI
Sbjct: 192 QAPLLKNILQSGERIVRVSQEG-KPSETRFKVEERYAFAT------LVRCSPVTGRTHQI 244
Query: 241 RAHLEYLNRHIIGDNLYG---LNGALPKEEI---RIMLHAYLIEFKHPRSEQKLRFKVPL 294
R H +Y I D+ YG + L + R+ LHA ++F HP + + +R + P+
Sbjct: 245 RVHTQYAGHPIAFDDRYGDREFDRQLTEAGTGLNRLFLHAAALKFTHPGTGEVMRIEAPM 304
Query: 295 LKDMLEYLKKV 305
+ + L+K+
Sbjct: 305 DEGLKRCLQKL 315
>ref|NP_246658.1| (NC_002663) SfB [Pasteurella multocida]
sp|Q9CKA6|RLUD_PASMU Ribosomal large subunit pseudouridine synthase D (Pseudouridylate
synthase) (Uracil hydrolyase)
gb|AAK03803.1| (AE006208) SfB [Pasteurella multocida]
Length = 324
Score = 108 bits (269), Expect = 1e-22
Identities = 85/304 (27%), Positives = 147/304 (47%), Gaps = 23/304 (7%)
Query: 12 KRLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
+RLD+ LA+ S++++ I++ LV V + G++I ++
Sbjct: 17 QRLDQALAELFPDYSRSRLKTWIEQNLVHVNGDVVNVPRAKVYGGEQIEIVVEIDDDTRF 76
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG 130
+ E +L + +++ED+D+LV+NKP + VVH T+++ L + ++ + R G
Sbjct: 77 EPE-NLPLNIVYEDDDILVINKPKDFVVHPGAGNASGTVLNALLYHYPAIAEV---PRAG 132
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
IVHRLDKDT+G +VIAK L L+ + + R Y A+ + + M V+ + R+
Sbjct: 133 IVHRLDKDTTGLMVIAKTIPAQTKLVRDLQKRKITREYEAIACGIMTKGGM-VDQPMARH 191
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
P R M K + Y ++ N + +L TGRTHQIR H+ ++
Sbjct: 192 PTKRTHMAVHPMGKPAVTHY------RIMERFRNYTRLRLRLETGRTHQIRVHMAHIAHP 245
Query: 251 IIGDNLYGLNGALPK---EEI--------RIMLHAYLIEFKHPRSEQKLRFKVPLLKDML 299
++GD YG PK EE+ R LHA ++ HP + + + + PL D +
Sbjct: 246 LLGDQTYGGRPRPPKNASEELMQTLRDFKRQALHAIMLRLAHPITGELMEWHAPLPTDFV 305
Query: 300 EYLK 303
E ++
Sbjct: 306 ELVE 309
>ref|NP_240218.1| (NC_002528) ribosomal large subunit pseudouridine synthase D
[Buchnera sp. APS]
sp|P57481|RLUD_BUCAI Ribosomal large subunit pseudouridine synthase D (Pseudouridylate
synthase) (Uracil hydrolyase)
dbj|BAB13104.1| (AP001119) ribosomal large subunit pseudouridine synthase D
[Buchnera sp. APS]
Length = 312
Score = 108 bits (269), Expect = 1e-22
Identities = 94/312 (30%), Positives = 147/312 (46%), Gaps = 35/312 (11%)
Query: 12 KRLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
+RLD L+K + S++ + LI V + V + + G+ +T+ P
Sbjct: 18 QRLDLVLSKLFREYSRSYLKKLIIMNQVLVNESIVNQPDKKILGGETLTI-------HPF 70
Query: 71 KKELDLEI------EVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLG 124
K+L ++I ++++ED D+L++NKP LVVH K T+++ L Y N
Sbjct: 71 SKDLLVDIPENIFLDIVYEDSDILIINKPAGLVVHPGSGNKSGTILNALL---YHYKNSK 127
Query: 125 LKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVE 184
R GIVHRLDKDTSG +VIAKN F++ HL LK K + R Y ++ + ++
Sbjct: 128 DLPRAGIVHRLDKDTSGLMVIAKNIFSYNHLLLLLKEKKIIREYEGIVHGKMIAGG-TIN 186
Query: 185 CYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHL 244
+ R+ N R M+ K + Y T I +L TGRTHQIR H+
Sbjct: 187 KPIMRHYNRRTCMMVHHLGKPSVTHYKVLSRFKFHTH------IAIRLETGRTHQIRVHM 240
Query: 245 EYLNRHIIGDNLYG-----LNGALPKEEIRI------MLHAYLIEFKHPRSEQKLRFKVP 293
++ ++GD Y N K+ +I LHA + HP + + + VP
Sbjct: 241 LHIKYPLVGDPCYSGFKIQSNYRKDKKTNKIYKFPRQALHANHLSLHHPIKKNVMSWTVP 300
Query: 294 LLKDMLEYLKKV 305
L +D+ E L K+
Sbjct: 301 LPQDIQELLLKI 312
>ref|NP_287220.1| (NC_002655) orf, hypothetical protein [Escherichia coli O157:H7
EDL933]
ref|NP_309491.1| (NC_002695) hypothetical protein [Escherichia coli O157:H7]
gb|AAG55832.1|AE005319_1 (AE005319) orf, hypothetical protein [Escherichia coli O157:H7
EDL933]
dbj|BAB34887.1| (AP002555) hypothetical protein [Escherichia coli O157:H7]
Length = 319
Score = 107 bits (268), Expect = 1e-22
Identities = 88/311 (28%), Positives = 151/311 (48%), Gaps = 32/311 (10%)
Query: 12 KRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKP- 69
+R+D FL +L+ + K+ + ++++G V KK +K L+ GDE+ + ++ +
Sbjct: 20 QRIDNFLRTQLKGVPKSMIYRILRKGEVRVNKKRIKPE-YKLEAGDEVRIPPVRVAEREE 78
Query: 70 ------LKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNL 123
L+K L +++ED+ +LVLNKP VH + +++ L E L
Sbjct: 79 EAVSPHLQKVAALADVILYEDDHILVLNKPSGTAVHGGSGLSFG-VIEGLRALRPEARFL 137
Query: 124 GLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSV 183
L VHRLD+DTSG +++AK L EQL+ K M + Y+AL+ + SV
Sbjct: 138 EL------VHRLDRDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRGQWQSHVKSV 191
Query: 184 ECYLTRN---PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQI 240
+ L +N R+ ++ + K ++R+ E + T L+ TGRTHQI
Sbjct: 192 QAPLLKNILQSGERIVRVSQEG-KPSETRFKVEERYAFAT------LVRCSPVTGRTHQI 244
Query: 241 RAHLEYLNRHIIGDNLYG---LNGALPKEEI---RIMLHAYLIEFKHPRSEQKLRFKVPL 294
R H +Y I D+ YG + L + R+ LHA ++F HP + + +R + P+
Sbjct: 245 RVHTQYAGHPIAFDDRYGDREFDRQLTEAGTGLNRLFLHAAALKFTHPGTGEVMRIEAPM 304
Query: 295 LKDMLEYLKKV 305
+ L+K+
Sbjct: 305 DDGLKRCLQKL 315
>gb|AAL79727.1|AC091774_18 (AC091774) putative ribosomal large subunit pseudouridine synthase
[Oryza sativa]
Length = 275
Score = 107 bits (268), Expect = 1e-22
Identities = 67/204 (32%), Positives = 113/204 (54%), Gaps = 5/204 (2%)
Query: 13 RLDEFLAKELQ---ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKP 69
R+D +++ L +S+ ++ I+ GLV + V K +K GD ++ ++ P
Sbjct: 73 RIDAWISARLGGGGVSRARIQASIRAGLVVVNGRPVSKVSHMVKGGDIVSCTVLELQPLR 132
Query: 70 LKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERY 129
+ E D+ +++++ED+ LLV+NKP ++VVH A TLV+ + + ++S R
Sbjct: 133 AEPE-DIPLDIVYEDDHLLVVNKPAHMVVHPAPGNANGTLVNAI-LHHCKISTFTSLVRP 190
Query: 130 GIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTR 189
GIVHRLDK TSG +V+AK+ +H L+EQ K + R YI+L +E + R
Sbjct: 191 GIVHRLDKGTSGLLVVAKDEHSHAQLAEQFKLHTIRRVYISLTCGAPNPNSGRIEVPIAR 250
Query: 190 NPNNRLKMIALKAVKKEKSRYSKS 213
+PNNR++MIA +R++ S
Sbjct: 251 DPNNRIRMIATPGSGHRYARHAAS 274
>ref|NP_218779.1| (NC_000919) conserved hypothetical protein [Treponema pallidum]
pir||A71338 conserved hypothetical protein TP0339 - syphilis spirochete
gb|AAC65324.1| (AE001213) conserved hypothetical protein [Treponema pallidum]
Length = 331
Score = 107 bits (268), Expect = 1e-22
Identities = 85/299 (28%), Positives = 133/299 (44%), Gaps = 26/299 (8%)
Query: 13 RLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKK 72
R D F A+ + L I L C K L D ++ + P L
Sbjct: 28 RCDVFCAEHVFFCARSQLKRIVRAL--CVNGHTAKFSRPLHVRDRVSFEWVRSVPPALIP 85
Query: 73 ELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNY-------ELSNLGL 125
E ++ + ++FE+ED++ +NK ++VH TLV L F E S
Sbjct: 86 E-NISLSILFENEDIIAVNKAQGMIVHPGAGHWTGTLVQALSFYRVYRARFEDEFSRQFQ 144
Query: 126 KE--------RYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLK 177
K R GIVHRLDKDTSG ++ ++N H L K + + + Y+ALL
Sbjct: 145 KGFPDFFSTLRQGIVHRLDKDTSGVLLTSRNMHAHEALVRSFKKRQVRKVYLALLQGVPA 204
Query: 178 EEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRT 237
+E + R+ R + +A + K K Y+++ + ++ + L TGRT
Sbjct: 205 RGVGVIETTIVRDRRRRTRFVASEDFSKGK--YARTRY-KVMKICGACAFVQFLLDTGRT 261
Query: 238 HQIRAHLEYLNRHIIGDNLYGLNG--ALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPL 294
HQIR H YL ++GD LYG +P +MLHAY + F PR+++++ P+
Sbjct: 262 HQIRVHARYLGCPVVGDPLYGSRNICGIP---TTLMLHAYAVRFVLPRTKKRITLVAPI 317
>ref|NP_455681.1| (NC_003198) ribosomal large subunit pseudouridine synthase C (EC
4.2.1.70) [Salmonella enterica subsp. enterica serovar
Typhi]
emb|CAD08312.1| (AL627269) ribosomal large subunit pseudouridine synthase C (EC
4.2.1.70) [Salmonella enterica subsp. enterica serovar
Typhi]
Length = 319
Score = 107 bits (267), Expect = 2e-22
Identities = 90/312 (28%), Positives = 151/312 (47%), Gaps = 35/312 (11%)
Query: 12 KRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKP- 69
+R+D FL +L+ + K+ + ++++G V KK +K L+ GDE+ + ++ +
Sbjct: 20 QRIDNFLRTQLKGVPKSMIYRILRKGEVRVNKKRIKPE-YKLESGDEVRIPPVRVAEREE 78
Query: 70 ------LKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNL 123
L+K L +++ED+ +LVLNKP VH + +++ L E L
Sbjct: 79 EAVSPHLQKVAALADVILYEDDHILVLNKPSGTAVHGGSGLSFG-VIEGLRALRPEARFL 137
Query: 124 GLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSV 183
L VHRLD+DTSG +++AK L EQL+ K M + Y+AL+ + +V
Sbjct: 138 EL------VHRLDRDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRGQWQSHVKTV 191
Query: 184 ECYLTRN---PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQI 240
+ L +N R+ ++ + K ++R+ E + T L+ TGRTHQI
Sbjct: 192 QAPLLKNILQSGERIVRVSQEG-KPSETRFKVEERYAFAT------LVRCSPVTGRTHQI 244
Query: 241 RAHLEYLNRHIIGDNLYG---LNGALPKEEI---RIMLHAYLIEFKHPRSEQKLRFKVPL 294
R H +Y I D+ YG + L + R+ LHA ++F HP + +R + P+
Sbjct: 245 RVHTQYAGHPIAFDDRYGDREFDQQLTEAGTGLKRLFLHAAALKFTHPGTGDVMRIEAPM 304
Query: 295 ---LKDMLEYLK 303
LK LE L+
Sbjct: 305 DKQLKRCLEVLR 316
>ref|NP_660679.1| (NC_004061) ribosomal large subunit pseudouridine synthase
[Buchnera aphidicola str. Sg (Schizaphis graminum)]
gb|AAM67890.1| (AE014110) ribosomal large subunit pseudouridine synthase [Buchnera
aphidicola str. Sg (Schizaphis graminum)]
Length = 314
Score = 107 bits (266), Expect = 2e-22
Identities = 88/298 (29%), Positives = 145/298 (48%), Gaps = 28/298 (9%)
Query: 11 HKRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKP 69
++R+D FL K+L+ + ++ + +I+ G + KK +K LK GD++ + KI +
Sbjct: 19 NQRIDNFLQKKLKNVPRSMIYRIIRTGKIRINKKRIKPD-YKLKIGDKLRIPPIKILCEK 77
Query: 70 LKKELDLEIE------VIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNL 123
L E + +++ED LL++NKP + VH + L Y
Sbjct: 78 KSSLLTTEYKKNLLNNILYEDNYLLIINKPSGIAVHGGSGIN-------LGVIEYFRKIR 130
Query: 124 GLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLS--TPLKEEKM 181
L++ +VHR+D+DTSG +++AK + + L +Q++ K + + YIAL+ PL K+
Sbjct: 131 PLEKFLELVHRIDRDTSGVLMLAKKRRSLLSLHKQIREKKVQKKYIALVHGLWPLSLRKV 190
Query: 182 SVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIR 241
S E L + N+ + I + K Y K + L T+ L+ TGRTHQIR
Sbjct: 191 S-EPLLKTHLKNKQRKILINKEGKPAETYFKIKKQYLFTT-----LVSITPKTGRTHQIR 244
Query: 242 AHLEYLNRHIIGDNLYGLN----GALPKEEI-RIMLHAYLIEFKHPRSEQKLRFKVPL 294
H + I+ D YG K +I R++LHA I F HP + +K+ PL
Sbjct: 245 VHTLHAGHPILFDKRYGKRDLDCNIKNKTKINRLLLHATSINFIHPETGKKMHIVAPL 302
>ref|NP_216056.1| (NC_000962) hypothetical protein Rv1540 [Mycobacterium tuberculosis
H37Rv]
ref|NP_336044.1| (NC_002755) pseudouridine synthase, RluD-related protein
[Mycobacterium tuberculosis CDC1551]
sp|Q10786|Y04P_MYCTU Hypothetical protein Rv1540
pir||A70761 hypothetical protein Rv1540 - Mycobacterium tuberculosis (strain
H37RV)
emb|CAA98322.1| (Z74020) hypothetical protein Rv1540 [Mycobacterium tuberculosis
H37Rv]
gb|AAK45858.1| (AE007025) pseudouridine synthase, RluD-related protein
[Mycobacterium tuberculosis CDC1551]
Length = 308
Score = 106 bits (265), Expect = 3e-22
Identities = 83/296 (28%), Positives = 139/296 (46%), Gaps = 14/296 (4%)
Query: 13 RLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKK 72
R+D LA+ L +S+ L +EG V K L G + + P+ P PL+
Sbjct: 16 RVDTGLARLLGLSRTAAAALAEEGAVELNGVPAGKSD-RLVSGALLQVRLPE-APAPLQN 73
Query: 73 E-LDLE-IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG 130
+D+E + +++ D+D++ ++KP + H ++ PT++ L Y ++ G+ ER G
Sbjct: 74 TPIDIEGMTILYSDDDIVAVDKPAAVAAHASVGWTGPTVLGGLAAAGYRITTSGVHERQG 133
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
IVHRLD TSG +V+A + + L K + + + Y AL+ +++ + R+
Sbjct: 134 IVHRLDVGTSGVMVVAISERAYTVLKRAFKYRTVDKRYHALVQGHPDPSSGTIDAPIGRH 193
Query: 191 PNNRLKMIALKAVKKEKSRYSKSE-FISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNR 249
+ K K + + Y E F++ +L+ L TGRTHQIR H L+
Sbjct: 194 RGHEWKFAITKNGRHSLTHYDTLEAFVA-------ASLLDVHLETGRTHQIRVHFAALHH 246
Query: 250 HIIGDNLYGLNGALPKE--EIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLK 303
GD +YG + L K R LHA + F HP +++ P D+ LK
Sbjct: 247 PCCGDLVYGADPKLAKRLGLDRQWLHARSLAFAHPADGRRVEIVSPYPADLQHALK 302
>ref|NP_460157.1| (NC_003197) 23S rRNA pseudouridylate synthase [Salmonella
typhimurium LT2]
gb|AAL20116.1| (AE008751) 23S rRNA pseudouridylate synthase [Salmonella
typhimurium LT2]
Length = 319
Score = 106 bits (265), Expect = 3e-22
Identities = 89/312 (28%), Positives = 152/312 (48%), Gaps = 35/312 (11%)
Query: 12 KRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKP- 69
+R+D FL +L+ + K+ + ++++G V KK +K L+ GDE+ + ++ +
Sbjct: 20 QRIDNFLRTQLKGVPKSMIYRILRKGEVRVNKKRIKPE-YKLEAGDEVRIPPVRVAEREE 78
Query: 70 ------LKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNL 123
L+K L +++ED+ +LVLNKP VH + +++ L E L
Sbjct: 79 EAVSPHLQKVAALADVILYEDDHILVLNKPSGTAVHGGSGLSFG-VIEGLRALRPEARFL 137
Query: 124 GLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSV 183
L VHRLD+DTSG +++AK L EQL+ K M + Y+AL+ + +V
Sbjct: 138 EL------VHRLDRDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRGQWQSHVKTV 191
Query: 184 ECYLTRN---PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQI 240
+ L +N R+ ++ + K ++R+ E + T L+ TGRTHQI
Sbjct: 192 QAPLLKNILQSGERIVRVSQEG-KPSETRFKVEERYAFAT------LVRCSPVTGRTHQI 244
Query: 241 RAHLEYLNRHIIGDNLYG---LNGALPKEEI---RIMLHAYLIEFKHPRSEQKLRFKVPL 294
R H +Y I D+ YG + L + R+ LHA ++F HP + + +R + P+
Sbjct: 245 RVHTQYAGHPIAFDDRYGDREFDQQLTEAGTGLKRLFLHAAALKFTHPGTGEVMRIEAPM 304
Query: 295 ---LKDMLEYLK 303
LK L+ L+
Sbjct: 305 DNALKRCLQVLR 316
>ref|NP_406747.1| (NC_003143) ribosomal large subunit pseudouridine synthase D
[Yersinia pestis]
emb|CAC92511.1| (AJ414156) ribosomal large subunit pseudouridine synthase D
[Yersinia pestis]
Length = 325
Score = 105 bits (263), Expect = 5e-22
Identities = 88/318 (27%), Positives = 149/318 (46%), Gaps = 24/318 (7%)
Query: 12 KRLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
+RLD+ LA+ S++++ I + V K++ K + G E+ + +I
Sbjct: 18 QRLDQALAELFPDYSRSRIKEWILDSRVTVNGKKINKPKEKVL-GGELVAIDAQIEEDAR 76
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG 130
++ +++++ED D+LV+NKP LVVH + T+++ L E+ ++ R G
Sbjct: 77 WAPQEIPLDIVYEDNDILVINKPRGLVVHPGAGNPDGTVLNALLHYYPEIMDV---PRAG 133
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
IVHRLDKDT+G +V+AK L E L+ + + R Y A+ + V+ ++R+
Sbjct: 134 IVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGNMTAGGR-VDEPISRH 192
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
R M K + Y E T + +L TGRTHQIR H+ ++N
Sbjct: 193 STKRTHMAVHPMGKPATTHYRIMEHFRAHTR------LRLRLETGRTHQIRVHMSHINHP 246
Query: 251 IIGDNLYGLNGALPKEEI-----------RIMLHAYLIEFKHPRSEQKLRFKVPLLKDML 299
++GD LYG PK R LHA ++ HP ++ + L +DM+
Sbjct: 247 LVGDQLYGGRPRPPKGASDSFIAILRGFDRQALHATMLRLYHPIRGIQMEWHAALPEDMV 306
Query: 300 EYLKKV-FDKENLDEVLD 316
E + + D E + +D
Sbjct: 307 ELINALKADTEEFKDQMD 324
>gb|AAF78056.1|AF263561_1 (AF263561) 23S rRNA pseudouridine synthase [secondary endosymbiont
of Glycaspis brimblecombei]
Length = 314
Score = 105 bits (262), Expect = 7e-22
Identities = 73/238 (30%), Positives = 125/238 (51%), Gaps = 25/238 (10%)
Query: 75 DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHR 134
++ + +++ED++++V+NKP +LVVH + T+++ L ++ E+ N+ R GIVHR
Sbjct: 70 NIPLNIVYEDDEIIVINKPRDLVVHPGAGNPDGTVLNALLYRYPEIINV---PRAGIVHR 126
Query: 135 LDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNR 194
LDKDT+G +VIAK HL E L+ + + R Y A+++ + +V+ + R+P R
Sbjct: 127 LDKDTTGLMVIAKTIPAQTHLVEALQLREITREYEAVVNGRMTAGG-TVDEPIARHPTKR 185
Query: 195 LKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGD 254
M K + Y E T + +L +GRTHQIR H+ ++N ++GD
Sbjct: 186 THMAIHPLGKPAITHYRVMEHFRAHTR------LRLRLESGRTHQIRVHMAHINHPLVGD 239
Query: 255 NLYG-----LNGALPKEEIRIM--------LHAYLIEFKHPRSEQKLRFKVPLLKDML 299
+YG L G EE R + LHA ++ HPR+ ++ + + DM+
Sbjct: 240 PVYGGRPRPLKGV--SEEFRQVMNNFDRQALHATMLRLYHPRTGIEMEWHADIPADMV 295
>ref|NP_273256.1| (NC_003112) ribosomal large subunit pseudouridine synthase C
[Neisseria meningitidis MC58]
pir||H81225 ribosomal large chain pseudouridine synthase C NMB0198 [imported] -
Neisseria meningitidis (group B strain MD58)
gb|AAF40655.1| (AE002377) ribosomal large subunit pseudouridine synthase C
[Neisseria meningitidis MC58]
Length = 330
Score = 105 bits (261), Expect = 9e-22
Identities = 96/317 (30%), Positives = 151/317 (47%), Gaps = 31/317 (9%)
Query: 6 IALTDHK---RLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLL 61
I + +H+ RLD +L K L+ + K+ + +I+ G V KK K + EGD + +
Sbjct: 14 IGVAEHEAGQRLDNYLIKILKGVPKSHIHRIIRAGEVRLNKKRCKPDS-RIAEGDTVRIP 72
Query: 62 TPKITPKPLKKELDLEI-----EVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFK 116
++ K + E + +V++ED+ LLV++KP + VH V +++ L
Sbjct: 73 PVRVAEKEMPSERRAAVPARAFDVVYEDDALLVIDKPSGVAVHGGSGVSFG-VIEQLRRA 131
Query: 117 NYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPL 176
E L L VHRLDKDTSG +++AK V L E ++ + Y+AL L
Sbjct: 132 RPEAKYLEL------VHRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKL 185
Query: 177 KEEKMSVECYLTRNPNNR-LKMIALKA-------VKKEKSRYSKSEFISLLTSQNNLNLI 228
++ V+ L + + KM+ + A V + SR+S + S +L L+
Sbjct: 186 PDDNFHVKLPLFKYTGAQGEKMVRVSADGQSAHTVFRVLSRFSDGILHGVGLS--HLTLV 243
Query: 229 GAKLFTGRTHQIRAHLEYLNRHIIGDNLYG---LNGALPKEEI-RIMLHAYLIEFKHPRS 284
A L TGRTHQIR HL+ I GD YG N L K + R+ LHA + HP +
Sbjct: 244 RATLKTGRTHQIRVHLQSQGCPIAGDERYGDYQANRRLQKLGLKRMFLHASELHLNHPLT 303
Query: 285 EQKLRFKVPLLKDMLEY 301
+ L K L D+ ++
Sbjct: 304 GEPLVLKAELPPDLAQF 320
>ref|NP_457133.1| (NC_003198) ftsH suppressor protein SfhB [Salmonella enterica
subsp. enterica serovar Typhi]
ref|NP_461593.1| (NC_003197) pseudouridine synthase (pseudouridines 1911, 1915, 1917
in 23S RNA) [Salmonella typhimurium LT2]
gb|AAL21552.1| (AE008821) pseudouridine synthase (pseudouridines 1911, 1915, 1917
in 23S RNA) [Salmonella typhimurium LT2]
emb|CAD05842.1| (AL627276) ftsH suppressor protein SfhB [Salmonella enterica subsp.
enterica serovar Typhi]
Length = 326
Score = 104 bits (260), Expect = 1e-21
Identities = 73/239 (30%), Positives = 123/239 (50%), Gaps = 21/239 (8%)
Query: 75 DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHR 134
D+ +++++ED+D+LV+NKP +LVVH + T+++ L ++++ R GIVHR
Sbjct: 81 DIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV---PRAGIVHR 137
Query: 135 LDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNR 194
LDKDT+G +V+AK L E L+ + + R Y A+ + +V ++R+P R
Sbjct: 138 LDKDTTGLMVVAKTVPAQTRLVESLQLREITREYEAVAIGHMTAGG-TVNEPISRHPTKR 196
Query: 195 LKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGD 254
M K + Y E + T + +L TGRTHQIR H+ ++ ++GD
Sbjct: 197 THMSVHPMGKPAVTHYRIMEHFRVHTR------LRLRLETGRTHQIRVHMAHITHPLVGD 250
Query: 255 NLYGLNGALPK---EEI--------RIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYL 302
+YG PK EE R LHA ++ HP S ++ + P+ +DM++ +
Sbjct: 251 QVYGGRPRPPKGASEEFISTLRKFDRQALHATMLRLYHPVSGIEMEWHAPIPQDMVDLI 309
>ref|NP_601339.1| (NC_003450) COG0564:Pseudouridylate synthases, 23S RNA-specific
[Corynebacterium glutamicum]
dbj|BAB99531.1| (AP005280) Pseudouridylate synthases, 23S RNA-specific
[Corynebacterium glutamicum ATCC 13032]
Length = 310
Score = 104 bits (260), Expect = 1e-21
Identities = 80/288 (27%), Positives = 127/288 (43%), Gaps = 8/288 (2%)
Query: 13 RLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKK 72
R+D L+K L IS+ L G V V K + + LL P K+
Sbjct: 19 RVDAALSKLLGISRTVAAELATAGDVSVDGAVVGKSERLVADSMLDVLLPEPAAPLMPKE 78
Query: 73 ELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIV 132
E+ +++++ D+D++ +NKP + H + + PT+V L + +S G ER GIV
Sbjct: 79 EIVPGLDILYSDDDVIAVNKPVGVAAHPTVGWEGPTVVGGLAAAGFRISTSGPPERKGIV 138
Query: 133 HRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPN 192
RLD TSG +V+A + + L + + + + Y AL+ ++E + R+P+
Sbjct: 139 QRLDVGTSGVMVVAASERGYTVLKRAFRDRTVDKTYHALVQGHPDPLTGTIEAPIGRHPS 198
Query: 193 NRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHII 252
+ K + Y E T L+ L TGRTHQIR H L+
Sbjct: 199 AGWRFAVTTEGKHAVTHYETLEAFQEAT------LLKIHLETGRTHQIRVHFSALHHPCC 252
Query: 253 GDNLYGLNGALPKE--EIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDM 298
GD +YG + AL + R LHA + F HP + + P D+
Sbjct: 253 GDPMYGSDPALSERLGLNRQWLHAVSLGFNHPADGRWMEIVSPYPTDL 300
>ref|NP_626332.1| (NC_003888) putative ribosomal large subunit pseudouridine synthase
[Streptomyces coelicolor A3(2)]
pir||T34943 probable ribosomal large subunit pseudouridine synthase -
Streptomyces coelicolor
emb|CAB51982.1| (AL109663) putative ribosomal large subunit pseudouridine synthase
[Streptomyces coelicolor A3(2)]
Length = 314
Score = 103 bits (257), Expect = 3e-21
Identities = 64/207 (30%), Positives = 100/207 (47%), Gaps = 8/207 (3%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDK 137
+E++ +DED++V+ KP + H + PT++ L Y +S G ER GIVHRLD
Sbjct: 85 MEIVHDDEDVVVVVKPVGVAAHPSPGWSGPTVIGGLAAAGYRVSTSGAAERQGIVHRLDV 144
Query: 138 DTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKM 197
TSG + +AK+ + L Q K + + + Y L+ +++ + R+P + K
Sbjct: 145 GTSGLMAVAKSERAYTSLKRQFKERTVDKRYHTLVQGHPDPTSGTIDAPIGRHPQHDYKW 204
Query: 198 IALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLY 257
K + Y L+ + +L+ KL TGRTHQIR H+ +GD Y
Sbjct: 205 AVTAEGKPSVTHY------DLIEAFRAASLLDVKLETGRTHQIRVHMAAHRHPCVGDLTY 258
Query: 258 GLNGALPK--EEIRIMLHAYLIEFKHP 282
G + L K R LHA + F+HP
Sbjct: 259 GADPTLAKRLRLTRQWLHAVRLGFEHP 285
>ref|NP_282921.1| (NC_003116) ribosomal large subunit pseudouridine synthase C
[Neisseria meningitidis Z2491]
pir||E81998 pseudouridylate synthase (EC 4.2.1.70) C rRNA-specific NMA0070
[imported] - Neisseria meningitidis (group A strain
Z2491)
emb|CAB83386.1| (AL162752) ribosomal large subunit pseudouridine synthase C
[Neisseria meningitidis Z2491]
Length = 330
Score = 103 bits (257), Expect = 3e-21
Identities = 94/318 (29%), Positives = 150/318 (46%), Gaps = 33/318 (10%)
Query: 6 IALTDHK---RLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLL 61
I + +H+ RLD +L K L+ + K+ + +I+ G V KK K + EGD + +
Sbjct: 14 IGVAEHEAGQRLDNYLIKILKGVPKSHIHRIIRAGEVRLNKKRCKPDS-RIAEGDTVRIP 72
Query: 62 TPKITPKPLKKELDLEI-----EVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFK 116
++ K + E + +V++ED+ LLV++KP + VH V +
Sbjct: 73 PVRVAEKEMPSERRAAVPARAFDVVYEDDALLVIDKPSGVAVHGGSGVSFGVIE------ 126
Query: 117 NYELSNLGLKERY-GIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTP 175
+L + RY +VHRLDKDTSG +++AK V L E ++ + Y+AL
Sbjct: 127 --QLRRARPEARYLELVHRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGK 184
Query: 176 LKEEKMSVECYLTRNPNNR-LKMIALK-------AVKKEKSRYSKSEFISLLTSQNNLNL 227
L ++ V+ L + + KM+ + V + SR+S + S +L L
Sbjct: 185 LPDDNFHVKLPLFKYTGAQGEKMVRVSEDGQSAHTVFRVLSRFSDGILHGVGLS--HLTL 242
Query: 228 IGAKLFTGRTHQIRAHLEYLNRHIIGDNLYG---LNGALPKEEI-RIMLHAYLIEFKHPR 283
+ A L TGRTHQIR HL+ I GD YG N L K + R+ LHA + HP
Sbjct: 243 VRATLKTGRTHQIRVHLQSQGCPIAGDERYGDYQANRRLQKLGLKRMFLHASELHLNHPL 302
Query: 284 SEQKLRFKVPLLKDMLEY 301
+ + L K L D+ ++
Sbjct: 303 TGEPLVLKAELPPDLAQF 320
>ref|NP_655109.1| (NC_003995) PseudoU_synth_2, RNA pseudouridylate synthase [Bacillus
anthracis A2012] [Bacillus anthracis str. A2012]
Length = 297
Score = 102 bits (255), Expect = 5e-21
Identities = 75/258 (29%), Positives = 130/258 (50%), Gaps = 22/258 (8%)
Query: 52 LKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVV-----HKALSVKE 106
L+ G+E+ + P D+ + +++ED+ +LV+NK N+ H + SV
Sbjct: 56 LQVGEELRIFFPVEERSEGMIAEDIPLCIVYEDDAVLVINKEANMSTIPSREHPSGSVAN 115
Query: 107 PTLVDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGR 166
L + K Y L IV RLD+DTSG ++IAKN F H LS+Q + K + R
Sbjct: 116 ALLSHY--DKQY------LPSTVHIVTRLDRDTSGLMLIAKNRFVHHLLSKQHQQKAVKR 167
Query: 167 YYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLN 226
Y A++ + E + +++ + R ++ ++ + ++ + + ++ S N+
Sbjct: 168 TYEAIVHGEMVEREGTIDAPIGRKSDSIIERTVCEEGQRAVTHFR------VIDSANHKT 221
Query: 227 LIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQ 286
+ +L TGRTHQIR HL ++ ++GDNLY G E R LH+ + F HP E+
Sbjct: 222 HVSLELDTGRTHQIRVHLAHIGHPLLGDNLY---GGKRDEMKRQALHSTSLTFYHPILEK 278
Query: 287 KLRFKVPLLKDMLEYLKK 304
++ F + DM E L++
Sbjct: 279 EMSFAAMIPSDMQEVLRQ 296
>ref|NP_301874.1| (NC_002677) putative pseudouridine synthase [Mycobacterium leprae]
emb|CAB39580.1| (AL049478) putative pseudouridine synthase [Mycobacterium leprae]
emb|CAC31581.1| (AL583921) putative pseudouridine synthase [Mycobacterium leprae]
Length = 308
Score = 102 bits (255), Expect = 5e-21
Identities = 80/286 (27%), Positives = 140/286 (47%), Gaps = 24/286 (8%)
Query: 13 RLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITL---LTPKI--TP 67
R+D LA+ L +S+ V L ++G V+ G+ + D +T L ++ P
Sbjct: 16 RVDAGLARLLGLSRTAVAALAEDG-------GVELDGVQAGKSDRLTSGAWLQVRLCEAP 68
Query: 68 KPLKKE-LDLE-IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGL 125
PL+ +D+E + +++ D+D++ ++KP + H ++ PT++ L Y ++ G+
Sbjct: 69 APLENTPVDIEDMTILYSDDDIVAVDKPAAVAAHASVGWAGPTVLGGLAAAGYRITTSGV 128
Query: 126 KERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVEC 185
ER GIVHRLD TSG +++A + + L K + + + Y AL+ +++
Sbjct: 129 PERQGIVHRLDVGTSGVMLVAISERAYTVLKRAFKCRTVDKRYHALVQGHPDPSSGTIDA 188
Query: 186 YLTRNPNNRLKMIALKAVKKEKSRYSKSE-FISLLTSQNNLNLIGAKLFTGRTHQIRAHL 244
+ R+ + K K + + Y E F++ +L+ L TGRTHQIRAH
Sbjct: 189 PIGRHRGHTWKFAVTKDGRHSITHYDTLEAFVA-------ASLLDVHLETGRTHQIRAHF 241
Query: 245 EYLNRHIIGDNLYGLNGALPKE--EIRIMLHAYLIEFKHPRSEQKL 288
L+R GD +YG + L K R LHA + F HP +++
Sbjct: 242 AELHRPCCGDLVYGADPKLAKRLGLERQWLHARSLSFAHPADGRRV 287
>ref|NP_346438.1| (NC_003028) ribosomal large subunit pseudouridine synthase, RluD
subfamily [Streptococcus pneumoniae TIGR4]
gb|AAK76078.1| (AE007490) ribosomal large subunit pseudouridine synthase, RluD
subfamily [Streptococcus pneumoniae TIGR4]
Length = 291
Score = 102 bits (253), Expect = 8e-21
Identities = 71/232 (30%), Positives = 118/232 (50%), Gaps = 26/232 (11%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDK 137
++ +++D+ L+++NKP + H +P + L N+ + +G + +VHRLD
Sbjct: 81 VQEVYQDQHLIIVNKPEGMKTHG----NQPNEIALL---NHVSTYVG--QTCYVVHRLDM 131
Query: 138 DTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKM 197
+TSG ++ AKN F L+ L+ K + R Y AL+ + +++ + R+ ++R K
Sbjct: 132 ETSGLVLFAKNPFILPILNRLLEKKEISREYWALVDGNINRKELVFRDKIGRDRHDRRKR 191
Query: 198 IALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLY 257
I V + +Y+++ L N +L KL TGRTHQIR HL + N I+GD LY
Sbjct: 192 I----VDAKNGQYAETHVSRLKQFSNKTSLAHCKLKTGRTHQIRVHLSHHNLPILGDPLY 247
Query: 258 GLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKKVFDKE 309
+ R+MLHA+ + F HP + +KL F L F+KE
Sbjct: 248 NSK----SKTSRLMLHAFRLSFTHPLTLEKLTFTT---------LSNTFEKE 286
>ref|NP_438344.1| (NC_000907) sfhB protein (sfhB) [Haemophilus influenzae Rd]
sp|P44445|RLUD_HAEIN Ribosomal large subunit pseudouridine synthase D (Pseudouridylate
synthase) (Uracil hydrolyase)
pir||F64144 hypothetical protein HI0176 - Haemophilus influenzae (strain Rd
KW20)
gb|AAC21845.1| (U32702) sfhB protein (sfhB) [Haemophilus influenzae Rd]
Length = 324
Score = 101 bits (251), Expect = 1e-20
Identities = 80/303 (26%), Positives = 143/303 (46%), Gaps = 23/303 (7%)
Query: 12 KRLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
+RLD+ LA+ + S++++ I+ LV + + G+ I ++
Sbjct: 17 QRLDQTLAELFPEYSRSRLKTWIEADLVKLNDRITNIPREKVLGGERIEIIVEVEDETRF 76
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG 130
+ E ++ + +++ED+D++V+NKP +LVVH T+++ L + + + R G
Sbjct: 77 EAE-NIPLNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIVEV---PRAG 132
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
IVHRLDKDT+G +V+AK L L+ + + R Y A+ S + + +V+ + R+
Sbjct: 133 IVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREYEAVASG-IMTKGGTVDQPMARH 191
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
R M K + Y ++ + N + +L TGRTHQIR H+ ++
Sbjct: 192 ATKRTLMAVHPMGKPAVTHYR------IMENYRNYTRLRLRLETGRTHQIRVHMAHIAHP 245
Query: 251 IIGDNLYGLNGALPKEEI-----------RIMLHAYLIEFKHPRSEQKLRFKVPLLKDML 299
++GD YG PK R LHA ++ HP + + + + PL D +
Sbjct: 246 LLGDQTYGGRPRPPKNASEDFMEVLRNFKRQALHAVMLRLAHPITGEMMEWYAPLPDDFV 305
Query: 300 EYL 302
E L
Sbjct: 306 ELL 308
>ref|NP_268269.1| (NC_002662) pseudouridine synthase [Lactococcus lactis subsp.
lactis]
gb|AAK06210.1|AE006439_7 (AE006439) pseudouridine synthase [Lactococcus lactis subsp.
lactis]
Length = 288
Score = 101 bits (251), Expect = 1e-20
Identities = 75/230 (32%), Positives = 116/230 (49%), Gaps = 22/230 (9%)
Query: 55 GDEITLL--TPKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDW 112
GD+ITL+ + LK ++++EDE L+V+NKP + H D
Sbjct: 56 GDKITLIFDNEDFSNLSLKFGSANLADILYEDEHLIVVNKPEGMKTHG-------NTADE 108
Query: 113 LEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALL 172
L +N+ + + + +VHRLD+ TSG ++ AKN F L + + + R Y+AL+
Sbjct: 109 LALQNHVAA--AINQEVFVVHRLDQATSGAVLFAKNQFVLPILGKMFEENKIHREYLALV 166
Query: 173 STPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKL 232
E + +++ + +N +++ K I + K +K+ + E I T + L+ L
Sbjct: 167 KGHFSENQFTIDRAIGQNRHDKNKRIL--SAKGQKA-VTHVEIIKKFTDKT---LVKCTL 220
Query: 233 FTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHP 282
TGRTHQIR HL LN IIGD LYG K + R+MLHA I HP
Sbjct: 221 DTGRTHQIRVHLSSLNHPIIGDALYG-----QKSQERMMLHAGKIIIPHP 265
>ref|NP_359416.1| (NC_003098) Ribosomal large subunit pseudouridine synthase D
[Streptococcus pneumoniae R6]
gb|AAL00627.1| (AE008547) Ribosomal large subunit pseudouridine synthase D
[Streptococcus pneumoniae R6]
Length = 291
Score = 100 bits (248), Expect = 3e-20
Identities = 70/232 (30%), Positives = 118/232 (50%), Gaps = 26/232 (11%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDK 137
++ +++D+ L+++NKP + H +P + L N+ + +G + +VHRLD
Sbjct: 81 VQEVYQDQHLIIVNKPEGMKTHG----NQPNEIALL---NHVSTYVG--QTCYVVHRLDM 131
Query: 138 DTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKM 197
+TSG ++ AKN F L+ L+ K + R Y AL+ + +++ + R+ ++R K
Sbjct: 132 ETSGLVLFAKNPFILPILNRLLEKKEISREYWALVDGNINRKELVFRDKIGRDRHDRRKR 191
Query: 198 IALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLY 257
I V + +Y+++ L N +L KL TGRTHQIR HL + N I+GD LY
Sbjct: 192 I----VDAKNGKYAETHVSRLKQFSNKTSLAHCKLKTGRTHQIRVHLLHHNLPILGDPLY 247
Query: 258 GLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKKVFDKE 309
+ R+MLHA+ + F HP + ++L F L F+KE
Sbjct: 248 NSK----SKTSRLMLHAFRLSFTHPLTLERLTFTT---------LSNTFEKE 286
>ref|NP_405172.1| (NC_003143) ribosomal large subunit pseudouridine synthase C
[Yersinia pestis]
emb|CAC90413.1| (AJ414149) ribosomal large subunit pseudouridine synthase C
[Yersinia pestis]
Length = 320
Score = 98.6 bits (244), Expect = 9e-20
Identities = 84/298 (28%), Positives = 141/298 (47%), Gaps = 30/298 (10%)
Query: 12 KRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKP- 69
+R+D FL +L+ + K+ + ++++G V K +K L +GD + + ++ +
Sbjct: 20 QRIDNFLLAKLKGVPKSMIYRIVRKGEVRVNKGRIKPE-YKLADGDVVRVPPVRVAEREE 78
Query: 70 ------LKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNL 123
L K L ++FED+ LLVLNKP VH + +++ L E L
Sbjct: 79 VQVSAKLDKVAALADCILFEDDYLLVLNKPSGTAVHGGSGLSFG-VIEGLRALRPEARFL 137
Query: 124 GLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSV 183
L VHRLD+DTSG +++AK L EQL+ K M + Y+AL+ + ++
Sbjct: 138 EL------VHRLDRDTSGVLLVAKKRSALRSLHEQLRLKSMQKDYLALVRGQWQSHCKAI 191
Query: 184 ECYLTRN---PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQI 240
+ L +N R+ ++ + K ++R+ E T L+ A TGRTHQI
Sbjct: 192 QAPLLKNIMQSGERVVKVSSEG-KPSETRFKIEERFEHAT------LVKASPVTGRTHQI 244
Query: 241 RAHLEYLNRHIIGDNLYGLNGALPKEE----IRIMLHAYLIEFKHPRSEQKLRFKVPL 294
R H + I D+ YG + + R+ LHA + F+HP + + +R + PL
Sbjct: 245 RVHALHAGHPIAFDDRYGYREFDQQLQGTGLHRLFLHAAALRFEHPNTGETMRIEAPL 302
>ref|NP_281244.1| (NC_002163) putative ribosomal pseudouridine synthase
[Campylobacter jejuni]
pir||A81418 pseudouridylate synthase (EC 4.2.1.70) rRNA-specific Cj0022c
[imported] - Campylobacter jejuni (strain NCTC 11168)
emb|CAB72515.1| (AL139074) putative ribosomal pseudouridine synthase [Campylobacter
jejuni]
Length = 300
Score = 98.6 bits (244), Expect = 9e-20
Identities = 86/304 (28%), Positives = 146/304 (47%), Gaps = 50/304 (16%)
Query: 12 KRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEIT-----LLTPKIT 66
K+ + L + L+IS N+ LI + +FC G+ ++E ++I L+ +
Sbjct: 13 KKAFQVLMENLKISINEAQKLIDKKRLFCD-------GILVEEKNKILNGLVELIVYENN 65
Query: 67 PKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLK 126
PK +E++FE+ED +L K ++ H + +L D E+ +L K
Sbjct: 66 PKG--------VEIVFENEDFAILEKESGILSHPNGRHCKYSLSD-------EIWHLWGK 110
Query: 127 ERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECY 186
E + HRLDK+TSG I+IAKN + L + K++ + Y+AL ++E + +
Sbjct: 111 EAC-VAHRLDKETSGLILIAKNKKAQIDLKSLFEKKLVQKEYLALAHGKIEENFIVDKAI 169
Query: 187 -LTRNPNN-RLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHL 244
LT+N ++ + +M K K+ + + E+ + N L+ K TGR HQIR HL
Sbjct: 170 NLTKNYDDVKTRMQICKEGKQAITEFEILEYFPKI----NATLLLCKPLTGRQHQIRVHL 225
Query: 245 EYLNRHIIGDNLYGLNGAL----------PKEE------IRIMLHAYLIEFKHPRSEQKL 288
Y N I+GD LYGL+ PKE +R+ LH+Y ++F++ +
Sbjct: 226 HYKNHTILGDPLYGLSKQQIESILDEKLNPKERLKLTGALRLCLHSYRLKFQYKNQNFDI 285
Query: 289 RFKV 292
K+
Sbjct: 286 NSKI 289
>dbj|BAA16479.1| (D90887) similar to [SwissProt Accession Number P33643]~start codon
is not identified yet [Escherichia coli]
Length = 352
Score = 97.8 bits (242), Expect = 1e-19
Identities = 72/255 (28%), Positives = 130/255 (50%), Gaps = 12/255 (4%)
Query: 12 KRLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
+RLD+ LA+ S++++ I + V K K + G+++ + +I +
Sbjct: 62 QRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAI-NAEIEEEAR 120
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG 130
+ D+ +++++EDED++++NKP +LVVH + T+++ L ++++ R G
Sbjct: 121 FEPQDIPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV---PRAG 177
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
IVHRLDKDT+G +V+AK L E L+ + + R Y A+ + +V+ ++R+
Sbjct: 178 IVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGG-TVDEPISRH 236
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
P R M K + Y E + T + +L TGRTHQIR H+ ++
Sbjct: 237 PTKRTHMAVHPMGKPAVTHYRIMEHFRVHTR------LRLRLETGRTHQIRVHMAHITHP 290
Query: 251 IIGDNLYGLNGALPK 265
++GD +YG PK
Sbjct: 291 LVGDPVYGGRPRPPK 305
>ref|NP_243713.1| (NC_002570) BH2847~unknown conserved protein [Bacillus halodurans]
dbj|BAB06566.1| (AP001516) BH2847~unknown conserved protein [Bacillus halodurans]
Length = 302
Score = 97.1 bits (240), Expect = 2e-19
Identities = 80/299 (26%), Positives = 143/299 (47%), Gaps = 17/299 (5%)
Query: 10 DHKRLDEFLAKELQISKNQVLNL-IKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPK 68
D + L FL + +SK + + K G + +EV + D++TL P P
Sbjct: 16 DGELLRTFLREGKHVSKRSLAAIKFKGGTILLNGEEVTVRE-TVHVNDQVTLELPHEYPS 74
Query: 69 PLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKER 128
P + +VI+E++ LV+NKP + + + TL + L NY +
Sbjct: 75 PSMIAEPVPFDVIYENDHYLVVNKPAGVPTIPSRDHPQGTLANGL--LNY-FQRQKMAAT 131
Query: 129 YGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLT 188
+ V+RLDKDTSG +++AK+ H LS+Q + + R Y+A++ +++++ ++ +
Sbjct: 132 FHAVNRLDKDTSGLLIVAKHQLAHDQLSKQQRQGNIKRTYMAIVQGEIEQQEGTITAPIA 191
Query: 189 RNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLN 248
R + + +E + + + F ++ N ++ +L TGRTHQIR H YL
Sbjct: 192 RKEES-----LITREVREDGQLAITHF-KVIDRLNQGTIVQVQLETGRTHQIRVHFSYLG 245
Query: 249 RHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFK---VPLLKDMLEYLKK 304
+ GD+LY G K R LH+ + P +E + F P +K+++ +LKK
Sbjct: 246 YPLFGDDLY---GGERKGIERQALHSTELTIHCPFTEVEQTFTEGLPPDMKELIRHLKK 301
>ref|NP_603923.1| (NC_003454) tRNA pseudouridine synthase A [Fusobacterium nucleatum
subsp. nucleatum ATCC 25586]
gb|AAL95222.1| (AE010610) tRNA pseudouridine synthase A [Fusobacterium nucleatum
subsp. nucleatum ATCC 25586]
Length = 289
Score = 97.1 bits (240), Expect = 2e-19
Identities = 79/292 (27%), Positives = 150/292 (51%), Gaps = 32/292 (10%)
Query: 13 RLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTP-------- 63
R+D FL K L+ I+ +++ ++++G + K++ + L GD + + P
Sbjct: 14 RVDRFLRKHLKNINLSEIYKMLRKGKIKVNNKKISQD-YRLVLGDVVFIFLPENFKENNE 72
Query: 64 -KITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSN 122
K +++ L+ ++FE+E+L V+NK VVHK S + +L++ EF++Y +N
Sbjct: 73 EKFIELSQERKEKLKEMIVFENENLFVINKLLGDVVHKG-SGHDISLLE--EFRSYYSNN 129
Query: 123 LGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMS 182
V+R+DK TSG I+ AKN T ++++++ + + Y L++ ++++
Sbjct: 130 -----NINFVNRIDKLTSGLIIGAKNIKTAREVAKEIQADNIIKRYYILVNGKIEKDNFI 184
Query: 183 VECYLTRNPNNRLKMIALKAVKKEKSRYSKS-EFISLLTSQNNLNLIGAKLFTGRTHQIR 241
+E YL ++ K+I EK Y KS + + N L+ A+L TGRTHQ+R
Sbjct: 185 LENYLKKDEE---KVIVSDI---EKEGYKKSITYFKKIKEHNKYTLLEAELKTGRTHQLR 238
Query: 242 AHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVP 293
A L ++ +I+GD YG K+E M++ + K +++ ++P
Sbjct: 239 AQLNHIGNNIVGDTKYG------KDEREDMMYLFSYYLKIDLYNLEIKLEIP 284
>ref|NP_471677.1| (NC_003212) similar to putative ribosomal large subunit
pseudouridine synthase [Listeria innocua]
emb|CAC97573.1| (AL596172) similar to putative ribosomal large subunit
pseudouridine synthase [Listeria innocua]
Length = 289
Score = 96.7 bits (239), Expect = 3e-19
Identities = 69/230 (30%), Positives = 109/230 (47%), Gaps = 33/230 (14%)
Query: 75 DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHR 134
+ ++E+I+ED+ LLV+NKP + H S + T + ++ Y L G + VHR
Sbjct: 75 EYDLEIIYEDDFLLVVNKPVGMKTHANDSYETDTCANAVQ---YYLEKTGQEANALAVHR 131
Query: 135 LDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIA-----------LLSTPLKEEKMSV 183
LD+ TSG ++ AKN LS Q++ + + R Y+A ++ P+ E++
Sbjct: 132 LDQTTSGLVLFAKNKLAIAGLSWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDR--- 188
Query: 184 ECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAH 243
++ AV K + +E NN +L+ ++ TGRTHQIR H
Sbjct: 189 ----HHGSRRQISPYGQPAVTHVKVLENDNE--------NNTSLVECQIETGRTHQIRVH 236
Query: 244 LEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVP 293
L + IIGD LYG + RIMLHA + HP +++ F P
Sbjct: 237 LSGIGHPIIGDTLYGGS----SRANRIMLHAEKLHLNHPFKGKEMNFSAP 282
>pir||B23747 ORFX protein, 5' of ams - Escherichia coli (fragment)
gb|AAA23442.1| (M62747) orfX [Escherichia coli]
Length = 285
Score = 96.3 bits (238), Expect = 4e-19
Identities = 76/258 (29%), Positives = 126/258 (48%), Gaps = 26/258 (10%)
Query: 12 KRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKP- 69
+R+D FL +L+ + K+ + ++++G V KK +K L+ GDE+ + ++ +
Sbjct: 20 QRIDNFLRTQLKGVPKSMIYRILRKGEVRVNKKRIKPE-YKLEAGDEVRIPPVRVAEREE 78
Query: 70 ------LKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNL 123
L+K L +++ED+ +LVLNKP VH + +++ L E L
Sbjct: 79 EAVSPHLQKVAALADVILYEDDHILVLNKPSGTAVHGGSGLSFG-VIEGLRALRPEARFL 137
Query: 124 GLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSV 183
L VHRLD+DTSG +++AK L EQL+ K M + Y+AL+ + SV
Sbjct: 138 EL------VHRLDRDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRGQWQSHVKSV 191
Query: 184 ECYLTRN---PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQI 240
+ L +N R+ ++ + K ++R+ E + T L+ TGRTHQI
Sbjct: 192 QAPLLKNILQSGERIVRVSQEG-KPSETRFKVEERYAFAT------LVRCSPVTGRTHQI 244
Query: 241 RAHLEYLNRHIIGDNLYG 258
R H +Y I D+ YG
Sbjct: 245 RVHTQYAGHPIAFDDRYG 262
>ref|NP_347651.1| (NC_003030) Pseudouridylate synthase [Clostridium acetobutylicum]
gb|AAK78991.1|AE007617_3 (AE007617) Pseudouridylate synthase [Clostridium acetobutylicum]
Length = 318
Score = 95.9 bits (237), Expect = 6e-19
Identities = 82/313 (26%), Positives = 152/313 (48%), Gaps = 22/313 (7%)
Query: 12 KRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPL 70
+R+D+F+ K L+ + + + ++G V + KK +L+EGD + + + K
Sbjct: 12 QRVDKFIRKWLKDVPLSAIYKAFRKGDVIINGAKCKKEKYSLEEGDVLEIKYIRSDAKKK 71
Query: 71 K-KELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERY 129
K ++ +V +EDE++L++ K P ++VH PTL D++ Y+ + +
Sbjct: 72 KFTRIENNFKVTYEDENMLLVEKWPGVLVHSDKEKTSPTLTDYVLSYLYDKGDYAPENEV 131
Query: 130 GIV----HRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVEC 185
+RLD++TSG ++ KN L+E ++ + + +YY AL+ +K+ E
Sbjct: 132 TFTPSPCNRLDRNTSGIVIYGKNFEALKCLNEMIRERRIKKYYYALVKGKIKDG--IYEA 189
Query: 186 YLTRN-PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHL 244
Y+ ++ +N+ ++I A ++ S I + + + I +L TGR+HQ+RAHL
Sbjct: 190 YIKKDVSSNKSEIINTPAPGAKQI----SMEIKCVETCGTFSFIEIELLTGRSHQLRAHL 245
Query: 245 EYLNRHIIGDNLYGLNGALPKEEIRI-----MLHAYLIEFKHPRSEQKLRFKVPLLKDML 299
+L I+GD YG+ E + L+AY + FK +KL + K +
Sbjct: 246 SHLGNPILGDPKYGIKDINSYFENKFGLNYQFLYAYKLIFKD--CPEKLSYMEN--KTIA 301
Query: 300 EYLKKVFDKENLD 312
E L +F K D
Sbjct: 302 ESLPPIFKKVKRD 314
>ref|NP_465768.1| (NC_003210) similar to putative ribosomal large subunit
pseudouridine synthase [Listeria monocytogenes EGD-e]
emb|CAD00322.1| (AL591982) similar to putative ribosomal large subunit
pseudouridine synthase [Listeria monocytogenes]
Length = 289
Score = 95.5 bits (236), Expect = 7e-19
Identities = 66/223 (29%), Positives = 110/223 (48%), Gaps = 19/223 (8%)
Query: 75 DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHR 134
+ ++E+I+ED+ LLV+NKP ++ H S + T + ++ Y L G VHR
Sbjct: 75 EYDLEIIYEDDFLLVVNKPVDMKTHPNDSYETDTCANAVQ---YYLEKTGQDANALAVHR 131
Query: 135 LDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNR 194
LD+ TSG ++ AKN LS Q++ + + R Y+A + ++ + + ++
Sbjct: 132 LDQTTSGLVLFAKNKLAIAGLSWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHH- 190
Query: 195 LKMIALKAVKKEKSRYSKSEFISLLTSQN----NLNLIGAKLFTGRTHQIRAHLEYLNRH 250
+++ S Y + + +N N +L+ ++ TGRTHQIR HL +
Sbjct: 191 -------GSRRQISPYGQPAVTHVKVLENDNEKNTSLVECQIETGRTHQIRVHLSGIGHP 243
Query: 251 IIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVP 293
IIGD LY G P+ RIMLHA + HP +++ F P
Sbjct: 244 IIGDTLY---GGSPRAN-RIMLHAEKLHLNHPFKGKEMNFSAP 282
>ref|NP_562120.1| (NC_003366) ribosomal large subunit pseudouridine synthase C
[Clostridium perfringens]
dbj|BAB80910.1| (AP003189) ribosomal large subunit pseudouridine synthase C
[Clostridium perfringens]
Length = 324
Score = 95.5 bits (236), Expect = 7e-19
Identities = 82/291 (28%), Positives = 145/291 (49%), Gaps = 34/291 (11%)
Query: 12 KRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGD--EITLLTPKITPK 68
+RLD+FL K L+ + + + +++G + K+ K+ +L EGD EI L +T +
Sbjct: 12 QRLDKFLRKYLKDVPLSAIFKALRKGDIRVNGKKQKEK-YSLLEGDVIEIRYLQSVVTKE 70
Query: 69 PLKKELDL----EIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLG 124
K + ++V++EDE++L++ K P ++VH PTL D Y LS L
Sbjct: 71 KKKPNFQMVDSGSLQVVYEDENMLLVEKWPGVLVHSDKKNGAPTLTD------YVLSYLF 124
Query: 125 LKERY----------GIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLST 174
K Y +RLD++TSG + KN L+E ++ + + +YY AL+
Sbjct: 125 RKGDYVPENELTFTPASCNRLDRNTSGIVFFGKNFEGLKLLNEMIRERKVKKYYCALVKG 184
Query: 175 PLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFT 234
++ K E Y++++ + L + ++ ++ K + + +L + +L+ +L T
Sbjct: 185 KIQPGKY--EAYISKD--DELNKSTVYDTERPDTKKIKMD-VKVLQTNGAFSLLEIELIT 239
Query: 235 GRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRI-----MLHAYLIEFK 280
GR+HQ+RAHL +L I+GD YG N E + L+AY + FK
Sbjct: 240 GRSHQLRAHLAHLGNPIVGDFKYGDNKMNSFFENKFGLTYQFLYAYKVTFK 290
>ref|NP_608079.1| (NC_003485) conserved hypothetical protein [Streptococcus pyogenes
MGAS8232]
gb|AAL98578.1| (AE010114) conserved hypothetical protein [Streptococcus pyogenes
MGAS8232]
Length = 272
Score = 95.1 bits (235), Expect = 9e-19
Identities = 65/212 (30%), Positives = 112/212 (52%), Gaps = 16/212 (7%)
Query: 77 EIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLD 136
++ ++EDE ++++NKP + H +PT + L N+ + G + +VHRLD
Sbjct: 57 KVTCLYEDEHIIIVNKPEGMKTHG----NDPTELALL---NHVSAYTG--QTCYVVHRLD 107
Query: 137 KDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLK 196
K+TSG I+ AK F L+ L+ + + R Y+AL+ L +++ + R+ ++R K
Sbjct: 108 KETSGAILFAKTPFILPILNRLLEKRDIHREYLALVHGSLDSPRVTYHHPIGRHRHDRRK 167
Query: 197 MIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNL 256
+ V + + +E + +L+ +L TGRTHQIR HL + + GD L
Sbjct: 168 ----RVVDPINGKKAITEVTLVKNFHKTASLLNCQLQTGRTHQIRVHLAHQGHVLFGDPL 223
Query: 257 YGLNGALPKEEIRIMLHAYLIEFKHPRSEQKL 288
Y NG K+ R+MLHAY + KHP +++ +
Sbjct: 224 YS-NG--KKDCARLMLHAYQLRLKHPLTQEDI 252
>ref|NP_270003.1| (NC_002737) conserved hypothetical protein [Streptococcus pyogenes]
[Streptococcus pyogenes M1 GAS]
gb|AAK34724.1| (AE006626) conserved hypothetical protein [Streptococcus pyogenes
M1 GAS]
Length = 272
Score = 94.4 bits (233), Expect = 2e-18
Identities = 65/212 (30%), Positives = 112/212 (52%), Gaps = 16/212 (7%)
Query: 77 EIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLD 136
++ ++EDE ++++NKP + H +PT + L N+ + G + +VHRLD
Sbjct: 57 KVTCLYEDEHIIIVNKPEGMKTHG----NDPTELALL---NHVSAYTG--QTCYVVHRLD 107
Query: 137 KDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLK 196
K+TSG I+ AK F L+ L+ + + R Y+AL+ L +++ + R+ ++R K
Sbjct: 108 KETSGAILFAKTPFILPILNRLLEKRDIHREYLALVHGSLDSPRVTYHHPIGRHRHDRRK 167
Query: 197 MIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNL 256
+ V + + +E + +L+ +L TGRTHQIR HL + + GD L
Sbjct: 168 ----RVVDPINGKKAITEVTLVKNFHKTASLLTCQLQTGRTHQIRVHLAHQGHVLFGDPL 223
Query: 257 YGLNGALPKEEIRIMLHAYLIEFKHPRSEQKL 288
Y NG K+ R+MLHAY + KHP +++ +
Sbjct: 224 YS-NG--KKDCARLMLHAYQLRLKHPLTQEDI 252
>gb|AAF32394.1|AF224466_1 (AF224466) putative pseudouridylate synthase [Haemophilus ducreyi]
Length = 250
Score = 91.7 bits (226), Expect = 1e-17
Identities = 68/243 (27%), Positives = 124/243 (50%), Gaps = 12/243 (4%)
Query: 13 RLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLK 71
RLD+ LA+ S++++ I+ LV V + + G++I + +I +
Sbjct: 19 RLDQALAQLFPDYSRSRIKVWIENDLVKVNGIIVNRARGKVFGGEQIEIQA-EIEEEIRF 77
Query: 72 KELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI 131
+ ++ + ++ ED+D++++NKP NLVVH + T+++ L + ++ + R GI
Sbjct: 78 EPQNIPLNIVHEDDDIIIINKPKNLVVHPGAGNPDGTVLNALLYYYPPIAEV---PRAGI 134
Query: 132 VHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNP 191
+HRLDKDT+G +V+AKN HL L+ + + R Y A+ S + + V+ + R+P
Sbjct: 135 IHRLDKDTTGLMVVAKNIPAQTHLVTALQKRRITREYEAIAS-GIMTQGGKVDEPMARHP 193
Query: 192 NNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHI 251
R M K + Y ++ N + +L TGRTHQIR H+ ++ +
Sbjct: 194 TKRTAMAVHPMGKPAITHY------RIMERFRNYTRLRLRLETGRTHQIRVHMAHIAHPL 247
Query: 252 IGD 254
+GD
Sbjct: 248 LGD 250
>ref|NP_519162.1| (NC_003295) PROBABLE RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE
C PROTEIN [Ralstonia solanacearum]
emb|CAD14743.1| (AL646062) PROBABLE RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE
C PROTEIN [Ralstonia solanacearum]
Length = 331
Score = 90.9 bits (224), Expect = 2e-17
Identities = 81/306 (26%), Positives = 140/306 (45%), Gaps = 27/306 (8%)
Query: 12 KRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPK-P 69
+R+D FL + + + K+ + +++ G V K + L GD + + +I + P
Sbjct: 22 QRIDNFLMRLAKGVPKSHIYRILRSGEVRVNKGRID-AEYRLNLGDLVRIPPLRIAQQSP 80
Query: 70 LKKELD-----LEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLG 124
+ E E ++ ED LLV++KP + VH V +++ L E L
Sbjct: 81 GQAEAARAVPAAEFTILHEDTHLLVIDKPAGVAVHGGSGVAFG-VIEQLRRSRPEAKFLE 139
Query: 125 LKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVE 184
L VHRLD++TSG +++AK V L EQ++ + + Y A + ++ ++
Sbjct: 140 L------VHRLDRETSGVLLLAKKRSALVALHEQIREGQLDKRYFAAVKGVWPHQRQHIK 193
Query: 185 CYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHL 244
L + + + V+ + + + L+ A+L TGRTHQIR HL
Sbjct: 194 APLFKYSTPEGE----RRVRVQADGQPSHTVFNRVGVFGPYTLLEAELKTGRTHQIRVHL 249
Query: 245 EYLNRHIIGDNLYG---LNGALPKEE-----IRIMLHAYLIEFKHPRSEQKLRFKVPLLK 296
+ I+GD+ YG LN AL + R+ LHA+ + HP+S + + FK PL
Sbjct: 250 AHAGFPILGDDKYGDFALNKALSRANASPRLARMFLHAHTLRLTHPQSGEIVTFKAPLPA 309
Query: 297 DMLEYL 302
+ +L
Sbjct: 310 ECAAFL 315
>ref|NP_420787.1| (NC_002696) ribosomal large subunit pseudouridine synthase C
[Caulobacter crescentus CB15]
gb|AAK23955.1| (AE005871) ribosomal large subunit pseudouridine synthase C
[Caulobacter crescentus CB15]
Length = 331
Score = 90.1 bits (222), Expect = 3e-17
Identities = 65/229 (28%), Positives = 113/229 (48%), Gaps = 15/229 (6%)
Query: 80 VIFEDEDLLVLNKPPNLVVH---KALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLD 136
V++EDE++L LNKP L V K + L W E G+ +R +VHRLD
Sbjct: 93 VLYEDEEVLALNKPAGLAVQGGTKTTKHIDKLLSAWGE---------GV-DRPRLVHRLD 142
Query: 137 KDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLK 196
+DTSG +++ K LS + + Y A+++ + +E +L + +
Sbjct: 143 RDTSGVLLLGKTPSAAARLSGAFAKRKAQKTYWAIVAGNPHPTEGVMELHLAKRGVGDRE 202
Query: 197 MIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNL 256
++ K ++ +++EF+++ + + + + TGRTHQ+RAH++ + I+GD
Sbjct: 203 LVVPAQPKDPDAQPAETEFVTISRAGPRVTWMALRPHTGRTHQLRAHMKAMGHPILGDPK 262
Query: 257 YGLNGALP-KEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKK 304
YG + P E +++ LHA I HP S L + PL +M E +K
Sbjct: 263 YGDEKSAPLSEGLKLQLHARSILLPHP-SAGMLHIEAPLSPEMKEGFRK 310
>ref|NP_207748.1| (NC_000915) conserved hypothetical protein [Helicobacter pylori
26695]
sp|O25610|Y956_HELPY Hypothetical protein HP0956
pir||D64639 conserved hypothetical protein HP0956 - Helicobacter pylori
(strain 26695)
gb|AAD07999.1| (AE000604) conserved hypothetical protein [Helicobacter pylori
26695]
Length = 242
Score = 89.7 bits (221), Expect = 4e-17
Identities = 78/266 (29%), Positives = 127/266 (47%), Gaps = 50/266 (18%)
Query: 16 EFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKKELD 75
+ L+ + IS + LI GLV K++ +A KE + T + + KP
Sbjct: 6 KILSVQENISHKKAKALIDSGLVSIGGKKLM---VARKELPKNTHFSVQKVEKP------ 56
Query: 76 LEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRL 135
VIFEDE++L L KPP + ++Y+L++ + + ++HRL
Sbjct: 57 ---SVIFEDENILALFKPPFI-------------------ESYDLASFF--KGWALLHRL 92
Query: 136 DKDTSGGIVIAKNNFT-HVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNR 194
DK+TSG +++ K N H+ + K + + + Y+AL ++EE+ LT
Sbjct: 93 DKETSGVVLLVKENSEFHLKAKKAFKDRAVKKEYLALTQGIIEEEREINAPILTFKTTKA 152
Query: 195 LKMIALKAVKKEKSRYSKSEFISLLTSQNNLN---LIGAKLFTGRTHQIRAHLEYLNRHI 251
I+ K E ++++T +N L+ + TGRTHQIR HL+++N I
Sbjct: 153 FSKISKKG----------QEAVTIITPLKIINKKTLLKVGIKTGRTHQIRVHLKHINHPI 202
Query: 252 IGDNLYGLNGALPKEEIRIMLHAYLI 277
IGD LY +L K R+MLHA+ I
Sbjct: 203 IGDTLYNNEPSLAK---RLMLHAHKI 225
>ref|NP_299883.1| (NC_002488) pseudouridylate synthase [Xylella fastidiosa 9a5c]
pir||A82538 pseudouridylate synthase XF2606 [imported] - Xylella fastidiosa
(strain 9a5c)
gb|AAF85403.1|AE004067_10 (AE004067) pseudouridylate synthase [Xylella fastidiosa 9a5c]
Length = 330
Score = 89.7 bits (221), Expect = 4e-17
Identities = 89/327 (27%), Positives = 148/327 (45%), Gaps = 39/327 (11%)
Query: 3 KVFIALTDH--KRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEIT 59
++ + +H +RLD FL +L+ + ++ + L++ G V VK L GDEI
Sbjct: 19 RIVVVPAEHSGQRLDNFLLSKLKGVPRSLIYKLVRSGQVRVNGGRVK-AERKLDGGDEIR 77
Query: 60 L-----LTPKITPKPLKKELD-LEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWL 113
L + + P L +E ++FED LL LNKP + H + +
Sbjct: 78 LPPLRLIQDRAIVAPSAAFLARMEAAIVFEDARLLALNKPSGMASHGGSGISYGVIE--- 134
Query: 114 EFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKT--------KMMG 165
+ L K+ +VHRLD+DTSG +++AK + L ++ + +
Sbjct: 135 -----AMRILRPKQELELVHRLDRDTSGLLIMAKKRAALIELQALMREASVNGKEGRGIA 189
Query: 166 RYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVK-KEKSRYSKSEFISLLTSQNN 224
+ Y+ LLS + MSV+ L N L+ + V+ + SKS F LL +
Sbjct: 190 KRYLTLLSGRMPNGVMSVDAPLHIN----LRQGGERHVRVHHDGKPSKSRF-RLLERRGG 244
Query: 225 LNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYG---LNGALPKEEI---RIMLHAYLIE 278
+ + TGRTHQIR H ++L + GD+ YG +N L +++I R+ LHA +E
Sbjct: 245 QSYCEVLIETGRTHQIRVHAQHLGHPVTGDDKYGDQEVNRRL-RDQIGLQRLFLHAVSLE 303
Query: 279 FKHPRSEQKLRFKVPLLKDMLEYLKKV 305
F PL +D++ L ++
Sbjct: 304 FALDAGSTPYVLNAPLAEDLVAALDRL 330
>ref|NP_251665.1| (NC_002516) ribosomal large subunit pseudouridine synthase C
[Pseudomonas aeruginosa]
pir||G83273 ribosomal large subunit pseudouridine synthase C PA2975 [imported]
- Pseudomonas aeruginosa (strain PAO1)
gb|AAG06363.1|AE004723_7 (AE004723) ribosomal large subunit pseudouridine synthase C
[Pseudomonas aeruginosa]
Length = 318
Score = 89.4 bits (220), Expect = 5e-17
Identities = 75/256 (29%), Positives = 127/256 (49%), Gaps = 21/256 (8%)
Query: 12 KRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITL----LTPKIT 66
+R+D FL L+ K + ++++G V K +K L+ GD++ + L +
Sbjct: 23 QRIDNFLIARLKGAPKTLIYRILRKGEVRVNKGRIKPD-YRLQAGDQVRVPPLRLAERDE 81
Query: 67 PKPLKKEL--DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLG 124
P PL + L +E +++ED+ L+V+NKP + VH V + + + + + ++
Sbjct: 82 PAPLAQGLLERMEAAIVYEDKALIVVNKPAGIAVHGGSGVSAGVIEVFRQLRP-DAKDIE 140
Query: 125 LKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLK-TKMMGRYYIALLSTPLKEEKMSV 183
L VHRLD+DTSG ++IAK HL E L+ K++ + Y AL+ K +V
Sbjct: 141 L------VHRLDRDTSGLLMIAKKRSMLRHLHEALRGEKIVDKRYHALVRGHWPAGKKNV 194
Query: 184 ECYLTRNP-NNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRA 242
L +N + +M+ + K+ + +EF L + L+ A+ TGRTHQIR
Sbjct: 195 RAPLLKNNLRSGERMVEVNVEGKD----ALTEFRVLRRFGDFATLVEARPITGRTHQIRV 250
Query: 243 HLEYLNRHIIGDNLYG 258
H ++ I GD YG
Sbjct: 251 HAKHAGHAIAGDPKYG 266
>ref|NP_266520.1| (NC_002662) pseudouridine synthase [Lactococcus lactis subsp.
lactis]
gb|AAK04462.1|AE006273_8 (AE006273) pseudouridine synthase [Lactococcus lactis subsp.
lactis]
Length = 293
Score = 88.6 bits (218), Expect = 9e-17
Identities = 67/252 (26%), Positives = 131/252 (51%), Gaps = 22/252 (8%)
Query: 60 LLTPKITPKPLKKEL---DLEIEVIFEDEDLLVLNKP---PNLV--VHKALSVKEPTLVD 111
L+T + +P ++L D + V+FED+ LV+ KP P++ +H ++ +
Sbjct: 56 LVTVTVPDEPDNEKLIPDDFPLNVLFEDDHYLVVEKPAGKPSITGSLHPTGAMSN-AVKG 114
Query: 112 WLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIAL 171
++ KNY + I+ RLD+DTSG + +AK+ + H +++ M + Y A+
Sbjct: 115 YISQKNYA------NQTVHIITRLDRDTSGLMFLAKHRYAHALMNQHKFRDTMEKRYFAI 168
Query: 172 LSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAK 231
++ + ++ + R ++ +I + EK++ + + ++ + +N+L L+
Sbjct: 169 VNDQDLPDSGRIDLPIGRRDDS---IIQRQVRFDEKAKDALTSYV-VAERKNDLALLDII 224
Query: 232 LFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFK 291
L TGRTHQIR H +L +IGD+LYG N L R LH + ++F +P +++ + +
Sbjct: 225 LHTGRTHQIRVHFSHLGYPLIGDDLYGGNHDLIS---RQALHCHHLQFLNPFTDEMVHVE 281
Query: 292 VPLLKDMLEYLK 303
+ + +DM LK
Sbjct: 282 LDMPEDMKNLLK 293
>ref|NP_014575.1| (NC_001147) Riboflavin biosynthesis; Rib2p [Saccharomyces
cerevisiae]
sp|Q12362|RIB2_YEAST DRAP DEAMINASE
pir||S50972 RIB2 protein - yeast (Saccharomyces cerevisiae)
emb|CAA79742.1| (Z21618) DRAP deaminase [Saccharomyces cerevisiae]
emb|CAA99076.1| (Z74808) ORF YOL066c [Saccharomyces cerevisiae]
Length = 591
Score = 87.8 bits (216), Expect = 2e-16
Identities = 70/254 (27%), Positives = 125/254 (48%), Gaps = 27/254 (10%)
Query: 10 DHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLT----PKI 65
D K +D F+++ + I EG V+ + + +++GD IT P +
Sbjct: 98 DRKLVDVFVSEFRDREPSYYSKTIAEGKVYLNDEPANLDTI-IRDGDLITHKVHRHEPPV 156
Query: 66 TPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGL 125
T KP I+++FEDED+LV++KP ++ VH + T+ LE LG
Sbjct: 157 TSKP--------IDIVFEDEDILVIDKPSSIPVHPTGRYRFNTITKMLE------RQLG- 201
Query: 126 KERYGI--VHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSV 183
Y + +RLDK TSG + +AK + +Q+K + + + Y+A + + V
Sbjct: 202 ---YSVHPCNRLDKPTSGLMFLAKTPLGADRMGDQMKAREVTKEYVARVKGEFPIGIVEV 258
Query: 184 ECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAH 243
+ + R+ N ++ + A+ + E ++++K+ F ++ +++ K TGRTHQIR H
Sbjct: 259 DKPV-RSVNPKVALNAVCEMSDENAKHAKTVF-QRVSYDGQTSIVKCKPLTGRTHQIRVH 316
Query: 244 LEYLNRHIIGDNLY 257
L+YL I D +Y
Sbjct: 317 LQYLGFPIANDPIY 330
>ref|NP_223608.1| (NC_000921) putative [Helicobacter pylori J99]
sp|Q9ZKP5|Y956_HELPJ Hypothetical protein JHP0890
pir||C71876 hypothetical protein jhp0890 - Helicobacter pylori (strain J99)
gb|AAD06458.1| (AE001518) putative [Helicobacter pylori J99]
Length = 242
Score = 87.4 bits (215), Expect = 2e-16
Identities = 78/266 (29%), Positives = 123/266 (45%), Gaps = 50/266 (18%)
Query: 16 EFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKKELD 75
+ L+ + IS + LI GLV +++ +A KE + T + + KP
Sbjct: 6 KLLSVQENISHKKAKALIDSGLVSIGGQKLM---VARKELPQNTRFSVQKVEKP------ 56
Query: 76 LEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRL 135
VIFEDE++L L KPP + + +S FK + L +HRL
Sbjct: 57 ---SVIFEDENILALFKPPFIESYDLVSF----------FKGWAL-----------LHRL 92
Query: 136 DKDTSGGIVIAKNNFT-HVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNR 194
DK+TSG I++ K N H+ + K + + + Y+A++ ++EE+ LT
Sbjct: 93 DKETSGVILLVKENSEFHLKAKKAFKDRAVKKEYLAIVQGIIEEEREINAPILTIKTTKA 152
Query: 195 LKMIALKAVKKEKSRYSKSEFISLLTSQNNLN---LIGAKLFTGRTHQIRAHLEYLNRHI 251
I+ K E ++++T +N L+ + TGRTHQIR HL+++N I
Sbjct: 153 FSKISKKG----------QEAVTIITPLKIINKKTLLKVGIKTGRTHQIRVHLKHINHPI 202
Query: 252 IGDNLYGLNGALPKEEIRIMLHAYLI 277
IGD LY P R+MLHA+ I
Sbjct: 203 IGDTLYNNE---PSSAKRLMLHAHKI 225
>ref|NP_356602.1| (NC_003063) AGR_L_1625p [Agrobacterium tumefaciens] [Agrobacterium
tumefaciens str. C58 (Cereon)]
ref|NP_534526.1| (NC_003305) ribosomal large subunit pseudouridine synthase A
[Agrobacterium tumefaciens str. C58 (U. Washington)]
gb|AAK89387.1| (AE008280) AGR_L_1625p [Agrobacterium tumefaciens str. C58
(Cereon)]
gb|AAL44842.1| (AE009334) ribosomal large subunit pseudouridine synthase A
[Agrobacterium tumefaciens str. C58 (U. Washington)]
Length = 222
Score = 86.3 bits (212), Expect = 4e-16
Identities = 61/209 (29%), Positives = 107/209 (51%), Gaps = 13/209 (6%)
Query: 74 LDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVH 133
LD + ++ D+DLLVL+KP L+ ++ ++P L D L + + L +++
Sbjct: 14 LDPWLTIVHRDDDLLVLDKPSGLL---SVPGRDPALSDSLMTRVQKQFPKAL-----MIN 65
Query: 134 RLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNN 193
RLDKDTSG ++++ N H ++ Q + + + Y+A++ + E+ V+ L +P+N
Sbjct: 66 RLDKDTSGIVLMSLNRKAHAAIAAQFEKRETRKSYVAIVWGTVAGEEGEVDLPLAIDPDN 125
Query: 194 RLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIG 253
+ + V E + ++S + L + TGRTHQ+R H++ L I+G
Sbjct: 126 KPR----HRVDHENGKPAQSLWRVLERLPLPATRLALTPLTGRTHQLRVHMKALGHPILG 181
Query: 254 DNLYGLNGALPKEEIRIMLHAYLIEFKHP 282
D Y AL R+MLHA + F+HP
Sbjct: 182 DEFYAEGEALTAAP-RLMLHAQEVGFRHP 209
>ref|NP_637448.1| (NC_003902) pseudouridylate synthase [Xanthomonas campestris pv.
campestris str. ATCC 33913]
gb|AAM41372.1| (AE012314) pseudouridylate synthase [Xanthomonas campestris pv.
campestris str. ATCC 33913]
Length = 327
Score = 85.1 bits (209), Expect = 1e-15
Identities = 83/316 (26%), Positives = 143/316 (44%), Gaps = 39/316 (12%)
Query: 12 KRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPK-- 68
+RLD FL +L+ ++ + L++ G V K L+ G+E+ + ++T +
Sbjct: 28 QRLDNFLLGQLKGAPRSLIYKLVRSGQVRVNGGRAK-AERKLEGGEEVRIPPVRLTEEGD 86
Query: 69 ----PLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLG 124
P + LE ++FED LL LNKP + H + + L L
Sbjct: 87 KAAPPSAFQARLEAAIVFEDARLLALNKPTGVASHGGSGISFGAIET--------LRALR 138
Query: 125 LKERYGIVHRLDKDTSGGIVIAKNNFTHVHLS------EQLKTKMMGRYYIALLSTPLKE 178
+ +VHRLD+DTSG +++AK L +++ + + + Y+ LL + +
Sbjct: 139 PNQTLELVHRLDRDTSGLLIVAKKRSALTELQALMREDDRVDGRSITKRYLTLLVGRMPD 198
Query: 179 EKMSVECYL---TRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTG 235
MSV+ L R R + + A+ K S S F LL + + ++ TG
Sbjct: 199 GVMSVDAPLHIGLRQGGER--HVQVNAIGKP----SLSHF-RLLERRGGHSYCEVRIETG 251
Query: 236 RTHQIRAHLEYLNRHIIGDNLYG---LNGALPKEEI---RIMLHAYLIEFKHPRSEQKLR 289
RTHQIR H ++L + GD+ YG +N L ++++ R+ LHA +EF +
Sbjct: 252 RTHQIRVHAQHLGHAVAGDDKYGDPEVNKRL-RDQVGLRRLFLHAASLEFALDNGKTPYV 310
Query: 290 FKVPLLKDMLEYLKKV 305
PL ++ E L ++
Sbjct: 311 LNAPLAPELAEALDRL 326
>ref|NP_077944.1| (NC_002162) pseudouridine synthase (uracil hydrolase) [Ureaplasma
urealyticum]
pir||C82933 pseudouridine synthase (uracil hydrolase) UU113 [imported] -
Ureaplasma urealyticum
gb|AAF30519.1|AE002111_8 (AE002111) pseudouridine synthase (uracil hydrolase) [Ureaplasma
urealyticum]
Length = 315
Score = 84.3 bits (207), Expect = 2e-15
Identities = 78/278 (28%), Positives = 136/278 (48%), Gaps = 37/278 (13%)
Query: 1 MQKVFIALTD-HKRLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEI 58
++++ I + D ++RLD FL K +S+ V +I+ V K+V L LKE D +
Sbjct: 3 LKEIKIKINDANQRLDRFLLKNFPNLSRIAVYKIIRTKDVKVNHKKVDHNYL-LKENDVV 61
Query: 59 TLLTPKITPKPLKKELDL-------EIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVD 111
++ + L+K++DL E+++I+ED+++LV++KP L+VH+ K TL +
Sbjct: 62 SIYAKE---NFLEKKVDLSFANAKDELDIIYEDKNILVVHKPIGLIVHEDNRYKNDTLQN 118
Query: 112 WLEFKNYELSNLGLKERY----------GIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKT 161
K Y L K+ Y + HRLD +TSG IV AK ++E K
Sbjct: 119 --RIKKY----LVKKDEYHPFDESAFVPSLCHRLDLNTSGLIVAAKTANALRVITEMFKN 172
Query: 162 KMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEF--ISLL 219
+ R Y L L + + ++ + +N + V+ K++++K+ + +
Sbjct: 173 NDVIRIYKCLTYNQLPKNNDVIYNFMYKADDNTM------IVQNFKTKFNKTAITKYTYI 226
Query: 220 TSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLY 257
+ +L TGRTHQIRA L +L+ I+G+ Y
Sbjct: 227 DKYKKYFIYDIELLTGRTHQIRAVLNFLHAPIVGEQKY 264
>ref|NP_212949.1| (NC_001318) conserved hypothetical protein [Borrelia burgdorferi]
pir||F70201 conserved hypothetical protein BB0815 - Lyme disease spirochete
gb|AAC67167.1| (AE001180) conserved hypothetical protein [Borrelia burgdorferi]
Length = 297
Score = 83.6 bits (205), Expect = 3e-15
Identities = 84/289 (29%), Positives = 135/289 (46%), Gaps = 36/289 (12%)
Query: 6 IALTDHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLA------LKEGDEIT 59
+A + KRLD L K L SK ++ I++G +++ GL + +GD+I
Sbjct: 12 LANDNGKRLDSILIKILNFSKASIIKHIRKG-------DIRLNGLKSHFSCRVCKGDKIY 64
Query: 60 LLTPKI------TPKPLKKELDLEI---EVIFEDEDLLVLNKPPNLVVHKALSVKEPTLV 110
L T K K +D + +I+ED DLLVL+K ++VH + + +
Sbjct: 65 LYKSLAQNLNLTTDKCFKSNIDFQYIRKRIIYEDSDLLVLDKQKGILVHGGKNSLDFLVN 124
Query: 111 DWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIA 170
+L +N L +L K VHRLD++TSG I+ AKN T LSE + + Y A
Sbjct: 125 SYLLSQN--LRSLSFKP--SAVHRLDRNTSGIIIFAKNINTARKLSEAFSGGSIIKKYFA 180
Query: 171 LLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGA 230
+L L E K V + +N R K + V ++K+ + ++ + S L+
Sbjct: 181 IL---LGEVKSPV---VYKNHLFRNKRLRKTFVLEDKNFVNAITKVNPILSCKRATLVEI 234
Query: 231 KLFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEF 279
+ TG THQIR+ + N +I D Y ++ LHA+L++F
Sbjct: 235 VIETGFTHQIRSQCSFNNHPLINDKKY----CNKFKKSDYFLHAFLVKF 279
>ref|NP_073042.1| (NC_000908) conserved hypothetical protein [Mycoplasma genitalium]
sp|P47610|Y370_MYCGE Hypothetical protein MG370
pir||I64240 hypothetical protein homolog MG370 - Mycoplasma genitalium
gb|AAC71597.1| (U39719) conserved hypothetical protein [Mycoplasma genitalium]
Length = 323
Score = 83.6 bits (205), Expect = 3e-15
Identities = 69/266 (25%), Positives = 130/266 (47%), Gaps = 24/266 (9%)
Query: 9 TDHKRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLL---TPK 64
++++R+D+F K L I ++ ++ G V K + + LK DEI L P
Sbjct: 13 SENQRIDQFCLKILPLIKRSDFFKYLRLGKVLLNKTKPQVN-TRLKTKDEIAFLFDINPY 71
Query: 65 ITPKPLKKELDL---EIEVIFEDEDLLVLNKPPNLVV-----HKALSVKEPTLVDWLEFK 116
+ LDL ++++IFEDE+++V++KP +V H +++ L+ ++
Sbjct: 72 LQTNNDYLSLDLVKDKLKIIFEDENIIVVDKPTGIVCQPDKKHSIINLSN-MLLKHCGYR 130
Query: 117 NYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPL 176
++ + L ++ HR+D++TSG ++ AK N L++ K + + Y L+
Sbjct: 131 QFDSNKLNFYPQFA--HRIDRNTSGIVIGAKTNKALKELNKVFKNNHLTKRYKGLVFGQF 188
Query: 177 KEEKMSVECYLTRNPNNRLKMIALKA---VKKEKSRYSKSEFISLLTSQNNLNLIGAKLF 233
+ Y ++ NN + + K KK + + S +I+ Q +++LI +L
Sbjct: 189 NHLGLQT-AYWKKDNNNGIVTVKWKPFPEAKKISTFFENSSYIA----QKDMSLITIRLI 243
Query: 234 TGRTHQIRAHLEYLNRHIIGDNLYGL 259
+GRTHQIRA L + ++GD Y L
Sbjct: 244 SGRTHQIRACLNLFSNQLVGDKKYSL 269
>gb|AAD12509.1| (U02214) Homology to M62747 [Mycoplasma genitalium]
Length = 119
Score = 82.4 bits (202), Expect = 6e-15
Identities = 43/121 (35%), Positives = 70/121 (57%), Gaps = 4/121 (3%)
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
+VHRLD+DTSG IV+ KN + ++L QL+ + + RYY+AL+ P S+ L R
Sbjct: 2 LVHRLDRDTSGAIVVCKNQASLLNLQNQLQNRTLKRYYVALVHFPFNALTGSINAPLARV 61
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
NN+ + K + K++ + ++F ++ LI +L TGRTHQIR HL+++
Sbjct: 62 NNNK---VMFKIAQTAKAKQAITKF-KVINQNEKAALISLELLTGRTHQIRVHLKFIQHP 117
Query: 251 I 251
+
Sbjct: 118 V 118
>ref|NP_359981.1| (NC_003103) ribosomal large subunit pseudouridine synthase C
[EC:4.2.1.70] [Rickettsia conorii]
sp|Q92IS6|RLUC_RICCN Ribosomal large subunit pseudouridine synthase C (Pseudouridylate
synthase) (Uracil hydrolyase)
gb|AAL02882.1| (AE008600) ribosomal large subunit pseudouridine synthase C
[EC:4.2.1.70] [Rickettsia conorii]
Length = 303
Score = 82.0 bits (201), Expect = 8e-15
Identities = 84/302 (27%), Positives = 139/302 (45%), Gaps = 39/302 (12%)
Query: 13 RLDEFLAKELQISKNQVLNLI---KEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKP 69
RLD++L + + V+ K+ V QK E L +K GD+I + P
Sbjct: 12 RLDKYLKRLYPLLTQGVIEKALRQKQITVNAQKAEAS---LRVKGGDKIFINDKFNLPVK 68
Query: 70 LKKEL---DLEIEV---------IFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKN 117
++L D EI++ I+ D++L+ +NKP L + ++ L++ N
Sbjct: 69 QPEKLVFTDAEIKLAKKITTDYLIYADDNLIAINKPAGLATQGGTKINL-SIDSALKYLN 127
Query: 118 YELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIAL-LSTPL 176
Y+ ++ + +VHRLDK TSG ++IAKN + V L K K++ + Y A+ P+
Sbjct: 128 YKGAD------FKLVHRLDKKTSGLLLIAKNYLSSVKLHNAFKEKLVVKTYFAVTYGKPI 181
Query: 177 K---EEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLF 233
K E + ++E P + + E + + + + L + NNL LI
Sbjct: 182 KNVGEVRSNIEKSKGSTPK-------ITDIDSENGKLAITYYKVLKSLDNNLFLIEFTPV 234
Query: 234 TGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHA--YLIEFKHPRSEQKLRFK 291
TGR HQ+R H + L I+GD+ YG +P + + LHA + K E KL K
Sbjct: 235 TGRMHQLRLHAKLLGCPILGDDKYGNKEIMPYSKY-MFLHANNICLSEKIFGQESKLEAK 293
Query: 292 VP 293
+P
Sbjct: 294 LP 295
>ref|NP_251936.1| (NC_002516) pseudouridine synthase RluA [Pseudomonas aeruginosa]
pir||H83239 pseudouridine synthase RluA PA3246 [imported] - Pseudomonas
aeruginosa (strain PAO1)
gb|AAG06634.1|AE004747_7 (AE004747) pseudouridine synthase RluA [Pseudomonas aeruginosa]
Length = 211
Score = 81.6 bits (200), Expect = 1e-14
Identities = 64/218 (29%), Positives = 109/218 (49%), Gaps = 15/218 (6%)
Query: 77 EIEVIFEDEDLLVLNKPPNLV-VHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRL 135
+I ++ +D+ LLV++KP L+ V + LV L+ Y + IVHRL
Sbjct: 5 QIRIVHQDDALLVVDKPTLLLSVPGRADDNKDCLVTRLQENGYPEAR--------IVHRL 56
Query: 136 DKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRL 195
D +TSG +V+A++ +H LS Q + + Y AL + + +E L +P +
Sbjct: 57 DWETSGLMVLARDADSHRELSRQFHDRETEKAYTALCWGLPELDSGRIELPLRYDPPTKP 116
Query: 196 KMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDN 255
+ + V E R++ + F ++ + + TGR+HQ+R H+ + ++GD
Sbjct: 117 RHV----VDFEHGRHALT-FWRVIERHERWSRVELTPITGRSHQLRVHMLSIGHPLLGDR 171
Query: 256 LYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVP 293
LY AL E R+ LHA L+ HP+S ++LRF+ P
Sbjct: 172 LYANPEALAAHE-RLCLHASLLCLTHPQSGERLRFESP 208
>ref|NP_488120.1| (NC_003272) ribosomal large chain pseudouridine synthase A [Nostoc
sp. PCC 7120]
dbj|BAB75779.1| (AP003595) ribosomal large chain pseudouridine synthase A [Nostoc
sp. PCC 7120]
Length = 549
Score = 81.6 bits (200), Expect = 1e-14
Identities = 66/232 (28%), Positives = 116/232 (49%), Gaps = 25/232 (10%)
Query: 68 KPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGL-- 125
KP + +I VI+EDE L+ +NKP L LSV +++ ++ LS L
Sbjct: 332 KPTRNLEKEQINVIYEDEWLIAVNKPSGL-----LSVPGR----YIDTQDSVLSRLRHML 382
Query: 126 --KERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSV 183
+E VHRLD+DTSG +++A+++ T+ S+Q + + + + Y A+L+ + + +
Sbjct: 383 PEEEMLAAVHRLDQDTSGILLLARDSQTYRQFSQQFQQRQVYKVYEAILAGVINTDTGII 442
Query: 184 ECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAH 243
+ L +P NR + V ++ + S + F + + + + TGRTHQ+R H
Sbjct: 443 DLPLWGDPENR----PYQQVDWQRGKPSVTNFRE-IAREGDYTRVEFVPLTGRTHQLRVH 497
Query: 244 ---LEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKV 292
++ L I+GD YG + R+ LHA + F HPRS + + +
Sbjct: 498 ASDVQGLGVVILGDRFYGCTA----KANRLHLHARELSFLHPRSGKTIHLHI 545
>ref|NP_220643.1| (NC_000963) unknown [Rickettsia prowazekii]
sp|Q9ZDR7|RLUC_RICPR Ribosomal large subunit pseudouridine synthase C (Pseudouridylate
synthase) (Uracil hydrolyase)
pir||F71680 hypothetical protein RP258 - Rickettsia prowazekii
emb|CAA14720.1| (AJ235271) unknown [Rickettsia prowazekii]
Length = 303
Score = 81.6 bits (200), Expect = 1e-14
Identities = 83/300 (27%), Positives = 140/300 (46%), Gaps = 37/300 (12%)
Query: 13 RLDEFLAKELQISKNQVLNLI---KEGLVFCQKKEVKKGGLALKEGDEITL---LTPKIT 66
RLD++L + + V+ K+ V QK E L +K GD I + +T
Sbjct: 12 RLDKYLKRLYPLLTQGVIEKALRQKQITVNFQKAEAN---LRVKVGDTIFINDYFNLPVT 68
Query: 67 PKPLKKELDLEIEV---------IFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKN 117
D EI++ I+ED+ L+ +NKP +L + ++ L++ N
Sbjct: 69 QHETLVFADAEIKLAKKILTDYLIYEDDHLIAINKPASLATQGGSKINL-SIDSALKYLN 127
Query: 118 YELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIAL-LSTPL 176
Y+ ++ + +VHRLDK+TSG ++IAKN + V L K K++ + Y A+ P+
Sbjct: 128 YQGAD------FKLVHRLDKETSGLLLIAKNYLSSVKLHNAFKEKLVIKKYFAITYGRPV 181
Query: 177 KEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGR 236
K +V + ++ ++ + + + + + + + L + NNL LI TGR
Sbjct: 182 K----NVGTVKSNIGKSKRRLSKIANIDSDDGKLAITYYKLLKSLNNNLFLIEFMPVTGR 237
Query: 237 THQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHA---YLIEF---KHPRSEQKLRF 290
HQ+R H + L I+GD+ YG +P + + LHA YL E K + E KL F
Sbjct: 238 MHQLRLHAQLLGCPILGDDKYGNKEIMPYSKY-MFLHANNIYLSETIVGKEIKLEAKLPF 296
>ref|NP_642429.1| (NC_003919) pseudouridylate synthase [Xanthomonas axonopodis pv.
citri str. 306]
gb|AAM36965.1| (AE011847) pseudouridylate synthase [Xanthomonas axonopodis pv.
citri str. 306]
Length = 328
Score = 81.3 bits (199), Expect = 1e-14
Identities = 80/316 (25%), Positives = 141/316 (44%), Gaps = 39/316 (12%)
Query: 12 KRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPK-- 68
+RLD FL +L+ ++ + L++ G V K L+ G+E+ + +I +
Sbjct: 28 QRLDNFLLGQLKGAPRSLIYKLVRSGQVRVNGGRAK-AERKLEGGEEVRIPPVRINDEDD 86
Query: 69 ----PLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLG 124
P LE ++FED LL LNKP + H + + L L
Sbjct: 87 KAAPPSSFMARLEAAIVFEDARLLALNKPSGVASHGGSGISFGAIET--------LRALR 138
Query: 125 LKERYGIVHRLDKDTSGGIVIAKNNFTHVHLS------EQLKTKMMGRYYIALLSTPLKE 178
+ +VHRLD+DTSG +++AK L ++++ + + + Y+ LL + +
Sbjct: 139 PNQSLELVHRLDRDTSGLLIVAKKRSALTELQALMREDDRVEGRGITKRYLTLLVGRMPD 198
Query: 179 EKMSVECYL---TRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTG 235
M+V+ L R R + + A+ K + K LL + + ++ TG
Sbjct: 199 GVMTVDAPLHIGLRQGGER--HVQVNAIGKPSLSHFK-----LLERRGGHSYCEVRIETG 251
Query: 236 RTHQIRAHLEYLNRHIIGDNLYG---LNGALPKEEI---RIMLHAYLIEFKHPRSEQKLR 289
RTHQIR H ++L + GD+ YG +N L ++++ R+ LHA +EF +
Sbjct: 252 RTHQIRVHAQHLGHPVAGDDKYGEADVNKRL-RDQLGLKRLFLHAASLEFALDAGKTPYV 310
Query: 290 FKVPLLKDMLEYLKKV 305
PL ++ E L ++
Sbjct: 311 LSAPLAPELAEALDQL 326
>ref|NP_493778.1| (NM_061377) K07E8.7.p [Caenorhabditis elegans]
sp|O16686|YK27_CAEEL Hypothetical 50.0 kDa protein K07E8.7 in chromosome IV
pir||T32044 hypothetical protein K07E8.7 - Caenorhabditis elegans
gb|AAB66153.1| (AF016678) Hypothetical protein K07E8.7 [Caenorhabditis elegans]
Length = 432
Score = 80.9 bits (198), Expect = 2e-14
Identities = 68/251 (27%), Positives = 114/251 (45%), Gaps = 27/251 (10%)
Query: 12 KRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLK 71
K ++ F + L ++N K G ++ +++ ++ GD + + P++
Sbjct: 86 KMVEVFSGEFLSTNRNYAKIACKMGRIYVNGEQMTDVDYVMRNGDRVEHWAHR-HEHPIR 144
Query: 72 KELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI 131
DL I VI E +DL V+ KPP+L VH T++ L GL+ +
Sbjct: 145 ---DLPIRVISETDDLFVVEKPPSLPVHTCGQYAIHTVLGQLRVNE---GRTGLR----V 194
Query: 132 VHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNP 191
+HRLD+ TSG ++ AKN T + LK + YI + +E+ E P
Sbjct: 195 LHRLDRATSGVLLFAKNYETDLEFKTTLKQGEWSKEYICKVDGVFPDEEQVCE-----QP 249
Query: 192 NNRLKM-IALKAVKKE----KSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEY 246
L + + ++ V+ + KSR+ K L S +++ + TGRTHQIR H ++
Sbjct: 250 IGPLVISMGIQCVRPDGKDAKSRFRK------LWSDGTQSVVQVHIETGRTHQIRVHSQF 303
Query: 247 LNRHIIGDNLY 257
L I GD +Y
Sbjct: 304 LGHPIAGDQIY 314
>ref|NP_420097.1| (NC_002696) ribosomal large subunit pseudouridine synthase D
[Caulobacter crescentus CB15]
gb|AAK23265.1| (AE005803) ribosomal large subunit pseudouridine synthase D
[Caulobacter crescentus CB15]
Length = 270
Score = 80.9 bits (198), Expect = 2e-14
Identities = 68/228 (29%), Positives = 112/228 (48%), Gaps = 15/228 (6%)
Query: 80 VIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDT 139
V++EDE ++VLNKP L +K TL D L + N + R +VHRLD+DT
Sbjct: 36 VLYEDETIIVLNKPAGLSSQGG-RIKAHTLDDLLWA--FARPN---RPRPKLVHRLDRDT 89
Query: 140 SGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIA 199
SG I+ AK L + L+ K + Y+A+++ + + ++ L R R +
Sbjct: 90 SGVILTAKTKPAAAMLGKALEAKRFRKSYLAIVAGAPEPKGGMIDSPLRRESIGREAYMR 149
Query: 200 LKAVKKEKSRYSKSEFISLLTSQNNL-NLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYG 258
+ + ++S + +L + N L L+ TGR HQ+R H+ + R + GD+ YG
Sbjct: 150 VCEPDHPDAETARSRYRTL--AHNGLAALVELSPDTGRMHQLRVHMASIGRPLAGDSRYG 207
Query: 259 ---LNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLK 303
+ G +P R+MLHA + F HP ++ + PL D + L+
Sbjct: 208 GALMLGGVPAP--RLMLHAASLAFPHPLGGER-KILAPLPPDFVSMLE 252
>ref|NP_385495.1| (NC_003047) PROBABLE RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE
C PROTEIN [Sinorhizobium meliloti]
emb|CAC45968.1| (AL591787) PROBABLE RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE
C PROTEIN [Sinorhizobium meliloti]
Length = 330
Score = 80.1 bits (196), Expect = 3e-14
Identities = 61/228 (26%), Positives = 107/228 (46%), Gaps = 17/228 (7%)
Query: 80 VIFEDEDLLVLNKPPNLVVHKALSVK---EPTLVDWLEFKNYELSNLGLKERYGIVHRLD 136
V+ ED ++VLNKP L V V + L W K E+ +VHRLD
Sbjct: 97 VLHEDAKVIVLNKPAGLAVQGGSGVNRHIDKMLEAWTSQKG---------EKPRLVHRLD 147
Query: 137 KDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLK 196
+DTSG +V+A+ L+ + + + Y AL+ ++ + + +L + P
Sbjct: 148 RDTSGVLVVARTRGAAQQLTAAFRERDTKKTYWALVRGVPRKREDKISTWLVKEPTPDGD 207
Query: 197 MIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNL 256
+ + ++ + ++ S + + + NL + + +TGRTHQ+R H ++ IIGD
Sbjct: 208 RVRIAKHGEDGADHAISYYRIVEQAGQNLAWLEMEPYTGRTHQLRVHAAHIGHPIIGDPK 267
Query: 257 Y---GLNGALP-KEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLE 300
Y +N P + R+ LHA I+ HP +L+ PL + M++
Sbjct: 268 YFEADVNWTFPGGMQNRLHLHARHIDIPHPNG-GRLKITAPLPQHMVQ 314
>ref|NP_010248.1| (NC_001136) Hypothetical ORF; Ydl036cp [Saccharomyces cerevisiae]
sp|Q12069|YD36_YEAST Hypothetical 53.4 kDa protein in PRP9-NAT1 intergenic region
pir||S67569 hypothetical protein YDL036c - yeast (Saccharomyces cerevisiae)
emb|CAA96453.1| (Z71781) unknown [Saccharomyces cerevisiae]
emb|CAA98595.1| (Z74084) ORF YDL036c [Saccharomyces cerevisiae]
Length = 462
Score = 80.1 bits (196), Expect = 3e-14
Identities = 68/252 (26%), Positives = 123/252 (47%), Gaps = 23/252 (9%)
Query: 10 DHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLT----PKI 65
D K +D F+++ I+ G V E ++ GD IT P +
Sbjct: 125 DKKLVDVFISEFRDRESEYYKRTIENGDVHIND-ETADLSTVIRNGDLITHQVHRHEPPV 183
Query: 66 TPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGL 125
T +P+K VIFED++++V++KP + VH + T+ L+ +NLG
Sbjct: 184 TSRPIK--------VIFEDDNIMVIDKPSGIPVHPTGRYRFNTITKMLQ------NNLGF 229
Query: 126 KERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVEC 185
+RLD+ TSG + +AK ++ +QLK + + + Y+A + E ++ VE
Sbjct: 230 V--VNPCNRLDRLTSGLMFLAKTPKGADNIGDQLKAREVTKEYVAKVVGEFPETEVIVEK 287
Query: 186 YLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLE 245
L + RL + A+ + ++ ++++K+ F + ++ +++ K TGR+HQIR HL+
Sbjct: 288 PL-KLIEPRLALNAVCQMDEKGAKHAKTVF-NRISYDGKTSIVKCKPLTGRSHQIRVHLQ 345
Query: 246 YLNRHIIGDNLY 257
YL I D +Y
Sbjct: 346 YLGHPIANDPIY 357
>pir||S26602 hypothetical protein 185 - Pseudomonas aeruginosa
emb|CAA78140.1| (Z12154) putative protein of unknown function [Pseudomonas
aeruginosa]
Length = 185
Score = 79.7 bits (195), Expect = 4e-14
Identities = 41/98 (41%), Positives = 66/98 (66%), Gaps = 3/98 (3%)
Query: 75 DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHR 134
D+E+E+++EDE +LV++KP LVVH A ++ TL++ L + +++N+ R GIVHR
Sbjct: 80 DIELEIVYEDEHILVIDKPAGLVVHPAAGHQDGTLLNALLYHVPDIANV---PRAGIVHR 136
Query: 135 LDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALL 172
LDKDT+G +V+AK H L QL+ + + R Y A++
Sbjct: 137 LDKDTTGLMVVAKTLEAHTKLVAQLQARSVSRIYEAIV 174
>ref|NP_296760.1| (NC_002620) RNA pseudouridylate synthase family protein [Chlamydia
muridarum]
gb|AAF73552.1| (AE002305) RNA pseudouridylate synthase family protein [Chlamydia
muridarum]
Length = 274
Score = 79.7 bits (195), Expect = 4e-14
Identities = 60/210 (28%), Positives = 104/210 (48%), Gaps = 25/210 (11%)
Query: 79 EVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKD 138
++++EDE L + NKP A E L + +VHRLD+D
Sbjct: 70 QLLWEDEHLCIYNKP-------AKQTSEA---------------LACQLHVHLVHRLDRD 107
Query: 139 TSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMI 198
TSG I+ AK+ +++ KT+ + + YIAL+ +++ + Y T + R+ +
Sbjct: 108 TSGCILFAKHEKAITPITQLFKTRQIDKRYIALVFGHPRQQSGIITTY-TAPCHRRIGAV 166
Query: 199 ALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYG 258
++ + + +E+ +LT + L+ + TGRTHQIR H++ + I+GD YG
Sbjct: 167 LFGNTDEKLGKKTITEW-EVLTHYSKYALLLCRPITGRTHQIRLHMKTIGHPIVGDIDYG 225
Query: 259 LNGALPKEEIRIMLHAYLIEFKHPRSEQKL 288
N PK +R +LHA + F P S++K+
Sbjct: 226 -NKEQPKHVVRPLLHANSLCFISPFSKKKI 254
>ref|NP_354476.1| (NC_003062) AGR_C_2714p [Agrobacterium tumefaciens] [Agrobacterium
tumefaciens str. C58 (Cereon)]
gb|AAK87261.1| (AE008072) AGR_C_2714p [Agrobacterium tumefaciens str. C58
(Cereon)]
Length = 314
Score = 79.3 bits (194), Expect = 5e-14
Identities = 68/252 (26%), Positives = 115/252 (44%), Gaps = 26/252 (10%)
Query: 62 TPKITPKPLKKELDLEI---EVIFEDEDLLVLNKPPNLVVHKALSVK---EPTLVDWLEF 115
T I K LK D E+ ++ ED+ +LV NKP + V V + L W
Sbjct: 60 TGPIGSKDLKHSADGELLARMLLHEDDKVLVFNKPAGIAVQGGSGVNRHIDGLLEAWTSP 119
Query: 116 KNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTP 175
K E+ +VHRLD+DTSG +V+A+ L+ + + + Y AL+
Sbjct: 120 KG---------EKPRLVHRLDRDTSGVLVVARTRGAAQKLTAAFRERDTKKTYWALVRGV 170
Query: 176 LKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTG 235
++ + + +L + + + +E + ++ S + + T+ NL + + +TG
Sbjct: 171 PRKHQDKISTWLVKEQTPDGDRMRIAKHGEEGADHAISYYRVIDTAAQNLAWLEMEPYTG 230
Query: 236 RTHQIRAHLEYLNRHIIGDNLYGLN-------GALPKEEIRIMLHAYLIEFKHPRSEQKL 288
RTHQ+R H ++ IIGD Y ++ G + K R+ LHA I+ HP +L
Sbjct: 231 RTHQLRVHALHMGHPIIGDPKYYIDDPNWDFPGGVQK---RLHLHARHIDIPHPNG-GRL 286
Query: 289 RFKVPLLKDMLE 300
R PL M++
Sbjct: 287 RVSAPLPPHMVQ 298
>ref|NP_532161.1| (NC_003304) ribosomal large subunit pseudouridine synthase C
[Agrobacterium tumefaciens str. C58 (U. Washington)]
gb|AAL42477.1| (AE009107) ribosomal large subunit pseudouridine synthase C
[Agrobacterium tumefaciens str. C58 (U. Washington)]
Length = 329
Score = 79.3 bits (194), Expect = 5e-14
Identities = 68/252 (26%), Positives = 115/252 (44%), Gaps = 26/252 (10%)
Query: 62 TPKITPKPLKKELDLEI---EVIFEDEDLLVLNKPPNLVVHKALSVK---EPTLVDWLEF 115
T I K LK D E+ ++ ED+ +LV NKP + V V + L W
Sbjct: 75 TGPIGSKDLKHSADGELLARMLLHEDDKVLVFNKPAGIAVQGGSGVNRHIDGLLEAWTSP 134
Query: 116 KNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTP 175
K E+ +VHRLD+DTSG +V+A+ L+ + + + Y AL+
Sbjct: 135 KG---------EKPRLVHRLDRDTSGVLVVARTRGAAQKLTAAFRERDTKKTYWALVRGV 185
Query: 176 LKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTG 235
++ + + +L + + + +E + ++ S + + T+ NL + + +TG
Sbjct: 186 PRKHQDKISTWLVKEQTPDGDRMRIAKHGEEGADHAISYYRVIDTAAQNLAWLEMEPYTG 245
Query: 236 RTHQIRAHLEYLNRHIIGDNLYGLN-------GALPKEEIRIMLHAYLIEFKHPRSEQKL 288
RTHQ+R H ++ IIGD Y ++ G + K R+ LHA I+ HP +L
Sbjct: 246 RTHQLRVHALHMGHPIIGDPKYYIDDPNWDFPGGVQK---RLHLHARHIDIPHPNG-GRL 301
Query: 289 RFKVPLLKDMLE 300
R PL M++
Sbjct: 302 RVSAPLPPHMVQ 313
>ref|NP_232505.1| (NC_002506) ribosomal large subunit pseudouridine synthase A
[Vibrio cholerae]
pir||C82498 ribosomal large chain pseudouridine synthase A VCA0104 [imported] -
Vibrio cholerae (group O1 strain N16961)
gb|AAF96018.1| (AE004353) ribosomal large subunit pseudouridine synthase A [Vibrio
cholerae]
Length = 221
Score = 79.0 bits (193), Expect = 7e-14
Identities = 57/219 (26%), Positives = 109/219 (49%), Gaps = 21/219 (9%)
Query: 77 EIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLD 136
+I ++++D+ ++V+NKP + + V + L + E +HRLD
Sbjct: 17 DITIVYQDDAIVVVNKPAEFLSVPGVHVHDSVLTRLK-------AQFTQAEGVFALHRLD 69
Query: 137 KDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLK 196
TSG +V A + L +Q ++ + + Y+AL+ L E + ++ L + ++R +
Sbjct: 70 MSTSGLLVFALTRRANKQLQKQFISRAVQKRYVALIEGKLSETQGEIQLPLCGDLDDRPR 129
Query: 197 MIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEY---LNRHIIG 253
+ V ++ + + + + ++ QN + TGRTHQ+R H + LN I+G
Sbjct: 130 ----QKVCWQQGKPALTHWETVQVEQNRTR-VYLYPHTGRTHQLRVHCAHHLGLNAPIVG 184
Query: 254 DNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKV 292
D+LYGL ++ R+ LHA + F HP ++Q + F+V
Sbjct: 185 DDLYGL------QDKRLFLHAEQLSFAHPYTKQPMTFQV 217
>ref|NP_102152.1| (NC_002678) ribosomal large subunit pseudouridine synthase C
[Mesorhizobium loti]
dbj|BAB47938.1| (AP002994) ribosomal large subunit pseudouridine synthase C
[Mesorhizobium loti]
Length = 326
Score = 79.0 bits (193), Expect = 7e-14
Identities = 65/210 (30%), Positives = 104/210 (48%), Gaps = 16/210 (7%)
Query: 80 VIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLE-FKNYELSNLGLKERYGIVHRLDKD 138
+I ED + V NKP L V V + D LE ++N + G K R +VHRLD+D
Sbjct: 95 LIHEDPKVFVFNKPAGLAVQGGSGVTR-NVDDMLEAWRNQK----GEKPR--LVHRLDRD 147
Query: 139 TSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLS--TPLKEEKMSVECYLTRNPNNRLK 196
TSG +V+A+ + LSE + + + Y AL+ P +E+K+S +L + P
Sbjct: 148 TSGVLVVARTRLAAMKLSEAFRARETKKTYWALVKGVPPKREDKIST--WLIKEPTEDGD 205
Query: 197 MIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNL 256
+ + A ++ + ++ S + + + + + + +TGRTHQ+R H Y+ IIGD
Sbjct: 206 RVRVAAHGEKGADHAVSYYRIIEQAAQTMTWLEMEPYTGRTHQLRVHAAYIGCPIIGDPK 265
Query: 257 Y---GLNGALPKE-EIRIMLHAYLIEFKHP 282
Y N P + R+ LHA I HP
Sbjct: 266 YFEADTNWDFPGGIQNRLHLHARRIIIPHP 295
>ref|NP_325948.1| (NC_002771) RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE C
(PSEUDOURIDYLATE SYNTHASE) (URACIL HYDROLYASE)
[Mycoplasma pulmonis]
emb|CAC13290.1| (AL445563) RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE C
(PSEUDOURIDYLATE SYNTHASE) (URACIL HYDROLYASE)
[Mycoplasma pulmonis]
Length = 282
Score = 78.2 bits (191), Expect = 1e-13
Identities = 69/224 (30%), Positives = 107/224 (46%), Gaps = 27/224 (12%)
Query: 65 ITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFK---NYELS 121
+ K + K+++ + VIFED+++LV+NK + +H + + ++ +L FK ++ S
Sbjct: 68 VKQKLVFKKIEQKFNVIFEDQNILVINKQAGVSMHSDENSLDKQVLSYLNFKQVDSFVPS 127
Query: 122 NLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKM 181
++G RLDK TSG +V AKN + + LK+ R +S E
Sbjct: 128 SIG---------RLDKVTSGVVVYAKN----YSILKTLKSNEHLRKTYVFMSNITLEPNQ 174
Query: 182 SVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIR 241
+E N K L E+S+ +K +LL N N A+L TGR HQIR
Sbjct: 175 KIEHVFYHKYNPIKKKAELFKENVEESKITK----TLLYKVKNNNY--AELITGRKHQIR 228
Query: 242 AHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSE 285
A L L I GD YG K++ R+ LH+Y I+F + E
Sbjct: 229 ATLSKLGFPIFGDVKYG-----GKKDKRVYLHSYKIKFHSLKGE 267
>ref|NP_246775.1| (NC_002663) RsuA [Pasteurella multocida]
gb|AAK03920.1| (AE006221) RsuA [Pasteurella multocida]
Length = 219
Score = 78.2 bits (191), Expect = 1e-13
Identities = 60/222 (27%), Positives = 106/222 (47%), Gaps = 19/222 (8%)
Query: 75 DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI--- 131
D ++++ D+ +V+NKP L+ ++ +P + Y+ + +KE+YG
Sbjct: 11 DPYLDIVHYDDHFVVINKPSGLL---SVPGNQP--------QYYDSAMSRVKEKYGFCEP 59
Query: 132 VHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNP 191
HRLD TSG I+ A + L Q + + ++Y AL+ L+E++ V L +
Sbjct: 60 AHRLDMSTSGLILFALSKVADRELKRQFREREPKKHYQALVWGHLEEDQGEVNLPLICDW 119
Query: 192 NNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHI 251
NR + + + E+ + + + + L NN + TGR+HQ+R H+ L I
Sbjct: 120 ENRPR----QKICFERGKPALTLYEVLARYPNNTTRVKLTPITGRSHQLRLHMLALGHPI 175
Query: 252 IGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVP 293
+GD Y A R+ LHA + F+HP +++ L F P
Sbjct: 176 LGDKFYAPPQAKALSP-RLCLHAEQLAFRHPITQEWLSFSAP 216
>ref|NP_599568.1| (NC_003450) COG0564:Pseudouridylate synthases, 23S RNA-specific
[Corynebacterium glutamicum]
dbj|BAB97709.1| (AP005274) Pseudouridylate synthases, 23S RNA-specific
[Corynebacterium glutamicum ATCC 13032]
Length = 294
Score = 77.8 bits (190), Expect = 2e-13
Identities = 76/298 (25%), Positives = 131/298 (43%), Gaps = 36/298 (12%)
Query: 12 KRLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITL--------LT 62
+R+D+FL +L+ + + + +++G + ++V L+EGD I + L
Sbjct: 15 RRIDKFLRAQLKGVPASLIFRQMRKGDIRVNGRKVDPN-YRLQEGDRIRMWQMDLLADLP 73
Query: 63 PKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSN 122
P + K + K + V+FED +LLV+NKP + VH +++ L K + +
Sbjct: 74 PPVVDKHIFKAV--ADSVLFEDAELLVINKPAGIPVHGGTG-HGGGVIEALRQKFPQERD 130
Query: 123 LGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKM--MGRYYIALLSTPLKEEK 180
L L VHRLD+DTSG ++++K L E L+ + + R Y+ + +
Sbjct: 131 LEL------VHRLDRDTSGLLLVSKTTSVLRELQEILRDREEEIFRGYLLKVEGAWPGDL 184
Query: 181 MSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQI 240
++ L R V + ++ L+ A+L TGR HQI
Sbjct: 185 RQIDVPLKRTETT---------VVPHSDGLRARTYFEVVKRLPGATLVKAQLATGRKHQI 235
Query: 241 RAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPR-SEQKLRFKVPLLKD 297
R H +Y I+GD YG G +H + E PR + ++ +F PL K+
Sbjct: 236 RVHAQYAGHPIVGDPRYGSRGGR-----AATMHLHAAELVAPRGAGKRQKFTAPLPKE 288
>ref|NP_219609.1| (NC_000117) predicted pseudouridine synthetase family [Chlamydia
trachomatis]
pir||A71557 probable pseudouridine synthetase - Chlamydia trachomatis
(serotype D, strain UW3/Cx)
gb|AAC67697.1| (AE001284) predicted pseudouridine synthetase family [Chlamydia
trachomatis]
Length = 303
Score = 77.4 bits (189), Expect = 2e-13
Identities = 60/210 (28%), Positives = 99/210 (46%), Gaps = 25/210 (11%)
Query: 79 EVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKD 138
++++EDE L + NKP + T D N L VHRLD+D
Sbjct: 70 QLLWEDEHLCIYNKP-----------AKQTSEDLAHQLNVHL-----------VHRLDRD 107
Query: 139 TSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMI 198
TSG I+ AK+ +++ K + + + YIAL+ ++E + Y T R+ +
Sbjct: 108 TSGCILFAKHAKASSLITQLFKNREIDKRYIALVFGQPRQESGIITTY-TAPCYRRIGAV 166
Query: 199 ALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYG 258
+ + + +++ +LT L+ + TGRTHQIR H++ + I+GD YG
Sbjct: 167 LFGNTDQNSGKITITKW-EILTRYPKYTLLLCRPVTGRTHQIRLHMKTIGHPIVGDVDYG 225
Query: 259 LNGALPKEEIRIMLHAYLIEFKHPRSEQKL 288
N PK +R +LHA + F P S +K+
Sbjct: 226 -NQEQPKNVVRTLLHAASLAFISPFSNEKI 254
>ref|NP_232134.1| (NC_002505) ribosomal large subunit pseudouridine synthase A
[Vibrio cholerae]
pir||G82068 ribosomal large subunit pseudouridine synthase A VC2505 [imported]
- Vibrio cholerae (group O1 strain N16961)
gb|AAF95647.1| (AE004320) ribosomal large subunit pseudouridine synthase A [Vibrio
cholerae]
Length = 245
Score = 76.6 bits (187), Expect = 3e-13
Identities = 66/234 (28%), Positives = 109/234 (46%), Gaps = 16/234 (6%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDK 137
I+VI+EDE ++ NKP L+ V+ + W +Y +VHRLD
Sbjct: 14 IDVIYEDEHIIAANKPSGLLSVPGRPVEHYDSM-WARLVDY-------CPDVKVVHRLDM 65
Query: 138 DTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKM 197
TSG I+ AK L +Q + ++ + Y A + +++ + V L + NR K
Sbjct: 66 STSGLILFAKGKHMESALKKQFQYRLTHKIYYARVWGVMEQNEGEVNLPLCCDWPNRPK- 124
Query: 198 IALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLY 257
+ V E+ R S + + ++ + ++ TGR+HQ+R H++ L I+GD+LY
Sbjct: 125 ---QKVCFEEGRDSLTRY-QVVKREEKTTVVRLIPITGRSHQLRVHMQSLGHPIVGDDLY 180
Query: 258 GLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVP--LLKDMLEYLKKVFDKE 309
A+ + R+ LHA + F HPRS VP + E + + FD E
Sbjct: 181 APPEAVEFAD-RLQLHAAELCFYHPRSHWLRTLFVPCDFYPEAEEQILQHFDPE 233
>ref|NP_454707.1| (NC_003198) ribosomal large subunit pseudouridine synthase A
[Salmonella enterica subsp. enterica serovar Typhi]
emb|CAD01251.1| (AL627265) ribosomal large subunit pseudouridine synthase A
[Salmonella enterica subsp. enterica serovar Typhi]
Length = 219
Score = 76.6 bits (187), Expect = 3e-13
Identities = 59/216 (27%), Positives = 101/216 (46%), Gaps = 17/216 (7%)
Query: 80 VIFEDEDLLVLNKPPNLV-VHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKD 138
++++DE ++V+NKP L+ V L + +++ ++ ++Y + VHRLD
Sbjct: 16 ILYQDEHIMVVNKPSGLLSVPGRLEAHKDSIMTRIQ-RDYPQAES--------VHRLDMA 66
Query: 139 TSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALL-STPLKEEKMSVECYLTRNPNNRLKM 197
TSG IV+A L Q + + + Y+A + P E + + PN +
Sbjct: 67 TSGVIVVALTKAAERELKRQFREREPKKQYVARVWGHPSPAEGLVDLPLICDWPNRPKQK 126
Query: 198 IALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLY 257
+ + K ++ Y+ EF + +N + K TGR+HQ+R H+ L I+GD Y
Sbjct: 127 VCYETGKPAQTEYNVVEFAA-----DNTARVVLKPITGRSHQLRVHMLALGHPILGDQFY 181
Query: 258 GLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVP 293
AL R+ LHA ++ HP + FKVP
Sbjct: 182 ASPEALSLAP-RLQLHAEMLTITHPAYGNSMTFKVP 216
>ref|NP_459100.1| (NC_003197) 23S rRNA pseudouridylate 746 synthase [Salmonella
typhimurium LT2]
gb|AAL19059.1| (AE008698) 23S rRNA pseudouridylate 746 synthase [Salmonella
typhimurium LT2]
Length = 219
Score = 76.6 bits (187), Expect = 3e-13
Identities = 59/216 (27%), Positives = 101/216 (46%), Gaps = 17/216 (7%)
Query: 80 VIFEDEDLLVLNKPPNLV-VHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKD 138
++++DE ++V+NKP L+ V L + +++ ++ ++Y + VHRLD
Sbjct: 16 ILYQDEHIMVVNKPSGLLSVPGRLEAHKDSIMTRIQ-RDYPQAES--------VHRLDMA 66
Query: 139 TSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALL-STPLKEEKMSVECYLTRNPNNRLKM 197
TSG IV+A L Q + + + Y+A + P E + + PN +
Sbjct: 67 TSGVIVVALTKAAERELKRQFREREPKKQYVARVWGHPSPAEGLVDLPLICDWPNRPKQK 126
Query: 198 IALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLY 257
+ + K ++ Y+ EF + +N + K TGR+HQ+R H+ L I+GD Y
Sbjct: 127 VCYETGKPAQTEYNVVEFAA-----DNTARVVLKPITGRSHQLRVHMLALGHPILGDRFY 181
Query: 258 GLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVP 293
AL R+ LHA ++ HP + FKVP
Sbjct: 182 ASPEALSLAP-RLQLHAEMLTITHPAYGNSMTFKVP 216
>ref|NP_230535.1| (NC_002505) pseudouridine synthase Rlu family protein [Vibrio
cholerae]
pir||G82266 pseudouridine synthase Rlu family protein VC0888 [imported] -
Vibrio cholerae (group O1 strain N16961)
gb|AAF94050.1| (AE004173) pseudouridine synthase Rlu family protein [Vibrio
cholerae]
Length = 244
Score = 75.1 bits (183), Expect = 1e-12
Identities = 61/237 (25%), Positives = 112/237 (46%), Gaps = 35/237 (14%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI----VH 133
+E++++DE L+ +NKP ++VH++ WL+ E L+++ G +H
Sbjct: 2 LEIVYQDEYLVAVNKPAGMLVHRS----------WLDKHETEFVMQTLRDQIGQHVFPLH 51
Query: 134 RLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIAL----------LSTPLKEEKMSV 183
RLD+ TSG +V A ++ + M + Y A+ L PLKEE +
Sbjct: 52 RLDRPTSGVLVFALSSQIASEVMPMFANHEMEKTYHAIVRGWIEEANVLDYPLKEELDKI 111
Query: 184 -ECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRA 242
+ + ++ + + A + + K + + +F + L+ + TGR HQ+R
Sbjct: 112 ADKFAKQDKEAQSAVTAYRPLAKVELPIATGKFAT-----TRYCLMEMQPKTGRKHQLRR 166
Query: 243 HLEYLNRHIIGDNLY--GLNGALPKEEI---RIMLHAYLIEFKHPRSEQKLRFKVPL 294
H+ +L I+GD + G++ L +E R+MLHA + F HP ++Q L + L
Sbjct: 167 HMAHLRHPIVGDTTHGDGVHNRLFREHFSAQRLMLHASELRFMHPYTQQPLVIRAGL 223
>ref|NP_539900.1| (NC_003317) RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE C
[Brucella melitensis]
gb|AAL52164.1| (AE009538) RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE C
[Brucella melitensis]
Length = 343
Score = 74.3 bits (181), Expect = 2e-12
Identities = 67/260 (25%), Positives = 118/260 (44%), Gaps = 21/260 (8%)
Query: 65 ITPKPLKKELDLEI---EVIFEDEDLLVLNKPPNLVVHKALSVK---EPTLVDWLEFKNY 118
+T K ++ + D ++ +++ED + V NKP L V V + L W K
Sbjct: 94 MTAKTIRNQQDGDVLSQMLLYEDPKIFVFNKPAGLAVQGGSGVTRHIDGMLEAWRSKKG- 152
Query: 119 ELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKE 178
E+ +VHR+D+DTSG +V+A+ L+ + + + Y AL+ ++
Sbjct: 153 --------EKPRLVHRIDRDTSGVLVVARTRGAAQALTASFRERDTKKTYWALVKGVPRK 204
Query: 179 EKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTH 238
+ + +L + + + + S ++ S + + + NNL + + +TGRTH
Sbjct: 205 REDKISTWLVKEQTPDGDKMRVCQHGEPDSDHAVSYYRIIEKAGNNLAWLEMEPYTGRTH 264
Query: 239 QIRAHLEYLNRHIIGDNLY---GLNGALPKE-EIRIMLHAYLIEFKHPRSEQKLRFKVPL 294
Q+R H Y+ IIGD Y N P + R+ LHA I +P S + PL
Sbjct: 265 QLRVHAAYIGHPIIGDPKYFEADQNWEFPGGIQKRLHLHARRIRIPNP-SGGIIDVTAPL 323
Query: 295 LKDMLEYLKKV-FDKENLDE 313
M++ + FD+EN +E
Sbjct: 324 PPHMVQSWNLLGFDEENAEE 343
>sp|O66114|YLP4_ZYMMO Hypothetical 24.4 kDa protein in LPD 3'region (ORF4)
emb|CAA63803.1| (X93605) hypothetical protein [Zymomonas mobilis]
Length = 219
Score = 73.9 bits (180), Expect = 2e-12
Identities = 67/224 (29%), Positives = 114/224 (49%), Gaps = 26/224 (11%)
Query: 80 VIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSN-LGLKERYGIVHRLDKD 138
V+F D + ++++KP L V SV++ +L +NY S G K IVHRLD+D
Sbjct: 8 VLFIDAEAMIIDKPAGLPV---TSVRDGSL----SLENYLASLCFGFKRWPSIVHRLDRD 60
Query: 139 TSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTR--NPNNRLK 196
TSG +++A+N H LSE + + Y A+L ++ + +++ L + +P + +
Sbjct: 61 TSGCLLLARNPKMHRRLSEAFSQGQVKKCYWAILEGVPEKNEGTIDLPLLKISSPKSGWR 120
Query: 197 MIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEY-LNRHIIGDN 255
++A K+ + + +L +L+ + TGRTHQ+R H L I+GD
Sbjct: 121 IVADDKGKRAVTHW------EILAKNKGRSLVAFRPETGRTHQLRVHAATGLGLPIVGDP 174
Query: 256 LYGLNGALPKEE--IRIMLHAYLIEFKHPRSEQK-LRFKVPLLK 296
Y + K+E R+MLHA+ +E R E+K + + PL K
Sbjct: 175 FYSSH----KDENISRMMLHAHSLEI--ARLEKKPIAAEAPLPK 212
>ref|NP_110237.1| (NC_000912) pseudouridine synthase [Mycoplasma pneumoniae]
sp|P75230|Y370_MYCPN Hypothetical protein MG370 homolog (G12_orf326)
pir||S73620 hypothetical protein G12_orf326 - Mycoplasma pneumoniae (strain
ATCC 29342)
gb|AAB95942.1| (AE000027) pseudouridine synthase [Mycoplasma pneumoniae]
Length = 326
Score = 73.6 bits (179), Expect = 3e-12
Identities = 69/268 (25%), Positives = 128/268 (47%), Gaps = 30/268 (11%)
Query: 10 DHKRLDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPK 68
++ R+++F K L I +Q L++ G V + K G + GD I + +
Sbjct: 13 ENVRIEKFCLKLLPNIKLSQFFKLLRLGKVLLNNTKAKLGQ-RVSSGDTIVF---QFAIE 68
Query: 69 PL----KKELDL-----EIEVIFEDEDLLVLNKPPNLVV-----HKALSVKEPTLVDWLE 114
P + +DL +++VIFEDE L+V++KP +V H+ ++ +L+
Sbjct: 69 PYLHNHSEVVDLTQVQDDLQVIFEDEQLIVVDKPAGVVCQPDAKHELFNLAN-SLLKHCG 127
Query: 115 FKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLST 174
+ Y ++L R+ HR+D++T G ++ AK N L + ++ + Y L+
Sbjct: 128 YNQYFKNSLSFIPRFA--HRIDRNTCGLVIGAKTNQALQELEAVFRHNLLMKQYQGLVFG 185
Query: 175 PLKEEKMSVECYLTRNPNNRLKMIALKAVKKEK---SRYSKSEFISLLTSQNNLNLIGAK 231
P K + + Y ++ L + K K + + S++++ L +L+L+ +
Sbjct: 186 PFNF-KGTQKAYWAKDAYQALVTVKAKPFPNAKPITTIFENSKYLTKL----DLSLLTIR 240
Query: 232 LFTGRTHQIRAHLEYLNRHIIGDNLYGL 259
L +G+THQIRA L LN ++GD Y L
Sbjct: 241 LVSGKTHQIRACLNLLNTQLVGDRKYQL 268
>sp|Q47417|YQCB_ERWCA Exoenzyme regulation regulon ORF1
pir||S45107 hypothetical protein 1 - Erwinia carotovora
emb|CAA55982.1| (X79474) ORF1 [Pectobacterium carotovorum]
Length = 376
Score = 72.8 bits (177), Expect = 5e-12
Identities = 64/231 (27%), Positives = 117/231 (49%), Gaps = 35/231 (15%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG----IVH 133
+E+I++DE L+ +NKP +VH++ WL+ K + ++++ G VH
Sbjct: 116 LEIIYQDEHLVAVNKPSGWLVHRS----------WLDRKEKVVVMQTVRDQIGQHVYTVH 165
Query: 134 RLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNN 193
RLD+ TSG +++A ++ LS+Q ++ M + Y A++ + ++ + ++ LT
Sbjct: 166 RLDRPTSGVLLLALSSEVARALSQQFESHQMQKTYHAVVRGYVLDDGV-IDYALTEE--- 221
Query: 194 RLKMIALKAVKKEKS-RYSKSEFISLLTSQNNL----------NLIGAKLFTGRTHQIRA 242
L IA K +K+ + + + + SL ++ + +L+ K TGR HQ+R
Sbjct: 222 -LDKIADKFTNPDKAPQPAVTHYRSLAQAEMPVAIGRYPTARYSLMELKPQTGRKHQLRR 280
Query: 243 HLEYLNRHIIGDNLYG-LNGALPKEEI----RIMLHAYLIEFKHPRSEQKL 288
H+ +++ IIGD +G L E R+MLHA ++ HP S Q L
Sbjct: 281 HMSHIHHPIIGDTAHGDLRHNRGMESHFSCGRLMLHASELQLNHPVSGQPL 331
>ref|NP_635620.1| (NC_003902) pseudouridylate synthase [Xanthomonas campestris pv.
campestris str. ATCC 33913]
gb|AAM39544.1| (AE012118) pseudouridylate synthase [Xanthomonas campestris pv.
campestris str. ATCC 33913]
Length = 245
Score = 72.4 bits (176), Expect = 7e-12
Identities = 62/223 (27%), Positives = 109/223 (48%), Gaps = 16/223 (7%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVH--KALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRL 135
++++++D L V++KP L+VH K ++ L D L + L +VHRL
Sbjct: 8 LQILYQDAVLAVVDKPAGLMVHDSKLARGEDDFLADRLRVQ--------LGRPIFLVHRL 59
Query: 136 DKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRL 195
D+ TSG +++A + T L + L + + Y+A+ EE+ V+ L P +
Sbjct: 60 DRATSGCLLLAFDRDTASALGKALMAGEVEKDYLAICRGWPAEERFIVDHDLDGGPGKPI 119
Query: 196 KMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDN 255
K A+ ++ + + E S + + L+ + TGR QIR HL++L+ H+IGD
Sbjct: 120 KKPAVTHFQRLAT--GELEIPSTGFATSRYALLRCQPQTGRFRQIRRHLKHLSHHMIGDT 177
Query: 256 LYG---LNGALPKEEI-RIMLHAYLIEFKHPRSEQKLRFKVPL 294
+G N + I R++LHA + F HP +++ PL
Sbjct: 178 SHGDGRHNRSFRMLGIHRMLLHAERLGFPHPADGRRISVVAPL 220
>ref|NP_281880.1| (NC_002163) putative ribosomal pseudouridine synthase
[Campylobacter jejuni]
pir||G81341 pseudouridylate synthase (EC 4.2.1.70) rRNA-specific Cj0708
[imported] - Campylobacter jejuni (strain NCTC 11168)
emb|CAB72982.1| (AL139076) putative ribosomal pseudouridine synthase [Campylobacter
jejuni]
Length = 250
Score = 72.0 bits (175), Expect = 9e-12
Identities = 67/263 (25%), Positives = 110/263 (41%), Gaps = 45/263 (17%)
Query: 16 EFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKKELD 75
+ LA + +IS + +LI +G VF K+V + + ++ K
Sbjct: 7 KLLALQEKISNREAKDLIDKGCVFSYGKKVVVARALMSDKARFNVIKAK----------- 55
Query: 76 LEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRL 135
++IFED+ ++ +NKP Y +L K +++RL
Sbjct: 56 -NPQIIFEDDKIIAINKP----------------------YAYVSEDLEKKFNAKLLNRL 92
Query: 136 DKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRL 195
DK+TSG I++ K+ E+ K + + YIA+L L EE VE P +
Sbjct: 93 DKETSGVILLCKDEDFRKLCIEEFKKHRVYKSYIAVLDGVLAEE---VE---VNEPIFTI 146
Query: 196 KMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDN 255
K+ K K S I+ + Q+ L + TGRTHQIR H +++ ++GD
Sbjct: 147 KVKGGALSKVSKDGLSALSIITPIMMQSKKTLAKIVIQTGRTHQIRVHAKFIKHGVVGDE 206
Query: 256 LYGLNGALPKEEIRIMLHAYLIE 278
Y R+ LH+Y I+
Sbjct: 207 KYA-----KISSDRMYLHSYEIK 224
>ref|NP_640600.1| (NC_003919) pseudouridylate synthase [Xanthomonas axonopodis pv.
citri str. 306]
gb|AAM35136.1| (AE011649) pseudouridylate synthase [Xanthomonas axonopodis pv.
citri str. 306]
Length = 244
Score = 71.6 bits (174), Expect = 1e-11
Identities = 59/225 (26%), Positives = 113/225 (50%), Gaps = 20/225 (8%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG----IVH 133
++++++D+ L V++KP L+VH + + D+L + L+E+ G +VH
Sbjct: 8 LQILYQDDVLAVVDKPAGLMVHDSKLARGED--DFLADR--------LREQLGKPIFLVH 57
Query: 134 RLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNN 193
RLD+ TSG +++A + + L + L + + Y+ + EE+ V+ L P
Sbjct: 58 RLDRATSGCLLLAFDRDSASALGKALMAGEVEKQYLTVCRGWPAEERFIVDHDLDGGPGK 117
Query: 194 RLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIG 253
+K A+ ++ + + E S + + L+ + TGR QIR H+++L+ H++G
Sbjct: 118 PVKKPAVTHFQRLAT--GELEIPSTGFTTSRYALLRCQPQTGRFRQIRRHMKHLSHHMVG 175
Query: 254 DNLYG---LNGALPKEEI-RIMLHAYLIEFKHPRSEQKLRFKVPL 294
D +G N + I R++LHA +EF HP +++ PL
Sbjct: 176 DTSHGDGRHNRSFRMLGIHRMLLHAERLEFPHPADGRRIGVTAPL 220
>ref|NP_438215.1| (NC_000907) conserved hypothetical protein [Haemophilus influenzae
Rd]
sp|P43930|Y042_HAEIN Hypothetical protein HI0042
pir||B64000 hypothetical protein HI0042 - Haemophilus influenzae (strain Rd
KW20)
gb|AAC21720.1| (U32689) conserved hypothetical protein [Haemophilus influenzae Rd]
Length = 224
Score = 71.6 bits (174), Expect = 1e-11
Identities = 61/207 (29%), Positives = 101/207 (48%), Gaps = 21/207 (10%)
Query: 76 LEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRL 135
+EIEV+++ D +++NK + VHK +E L + L K + + L VHRL
Sbjct: 1 MEIEVVYQHSDFIIINKSEGISVHK--DQEEQGLTE-LVAKQLNVPKVWL------VHRL 51
Query: 136 DKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRL 195
DK TSG +++A N + S + + Y+AL + K+++ + + +
Sbjct: 52 DKVTSGLLILALNAESAAEFSRLFSEHKIHKTYLALSNQKPKKKQGLIIGDMKKAREGAW 111
Query: 196 KMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDN 255
K+ K + ++ E +S + NL L K TG+THQ+R ++ L I+GD
Sbjct: 112 KLCQTK----DNPAITRFESVSC---EPNLRLFILKPQTGKTHQLRVAMKSLGSPILGDG 164
Query: 256 LYGLNGALPKEEI-RIMLHAYLIEFKH 281
LYG N E+I R LHA +EF +
Sbjct: 165 LYGKN----TEKIDRTYLHATQLEFDY 187
>ref|NP_440308.1| (NC_000911) hypothetical protein [Synechocystis sp. PCC 6803]
sp|P72970|YF92_SYNY3 Hypothetical protein slr1592
pir||S74948 hypothetical protein slr1592 - Synechocystis sp. (strain PCC 6803)
dbj|BAA16988.1| (D90902) ORF_ID:slr1592~hypothetical protein [Synechocystis sp. PCC
6803]
Length = 291
Score = 70.1 bits (170), Expect = 3e-11
Identities = 60/238 (25%), Positives = 105/238 (43%), Gaps = 21/238 (8%)
Query: 70 LKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERY 129
++ E+ L++ V+ DEDL ++KP L V T+++ L+ + + S L
Sbjct: 53 VEPEVPLQLSVLHRDEDLWAIDKPSGLPVLPGGDFVYHTVLEQLKIQYPQESLFPL---- 108
Query: 130 GIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTR 189
HRL TSG +++ ++ LS Q + + + Y ++ EK + +
Sbjct: 109 ---HRLGTGTSGLLLLGRSTLGRRELSRQFREHICRKIYRTVIGPCDLPEKFECHQAIGK 165
Query: 190 NPNNRLKMI-ALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLN 248
P +L I A + K Y + +L + ++ TGR HQIR HL L
Sbjct: 166 IPYPQLGYIYAASSHGKPAQSYGR-----ILARSPEKTWLEVEIRTGRPHQIRIHLASLG 220
Query: 249 RHIIGDNLYGLNG-------ALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDML 299
++GD LYG G A P + LH+Y + F H ++Q ++ PL +++
Sbjct: 221 YPLLGDRLYGPGGVPINCRTARPSDG-GYTLHSYQLGFLHLHTQQAIKLTAPLPPELI 277
>ref|NP_414600.1| (NC_000913) pseudouridylate synthase; orf, hypothetical protein
[Escherichia coli K12]
sp|P39219|RLUA_ECOLI Ribosomal large subunit pseudouridine synthase A (Pseudouridylate
synthase) (Uracil hydrolyase)
pir||B64727 yabO protein - Escherichia coli
gb|AAC73169.1| (AE000116) pseudouridylate synthase [Escherichia coli K12]
Length = 219
Score = 70.1 bits (170), Expect = 3e-11
Identities = 55/216 (25%), Positives = 99/216 (45%), Gaps = 17/216 (7%)
Query: 80 VIFEDEDLLVLNKPPNLV-VHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKD 138
++++D+ ++V+NKP L+ V L + +++ ++ ++Y + VHRLD
Sbjct: 16 ILYQDDHIMVVNKPSGLLSVPGRLEEHKDSVMTRIQ-RDYPQAES--------VHRLDMA 66
Query: 139 TSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALL-STPLKEEKMSVECYLTRNPNNRLKM 197
TSG IV+A L Q + + + Y+A + P E + + PN +
Sbjct: 67 TSGVIVVALTKAAERELKRQFREREPKKQYVARVWGHPSPAEGLVDLPLICDWPNRPKQK 126
Query: 198 IALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLY 257
+ + K ++ Y E+ + +N + K TGR+HQ+R H+ L I+GD Y
Sbjct: 127 VCYETGKPAQTEYEVVEYAA-----DNTARVVLKPITGRSHQLRVHMLALGHPILGDRFY 181
Query: 258 GLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVP 293
A R++LHA ++ HP + FK P
Sbjct: 182 ASPEARAMAP-RLLLHAEMLTITHPAYGNSMTFKAP 216
>ref|NP_285754.1| (NC_002655) orf, hypothetical protein [Escherichia coli O157:H7
EDL933]
ref|NP_308089.1| (NC_002695) hypothetical protein [Escherichia coli O157:H7]
gb|AAG54362.1|AE005182_11 (AE005182) orf, hypothetical protein [Escherichia coli O157:H7
EDL933]
dbj|BAB33485.1| (AP002550) hypothetical protein [Escherichia coli O157:H7]
Length = 219
Score = 69.7 bits (169), Expect = 4e-11
Identities = 54/216 (25%), Positives = 99/216 (45%), Gaps = 17/216 (7%)
Query: 80 VIFEDEDLLVLNKPPNLV-VHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKD 138
++++D+ ++V+NKP L+ V L + +++ ++ ++Y + VHRLD
Sbjct: 16 ILYQDDHIMVVNKPSGLLSVPGRLEEHKDSVMTRIQ-RDYPQAES--------VHRLDMA 66
Query: 139 TSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALL-STPLKEEKMSVECYLTRNPNNRLKM 197
TSG IV+A L Q + ++ + Y+ + P E + + PN +
Sbjct: 67 TSGVIVVALTKAAERELKRQFRERVPKKQYVTRVWGHPSPAEGLVDLPLICDWPNRPKQK 126
Query: 198 IALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLY 257
+ + K ++ Y E+ + +N + K TGR+HQ+R H+ L I+GD Y
Sbjct: 127 VCYETGKPAQTEYEVVEYAA-----DNTARVVLKPITGRSHQLRVHMLALGHPILGDRFY 181
Query: 258 GLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVP 293
A R++LHA ++ HP + FK P
Sbjct: 182 ASPEARAMAP-RLLLHAEMLTITHPAYGNSMTFKAP 216
>ref|NP_478072.1| (NM_058192) ribosomal large subunit pseudouridine synthase C like
[Homo sapiens]
emb|CAB53055.1| (AL031033) C321D2.1 (Ribosomal Large Subunit Pseudouridine Synthase
(EC 4.2.1.70, Pseudouridylate Synthase, Uracil
Hydrolase) LIKE protein) [Homo sapiens]
gb|AAK61255.1|AE006465_1 (AE006465) ribosomal large subunit pseudouridine synthase C like
[Homo sapiens]
gb|AAH11783.1|AAH11783 (BC011783) Unknown (protein for MGC:19600) [Homo sapiens]
Length = 312
Score = 69.7 bits (169), Expect = 4e-11
Identities = 50/205 (24%), Positives = 97/205 (46%), Gaps = 5/205 (2%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDK 137
+ +++ D LV+NK ++ + + TL L ++ EL++ + H+LD
Sbjct: 9 LSIVYRSRDFLVVNKHWDVRIDSKAWRETLTLQKQLRYRFPELADPDTCYGFRFCHQLDF 68
Query: 138 DTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNN-RLK 196
TSG + +A N K + + + Y+ALL ++E ++++ + RN R
Sbjct: 69 STSGALCVALNKAAAGSAYRCFKERRVTKAYLALLRGHIQESRVTISHAIGRNSTEGRAH 128
Query: 197 MIALKAVKK-EKSRYSKSEFISL---LTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHII 252
+ ++ + E + S ++ + L L + + ++ + K TGRTHQ+R H L ++
Sbjct: 129 TMCIEGSQGCENPKPSLTDLVVLEHGLYAGDPVSKVLLKPLTGRTHQLRVHCSALGHPVV 188
Query: 253 GDNLYGLNGALPKEEIRIMLHAYLI 277
GD YG R+MLHA+ +
Sbjct: 189 GDLTYGEVSGREDRPFRMMLHAFYL 213
>ref|NP_245416.1| (NC_002663) unknown [Pasteurella multocida]
gb|AAK02563.1| (AE006084) unknown [Pasteurella multocida]
Length = 243
Score = 69.3 bits (168), Expect = 6e-11
Identities = 63/252 (25%), Positives = 121/252 (48%), Gaps = 36/252 (14%)
Query: 76 LEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI---- 131
+ +E++++D L+ +NKP ++VH++ WL+ + L+++ G
Sbjct: 1 MTLEILYQDPYLIAVNKPAGMLVHRS----------WLDRHETQFVMQTLRDQIGQHVYP 50
Query: 132 VHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNP 191
+HRLD+ TSG ++ A ++ L Q + K + + Y+A++ L E +
Sbjct: 51 IHRLDRPTSGVLLFALSSEVANLLCLQFENKQVQKSYLAIVRGYLVGEGR-----IDYPL 105
Query: 192 NNRLKMIALKAVKKEKS-RYSKSEFISLLTSQ----------NNLNLIGAKLFTGRTHQI 240
+L IA K + +K+ + + ++++ L + +L+ TGR HQ+
Sbjct: 106 KVQLDKIADKFAQDDKAPQEAVTDYLGLAKVEMPYCVKKYPTTRYSLVRLIPHTGRKHQL 165
Query: 241 RAHLEYLNRHIIGDNLYG---LNGALPKEE--IRIMLHAYLIEFKHPRSEQKLRFKVPLL 295
R H+++L I+GD YG N AL R+MLHA + F HP ++Q++ +
Sbjct: 166 RRHMKHLFHPILGDTQYGDLHQNRALTTHTGVQRLMLHAERLIFTHPITQQQITICAGVD 225
Query: 296 KDMLEYLKKVFD 307
+ L+ L +FD
Sbjct: 226 QQWLD-LINIFD 236
>ref|NP_438775.1| (NC_000907) conserved hypothetical protein [Haemophilus influenzae
Rd]
sp|P44782|RLUA_HAEIN Ribosomal large subunit pseudouridine synthase A (Pseudouridylate
synthase) (Uracil hydrolyase)
pir||E64155 yabO protein homolog HI0617 - Haemophilus influenzae (strain Rd
KW20)
gb|AAC22276.1| (U32744) conserved hypothetical protein [Haemophilus influenzae Rd]
Length = 219
Score = 68.9 bits (167), Expect = 7e-11
Identities = 59/227 (25%), Positives = 102/227 (43%), Gaps = 33/227 (14%)
Query: 74 LDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI-- 131
L+ +++I++D L V+NKP L+ ++ +P + Y+ + +KE++G
Sbjct: 10 LEPYLDIIYQDNHLCVVNKPSGLL---SVPGNQP--------QYYDSAMSRVKEKFGFCE 58
Query: 132 -VHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIAL----LSTPLKEEKMSVECY 186
HRLD TSG IV A + L Q + + ++Y A+ L E + + C
Sbjct: 59 PAHRLDMATSGIIVFALSKAADRELKRQFREREPKKHYQAIVWGHLENDYGEVNLPMICD 118
Query: 187 LTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEY 246
P RL + K + ++F L NN + TGR+HQ+R H+
Sbjct: 119 WENRPRQRLDFVLGKR--------AVTKFEVLARLPNNSTRVKLTPVTGRSHQLRLHMLA 170
Query: 247 LNRHIIGDNLYGLNGALPKEEI---RIMLHAYLIEFKHPRSEQKLRF 290
L I+GD Y + P+ ++ R+ LHA + HP + + + F
Sbjct: 171 LGHPILGDKFY----SHPQAKVMSPRLCLHAEELTITHPITGETMTF 213
>ref|XP_128468.1| (XM_128468) RIKEN cDNA 2310051D06 gene [Mus musculus]
gb|AAH18186.1|AAH18186 (BC018186) Unknown (protein for MGC:25610) [Mus musculus]
Length = 306
Score = 68.9 bits (167), Expect = 7e-11
Identities = 52/205 (25%), Positives = 97/205 (46%), Gaps = 5/205 (2%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDK 137
+ ++++ D LV+NK +L + + TL L EL++ + H+LD
Sbjct: 9 LSIVYQSSDFLVVNKHWDLRIDSKTWRETLTLQKQLRHHFPELADPDTCYGFRFCHQLDF 68
Query: 138 DTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNN-RLK 196
TSG + +A N + K + + + Y+AL+ ++E ++++ + RN R
Sbjct: 69 STSGALCVALNKAAAGSAYKCFKERRVTKAYLALVRGHVQESQVTINYAIGRNSTEGRTH 128
Query: 197 MIALKAVKK-EKSRYSKSEFISL---LTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHII 252
+ ++ E + S +E + L L + + ++ + K TGRTHQ+R H L I+
Sbjct: 129 TMCIEGTHGCENPKPSLTELLVLEHGLYAGDPVSKVLLKPLTGRTHQLRVHCSALGHPIV 188
Query: 253 GDNLYGLNGALPKEEIRIMLHAYLI 277
GD YG + R+MLHA+ +
Sbjct: 189 GDLTYGQAEDQEDQPFRMMLHAFYL 213
>ref|XP_031554.2| (XM_031554) similar to CG6187 gene product [Homo sapiens]
dbj|BAB71059.1| (AK055971) unnamed protein product [Homo sapiens]
Length = 545
Score = 68.6 bits (166), Expect = 1e-10
Identities = 59/244 (24%), Positives = 116/244 (47%), Gaps = 30/244 (12%)
Query: 33 IKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNK 92
++ G + +K V+ + LK+ D + + P P+ E I ++ E+ED++V++K
Sbjct: 182 VRAGRLQLNEKPVQDLNIVLKDNDFLRNTVHRHEP-PVTAE---PIRLLAENEDVVVVDK 237
Query: 93 PPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTH 152
P ++ VH + T++ ++ K ++L L +HRLD+ TSG ++ AK
Sbjct: 238 PSSIPVHPCGRFRHNTVI-FILGKEHQLKELHP------LHRLDRLTSGVLMFAKTAAVS 290
Query: 153 VHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKA-VKKEKSRYS 211
+ EQ++ + + + Y+ + E+++ + + +++ K V + R
Sbjct: 291 ERIHEQVRDRQLEKEYVCRVEGEFPTEEVTCK--------EPILVVSYKVGVCRVDPRGK 342
Query: 212 KSEFISLLTSQNNLN-LIGAKLFTGRTHQIRAHLEYLNRHIIGDNLY---------GLNG 261
E + S N + ++ + TGRTHQIR HL++L I+ D +Y G G
Sbjct: 343 PCETVFQRLSYNGQSSVVRCRPLTGRTHQIRVHLQFLGHPILNDPIYNSVAWGPSRGRGG 402
Query: 262 ALPK 265
+PK
Sbjct: 403 YIPK 406
>ref|NP_372374.1| (NC_002758) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus Mu50]
ref|NP_374957.1| (NC_002745) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus N315]
ref|NP_646608.1| (NC_003923) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus MW2]
dbj|BAB42936.1| (AP003135) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus N315]
dbj|BAB58012.1| (AP003363) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus Mu50]
dbj|BAB95656.1| (AP004828) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus MW2]
Length = 273
Score = 68.6 bits (166), Expect = 1e-10
Identities = 55/208 (26%), Positives = 99/208 (47%), Gaps = 17/208 (8%)
Query: 79 EVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKD 138
++ +ED+D+ ++ KP + H + TL+ N+ + + + +HRLD++
Sbjct: 75 QIKYEDDDMAIVMKPKGVKTHPNDLKESNTLM------NHVIYTID-SDYVEPIHRLDQE 127
Query: 139 TSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMI 198
T G +++AKN L L+ + R Y A + L + +++ + ++ + K
Sbjct: 128 TVGLLIVAKNPLMKKILDRMLEDNDITRIYKANVKALLPLKPQTIDMPIGKDKFHSNKRR 187
Query: 199 ALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYG 258
++ + S+ I Q + KL TGRTHQIR HL + +IGD LYG
Sbjct: 188 VSPTGQRAITHILTSKMIKEAVCQLEI-----KLDTGRTHQIRVHLAEIGHPVIGDPLYG 242
Query: 259 LNGALPKEEIRIMLHAYLIEFKHPRSEQ 286
+ L + E L +Y IEF HP +++
Sbjct: 243 -DSTLRQLE----LESYKIEFVHPLTKE 265
>gb|AAH07697.1|AAH07697 (BC007697) Unknown (protein for IMAGE:3953315) [Homo sapiens]
Length = 554
Score = 68.6 bits (166), Expect = 1e-10
Identities = 59/244 (24%), Positives = 116/244 (47%), Gaps = 30/244 (12%)
Query: 33 IKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNK 92
++ G + +K V+ + LK+ D + + P P+ E I ++ E+ED++V++K
Sbjct: 191 VRAGRLQLNEKPVQDLNIVLKDNDFLRNTVHRHEP-PVTAE---PIRLLAENEDVVVVDK 246
Query: 93 PPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTH 152
P ++ VH + T++ ++ K ++L L +HRLD+ TSG ++ AK
Sbjct: 247 PSSIPVHPCGRFRHNTVI-FILGKEHQLKELHP------LHRLDRLTSGVLMFAKTAAVS 299
Query: 153 VHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKA-VKKEKSRYS 211
+ EQ++ + + + Y+ + E+++ + + +++ K V + R
Sbjct: 300 ERIHEQVRDRQLEKEYVCRVEGEFPTEEVTCK--------EPILVVSYKVGVCRVDPRGK 351
Query: 212 KSEFISLLTSQNNLN-LIGAKLFTGRTHQIRAHLEYLNRHIIGDNLY---------GLNG 261
E + S N + ++ + TGRTHQIR HL++L I+ D +Y G G
Sbjct: 352 PCETVFQRLSYNGQSSVVRCRPLTGRTHQIRVHLQFLGHPILNDPIYNSVAWGPSRGRGG 411
Query: 262 ALPK 265
+PK
Sbjct: 412 YIPK 415
>ref|NP_275010.1| (NC_003112) conserved hypothetical protein [Neisseria meningitidis
MC58]
pir||E81014 conserved hypothetical protein NMB2018 [imported] - Neisseria
meningitidis (group B strain MD58)
gb|AAF42341.1| (AE002552) conserved hypothetical protein [Neisseria meningitidis
MC58]
Length = 220
Score = 68.2 bits (165), Expect = 1e-10
Identities = 62/240 (25%), Positives = 113/240 (46%), Gaps = 31/240 (12%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDK 137
+E++F +D + +NKP + VH+ E L L + LG+ ER ++HRLDK
Sbjct: 4 LEILFRHQDFVAINKPGGISVHQDSG--ETGLARTLAIQ------LGV-ERVWLLHRLDK 54
Query: 138 DTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKM 197
TSG ++ A N + LS Q K + + Y+AL +++ ++ + ++ K+
Sbjct: 55 QTSGILLFALNKESASALSGQFAGKSIKKTYLALSDRKPSKKQGWIKGGMEKSRCGMWKL 114
Query: 198 IALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLY 257
+ + + F S+ ++ L L + TG+THQ+R ++ L I+GD+LY
Sbjct: 115 ------TRNTENIAVTRFHSISIAE-KLRLFILEPHTGKTHQLRVAMKSLGSPILGDSLY 167
Query: 258 GLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKKVFDKENLDEVLDE 317
G E + L+A+ I+F + +++ P LK + EN+ L+E
Sbjct: 168 G-----GTESETMFLYAWKIQFDY--QNRQIEIVAP--------LKNEWQTENIHRALEE 212
>ref|NP_283249.1| (NC_003116) putative psedouridine synthase [Neisseria meningitidis
Z2491]
pir||A81959 probable psedouridine synthase NMA0422 [imported] - Neisseria
meningitidis (group A strain Z2491)
emb|CAB83721.1| (AL162753) putative psedouridine synthase [Neisseria meningitidis
Z2491]
Length = 220
Score = 68.2 bits (165), Expect = 1e-10
Identities = 62/240 (25%), Positives = 113/240 (46%), Gaps = 31/240 (12%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDK 137
+E++F +D + +NKP + VH+ E L L + LG+ ER ++HRLDK
Sbjct: 4 LEILFRHQDFVAINKPGGISVHQDSG--ETRLARTLAIQ------LGV-ERVWLLHRLDK 54
Query: 138 DTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKM 197
TSG ++ A N + LS Q K + + Y+AL +++ ++ + ++ K+
Sbjct: 55 QTSGILLFALNRESASALSGQFVGKSIKKTYLALSDRKPSKKQGWIKGGMEKSRCGMWKL 114
Query: 198 IALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLY 257
+ + + F S+ ++ L L + TG+THQ+R ++ L I+GD+LY
Sbjct: 115 ------TRNTENIAVTRFHSISIAE-KLRLFILEPHTGKTHQLRVAMKSLGSPILGDSLY 167
Query: 258 GLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKKVFDKENLDEVLDE 317
G E + L+A+ I+F + +++ P LK + EN+ L+E
Sbjct: 168 G-----GTESETMFLYAWKIQFDY--QNRQIEIVAP--------LKNEWQTENIHRALEE 212
>ref|NP_295407.1| (NC_001263) pseudouridine synthase, putative [Deinococcus
radiodurans]
pir||B75366 probable pseudouridine synthase - Deinococcus radiodurans (strain
R1)
gb|AAF11241.1|AE002010_4 (AE002010) pseudouridine synthase, putative [Deinococcus
radiodurans]
Length = 321
Score = 68.2 bits (165), Expect = 1e-10
Identities = 65/257 (25%), Positives = 114/257 (44%), Gaps = 21/257 (8%)
Query: 44 EVKKGGLALKEGDEITLLTPKITPKPLKKELD--LEIEVIFEDEDLLVLNKPPNLVVHKA 101
EV GL ++ + + + +P E D L +VI+ED DLL ++KP L
Sbjct: 67 EVTVDGLTVRGDETLRPGQMLVWQRPPWAEPDAPLHFDVIYEDADLLAVSKPSGLPTMPG 126
Query: 102 LSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKT 161
E TL+ + + + S L HRL + TSG ++ + + L + +
Sbjct: 127 GGFLEHTLLHQVRGRWPDASPL---------HRLGRGTSGLVLFSLTSQAGAALLKDWRA 177
Query: 162 KMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTS 221
+ + Y AL + ++++ + + + RL + A K+ +S++ +L
Sbjct: 178 GRVQKVYRALSAGVAEQDEYDITVPIGPVAHPRLGQV-FAASTAGKTAHSRAR---VLER 233
Query: 222 QNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKE-----EIRIMLHAYL 276
+ + L ++FTGR HQIR HL L + D LY ++G LP+ ++ LHA
Sbjct: 234 REDTTLFEVEIFTGRPHQIRIHLASLGLPLAVDPLY-VSGGLPRPDALPGDLGYALHAST 292
Query: 277 IEFKHPRSEQKLRFKVP 293
+ F+HP L P
Sbjct: 293 LTFQHPAHGAALTLSAP 309
>gb|AAF52959.1| (AE003628) CG7475 gene product [Drosophila melanogaster]
Length = 506
Score = 67.8 bits (164), Expect = 2e-10
Identities = 49/182 (26%), Positives = 90/182 (48%), Gaps = 17/182 (9%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDK 137
I+++ DED++V+NKP ++ VH + T+V ++ K + L NL +HRLD+
Sbjct: 149 IKIVHMDEDIVVVNKPASIPVHPCGRYRHNTVV-FILAKEFNLKNLRT------IHRLDR 201
Query: 138 DTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKM 197
TSG ++ ++ + +Q++ + + + YI + + VEC +++
Sbjct: 202 LTSGLLLFGRSPKKARQMEQQIRNRQVEKEYICRVEGVFPDG--IVEC------KEPIEV 253
Query: 198 IALKAVKKEKSRYSK--SEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDN 255
++ K + S K + L+ +++ K TGR HQIR HL+YL I+ D
Sbjct: 254 VSYKIGVCKVSAKGKDCTTTFQKLSQNGTTSVVLCKPLTGRMHQIRVHLQYLGYPILNDP 313
Query: 256 LY 257
LY
Sbjct: 314 LY 315
>ref|NP_207145.1| (NC_000915) conserved hypothetical protein [Helicobacter pylori
26695]
sp|O25114|Y347_HELPY Hypothetical protein HP0347
pir||C64563 conserved hypothetical protein HP0347 - Helicobacter pylori
(strain 26695)
gb|AAD07404.1| (AE000551) conserved hypothetical protein [Helicobacter pylori
26695]
Length = 298
Score = 67.0 bits (162), Expect = 3e-10
Identities = 75/284 (26%), Positives = 130/284 (45%), Gaps = 35/284 (12%)
Query: 33 IKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNK 92
+KE K+ +K+ A+++ I + I KP +K L +FE +D V +K
Sbjct: 28 LKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRLIHFKPNEKTQAL----VFETKDFGVFDK 83
Query: 93 PPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTH 152
P + H +L+D ++ S+ G HRLD +TSG ++ K +
Sbjct: 84 PHQVYTHPKGYFYHESLLDCIQ------SHFGKNAHPA--HRLDYETSGLVLAGKTLQSV 135
Query: 153 VHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSK 212
L K + + Y+AL + L E+ M ++ + P N K + +++ + S
Sbjct: 136 KDLKALFMQKKVKKTYLAL-AHGLVEKSMKIDKPIL-TPQNIQKDLHIRSKISPLGKQSI 193
Query: 213 SEFISLLTSQN---NLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIR 269
+ L S N +++L+ TGRTHQIR HL ++ I+G+ LYG+ +E ++
Sbjct: 194 TLVEPL--SYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQ 251
Query: 270 ---------IMLHAYLIEFKHPRSEQKL------RFKVPLLKDM 298
+MLHA +EF+ + K+ RF +P LKD+
Sbjct: 252 LKRENNAPLLMLHAASLEFEFKGAIYKIASPMPERF-MPFLKDL 294
>ref|NP_231304.1| (NC_002505) pseudouridine synthase Rlu family protein [Vibrio
cholerae]
pir||E82173 pseudouridine synthase Rlu family protein VC1668 [imported] -
Vibrio cholerae (group O1 strain N16961)
gb|AAF94818.1| (AE004244) pseudouridine synthase Rlu family protein [Vibrio
cholerae]
Length = 235
Score = 67.0 bits (162), Expect = 3e-10
Identities = 53/203 (26%), Positives = 96/203 (47%), Gaps = 20/203 (9%)
Query: 79 EVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKD 138
+++F D L++NK PN+ VHK D E++ + +VHRLDK
Sbjct: 3 DILFTHPDFLLINKHPNVSVHKD---------DGDTMLLQEVATQTGDGQLYLVHRLDKM 53
Query: 139 TSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMI 198
TSG +++A+N LS+ + + ++Y+A+ S K+++ + + R+ + K++
Sbjct: 54 TSGILLLARNATAASELSQGFAKRKVEKFYLAIGSKKPKKKQGLICGDMERSRRSSWKLV 113
Query: 199 ALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYG 258
+ + ++F S + L K TG+THQIR L+ + I+GD +Y
Sbjct: 114 ------NSQENPAITQFFSAAAATGE-RLFLCKPHTGKTHQIRVALKSIGSAIVGDPIYN 166
Query: 259 LNGALPKEEIRIMLHAYLIEFKH 281
E R LHA+ + F +
Sbjct: 167 ----TADESDRGYLHAFALRFTY 185
>ref|XP_130420.1| (XM_130420) similar to CG6187 gene product [Mus musculus]
Length = 519
Score = 66.6 bits (161), Expect = 4e-10
Identities = 57/250 (22%), Positives = 121/250 (47%), Gaps = 30/250 (12%)
Query: 33 IKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNK 92
++ G + ++ V+ + LK+ D + + P P+ E I ++ E+ D++V++K
Sbjct: 161 VRAGRLHLNEEPVQDLSIVLKDNDFLRNTVHRHEP-PVTAE---PIHLLAENNDVVVIDK 216
Query: 93 PPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTH 152
P ++ VH + T++ ++ K ++L L +HRLD+ TSG ++ AK
Sbjct: 217 PSSIPVHPCGRFRHNTVI-FILGKEHQLKELHP------LHRLDRLTSGVLMFAKTAAVS 269
Query: 153 VHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKA-VKKEKSRYS 211
+ EQ++ + + + Y+ ++ ++++ + + P + +++ K V + R
Sbjct: 270 EKIHEQVRDRQLEKEYVCRVAGEFPDKEV-----ICKEP---ILVVSYKVGVCRVDPRGK 321
Query: 212 KSEFISLLTSQNNLN-LIGAKLFTGRTHQIRAHLEYLNRHIIGDNLY---------GLNG 261
E + S N + ++ + TGRTHQIR HL++L I+ D +Y G G
Sbjct: 322 PCETVFQRLSYNGRSSVVQCRPLTGRTHQIRVHLQFLGHPILNDPIYNSTAWGPSRGQGG 381
Query: 262 ALPKEEIRIM 271
+PK + ++
Sbjct: 382 HIPKTDEELL 391
>gb|EAA14556.1| (AAAB01008980) ebiP4675 [Anopheles gambiae str. PEST]
Length = 472
Score = 66.2 bits (160), Expect = 5e-10
Identities = 48/182 (26%), Positives = 88/182 (47%), Gaps = 17/182 (9%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDK 137
I ++ D+D++V+NKP ++ VH + T+V ++ K Y L NL +HRLD+
Sbjct: 140 ITIVHMDDDIVVVNKPASIPVHPCGRYRHNTVV-FILAKEYNLKNLRT------IHRLDR 192
Query: 138 DTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKM 197
TSG ++ ++ + Q++ + + + YI + + +EC +++
Sbjct: 193 LTSGLLLFGRSPKKARQMEHQIRNRQVQKEYICRVEGEFPDG--IIEC------KEPIEV 244
Query: 198 IALKAVKKEKSRYSK--SEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDN 255
++ K + S K + L N +++ K TGR HQIR HL+YL ++ D
Sbjct: 245 VSYKIGVCKVSPKGKECTTTFQKLGFNGNSSVVLCKPLTGRMHQIRVHLQYLGYPVVNDP 304
Query: 256 LY 257
LY
Sbjct: 305 LY 306
>gb|AAF52961.1| (AE003628) CG6187 gene product [Drosophila melanogaster]
Length = 569
Score = 65.9 bits (159), Expect = 6e-10
Identities = 61/255 (23%), Positives = 117/255 (44%), Gaps = 32/255 (12%)
Query: 10 DHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPK----I 65
D K LD F+ + + ++ G + ++V K +K D + + + +
Sbjct: 207 DEKILDVFVREFRAAPPEEYERSLEAGKLTVNSEKVPKD-YKIKHNDLLANVVHRHEVPV 265
Query: 66 TPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGL 125
T +P+K +++ D+D++V+NKP ++ VH + T+V ++ K + L NL
Sbjct: 266 TSQPIK--------IVYMDKDIVVVNKPASIPVHPCGRYRHNTVV-FILAKEHNLKNLRT 316
Query: 126 KERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVEC 185
+HRLD+ TSG ++ + L Q++T+ + + Y+ + + VEC
Sbjct: 317 ------IHRLDRLTSGLLLFGRTAEKARELELQIRTRQVQKEYVCRVEGRFPDG--IVEC 368
Query: 186 YLTRNPNNRLKMIALK---AVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRA 242
N ++ +++ K K + K+ F + + +++ K TGR HQIR
Sbjct: 369 ------NEKIDVVSYKIGVCKVSPKGKDCKTTF-KRIGEVGSDSIVLCKPLTGRMHQIRV 421
Query: 243 HLEYLNRHIIGDNLY 257
HL++L I D LY
Sbjct: 422 HLQFLGYPISNDPLY 436
>ref|NP_609411.1| (NM_135567) CG6187 gene product [Drosophila melanogaster]
gb|AAL13915.1| (AY058686) LD40728p [Drosophila melanogaster]
Length = 547
Score = 65.9 bits (159), Expect = 6e-10
Identities = 61/255 (23%), Positives = 117/255 (44%), Gaps = 32/255 (12%)
Query: 10 DHKRLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPK----I 65
D K LD F+ + + ++ G + ++V K +K D + + + +
Sbjct: 153 DEKILDVFVREFRAAPPEEYERSLEAGKLTVNSEKVPKD-YKIKHNDLLANVVHRHEVPV 211
Query: 66 TPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGL 125
T +P+K +++ D+D++V+NKP ++ VH + T+V ++ K + L NL
Sbjct: 212 TSQPIK--------IVYMDKDIVVVNKPASIPVHPCGRYRHNTVV-FILAKEHNLKNLRT 262
Query: 126 KERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVEC 185
+HRLD+ TSG ++ + L Q++T+ + + Y+ + + VEC
Sbjct: 263 ------IHRLDRLTSGLLLFGRTAEKARELELQIRTRQVQKEYVCRVEGRFPDG--IVEC 314
Query: 186 YLTRNPNNRLKMIALK---AVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRA 242
N ++ +++ K K + K+ F + + +++ K TGR HQIR
Sbjct: 315 ------NEKIDVVSYKIGVCKVSPKGKDCKTTF-KRIGEVGSDSIVLCKPLTGRMHQIRV 367
Query: 243 HLEYLNRHIIGDNLY 257
HL++L I D LY
Sbjct: 368 HLQFLGYPISNDPLY 382
>ref|NP_645706.1| (NC_003923) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus MW2]
dbj|BAB94754.1| (AP004825) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus MW2]
Length = 284
Score = 65.9 bits (159), Expect = 6e-10
Identities = 66/274 (24%), Positives = 118/274 (42%), Gaps = 27/274 (9%)
Query: 16 EFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKKELD 75
+F K + KN ++ + V +K+ + L + EI P + P ++L
Sbjct: 21 DFSKKTVSAIKNNGALIVNDEPVTVRKQLMPNDILEIHLPREI----PSVNLIPYARKL- 75
Query: 76 LEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRL 135
EV++ED ++++ KP N +E +E Y G IV RL
Sbjct: 76 ---EVLYEDAFIIIVTKPNN---QNCTPSREHPHESLIEQVLYHCQENGENINPHIVTRL 129
Query: 136 DKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRL 195
D++T+G ++ AK + H HL ++ K + T L K + N
Sbjct: 130 DRNTTGIVIFAKYGYIH-HLFSKVNLKK--------IYTCLVYGKTHTSGIIEANIRRSK 180
Query: 196 KMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDN 255
I + V + +Y+K+ + ++ + +L L TGRTHQIR H +++ I+GD+
Sbjct: 181 DSIITREVASD-GKYAKTSY-EVINQNDKYSLCKVHLHTGRTHQIRVHFQHIGHPIVGDS 238
Query: 256 LY-GLNGALPKEEIRIMLHAYLIEFKHPRSEQKL 288
LY G + + + +L I F HP ++ +
Sbjct: 239 LYDGFHDKIHGQ----VLQCTQIYFVHPINKNNI 268
>ref|NP_011685.1| (NC_001139) RNA:Psi-synthase; Pus6p [Saccharomyces cerevisiae]
sp|P53294|YG3X_YEAST Hypothetical 46.8 kDa protein in CLC1-PDS2 intergenic region
pir||S64480 hypothetical protein YGR169c - yeast (Saccharomyces cerevisiae)
emb|CAA97195.1| (Z72954) ORF YGR169c [Saccharomyces cerevisiae]
Length = 404
Score = 65.9 bits (159), Expect = 6e-10
Identities = 55/233 (23%), Positives = 108/233 (45%), Gaps = 37/233 (15%)
Query: 52 LKEGDEITLLTPKITPKPLKKELDLEIE------------VIFEDEDLLVLNKPPNLVVH 99
+K D + T K P P+K+ E+E ++FEDE +LV++KP + VH
Sbjct: 82 IKNHDVLETTTHKHEP-PVKQWCSQEVEAEDLPGRIAGFNIVFEDESILVIDKPSGIPVH 140
Query: 100 KALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQL 159
+ T+ + L+ + +RLDK TSG +++AKN+ + + + +
Sbjct: 141 PTGQFYQNTITELLKLHGVDALPC---------YRLDKITSGLLILAKNSQSAGEIQKSI 191
Query: 160 KTKMMGRYYIALL------STPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEK------ 207
+++ M + Y+A + S + + + + E ++M + ++ ++
Sbjct: 192 RSRDMIKIYLARVKGRFPHSELILDNENAAETTFEDTSKVTVEMTPIYSIDPKRQFPVGL 251
Query: 208 --SRYSKSEFISL-LTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLY 257
S+ + ++F + S + ++ K TGRTHQIR HL L I+ D++Y
Sbjct: 252 STSKDAITKFYPIRYFSHADETVVACKPITGRTHQIRIHLARLGHPIVNDSVY 304
>ref|XP_134644.1| (XM_134644) RIKEN cDNA 2410001E19 [Mus musculus]
dbj|BAB26852.1| (AK010322) data source:SPTR, source key:Q9HZM9,
evidence:ISS~putative~related to RIBOSOMAL LARGE SUBUNIT
PSEUDOURIDINE SYNTHASE C [Mus musculus]
Length = 377
Score = 65.1 bits (157), Expect = 1e-09
Identities = 66/260 (25%), Positives = 115/260 (43%), Gaps = 50/260 (19%)
Query: 19 AKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKKELDLEI 78
AKE+++ N V ++E + F Q+ + ++ P L KEL I
Sbjct: 59 AKEVRVPTNPVQRRVQELVRFTQQLQ-------------------RVHPNVLAKELSRRI 99
Query: 79 EVIFEDEDLLVLNKPPNLVVHKALSVK------EPTLVDWLEFKNYELSNLGLKERYGIV 132
+ +D DL+V+NKP L VH V+ P L L E +L
Sbjct: 100 --LHQDNDLVVINKPYGLPVHGGPGVQLCISDVLPILAKMLHGHKAEPLHL--------C 149
Query: 133 HRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIAL-----------LSTPLKEEKM 181
HRLDK+T+G +V+A + E +T+ + + Y A+ + P+KE+++
Sbjct: 150 HRLDKETTGVMVLAWEKDMAHQVQELFRTRQVEKKYWAITVRVPLPSAGVVDIPIKEKEV 209
Query: 182 ---SVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTH 238
+T +P+ RL + V+ + + +L+S ++ L+ + TG H
Sbjct: 210 QGPQQHHKMTLSPSYRLDNGKMVKVRASRDAHVAVTQYQVLSSASSSALVELQPVTGIKH 269
Query: 239 QIRAHLEY-LNRHIIGDNLY 257
Q+R HL + L+ I+GD+ Y
Sbjct: 270 QLRVHLSFGLDCPILGDHKY 289
>ref|NP_223040.1| (NC_000921) putative [Helicobacter pylori J99]
sp|Q9ZMA1|Y347_HELPJ Hypothetical protein JHP0321
pir||A71946 hypothetical protein jhp0321 - Helicobacter pylori (strain J99)
gb|AAD05911.1| (AE001468) putative [Helicobacter pylori J99]
Length = 293
Score = 65.1 bits (157), Expect = 1e-09
Identities = 73/283 (25%), Positives = 127/283 (44%), Gaps = 35/283 (12%)
Query: 33 IKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNK 92
+KE K+ +K+ +++ I + I KP +K+ L +FE +D V +K
Sbjct: 28 LKEAQRHLDKQRLKQNQQTVRKSQIIQGVVRLIYFKPNEKQEKL----VFEAKDFGVFDK 83
Query: 93 PPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTH 152
P + H +L+D ++ S+ G HRLD +TSG ++ K +
Sbjct: 84 PAQIYTHPKGYFYHESLLDCIQ------SHFGKNAHPA--HRLDYETSGLVLAGKTLQST 135
Query: 153 VHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSK 212
L K + + Y+AL + + + + LT P N K + +++ + S
Sbjct: 136 KDLKALFMQKKVKKTYLALAHGLVDKSIIINKPILT--PQNIQKDLRIRSQISPLGKPSI 193
Query: 213 SEFISLLTSQN---NLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIR 269
+ L S N +++L+ TGRTHQIR HL ++ I+G+ LYG+ +E ++
Sbjct: 194 TLVEPL--SYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQ 251
Query: 270 ---------IMLHAYLIEFKHPRSEQKL------RFKVPLLKD 297
+MLHA +EF+ + K+ RF +P LKD
Sbjct: 252 LKRENNAPTLMLHAASLEFEFKGAHYKIASPMPERF-MPFLKD 293
>gb|AAM61068.1| (AY084499) unknown [Arabidopsis thaliana]
Length = 395
Score = 64.7 bits (156), Expect = 1e-09
Identities = 48/185 (25%), Positives = 94/185 (49%), Gaps = 12/185 (6%)
Query: 77 EIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLD 136
++ ++ ++ D++ + KP ++ VH ++ T+V L+ + ++L L +HRLD
Sbjct: 135 DVVILHQEPDVVTVCKPASVPVHPCGQYRKNTIVGILDAE-HDLGTLFS------IHRLD 187
Query: 137 KDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLK 196
+ SG ++IA+ +Q++ M+ + YIA + E++M V+ + N +
Sbjct: 188 RLVSGLLIIARTAAKADFFRQQIEGGMVKKRYIAKVIGVFPEDEMIVDANINYNGSEGRS 247
Query: 197 MI----ALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHII 252
+ KK K + + ++F + T+ + +L+ + TGRTHQIR HL+Y I
Sbjct: 248 TAEDANSSGDDKKVKGKPACTKFTRIDTNGTH-SLVSCEPVTGRTHQIRVHLQYTGHPIA 306
Query: 253 GDNLY 257
D LY
Sbjct: 307 NDPLY 311
>ref|NP_199927.1| (NM_124493) putative protein [Arabidopsis thaliana]
dbj|BAA97376.1| (AB023044) gene_id:MWD22.8~similar to unknown protein~sp|Q09709
[Arabidopsis thaliana]
Length = 395
Score = 64.3 bits (155), Expect = 2e-09
Identities = 48/185 (25%), Positives = 94/185 (49%), Gaps = 12/185 (6%)
Query: 77 EIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLD 136
++ ++ ++ D++ + KP ++ VH ++ T+V L+ + ++L L +HRLD
Sbjct: 135 DVVILHQEPDVVTVCKPASVPVHPCGQYRKNTIVGILDAE-HDLGTLFP------IHRLD 187
Query: 137 KDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLK 196
+ SG ++IA+ +Q++ M+ + YIA + E++M V+ + N +
Sbjct: 188 RLVSGLLIIARTAAKADFFRQQIEGGMVKKRYIAKVIGVFPEDEMIVDANINYNGSEGRS 247
Query: 197 MI----ALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHII 252
+ KK K + + ++F + T+ + +L+ + TGRTHQIR HL+Y I
Sbjct: 248 TAEDANSSGDDKKVKGKPACTKFTRIDTNGTH-SLVSCEPVTGRTHQIRVHLQYTGHPIA 306
Query: 253 GDNLY 257
D LY
Sbjct: 307 NDPLY 311
>gb|AAL31256.1| (AY061753) AT5g51140/MWD22_8 [Arabidopsis thaliana]
Length = 367
Score = 64.3 bits (155), Expect = 2e-09
Identities = 48/185 (25%), Positives = 94/185 (49%), Gaps = 12/185 (6%)
Query: 77 EIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLD 136
++ ++ ++ D++ + KP ++ VH ++ T+V L+ + ++L L +HRLD
Sbjct: 107 DVVILHQEPDVVTVCKPASVPVHPCGQYRKNTIVGILDAE-HDLGTLFP------IHRLD 159
Query: 137 KDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLK 196
+ SG ++IA+ +Q++ M+ + YIA + E++M V+ + N +
Sbjct: 160 RLVSGLLIIARTAAKADFFRQQIEGGMVKKRYIAKVIGVFPEDEMIVDANINYNGSEGRS 219
Query: 197 MI----ALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHII 252
+ KK K + + ++F + T+ + +L+ + TGRTHQIR HL+Y I
Sbjct: 220 TAEDANSSGDDKKVKGKPACTKFTRIDTNGTH-SLVSCEPVTGRTHQIRVHLQYTGHPIA 278
Query: 253 GDNLY 257
D LY
Sbjct: 279 NDPLY 283
>ref|NP_371532.1| (NC_002758) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus Mu50]
ref|NP_374129.1| (NC_002745) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus N315]
dbj|BAB42107.1| (AP003132) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus N315]
dbj|BAB57170.1| (AP003361) conserved hypothetical protein [Staphylococcus aureus
subsp. aureus Mu50]
Length = 284
Score = 64.3 bits (155), Expect = 2e-09
Identities = 66/274 (24%), Positives = 117/274 (42%), Gaps = 27/274 (9%)
Query: 16 EFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKKELD 75
+F K + KN ++ + V +K+ + L + EI P + P ++L
Sbjct: 21 DFSKKTVSAIKNNGALIVNDEPVTVRKQLMPNDILEIHLPREI----PSVNLIPYARKL- 75
Query: 76 LEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRL 135
EV++ED ++++ KP N +E +E Y G IV RL
Sbjct: 76 ---EVLYEDAFIIIVTKPNN---QNCTPSREHPHESLIEQVLYHCQEHGENINPHIVTRL 129
Query: 136 DKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRL 195
D++T+G ++ AK H HL ++ K + T L K + N
Sbjct: 130 DRNTTGIVIFAKYGHIH-HLFSKVNLKK--------IYTCLVYGKTHTSGIIEANIRRSK 180
Query: 196 KMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDN 255
I + V + +Y+K+ + ++ + +L L TGRTHQIR H +++ I+GD+
Sbjct: 181 DSIITREVASD-GKYAKTSY-EVINQNDKYSLCKVHLHTGRTHQIRVHFQHIGHPIVGDS 238
Query: 256 LY-GLNGALPKEEIRIMLHAYLIEFKHPRSEQKL 288
LY G + + + +L I F HP ++ +
Sbjct: 239 LYDGFHDKIHGQ----VLQCTQIYFVHPINKNNI 268
>ref|NP_289346.1| (NC_002655) Z4107 gene product [Escherichia coli O157:H7 EDL933]
ref|NP_311678.1| (NC_002695) hypothetical protein [Escherichia coli O157:H7]
gb|AAG57905.1|AE005507_6 (AE005507) Z4107 gene product [Escherichia coli O157:H7 EDL933]
dbj|BAB37074.1| (AP002563) hypothetical protein [Escherichia coli O157:H7]
Length = 260
Score = 63.9 bits (154), Expect = 2e-09
Identities = 59/231 (25%), Positives = 108/231 (46%), Gaps = 35/231 (15%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG----IVH 133
+E++++DE L+ +NKP +VH++ WL+ + ++++ G H
Sbjct: 2 LEILYQDEWLVAVNKPSGWLVHRS----------WLDRDEKVVVMQTVRDQIGQHVFTAH 51
Query: 134 RLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNN 193
RLD+ TSG +++ ++ L++Q + + + Y A++ L EE + L
Sbjct: 52 RLDRPTSGVLLMGLSSEAGRLLAQQFEQHQIQKRYHAIVRGWLMEEAV-----LDYPLVE 106
Query: 194 RLKMIALKAVKKEKS-RYSKSEFISLLTSQ----------NNLNLIGAKLFTGRTHQIRA 242
L IA K +++K + + + + L T + L+ + TGR HQ+R
Sbjct: 107 ELDKIADKFAREDKGPQPAVTHYRGLATVEMPVATGRYPTTRYGLVELEPKTGRKHQLRR 166
Query: 243 HLEYLNRHIIGDNLYG-----LNGALPKEEIRIMLHAYLIEFKHPRSEQKL 288
HL +L IIGD+ +G +GA R+MLHA + HP + + L
Sbjct: 167 HLAHLRHPIIGDSKHGDLRQNRSGAEHFGLQRLMLHASQLSLTHPFTGEPL 217
>ref|NP_417271.1| (NC_000913) orf, hypothetical protein [Escherichia coli K12]
sp|Q46918|YQCB_ECOLI Hypothetical protein yqcB
pir||C65061 hypothetical protein b2791 - Escherichia coli (strain K-12)
gb|AAB40441.1| (U29581) corresponds to hypothetical protein from E. carotovora PIR
Accession Number S45108; 2 ORFs in E. coli; ORF_f260
[Escherichia coli]
gb|AAC75833.1| (AE000363) orf, hypothetical protein [Escherichia coli K12]
Length = 260
Score = 63.9 bits (154), Expect = 2e-09
Identities = 59/231 (25%), Positives = 108/231 (46%), Gaps = 35/231 (15%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG----IVH 133
+E++++DE L+ +NKP +VH++ WL+ + ++++ G H
Sbjct: 2 LEILYQDEWLVAVNKPSGWLVHRS----------WLDRDEKVVVMQTVRDQIGQHVFTAH 51
Query: 134 RLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNN 193
RLD+ TSG +++ ++ L++Q + + + Y A++ L EE + L
Sbjct: 52 RLDRPTSGVLLMGLSSEAGRLLAQQFEQHQIQKRYHAIVRGWLMEEAV-----LDYPLVE 106
Query: 194 RLKMIALKAVKKEKS-RYSKSEFISLLTSQ----------NNLNLIGAKLFTGRTHQIRA 242
L IA K +++K + + + + L T + L+ + TGR HQ+R
Sbjct: 107 ELDKIADKFAREDKGPQPAVTHYRGLATVEMPVATGRYPTTRYGLVELEPKTGRKHQLRR 166
Query: 243 HLEYLNRHIIGDNLYG-----LNGALPKEEIRIMLHAYLIEFKHPRSEQKL 288
HL +L IIGD+ +G +GA R+MLHA + HP + + L
Sbjct: 167 HLAHLRHPIIGDSKHGDLRQNRSGAEHFGLQRLMLHASQLSLTHPFTGEPL 217
>ref|NP_404651.1| (NC_003143) Conserved hypothetical protein [Yersinia pestis]
emb|CAC89880.1| (AJ414146) Conserved hypothetical protein [Yersinia pestis]
Length = 257
Score = 63.9 bits (154), Expect = 2e-09
Identities = 61/231 (26%), Positives = 111/231 (47%), Gaps = 35/231 (15%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG----IVH 133
+E+I++DE ++ +NKP +VH++ WL+ ++++ G VH
Sbjct: 2 LEIIYQDEHIVAVNKPAGWLVHRS----------WLDRNETVFVMQTVRDQIGQHVYTVH 51
Query: 134 RLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNN 193
RLD+ TSG +++A ++ LS Q + + + Y A++ + E +V+ +
Sbjct: 52 RLDRPTSGVLLMALSSDVARMLSLQFEQHQIQKTYHAVVRGYVLEGG-TVDYAMAEE--- 107
Query: 194 RLKMIALKAVKKEKS-RYSKSEFISLLTSQNNL----------NLIGAKLFTGRTHQIRA 242
L IA K K +K+ + S S + +L + L +L+ K TGR HQ+R
Sbjct: 108 -LDKIADKFAKSDKAPQPSVSHYEALAQVEVPLAIGRYETARYSLVALKPETGRKHQLRR 166
Query: 243 HLEYLNRHIIGDNLYG---LNGALPKEE--IRIMLHAYLIEFKHPRSEQKL 288
H+ ++ IIGD+ +G N + + R+MLHA + HP + + L
Sbjct: 167 HMAHIRHPIIGDSTHGDLRQNRGVAQHFGCSRLMLHASHLHLNHPVTGEAL 217
>ref|NP_404140.1| (NC_003143) ribosomal large subunit pseudouridine synthase A
[Yersinia pestis]
emb|CAC89354.1| (AJ414143) ribosomal large subunit pseudouridine synthase A
[Yersinia pestis]
Length = 206
Score = 63.2 bits (152), Expect = 4e-09
Identities = 52/212 (24%), Positives = 93/212 (43%), Gaps = 13/212 (6%)
Query: 80 VIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDT 139
V+++D+ ++V+NKP L+ + + V ++ + VHRLD T
Sbjct: 3 VLYQDKHIMVVNKPSGLLSVPGRAPENKDSVMTRVQNDFPTAES--------VHRLDMAT 54
Query: 140 SGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIA 199
SG IV+A L Q + + + YIA + L +++ ++ L + NR K
Sbjct: 55 SGVIVVALTKAAERELKRQFREREPKKTYIARVWGHLAQDEGLIDLPLICDWPNRPK--- 111
Query: 200 LKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGL 259
+ V E + +++E+ + + + TGR+HQ+R H+ + I+GD Y
Sbjct: 112 -QKVCYETGKSAQTEYQVISRDDDGSTRVKLSPITGRSHQLRVHMLAMGHPILGDGFYAH 170
Query: 260 NGALPKEEIRIMLHAYLIEFKHPRSEQKLRFK 291
A R+ LHA + HP + FK
Sbjct: 171 PEAKAMAS-RLQLHAQQLCITHPEFGTPMHFK 201
>ref|NP_457360.1| (NC_003198) putative RNA pseudouridylate synthase [Salmonella
enterica subsp. enterica serovar Typhi]
emb|CAD06078.1| (AL627276) putative RNA pseudouridylate synthase [Salmonella
enterica subsp. enterica serovar Typhi]
Length = 260
Score = 62.8 bits (151), Expect = 5e-09
Identities = 59/250 (23%), Positives = 109/250 (43%), Gaps = 45/250 (18%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG----IVH 133
+E++++D L+ +NKP +VH++ WL+ + ++++ G H
Sbjct: 2 LEILYQDPWLVAVNKPAGWLVHRS----------WLDRDEKVVVMQTVRDQIGQHVFTAH 51
Query: 134 RLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIAL----------LSTPLKEEKMSV 183
RLD+ TSG +++ ++ L++Q + + + Y A+ L PL EE+ +
Sbjct: 52 RLDRPTSGVLLMGLSSEAGRRLAQQFEQHHIRKRYHAIVRGWLIDDAVLDYPLVEERDKI 111
Query: 184 ECYLTRNPN------NRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRT 237
R + + +A + RY + + L+ + TGR
Sbjct: 112 ADKFAREDKAPQPAVTQYRGLATVEMAVPTGRYPTTRY----------GLVELEPKTGRK 161
Query: 238 HQIRAHLEYLNRHIIGDNLYG-----LNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKV 292
HQ+R HL +L IIGD+ +G + A R+MLHA +E HP + Q L +
Sbjct: 162 HQLRRHLAHLRHPIIGDSKHGDLRQNRSAAEHFACRRLMLHASRLELTHPFTGQPLIIQA 221
Query: 293 PLLKDMLEYL 302
L + ++ L
Sbjct: 222 GLDETWMQVL 231
>ref|NP_190794.1| (NM_115086) pseudouridine synthase, putative [Arabidopsis thaliana]
Length = 346
Score = 62.4 bits (150), Expect = 7e-09
Identities = 65/256 (25%), Positives = 114/256 (44%), Gaps = 32/256 (12%)
Query: 33 IKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKK-ELDLEIEVIFEDEDLLVLN 91
I+ G + + VK L+ G ++ + P K+ + +EV++ED+DL+ LN
Sbjct: 56 IQNGQIQIDGEVVKDPNTLLRSGSKLVY-----SRLPWKEPDTPYSLEVLYEDDDLIALN 110
Query: 92 KPPNLVVHKALSVKEPTLVDWLEF---KNYELSNLGLKERYGIVHRLDKDTSGGIVIAKN 148
KP L V ++ T++ L++ KN VHRL + TSG ++ AK
Sbjct: 111 KPSGLQVLPGGLFQQRTVLTQLQWCFGKNDSYIGSRESPHPVPVHRLGRGTSGILLCAKT 170
Query: 149 NFTHVHLSEQLK--TKMMG---------------RYYIALLSTPLKEEKMSVE--CYLTR 189
L+ T ++G + Y AL ++E+++ ++ + R
Sbjct: 171 KLAKTKLAAYFAEGTSLVGSGNLDQECGTGRKLSKIYRALADGIVEEDEVVIKQPIGVVR 230
Query: 190 NPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNR 249
P + A + K +SK F+ + N +L+ ++ +GR HQIR HL Y+
Sbjct: 231 YPGVAQGLYV--ASPEGKPAFSKV-FVLERDREKNCSLVKVEIQSGRPHQIRIHLAYMGH 287
Query: 250 HIIGDNLYGLNGALPK 265
++GD LY + G PK
Sbjct: 288 PLVGDPLY-VAGGQPK 302
>ref|NP_461885.1| (NC_003197) putative synthase [Salmonella typhimurium LT2]
gb|AAL21844.1| (AE008835) putative synthase [Salmonella typhimurium LT2]
Length = 260
Score = 62.4 bits (150), Expect = 7e-09
Identities = 59/250 (23%), Positives = 109/250 (43%), Gaps = 45/250 (18%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYG----IVH 133
+E++++D L+ +NKP +VH++ WL+ + ++++ G H
Sbjct: 2 LEILYQDPWLVAVNKPAGWLVHRS----------WLDRDEKVVVMQTVRDQIGQHVFTAH 51
Query: 134 RLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIAL----------LSTPLKEEKMSV 183
RLD+ TSG +++ ++ L++Q + + + Y A+ L PL EE+ +
Sbjct: 52 RLDRPTSGVLLMGLSSEAGRRLAQQFEQHHIRKRYHAIVRGWLMDDAVLDYPLVEERDKI 111
Query: 184 ECYLTRNPN------NRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRT 237
R + + +A + RY + + L+ + TGR
Sbjct: 112 ADKFAREDKAPQPAVTQYRGLATVEMAVPTGRYPTTRY----------GLVELEPKTGRK 161
Query: 238 HQIRAHLEYLNRHIIGDNLYG-----LNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKV 292
HQ+R HL +L IIGD+ +G + A R+MLHA +E HP + Q L +
Sbjct: 162 HQLRRHLAHLRHPIIGDSKHGDLRQNRSAAEHFACRRLMLHASRLELTHPFTGQPLIIQA 221
Query: 293 PLLKDMLEYL 302
L + ++ L
Sbjct: 222 GLDETWMQAL 231
>sp|P44197|YQCB_HAEIN Hypothetical protein HI1435
Length = 239
Score = 60.1 bits (144), Expect = 3e-08
Identities = 59/259 (22%), Positives = 114/259 (43%), Gaps = 46/259 (17%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI----VH 133
+E++++D L+ +NKP ++VH++ WL+ + L+++ G +H
Sbjct: 2 LEILYQDGFLVAVNKPAGMLVHRS----------WLDPHETQFVMQTLRDQIGQHVFPIH 51
Query: 134 RLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIAL----------LSTPLK------ 177
RLD+ TSG ++ A ++ + EQ + K + + Y+A+ + PLK
Sbjct: 52 RLDRPTSGVLLFALSSEIANLMCEQFEQKYVQKSYLAVVRGYLQGKERIDYPLKIQLDKI 111
Query: 178 EEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRT 237
+K S E + + + + + RY + + +L+ TGR
Sbjct: 112 ADKFSQEDKEPQEAITDYEGLKIVEMPYPAGRYQTARY----------SLVKLIPHTGRK 161
Query: 238 HQIRAHLEYLNRHIIGDNLYG---LNGALPKEE--IRIMLHAYLIEFKHPRSEQKLRFKV 292
H +R H++++ I GD YG N AL R+ LH+ + F HP +++++
Sbjct: 162 HXLRXHMKHVFHPIXGDTQYGDLHQNRALMSHLGCSRLFLHSDSLSFIHPITKEQITITA 221
Query: 293 PLLKDMLEYLKKVFDKENL 311
L + + L F EN+
Sbjct: 222 G-LDEQWQQLMNQFGWENV 239
>ref|NP_245570.1| (NC_002663) unknown [Pasteurella multocida]
gb|AAK02717.1| (AE006099) unknown [Pasteurella multocida]
Length = 220
Score = 59.7 bits (143), Expect = 4e-08
Identities = 55/202 (27%), Positives = 93/202 (45%), Gaps = 19/202 (9%)
Query: 80 VIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDT 139
+I++ D +V++KP + VHK +E + L + ++ + L VHRLDK T
Sbjct: 6 LIYQHPDFVVIDKPCGISVHKD---EEAVGLTTLVAQQLDVPQVWL------VHRLDKIT 56
Query: 140 SGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIA 199
SG +++A N LS + + Y+AL K+++ + + + K+
Sbjct: 57 SGLLLLALNQRAARALSLLFAEHRIQKTYLALSQHKPKKKQGLIVGDMQKARRGAWKLCP 116
Query: 200 LKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGL 259
K +S + + NL L K TG+THQ+R ++ L I+GD LY
Sbjct: 117 TKTNPAITRFHS-------INCEPNLRLFILKPQTGKTHQLRVAMKSLGSPILGDALYAG 169
Query: 260 NGALPKEEIRIMLHAYLIEFKH 281
N A + R LHAY ++F +
Sbjct: 170 NSA---KIDRTYLHAYRLQFDY 188
>ref|NP_294685.1| (NC_001263) ribosomal large subunit pseudouridine synthase, Rlu
family [Deinococcus radiodurans]
pir||H75454 ribosomal large subunit pseudouridine synthase, Rlu family -
Deinococcus radiodurans (strain R1)
gb|AAF10535.1|AE001948_4 (AE001948) ribosomal large subunit pseudouridine synthase, Rlu
family [Deinococcus radiodurans]
Length = 257
Score = 59.3 bits (142), Expect = 6e-08
Identities = 57/237 (24%), Positives = 106/237 (44%), Gaps = 24/237 (10%)
Query: 80 VIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDT 139
+I E D V++KP + H + + + D L F E L HRLD++T
Sbjct: 24 IIVEHPDFYVVHKPALWLTHPVRARVD--VPDLLTFMQAETGETDLAPP----HRLDRET 77
Query: 140 SGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIA 199
SG ++ +++ KT ++G+ Y+A++ + ++ +++ L I
Sbjct: 78 SGAQLLTRDSDAARTFFTLFKTHLVGKTYLAIVHGEPEWDRRTLDAPLGDLGLGGANKIQ 137
Query: 200 LKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGL 259
++ + + ++F ++ + LI +GR HQIRAHL +L ++GD +YG
Sbjct: 138 IRQAVVPDGKPAVTDF-RVVGRRAGHALIECYPRSGRLHQIRAHLAHLGLPMVGDKIYGR 196
Query: 260 N----------GALPKEEIRI-----MLHAYLIEFKHPRSEQKLRFKVPLLKDMLEY 301
+ G P+ R+ LHA I F P + ++ +VPL D++ Y
Sbjct: 197 DPQVFLDFMEQGQTPELTARLGLPRQALHAARIAF--PWAGAQMAVEVPLAPDLVAY 251
>gb|AAF77202.1|AC005801_8 (AC005801) 511.8 [Leishmania major]
Length = 741
Score = 59.3 bits (142), Expect = 6e-08
Identities = 62/243 (25%), Positives = 100/243 (40%), Gaps = 30/243 (12%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHK------ALSVKEPTLVDWLEFKNYELSNLGLKERYGI 131
I V++ED+D+LV++KP L + L L+ L + + R G
Sbjct: 512 IPVLYEDDDVLVVDKPAGLATSRHGLSCTQLGTPTTDLISVLLATDRAGALARGVFRQGQ 571
Query: 132 VHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMM----GRYYIAL---LSTPLKEEKMSVE 184
VHRLD +TSG ++IAK++ L QL T + Y AL L L+ ++ +
Sbjct: 572 VHRLDAETSGCLLIAKSDVAADSLRHQLGTSAAFSHHSKIYHALCVVLEPSLRNVRLHDD 631
Query: 185 CYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHL 244
+P K ++RY F ++ + + ++ G+ HQIR HL
Sbjct: 632 IIDAADP-------------KIRTRYRVIRFF----PKHRVAWVECRIQQGKKHQIRRHL 674
Query: 245 EYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKK 304
I+ D +G R+ LHA+ + F HP + + PL D L
Sbjct: 675 ASRGFPILADLEHGGAVCCQSMISRVALHAHSLSFIHPVTADPITAAAPLPADFRRCLSL 734
Query: 305 VFD 307
+ D
Sbjct: 735 LRD 737
>gb|AAA64631.1| (U02459) C-terminal sequence of ORF C product shows homology to
several bacterial ORFs (accession numbers M87501,
M59757, D10483, M62747, M96791, X57620, Z12154) and
human EST cDNA (Z13254) [Leishmania donovani]
Length = 741
Score = 58.9 bits (141), Expect = 8e-08
Identities = 62/243 (25%), Positives = 100/243 (40%), Gaps = 30/243 (12%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHK------ALSVKEPTLVDWLEFKNYELSNLGLKERYGI 131
I V++ED+D+LV++KP L + L L+ L + + R G
Sbjct: 512 IPVLYEDDDVLVVDKPAGLATSRHGLSCTQLGTPTTDLISVLLATDRVGALARGIFRQGQ 571
Query: 132 VHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMM----GRYYIAL---LSTPLKEEKMSVE 184
VHRLD +TSG ++IAK++ L QL T + Y AL L L+ ++ +
Sbjct: 572 VHRLDAETSGCLLIAKSDVAADSLRHQLGTSAAFSHHSKIYHALCVVLEPSLRNVRLHDD 631
Query: 185 CYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHL 244
+P K ++RY F ++ + + ++ G+ HQIR HL
Sbjct: 632 IIDAADP-------------KIRTRYRVIRFF----PKHRVAWVECRIQQGKKHQIRRHL 674
Query: 245 EYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKK 304
I+ D +G R+ LHA+ + F HP + + PL D L
Sbjct: 675 ASRGLPILADLEHGGAVCCQSMISRVALHAHSLSFIHPVTADPITAAAPLPADFRRCLSL 734
Query: 305 VFD 307
+ D
Sbjct: 735 LRD 737
>gb|EAA09234.1| (AAAB01008898) agCP13979 [Anopheles gambiae str. PEST]
Length = 273
Score = 58.5 bits (140), Expect = 1e-07
Identities = 59/248 (23%), Positives = 111/248 (43%), Gaps = 14/248 (5%)
Query: 72 KELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPT-LVDWLEFKNYELSNLGLKERYG 130
K+ D ++V++ + LV+NK +L+++ + K+ + +F Y NL +
Sbjct: 19 KKKDETVDVLYTSGNFLVINKKHDLLINSNDTKKKTVQTIMRKQFPEYVQDNL--THDFY 76
Query: 131 IVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLS--TPLKEEKMSV---EC 185
HRLD TSG + I N + + + + +YY+ALL T EE + + E
Sbjct: 77 FAHRLDFATSGILCIPLNKNACKEVCQVFEEQRARKYYLALLRGHTDFDEEVIDIAIGED 136
Query: 186 YLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNN---LNLIGAKLFTGRTHQIRA 242
++ + ++ I L+ + R S ++ + L N + + + TGR HQ+R
Sbjct: 137 VRFKDTSKKMCTI-LEDELCQNPRRSITKVLVLDRGYYNGKPVTKVLLRPITGRRHQLRL 195
Query: 243 HLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYL 302
H + I+GD Y L + R+ LHA+ + + ++ P + L+Y
Sbjct: 196 HCSQIGHVIVGDYTYSLK--IDTSPPRMFLHAFRLVLPNTIENLDIQTDDPFTEKALKYK 253
Query: 303 KKVFDKEN 310
KV ++ N
Sbjct: 254 WKVVEQVN 261
>ref|NP_283855.1| (NC_003116) hypothetical protein NMA1085 [Neisseria meningitidis
Z2491]
pir||B81874 hypothetical protein NMA1085 [imported] - Neisseria meningitidis
(group A strain Z2491)
emb|CAB84348.1| (AL162755) hypothetical protein NMA1085 [Neisseria meningitidis
Z2491]
Length = 307
Score = 57.8 bits (138), Expect = 2e-07
Identities = 57/228 (25%), Positives = 103/228 (45%), Gaps = 12/228 (5%)
Query: 66 TPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGL 125
T + + + E +++ DE L+V++KP L V + TL+ L + EL +L +
Sbjct: 83 TSRESEPRIPFEEKILHIDEHLIVVDKPHFLPVIPSGRFLRETLLTRLRLRP-ELQHLNV 141
Query: 126 KERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLK-EEKMSVE 184
++ + HRLDKDT+G ++++ N T + K + + Y AL T + V
Sbjct: 142 EDITPL-HRLDKDTAGVMLLSHNPATRGAYQTMFQNKTVWKTYEALAPTRTDLPYPLDVV 200
Query: 185 CYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHL 244
L R K + + E + ++ + L+ ++ +L TG+ HQ+R H+
Sbjct: 201 SRLVRGE----KFFTTQEAEGEPNAHTT---VELIENRGEFSLYRLTPHTGKKHQLRVHM 253
Query: 245 EYLNRHIIGDNLYGLNGALPKEEIR--IMLHAYLIEFKHPRSEQKLRF 290
L ++ D LY + E+ R + L A I F P S ++ F
Sbjct: 254 MGLGMPLLNDALYPVPSEAGSEDYRKPLKLLAKKIAFADPLSGRERVF 301
>ref|NP_273908.1| (NC_003112) YabO/YceC/SfhB family protein [Neisseria meningitidis
MC58]
pir||C81148 YabO/YceC/SfhB family protein NMB0867 [imported] - Neisseria
meningitidis (group B strain MD58)
gb|AAF41278.1| (AE002439) YabO/YceC/SfhB family protein [Neisseria meningitidis
MC58]
Length = 307
Score = 57.8 bits (138), Expect = 2e-07
Identities = 57/228 (25%), Positives = 103/228 (45%), Gaps = 12/228 (5%)
Query: 66 TPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGL 125
T + + + E +++ DE L+V++KP L V + TL+ L + EL +L +
Sbjct: 83 TSRESEPRIPFEEKILHIDEHLIVVDKPHFLPVIPSGRFLRETLLTRLRLRP-ELQHLNV 141
Query: 126 KERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLK-EEKMSVE 184
++ + HRLDKDT+G ++++ N T + K + + Y AL T + V
Sbjct: 142 EDITPL-HRLDKDTAGVMLLSHNPATRGAYQTMFQNKTVWKTYEALAPTRTDLPYPLDVV 200
Query: 185 CYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHL 244
L R K + + E + ++ + L+ ++ +L TG+ HQ+R H+
Sbjct: 201 SRLVRGE----KFFTTQEAEGEPNAHTT---VELIENRGEFSLYRLTPHTGKKHQLRVHM 253
Query: 245 EYLNRHIIGDNLYGLNGALPKEEIR--IMLHAYLIEFKHPRSEQKLRF 290
L ++ D LY + E+ R + L A I F P S ++ F
Sbjct: 254 MGLGMPLLNDALYPVPSEAGSEDYRKPLKLLAKKIAFADPLSGRERVF 301
>ref|NP_602133.1| (NC_003450) COG0564:Pseudouridylate synthases, 23S RNA-specific
[Corynebacterium glutamicum]
dbj|BAC00339.1| (AP005283) Pseudouridylate synthases, 23S RNA-specific
[Corynebacterium glutamicum ATCC 13032]
Length = 322
Score = 55.1 bits (131), Expect = 1e-06
Identities = 57/239 (23%), Positives = 106/239 (43%), Gaps = 32/239 (13%)
Query: 71 KKELDLEIEVIFEDEDLLVLNKPPNLV-VHKALSVKEPTLVDWLEFK-NYELSNLGLKER 128
++ + +I VI ED+D+LV++KPP L + + + E LV N +L+
Sbjct: 88 ERPIPYKIHVIHEDDDILVIDKPPYLATMPRGRHITETALVKMRVLTGNNDLTP------ 141
Query: 129 YGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLS--------------T 174
HRLD+ TSG +V+ K + + Y A+ +
Sbjct: 142 ---AHRLDRLTSGVLVMVKKPELRGAYQTLFARREASKTYEAIAEFVPGLLDDGPAIWES 198
Query: 175 PLKEEKMSVECYLTRNP-NNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLF 233
+++E+ V+ ++ P N R +++++ V+ + + E L Q L +
Sbjct: 199 RIEKERGIVQAFVVEGPVNARTELVSVTPVEDAEQSILE-EMHGPLPRQARYVLAPS--- 254
Query: 234 TGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLH--AYLIEFKHPRSEQKLRF 290
TG+THQ+R H+ I+GD LY + A+ E+ +H A + F P++ ++ F
Sbjct: 255 TGKTHQLRIHMRDFAAPILGDPLYPVLHAVDDEDYTTPMHLIARTLTFVDPQTNEERTF 313
>gb|AAF08596.1|U38836_1 (U38836) the hypothetical protein;similar to orfW-gene of P.
aeruginosa. [Streptococcus pyogenes]
Length = 69
Score = 54.3 bits (129), Expect = 2e-06
Identities = 28/65 (43%), Positives = 44/65 (67%)
Query: 108 TLVDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRY 167
T+V+ L + +LS++ R GIVHR+DKDTSG +++AK + H L+E+LK K R
Sbjct: 3 TMVNALMYHIKDLSSINGVVRPGIVHRIDKDTSGLLMVAKTDTAHQALAEELKAKKSLRK 62
Query: 168 YIALL 172
Y+A++
Sbjct: 63 YLAVI 67
>ref|XP_165571.1| (XM_165571) hypothetical protein FLJ14494 [Homo sapiens]
gb|AAH14131.1|AAH14131 (BC014131) hypothetical protein FLJ14494 [Homo sapiens]
Length = 377
Score = 54.3 bits (129), Expect = 2e-06
Identities = 59/234 (25%), Positives = 106/234 (45%), Gaps = 22/234 (9%)
Query: 42 KKEVKKGGLALKEGDEITLLT---PKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVV 98
KKE + EI T ++ P L K L I + +D++L+V+NKP L V
Sbjct: 60 KKEPVSTNAVQRRVQEIVRFTRQLQRVHPNVLAKALTRGI--LHQDKNLVVINKPYGLPV 117
Query: 99 HKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQ 158
H V + + D L L E + HRLDK+T+G +V+A + + E
Sbjct: 118 HGGPGV-QLCITDVLPILAKMLHG-HKAEPLHLCHRLDKETTGVMVLAWDKDMAHQVQEL 175
Query: 159 LKTKMMGRYYIAL-----------LSTPLKEEKMSVECY---LTRNPNNRLKMIALKAVK 204
+T+ + + Y A+ + P+ E++ + +T +P+ R+ + V+
Sbjct: 176 FRTRQVVKKYWAITVHVPMPSAGVVDIPIVEKEAQGQQQHHKMTLSPSYRMDDGKMVKVR 235
Query: 205 KEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEY-LNRHIIGDNLY 257
+ ++ +L+S + L+ + TG HQ+R HL + L+ I+GD+ Y
Sbjct: 236 RSRNAQVAVTQYQVLSSTLSSALVELQPITGIKHQLRVHLSFGLDCPILGDHKY 289
>ref|NP_116184.1| (NM_032795) hypothetical protein FLJ14494 [Homo sapiens]
dbj|BAB55086.1| (AK027400) unnamed protein product [Homo sapiens]
Length = 377
Score = 54.3 bits (129), Expect = 2e-06
Identities = 59/234 (25%), Positives = 106/234 (45%), Gaps = 22/234 (9%)
Query: 42 KKEVKKGGLALKEGDEITLLT---PKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVV 98
KKE + EI T ++ P L K L I + +D++L+V+NKP L V
Sbjct: 60 KKEPVSTNAVQRRVQEIVRFTRQLQRVHPNVLAKALTRGI--LHQDKNLVVINKPYGLPV 117
Query: 99 HKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQ 158
H V + + D L L E + HRLDK+T+G +V+A + + E
Sbjct: 118 HGGPGV-QLCITDVLPILAKMLHG-HKAEPLHLCHRLDKETTGVMVLAWDKDMAHQVQEL 175
Query: 159 LKTKMMGRYYIAL-----------LSTPLKEEKMSVECY---LTRNPNNRLKMIALKAVK 204
+T+ + + Y A+ + P+ E++ + +T +P+ R+ + V+
Sbjct: 176 FRTRQVVKKYWAITVHVPMPSAGVVDIPIVEKEAQGQQQHHKMTLSPSYRMDDGKMVKVR 235
Query: 205 KEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEY-LNRHIIGDNLY 257
+ ++ +L+S + L+ + TG HQ+R HL + L+ I+GD+ Y
Sbjct: 236 RSRNAQVAVTQYQVLSSTLSSALVELQPITGIKHQLRVHLSFGLDCPILGDHKY 289
>ref|NP_188575.1| (NM_112831) unknown protein [Arabidopsis thaliana]
dbj|BAB02469.1| (AB025624) contains similarity to unknown
protein~gb|AAC83020.1~gene_id:MLD14.18 [Arabidopsis
thaliana]
Length = 477
Score = 53.9 bits (128), Expect = 2e-06
Identities = 53/199 (26%), Positives = 90/199 (44%), Gaps = 27/199 (13%)
Query: 80 VIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDT 139
V+++D ++VLNKP L V +K T +D L + E +VHRLD+D
Sbjct: 185 VLYKDPAIIVLNKPHGLAVQGGSGIK--TSIDELAASCLKFDK---SESPRLVHRLDRDC 239
Query: 140 SGGIVIAKNN--FTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNR--- 194
SG +V+A+ T +H + KT Y + LK + M++ + P R
Sbjct: 240 SGLLVLARTQTAATVLHSIFREKTTGASAYGVKKNVKSLKRKYMAL--VIGCPPRQRGQI 297
Query: 195 ---LKMIALKAVKKEK-----------SRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQI 240
L+ + + K E+ ++++ +E+ + +S + + + TGR HQ+
Sbjct: 298 SAPLRKVVVDDGKSERITVNDNGELVSTQHAITEYRVIESSPHGYTWLELRPLTGRKHQL 357
Query: 241 RAH-LEYLNRHIIGDNLYG 258
R H E L I+GD YG
Sbjct: 358 RVHCAEVLGTPIVGDYKYG 376
>gb|AAG24942.1|AF128845_1 (AF128845) RluD [Sinorhizobium meliloti]
Length = 163
Score = 52.4 bits (124), Expect = 7e-06
Identities = 29/83 (34%), Positives = 45/83 (53%), Gaps = 12/83 (14%)
Query: 232 LFTGRTHQIRAHLEYLNRHIIGDNLYGL-----NGALPKEE-------IRIMLHAYLIEF 279
L TGRTHQIR H+ ++ +IGD YG LP+ R LHA++++F
Sbjct: 73 LETGRTHQIRVHMAHIGHPLIGDPDYGAAFRTKANLLPEPARAAVNRFPRQALHAFMLQF 132
Query: 280 KHPRSEQKLRFKVPLLKDMLEYL 302
+HP + + + F+ P+ DM E +
Sbjct: 133 EHPATGETMHFETPVPADMQELI 155
>ref|NP_218671.1| (NC_000919) conserved hypothetical protein [Treponema pallidum]
pir||A71349 conserved hypothetical protein TP0231 - syphilis spirochete
gb|AAC65220.1| (AE001205) conserved hypothetical protein [Treponema pallidum]
Length = 216
Score = 52.0 bits (123), Expect = 9e-06
Identities = 52/184 (28%), Positives = 86/184 (46%), Gaps = 21/184 (11%)
Query: 76 LEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRL 135
+ + +IF+D ++ ++KP L V V+ +VD L+ LG+ R +HRL
Sbjct: 1 MALPIIFQDAAVVAVDKPAGLAVQPGARVRV-CVVDVLQ------KQLGV--RLFPLHRL 51
Query: 136 DKDTSGGIVIAKNNFTHVHLSEQLKT-KMMGRYYIALLSTPLKEEKMSVECYLTRNPNNR 194
DKDT+G ++ AK+ L + +++ RY P +E C R P
Sbjct: 52 DKDTAGVLLFAKHARAAALYQGILGSMRVIKRYRALCFGRPPRE------CGDIRVPIRT 105
Query: 195 LKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHIIGD 254
A +++ R + + + +L + + + L +GRTHQIR HL L IIGD
Sbjct: 106 ----GTAARRRQVVRAAHTAY-RVLRATDTHTYLELTLHSGRTHQIRIHLAALGCPIIGD 160
Query: 255 NLYG 258
+ YG
Sbjct: 161 DKYG 164
>gb|AAL47436.1| (AY069882) AT3g52260/T25B15_30 [Arabidopsis thaliana]
Length = 294
Score = 52.0 bits (123), Expect = 9e-06
Identities = 60/244 (24%), Positives = 105/244 (42%), Gaps = 32/244 (13%)
Query: 33 IKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKK-ELDLEIEVIFEDEDLLVLN 91
I+ G + + VK L+ G ++ + P K+ + +EV++ED+DL+ LN
Sbjct: 56 IQNGQIQIDGEVVKDPNTLLRSGSKLVY-----SRLPWKEPDTPYSLEVLYEDDDLIALN 110
Query: 92 KPPNLVVHKALSVKEPTL---VDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKN 148
KP L V ++ T+ + W KN VHRL + TSG ++ AK
Sbjct: 111 KPSGLQVLPGGLFQQRTVLTQLQWCFGKNDSYIGSRESPHPVPVHRLGRGTSGILLCAKT 170
Query: 149 NFTHVHLSEQLK--TKMMG---------------RYYIALLSTPLKEEKMSVE--CYLTR 189
L+ T ++G + Y AL ++E+++ ++ + R
Sbjct: 171 KLAKTKLAAYFAEGTSLVGSGNLDQECGTGRKLSKIYRALADGIVEEDEVVIKQPIGVVR 230
Query: 190 NPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNR 249
P + A + K +SK F+ + N +L+ ++ +GR HQIR HL Y+
Sbjct: 231 YPGVAQGLYV--ASPEWKPAFSK-VFVLERDREKNCSLVKVEIQSGRPHQIRIHLAYMG- 286
Query: 250 HIIG 253
H +G
Sbjct: 287 HPLG 290
>emb|CAB46588.1| (AJ132945) hypothetical protein [Yersinia enterocolitica]
Length = 125
Score = 51.6 bits (122), Expect = 1e-05
Identities = 32/115 (27%), Positives = 63/115 (53%), Gaps = 8/115 (6%)
Query: 77 EIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLD 136
+IE +++D+ L+++NKP L+ +LS + P +D + + ++ +VHRLD
Sbjct: 17 KIETLYQDDHLVLINKPTGLL---SLSGENPQNLDSVHHRLVQIF-----PGCTLVHRLD 68
Query: 137 KDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNP 191
TSG +VIA+N + L +Q + + + Y ALL L + + ++ + ++P
Sbjct: 69 FGTSGLMVIARNKAINAALCQQFSQRTVTKVYSALLCGHLDDNEGVIDAAIAKDP 123
>ref|NP_592881.1| (NC_003424) hypothetical protein [Schizosaccharomyces pombe]
sp|Q09709|YA32_SCHPO Hypothetical protein C18B11.02c in chromosome I
pir||S58301 hypothetical protein SPAC18B11.02c - fission yeast
(Schizosaccharomyces pombe)
pir||T37912 hypothetical protein SPAC18B11.02c - fission yeast
(Schizosaccharomyces pombe)
emb|CAA90587.1| (Z50728) hypothetical protein [Schizosaccharomyces pombe]
Length = 394
Score = 50.8 bits (120), Expect = 2e-05
Identities = 51/185 (27%), Positives = 81/185 (43%), Gaps = 16/185 (8%)
Query: 75 DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHR 134
D + ++ EDE +V++KP + VH T++ L K + S L +R
Sbjct: 102 DQPVGIVHEDESYVVIDKPAGVPVHPTGRYNHNTVLHIL-MKENKCSLLYP------CNR 154
Query: 135 LDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALL--STPLKEEKMSVECYLTRNPN 192
LD+ TSG + +K+ + + +K + + Y+A + P E + LT P
Sbjct: 155 LDRLTSGLMFFSKSPKAAEEMRVHMISKSLKKEYVARVIGEFPNSGEVICDAPLLTVAPT 214
Query: 193 NRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHII 252
L I KE S K + + +L+ K TGRTHQ+R HL+YL I
Sbjct: 215 LGLNRIHPDG--KEASTVFKR-----IAFDGHTSLVLCKPLTGRTHQLRVHLQYLGYPIA 267
Query: 253 GDNLY 257
D +Y
Sbjct: 268 NDPIY 272
>gb|AAC69259.1| (AF025970) hypothetical protein [Helicobacter pylori]
Length = 83
Score = 47.0 bits (110), Expect = 3e-04
Identities = 27/79 (34%), Positives = 43/79 (54%), Gaps = 11/79 (13%)
Query: 234 TGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIR---------IMLHAYLIEFKHPRS 284
TGRTHQIR HL ++ I+G+ LYG+ +E ++ +MLHA +EF+ +
Sbjct: 6 TGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLKRENNAPTLMLHAASLEFEFKGA 65
Query: 285 EQKLRFKVPLLKDMLEYLK 303
K+ +P K + +LK
Sbjct: 66 HYKIASPMP--KRFMPFLK 82
>ref|NP_213389.1| (NC_000918) hypothetical protein [Aquifex aeolicus]
sp|O66829|Y554_AQUAE Hypothetical protein AQ_554
pir||A70350 conserved hypothetical protein aq_554 - Aquifex aeolicus
gb|AAC06794.1| (AE000695) hypothetical protein [Aquifex aeolicus]
Length = 238
Score = 44.7 bits (104), Expect = 0.001
Identities = 22/56 (39%), Positives = 34/56 (60%)
Query: 13 RLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPK 68
RLD++L+K L IS+ + LI+EG V K VK+ +KEG+E+ + + PK
Sbjct: 2 RLDKYLSKSLHISRKEAKELIREGRVKVSGKVVKQAEYRVKEGEEVEVEGKSVKPK 57
>gb|AAB09035.1| (U68242) orfEU5; uncharacterized orf upstream of txpA similar to H.
influenzae HI0412 [Bartonella bacilliformis]
Length = 221
Score = 44.7 bits (104), Expect = 0.001
Identities = 35/122 (28%), Positives = 60/122 (48%), Gaps = 16/122 (13%)
Query: 65 ITPKPLKKELD---LEIEVIFEDEDLLVLNKPPNLVVHKALSVK---EPTLVDWLEFKNY 118
IT K + ++ D L+ +++ED + V NKP L V + + L W K
Sbjct: 109 ITSKVISQQDDGDLLKKMLLYEDPKIFVFNKPAGLAVQGGSGLTRHVDGMLEAWRNKKG- 167
Query: 119 ELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALL-STPLK 177
E+ +VHRLD++TSG +V+A++ L+ +T+ M + Y AL+ P K
Sbjct: 168 --------EKPRLVHRLDRETSGLLVVARSXXAAQALTAAFRTREMKKIYWALVRRXPXK 219
Query: 178 EE 179
++
Sbjct: 220 KQ 221
>gb|AAA03374.1| (U02220) unknown [Mycoplasma genitalium]
Length = 119
Score = 44.3 bits (103), Expect = 0.002
Identities = 26/105 (24%), Positives = 59/105 (55%), Gaps = 17/105 (16%)
Query: 77 EIEVIFEDEDLLVLNKPPNLVV-----HKALSVKEPTLVDWLEFKNYELSNLGLKERYGI 131
++++IFEDE+++V++KP +V H +++ L+ ++ ++ + L ++
Sbjct: 7 KLKIIFEDENIIVVDKPTGIVCQPDKKHSIINLSN-MLLKHCGYRQFDSNKLNFYPQF-- 63
Query: 132 VHRLDKDTSGGIVIAKNN---------FTHVHLSEQLKTKMMGRY 167
HR+D++TSG ++ AK N F + HL+++ K + G++
Sbjct: 64 AHRIDRNTSGIVIGAKTNKALKELNKVFKNNHLTKRYKGLVFGQF 108
>ref|NP_218593.1| (NC_000919) conserved hypothetical protein [Treponema pallidum]
pir||H71358 conserved hypothetical protein TP0154 - syphilis spirochete
gb|AAC65144.1| (AE001200) conserved hypothetical protein [Treponema pallidum]
Length = 345
Score = 44.3 bits (103), Expect = 0.002
Identities = 45/195 (23%), Positives = 80/195 (40%), Gaps = 25/195 (12%)
Query: 64 KITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNL 123
+++ P +L + V+F+ +DLL +KP L VH S+ W+ +
Sbjct: 91 RLSKMPGTPKLRVLPSVVFKTQDLLFFHKPAGLCVHGPRSLDA-----WVRGQGRAHVPP 145
Query: 124 GLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSV 183
L R G +HRLD+ T G I +++ S L+ + ++Y+A+ + P
Sbjct: 146 ALSFRPGPLHRLDRGTEGLIAFSRSLRGAQWFSAALQQHTLRKFYLAITAAPA------- 198
Query: 184 ECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAH 243
R A V+ + + ++ L + + L L TG+ HQIR +
Sbjct: 199 ----------RTAAAARTLVRPGEVTHVQT---VLHSCDSALVLRVIVPVTGKKHQIRRY 245
Query: 244 LEYLNRHIIGDNLYG 258
++GD YG
Sbjct: 246 CAAQGFPLVGDRTYG 260
>ref|NP_439399.1| (NC_000907) 16s pseudouridylate 516 synthase (rsuA) [Haemophilus
influenzae Rd]
sp|P45124|RSUA_HAEIN Ribosomal small subunit pseudouridine synthase A (16S
pseudouridylate 516 synthase) (16S pseudouridine 516
synthase) (Uracil hydrolyase)
pir||F64169 hypothetical protein HI1243 - Haemophilus influenzae (strain Rd
KW20)
gb|AAC22895.1| (U32804) 16s pseudouridylate 516 synthase (rsuA) [Haemophilus
influenzae Rd]
Length = 232
Score = 43.5 bits (101), Expect = 0.003
Identities = 55/242 (22%), Positives = 103/242 (41%), Gaps = 45/242 (18%)
Query: 13 RLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKK 72
RLD+F+A+ + ++++Q I++ V + VK G + + + DEI
Sbjct: 2 RLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEI-------------- 47
Query: 73 ELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIV 132
+ E+ E+ +LNKP V PT+ Y+ + L +
Sbjct: 48 YFEDELLTWIEEGQYFMLNKPQGCVCSND-DGDYPTI--------YQFFDYPLAGKLHSA 98
Query: 133 HRLDKDTSGGIVIAKN-NFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNP 191
RLD DT+G +++ + ++H S + + + Y+ L+ P+ EE S C
Sbjct: 99 GRLDVDTTGLVLLTDDGQWSHRITSPKHHCE---KTYLVTLADPV-EENYSAAC------ 148
Query: 192 NNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRHI 251
+ I L+ +KE ++ +K E + N+NL + GR HQ++ L +
Sbjct: 149 ---AEGILLRG-EKEPTKPAKLEIL----DDYNVNL---TISEGRYHQVKRMFAALGNKV 197
Query: 252 IG 253
+G
Sbjct: 198 VG 199
>ref|NP_013266.1| (NC_001144) Pus5p [Saccharomyces cerevisiae]
pir||S68481 hypothetical protein YLR165c - yeast (Saccharomyces cerevisiae)
gb|AAB67489.1| (U51921) Weak similarity to hypothetical proteins of E. coli (Swiss
Prot. accession number P39219), H. influenzae (Swiss
Prot. accession number P44782), and P. aerguinosa (Swiss
Prot. accession number P33640) [Saccharomyces
cerevisiae]
Length = 254
Score = 43.5 bits (101), Expect = 0.003
Identities = 56/205 (27%), Positives = 86/205 (41%), Gaps = 28/205 (13%)
Query: 74 LDLEIEVIFEDEDLLVLNKPPNLVVH----KALSVKEPTL--VDWLE-FKNYELSNLGLK 126
L +I +IFE+ ++NKPP + + P L LE FK S+ +
Sbjct: 3 LKKQIPIIFENTHYFIVNKPPGIPSQPPDCRTWGRTHPNLDPTPLLERFKAIYYSHREV- 61
Query: 127 ERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKT-----KMMGRYYIALLSTPLKEEKM 181
E VHRLD +GG++IAK V S L+ + R Y+A++ + + K
Sbjct: 62 ELCRTVHRLDHCVTGGMLIAKTKDGSVKFSRFLQKGGNNGYKLQRKYVAIVESSGRFNK- 120
Query: 182 SVECYLTRNPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIR 241
PNN +K K S + + N I +L TG+ HQIR
Sbjct: 121 ---------PNN----YEIKYGPKYNFLISHGGREITKFKEVDENCIVLQLVTGKKHQIR 167
Query: 242 AHL-EYLNRHIIGDNLYGLNGALPK 265
H+ + LN+ I+ D +G P+
Sbjct: 168 NHVSQILNQPILNDKRHGSTVNFPE 192
>ref|NP_439586.1| (NC_000907) conserved hypothetical protein [Haemophilus influenzae
Rd]
pir||I64029 hypothetical protein HI1435 - Haemophilus influenzae (strain Rd
KW20)
gb|AAC23084.1| (U32822) conserved hypothetical protein [Haemophilus influenzae Rd]
Length = 182
Score = 43.5 bits (101), Expect = 0.003
Identities = 25/99 (25%), Positives = 54/99 (54%), Gaps = 14/99 (14%)
Query: 78 IEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI----VH 133
+E++++D L+ +NKP ++VH++ WL+ + L+++ G +H
Sbjct: 2 LEILYQDGFLVAVNKPAGMLVHRS----------WLDPHETQFVMQTLRDQIGQHVFPIH 51
Query: 134 RLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALL 172
RLD+ TSG ++ A ++ + EQ + K + + Y+A++
Sbjct: 52 RLDRPTSGVLLFALSSEIANLMCEQFEQKYVQKSYLAVV 90
>ref|NP_224603.1| (NC_000922) predicted pseudouridine synthetase family
[Chlamydophila pneumoniae CWL029]
ref|NP_300460.1| (NC_002491) pseudouridine synthetase family [Chlamydophila
pneumoniae J138]
pir||B72082 probable pseudouridine synthetase family - Chlamydophila pneumoniae
(strain CWL029)
gb|AAD18547.1| (AE001624) predicted pseudouridine synthetase family [Chlamydophila
pneumoniae CWL029]
dbj|BAA98611.1| (AP002546) pseudouridine synthetase family [Chlamydophila
pneumoniae J138]
Length = 232
Score = 43.1 bits (100), Expect = 0.004
Identities = 44/184 (23%), Positives = 79/184 (42%), Gaps = 41/184 (22%)
Query: 9 TDHKRLDEFLAKEL-QISKNQVLNLIKEGLV----FCQKKEVKKGGLALKEGDEITL-LT 62
T RL FL +L SK ++L I++ F ++ E K ++ GD ++L L
Sbjct: 23 TQVSRLSSFLRSQLPNHSKQEILASIRQHRCRVNGFIERFESYK----VQPGDRVSLSLI 78
Query: 63 PKITPKPLKKELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSN 122
P +P +++ED+ ++ KPP+L + +
Sbjct: 79 PSTKQQP---------SILWEDDYSIIYEKPPHLTTEQMAHMT----------------- 112
Query: 123 LGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMS 182
R+ VHRLDK TSG +++ K+ L + K + + + YIA + K++ +
Sbjct: 113 -----RFFTVHRLDKGTSGCLLMGKSKQAATELMKLFKQRKIHKQYIAFVFGHPKKKFGT 167
Query: 183 VECY 186
V+ Y
Sbjct: 168 VKSY 171
>ref|NP_646513.1| (NC_003923) ORFID:MW1696~hypothetical protein, similar to 16S
pseudouridylate synthase [Staphylococcus aureus subsp.
aureus MW2]
dbj|BAB95561.1| (AP004828) ORFID:MW1696~hypothetical protein, similar to 16S
pseudouridylate synthase [Staphylococcus aureus subsp.
aureus MW2]
Length = 231
Score = 43.1 bits (100), Expect = 0.004
Identities = 39/169 (23%), Positives = 79/169 (46%), Gaps = 29/169 (17%)
Query: 13 RLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKK 72
R+D+FLA ++N+V L+K+GLV ++ +K +PK +P
Sbjct: 2 RIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIK---------------SPKTHIEPEND 46
Query: 73 ELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWL-EFKNYELSNLGLKERYGI 131
++ + E+I E++ ++ P + T++D + E+++ + +G
Sbjct: 47 KITVRGELIEYIENVYIMLNKPKDYISATEDHHSKTVIDLIPEYQHLNIFTVG------- 99
Query: 132 VHRLDKDTSGGIVIAKN-NFTHVHLSEQLKTKMMGRYYIALLSTPLKEE 179
RLDKDT G ++I + +F H +S K + + Y + + P+ E+
Sbjct: 100 --RLDKDTEGLLLITNDGDFNHELMS---PNKHVSKKYEVISANPITED 143
>ref|NP_178012.1| (NM_106540) hypothetical protein [Arabidopsis thaliana]
gb|AAC83020.1| (AC005679) Contains similarity to gi|1786244 hypothetical 24.9 kD
protein in surA-hepA intergenic region yab0 from
Escherichia coli genome gb|AE000116, and to hypothetical
YABO family PF|00849. [Arabidopsis thaliana]
Length = 491
Score = 43.1 bits (100), Expect = 0.004
Identities = 53/207 (25%), Positives = 91/207 (43%), Gaps = 29/207 (14%)
Query: 80 VIFEDEDLLVLNKPPNLVVHKALSV---KEPTLVDWLEFKNYELSNLGLKERYGIVHRLD 136
V F+D ++VLNKPP L V + + + L F N E L +K + VHRLD
Sbjct: 181 VRFKDSAIIVLNKPPKLPVKGNVPIHNSMDALAAAALSFGNDEGPRL-VKLTFLGVHRLD 239
Query: 137 KDTSGGIVIAKN----NFTHVHLSE-----------QLKTKMMGRYYIALLSTPLKEEKM 181
++TSG +V+ + ++ H S+ + M + Y AL+ KE++
Sbjct: 240 RETSGLLVMGRTKESIDYLHSVFSDYKGRNSSCKAWNKACEAMYQQYWALVIGSPKEKEG 299
Query: 182 SVECYLTR---NPNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTH 238
+ L++ + +++ + E S+ + +E+ L N + + + T R H
Sbjct: 300 LISAPLSKVLLDDGKTDRVVLAQGSGFEASQDAITEYKVLGPKINGCSWVELRPITSRKH 359
Query: 239 ------QIRAH-LEYLNRHIIGDNLYG 258
Q+R H E L I+GD YG
Sbjct: 360 QPPSKKQLRVHCAEALGTPIVGDYKYG 386
>ref|NP_047053.1| (NC_001905) L2759.7 [Leishmania major]
pir||T02815 probable psuedouridylate synthetase L2759.7 [imported] - Leishmania
major (strain Friedlin)
gb|AAC24638.1| (AE001274) L2759.7 [Leishmania major]
Length = 413
Score = 42.4 bits (98), Expect = 0.007
Identities = 43/192 (22%), Positives = 82/192 (42%), Gaps = 17/192 (8%)
Query: 80 VIFEDEDLLVLNKP---PNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLD 136
V+F++E ++V+NKP P + H L++ L+ + N + I H LD
Sbjct: 167 VLFKNEHVIVINKPSGVPIMPTHDPLAMNITDLLPAWRYTNTQTPV--------ICHNLD 218
Query: 137 KDTSGGIVIAKNNFTHVHLSEQLKTKMMGR---YYIALLSTPLKEEKMSVECYLTRNPNN 193
+TSG +V+A++ TH L +++ + A+ P+ ++ + + +
Sbjct: 219 TETSGCVVLARSANTHRMLGRMFVKRVVPNSVYWGFAVGKPPVNFGRIRMHFEVQKGQGG 278
Query: 194 RLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEY-LNRHII 252
+I + S+ +EF+ ++ + I T R HQ R + L ++
Sbjct: 279 --DVIVARPTPTADSKVGIAEFVVNASALEFGSFISFYPLTTRRHQERIMAAHALRAPLL 336
Query: 253 GDNLYGLNGALP 264
GD YG A P
Sbjct: 337 GDAKYGGESAFP 348
>ref|NP_372277.1| (NC_002758) hypothetical protein [Staphylococcus aureus subsp.
aureus Mu50]
ref|NP_374863.1| (NC_002745) hypothetical protein, similar to 16S pseudouridylate
synthase [Staphylococcus aureus subsp. aureus N315]
emb|CAB82472.1| (Y14816) hypothetical protein [Staphylococcus aureus]
dbj|BAB42842.1| (AP003135) ORFID:SA1574~hypothetical protein, similar to 16S
pseudouridylate synthase [Staphylococcus aureus subsp.
aureus N315]
dbj|BAB57915.1| (AP003363) hypothetical protein [Staphylococcus aureus subsp.
aureus Mu50]
Length = 231
Score = 42.4 bits (98), Expect = 0.007
Identities = 39/169 (23%), Positives = 79/169 (46%), Gaps = 29/169 (17%)
Query: 13 RLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKK 72
R+D+FLA ++N+V L+K+GLV ++ +K +PK +P
Sbjct: 2 RIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIK---------------SPKTHIEPEND 46
Query: 73 ELDLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWL-EFKNYELSNLGLKERYGI 131
++ + E+I E++ ++ P + T++D + E+++ + +G
Sbjct: 47 KITVRGELIEYIENVYIMLNKPKGYISATEDHHSKTVIDLIPEYQHLNIFPVG------- 99
Query: 132 VHRLDKDTSGGIVIAKN-NFTHVHLSEQLKTKMMGRYYIALLSTPLKEE 179
RLDKDT G ++I + +F H +S K + + Y + + P+ E+
Sbjct: 100 --RLDKDTEGLLLITNDGDFNHELMS---PNKHVSKKYEVISANPITED 143
>dbj|BAB26589.1| (AK009926) data source:SPTR, source key:Q9UJJ7,
evidence:ISS~homolog to C321D2.1 (RIBOSOMAL LARGE
SUBUNIT PSEUDOURIDINE SYNTHASE (EC 4.2.1.70,
PSEUDOURIDYLATE SYNTHASE, URACIL HYDROLASE) LIKE
PROTEIN)~putative [Mus musculus]
Length = 177
Score = 42.4 bits (98), Expect = 0.007
Identities = 20/47 (42%), Positives = 26/47 (54%)
Query: 231 KLFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLI 277
K TGRTHQ+R H L I+GD YG + R+MLHA+ +
Sbjct: 38 KPLTGRTHQLRVHCSALGHPIVGDLTYGQAEDQEDQPFRMMLHAFYL 84
>ref|NP_346306.1| (NC_003028) ribosomal large subunit pseudouridine synthase B
[Streptococcus pneumoniae TIGR4]
ref|NP_359281.1| (NC_003098) Ribosomal large subunit pseudouridine synthase B
[Streptococcus pneumoniae R6]
gb|AAK75946.1| (AE007478) ribosomal large subunit pseudouridine synthase B
[Streptococcus pneumoniae TIGR4]
gb|AAL00492.1| (AE008534) Ribosomal large subunit pseudouridine synthase B
[Streptococcus pneumoniae R6]
Length = 240
Score = 42.0 bits (97), Expect = 0.010
Identities = 57/265 (21%), Positives = 112/265 (41%), Gaps = 49/265 (18%)
Query: 13 RLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKK 72
R+++++A S+ + LIK+GLV + V++ +K GD++
Sbjct: 2 RINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKV-------------- 47
Query: 73 ELDLEIEVIFEDEDL-LVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI 131
++E + I+ +E + +LNKP ++ T+VD L +KER
Sbjct: 48 --EVEGQPIYNEEKVYYLLNKPRGVISSVTDDKGRKTVVDLLP---------NVKERIYP 96
Query: 132 VHRLDKDTSGGIVIAKN-NFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
V RLD DTSG +++ + +FT + + + + Y+A + ++ + LTR
Sbjct: 97 VGRLDWDTSGVLILTNDGDFTDEMIHPR---NEIDKVYVARVKGVANKDNLRP---LTRG 150
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLEYLNRH 250
+ + K + + Y I + N +++ + GR HQ++ E +
Sbjct: 151 -------LEIDGKKTKPAVYE----ILKVDPVKNRSVVQLTIHEGRNHQVKKMFEAVGLQ 199
Query: 251 I--IGDNLYG---LNGALPKEEIRI 270
+ + +G L G P E R+
Sbjct: 200 VDKLSRTRFGHLDLTGLRPGESRRL 224
>ref|NP_606662.1| (NC_003485) putative hypothetical protein [Streptococcus pyogenes
MGAS8232]
gb|AAL97161.1| (AE009983) putative hypothetical protein [Streptococcus pyogenes
MGAS8232]
Length = 248
Score = 42.0 bits (97), Expect = 0.010
Identities = 52/235 (22%), Positives = 100/235 (42%), Gaps = 44/235 (18%)
Query: 13 RLDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKK 72
R+++++A S+ + LIK+GLV + + +K GD +
Sbjct: 10 RINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVV-------------- 55
Query: 73 ELDLEIEVIFEDEDL-LVLNKPPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGI 131
++E I+ +E + +LNKP + + T++D L +KER
Sbjct: 56 --EIEGSPIYNEEKVYYLLNKPRGAISSVSDDKGRKTVLDLLP---------QVKERIYP 104
Query: 132 VHRLDKDTSGGIVIAKN-NFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRN 190
V RLD DTSG +++ + +FT + + + + Y+A + +E + LTR
Sbjct: 105 VGRLDWDTSGVLILTNDGDFTDTMIHPR---NEIDKVYLARVKGIATKENLRP---LTRG 158
Query: 191 PNNRLKMIALKAVKKEKSRYSKSEFISLLTSQNNLNLIGAKLFTGRTHQIRAHLE 245
I + K + +RY+ I + + N +++ + GR HQ++ E
Sbjct: 159 -------IVIDGKKTKPARYN----IVRVEADKNRSIVELTIHEGRNHQVKKMFE 202
>gb|AAH12951.1|AAH12951 (BC012951) Unknown (protein for IMAGE:3853655) [Homo sapiens]
Length = 194
Score = 42.0 bits (97), Expect = 0.010
Identities = 19/47 (40%), Positives = 25/47 (52%)
Query: 231 KLFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIRIMLHAYLI 277
K TGRTHQ+R H L ++GD YG R+MLHA+ +
Sbjct: 49 KPLTGRTHQLRVHCSALGHPVVGDLTYGEVSGREDRPFRMMLHAFYL 95
Database: /home/scwang/download_20020708_db/nr
Posted date: Aug 7, 2002 12:55 PM
Number of letters in database: 324,149,939
Number of sequences in database: 1,026,957
Lambda K H
0.319 0.138 0.383
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 206,584,162
Number of Sequences: 1026957
Number of extensions: 8976812
Number of successful extensions: 23994
Number of sequences better than 1.0e-02: 232
Number of HSP's better than 0.0 without gapping: 116
Number of HSP's successfully gapped in prelim test: 116
Number of HSP's that attempted gapping in prelim test: 23340
Number of HSP's gapped (non-prelim): 248
length of query: 327
length of database: 324,149,939
effective HSP length: 121
effective length of query: 206
effective length of database: 199,888,142
effective search space: 41176957252
effective search space used: 41176957252
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 97 (42.0 bits)