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|15644975|ref|NP_207145.1| conserved hypothetical
protein [Helicobacter pylori 26695]
(298 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_207145.1| (NC_000915) conserved hypothetical protein... 596 e-170
ref|NP_223040.1| (NC_000921) putative [Helicobacter pylori ... 547 e-155
ref|NP_281244.1| (NC_002163) putative ribosomal pseudouridi... 177 1e-43
gb|AAC69259.1| (AF025970) hypothetical protein [Helicobacte... 163 2e-39
ref|NP_228272.1| (NC_000853) conserved hypothetical protein... 103 2e-21
ref|NP_078147.1| (NC_002162) pseudouridine synthase (uracil... 98 1e-19
ref|NP_224915.1| (NC_000922) predicted Pseudouridine Syntha... 98 1e-19
ref|NP_214204.1| (NC_000918) hypothetical protein [Aquifex ... 96 6e-19
ref|NP_465768.1| (NC_003210) similar to putative ribosomal ... 94 2e-18
ref|NP_563038.1| (NC_003366) conserved hypothetical protein... 92 9e-18
ref|NP_604269.1| (NC_003454) Ribosomal large subunit pseudo... 91 1e-17
ref|NP_212152.1| (NC_001318) conserved hypothetical protein... 91 1e-17
ref|NP_223608.1| (NC_000921) putative [Helicobacter pylori ... 91 1e-17
sp|P70870|RLUD_BORBU Ribosomal large subunit pseudouridine ... 91 1e-17
ref|NP_326129.1| (NC_002771) RIBOSOMAL LARGE SUBUNIT PSEUDO... 91 1e-17
ref|NP_207748.1| (NC_000915) conserved hypothetical protein... 91 2e-17
ref|NP_388802.1| (NC_000964) similar to hypothetical protei... 91 2e-17
ref|NP_011685.1| (NC_001139) RNA:Psi-synthase; Pus6p [Sacch... 91 2e-17
ref|NP_471677.1| (NC_003212) similar to putative ribosomal ... 90 3e-17
ref|XP_130420.1| (XM_130420) similar to CG6187 gene product... 90 3e-17
ref|NP_347897.1| (NC_003030) Pseudouridylate synthase famil... 89 5e-17
ref|NP_246658.1| (NC_002663) SfB [Pasteurella multocida] >g... 89 6e-17
ref|NP_072871.1| (NC_000908) sfhB protein, putative [Mycopl... 88 1e-16
ref|NP_109980.1| (NC_000912) similar to RIBOSOMAL LARGE SUB... 88 1e-16
gb|AAF52961.1| (AE003628) CG6187 gene product [Drosophila m... 87 2e-16
ref|XP_031554.2| (XM_031554) similar to CG6187 gene product... 87 2e-16
ref|NP_295512.1| (NC_001263) ribosomal large subunit pseudo... 87 2e-16
ref|NP_609411.1| (NM_135567) CG6187 gene product [Drosophil... 87 2e-16
emb|CAA70352.1| (Y09142) product homologous to E.coli YfiI ... 87 2e-16
gb|AAH07697.1|AAH07697 (BC007697) Unknown (protein for IMAG... 87 2e-16
ref|NP_246775.1| (NC_002663) RsuA [Pasteurella multocida] >... 87 3e-16
ref|NP_623145.1| (NC_003869) Pseudouridylate synthase, 23S ... 86 4e-16
ref|NP_283696.1| (NC_003116) putative ribosomal large subun... 86 4e-16
ref|NP_623370.1| (NC_003869) Pseudouridylate synthase, 23S ... 86 7e-16
ref|NP_457360.1| (NC_003198) putative RNA pseudouridylate s... 86 7e-16
ref|NP_461885.1| (NC_003197) putative synthase [Salmonella ... 86 7e-16
sp|P50513|RLUD_ZYMMO RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE ... 85 9e-16
ref|NP_438344.1| (NC_000907) sfhB protein (sfhB) [Haemophil... 85 1e-15
ref|NP_014575.1| (NC_001147) Riboflavin biosynthesis; Rib2p... 84 1e-15
ref|NP_273746.1| (NC_003112) ribosomal large subunit pseudo... 84 1e-15
ref|NP_592881.1| (NC_003424) hypothetical protein [Schizosa... 84 2e-15
ref|NP_268269.1| (NC_002662) pseudouridine synthase [Lactoc... 84 2e-15
ref|NP_662187.1| (NC_002932) ribosomal large subunit pseudo... 84 2e-15
ref|NP_240218.1| (NC_002528) ribosomal large subunit pseudo... 84 2e-15
ref|NP_660679.1| (NC_004061) ribosomal large subunit pseudo... 83 3e-15
ref|NP_230358.1| (NC_002505) ribosomal large subunit pseudo... 83 3e-15
ref|NP_253234.1| (NC_002516) pseudouridine synthase [Pseudo... 83 3e-15
ref|NP_228748.1| (NC_000853) ribosomal large subunit pseudo... 83 3e-15
ref|NP_230535.1| (NC_002505) pseudouridine synthase Rlu fam... 82 6e-15
ref|NP_294685.1| (NC_001263) ribosomal large subunit pseudo... 82 6e-15
sp|O50310|YBC5_CHLVI Hypothetical 36.7 kDa protein in BCHI ... 82 7e-15
sp|Q45826|YMDA_CHLAU Hypothetical protein in MDH 5'region (... 82 7e-15
ref|NP_603548.1| (NC_003454) Ribosomal large subunit pseudo... 82 9e-15
ref|NP_420097.1| (NC_002696) ribosomal large subunit pseudo... 82 9e-15
ref|NP_010248.1| (NC_001136) Hypothetical ORF; Ydl036cp [Sa... 82 9e-15
gb|EAA14556.1| (AAAB01008980) ebiP4675 [Anopheles gambiae s... 81 1e-14
ref|NP_406747.1| (NC_003143) ribosomal large subunit pseudo... 81 1e-14
ref|NP_240167.1| (NC_002528) ribosomal large subunit pseudo... 80 3e-14
ref|NP_311484.1| (NC_002695) suppressor of ftsH mutation [E... 80 3e-14
ref|NP_562766.1| (NC_003366) conserved hypothetical protein... 80 4e-14
dbj|BAA16479.1| (D90887) similar to [SwissProt Accession Nu... 80 4e-14
ref|NP_417085.1| (NC_000913) suppressor of ftsH mutation [E... 80 4e-14
ref|NP_245416.1| (NC_002663) unknown [Pasteurella multocida... 79 5e-14
ref|NP_289346.1| (NC_002655) Z4107 gene product [Escherichi... 79 5e-14
ref|NP_289149.1| (NC_002655) suppressor of ftsH mutation [E... 79 5e-14
gb|AAF52959.1| (AE003628) CG7475 gene product [Drosophila m... 79 5e-14
ref|NP_417271.1| (NC_000913) orf, hypothetical protein [Esc... 79 5e-14
ref|NP_438775.1| (NC_000907) conserved hypothetical protein... 79 6e-14
ref|NP_405172.1| (NC_003143) ribosomal large subunit pseudo... 79 6e-14
ref|NP_655191.1| (NC_003995) PseudoU_synth_2, RNA pseudouri... 79 6e-14
ref|NP_642429.1| (NC_003919) pseudouridylate synthase [Xant... 79 6e-14
ref|NP_231662.1| (NC_002505) ribosomal large subunit pseudo... 79 6e-14
ref|NP_296413.1| (NC_002620) ribosomal large subunit pseudo... 78 1e-13
ref|NP_539900.1| (NC_003317) RIBOSOMAL LARGE SUBUNIT PSEUDO... 78 1e-13
ref|NP_356602.1| (NC_003063) AGR_L_1625p [Agrobacterium tum... 78 1e-13
ref|NP_607042.1| (NC_003485) conserved hypothetical protein... 78 1e-13
ref|NP_267154.1| (NC_002662) pseudouridine synthase [Lactoc... 78 1e-13
ref|NP_455681.1| (NC_003198) ribosomal large subunit pseudo... 78 1e-13
ref|NP_110237.1| (NC_000912) pseudouridine synthase [Mycopl... 78 1e-13
ref|NP_608079.1| (NC_003485) conserved hypothetical protein... 78 1e-13
ref|NP_655109.1| (NC_003995) PseudoU_synth_2, RNA pseudouri... 77 2e-13
ref|NP_270003.1| (NC_002737) conserved hypothetical protein... 77 2e-13
gb|AAF78056.1|AF263561_1 (AF263561) 23S rRNA pseudouridine ... 77 2e-13
ref|NP_371721.1| (NC_002758) conserved hypothetical protein... 77 2e-13
ref|NP_415604.1| (NC_000913) orf, hypothetical protein [Esc... 77 2e-13
ref|NP_220177.1| (NC_000117) (Pseudouridine Synthase) [Chla... 77 2e-13
ref|NP_190794.1| (NM_115086) pseudouridine synthase, putati... 77 2e-13
ref|NP_470305.1| (NC_003212) similar to ribosomal large sub... 77 2e-13
ref|NP_460157.1| (NC_003197) 23S rRNA pseudouridylate synth... 77 2e-13
ref|NP_354476.1| (NC_003062) AGR_C_2714p [Agrobacterium tum... 77 3e-13
ref|NP_219609.1| (NC_000117) predicted pseudouridine synthe... 77 3e-13
ref|NP_532161.1| (NC_003304) ribosomal large subunit pseudo... 77 3e-13
ref|NP_296760.1| (NC_002620) RNA pseudouridylate synthase f... 77 3e-13
ref|NP_287220.1| (NC_002655) orf, hypothetical protein [Esc... 76 4e-13
sp|P44197|YQCB_HAEIN Hypothetical protein HI1435 76 4e-13
ref|NP_372374.1| (NC_002758) conserved hypothetical protein... 76 5e-13
ref|NP_269039.1| (NC_002737) conserved hypothetical protein... 75 7e-13
ref|NP_645897.1| (NC_003923) conserved hypothetical protein... 75 7e-13
ref|NP_345413.1| (NC_003028) ribosomal large subunit pseudo... 75 7e-13
ref|XP_128468.1| (XM_128468) RIKEN cDNA 2310051D06 gene [Mu... 75 7e-13
gb|AAF32394.1|AF224466_1 (AF224466) putative pseudouridylat... 75 9e-13
ref|NP_438574.1| (NC_000907) conserved hypothetical protein... 75 9e-13
ref|NP_471291.1| (NC_003212) similar to conserved hypotheti... 75 9e-13
ref|NP_457133.1| (NC_003198) ftsH suppressor protein SfhB [... 75 9e-13
ref|NP_337928.1| (NC_002755) RNA pseudouridylate synthase f... 75 9e-13
ref|NP_465368.1| (NC_003210) similar to conserved hypotheti... 75 9e-13
ref|NP_358424.1| (NC_003098) 23S rRNA pseudouridine synthas... 75 9e-13
gb|AAG10501.1|AF279106_63 (AF279106) predicted ribosomal la... 75 9e-13
ref|NP_385495.1| (NC_003047) PROBABLE RIBOSOMAL LARGE SUBUN... 75 1e-12
pir||T46096 hypothetical protein T25B15.30 - Arabidopsis th... 74 2e-12
ref|NP_245929.1| (NC_002663) RluC [Pasteurella multocida] >... 74 2e-12
ref|NP_245570.1| (NC_002663) unknown [Pasteurella multocida... 74 2e-12
ref|NP_637448.1| (NC_003902) pseudouridylate synthase [Xant... 74 2e-12
ref|NP_073042.1| (NC_000908) conserved hypothetical protein... 74 2e-12
ref|NP_348732.1| (NC_003030) Predicted pseudouridylate synt... 74 2e-12
ref|NP_657862.1| (NC_003995) PseudoU_synth_2, RNA pseudouri... 74 2e-12
ref|NP_217817.1| (NC_000962) hypothetical protein Rv3300c [... 74 2e-12
ref|NP_519749.1| (NC_003295) PROBABLE RIBOSOMAL LARGE SUBUN... 74 2e-12
ref|NP_464494.1| (NC_003210) similar to ribosomal large sub... 74 3e-12
ref|NP_404140.1| (NC_003143) ribosomal large subunit pseudo... 73 3e-12
ref|NP_251936.1| (NC_002516) pseudouridine synthase RluA [P... 73 4e-12
ref|NP_251665.1| (NC_002516) ribosomal large subunit pseudo... 73 4e-12
ref|NP_359416.1| (NC_003098) Ribosomal large subunit pseudo... 73 4e-12
ref|NP_346438.1| (NC_003028) ribosomal large subunit pseudo... 72 6e-12
ref|NP_643525.1| (NC_003919) ribosomal large subunit pseudo... 72 7e-12
ref|NP_603923.1| (NC_003454) tRNA pseudouridine synthase A ... 72 7e-12
ref|NP_601339.1| (NC_003450) COG0564:Pseudouridylate syntha... 72 7e-12
ref|NP_345571.1| (NC_003028) ribosomal large subunit pseudo... 72 1e-11
ref|NP_478072.1| (NM_058192) ribosomal large subunit pseudo... 72 1e-11
ref|NP_404651.1| (NC_003143) Conserved hypothetical protein... 72 1e-11
ref|NP_414600.1| (NC_000913) pseudouridylate synthase; orf,... 71 1e-11
ref|NP_626332.1| (NC_003888) putative ribosomal large subun... 71 2e-11
ref|NP_371532.1| (NC_002758) conserved hypothetical protein... 71 2e-11
ref|NP_438215.1| (NC_000907) conserved hypothetical protein... 71 2e-11
ref|NP_360947.1| (NC_003103) sfhB protein homolog [Ricketts... 70 2e-11
sp|Q47417|YQCB_ERWCA Exoenzyme regulation regulon ORF1 >gi|... 70 3e-11
ref|NP_232505.1| (NC_002506) ribosomal large subunit pseudo... 70 3e-11
ref|NP_645706.1| (NC_003923) conserved hypothetical protein... 70 3e-11
ref|NP_347651.1| (NC_003030) Pseudouridylate synthase [Clos... 70 3e-11
ref|NP_221194.1| (NC_000963) SFHB PROTEIN HOMOLOG (sfhB) [R... 70 3e-11
sp|Q45480|YLYB_BACSU Hypothetical protein ylyB >gi|1373157|... 70 3e-11
ref|NP_638435.1| (NC_003902) ribosomal large subunit pseudo... 69 5e-11
ref|NP_216056.1| (NC_000962) hypothetical protein Rv1540 [M... 69 5e-11
ref|NP_285754.1| (NC_002655) orf, hypothetical protein [Esc... 69 8e-11
sp|O66114|YLP4_ZYMMO Hypothetical 24.4 kDa protein in LPD 3... 69 8e-11
ref|NP_231304.1| (NC_002505) pseudouridine synthase Rlu fam... 69 8e-11
ref|NP_223400.1| (NC_000921) putative [Helicobacter pylori ... 68 1e-10
ref|NP_484566.1| (NC_003272) probable pseudouridine synthas... 68 1e-10
ref|NP_281880.1| (NC_002163) putative ribosomal pseudouridi... 68 1e-10
gb|EAA09234.1| (AAAB01008898) agCP13979 [Anopheles gambiae ... 68 1e-10
ref|NP_389429.1| (NC_000964) alternate gene name: ylmL~simi... 68 1e-10
ref|NP_454707.1| (NC_003198) ribosomal large subunit pseudo... 67 2e-10
ref|NP_459100.1| (NC_003197) 23S rRNA pseudouridylate 746 s... 67 2e-10
ref|NP_207538.1| (NC_000915) conserved hypothetical protein... 67 2e-10
pir||B23747 ORFX protein, 5' of ams - Escherichia coli (fra... 67 2e-10
ref|NP_660729.1| (NC_004061) ribosomal large subunit pseudo... 67 2e-10
ref|NP_243713.1| (NC_002570) BH2847~unknown conserved prote... 67 3e-10
ref|NP_220643.1| (NC_000963) unknown [Rickettsia prowazekii... 66 4e-10
ref|NP_298229.1| (NC_002488) ribosomal large subunit pseudo... 66 5e-10
gb|AAL47436.1| (AY069882) AT3g52260/T25B15_30 [Arabidopsis ... 66 5e-10
ref|NP_607212.1| (NC_003485) conserved hypothetical protein... 66 5e-10
ref|NP_273256.1| (NC_003112) ribosomal large subunit pseudo... 65 7e-10
ref|NP_232134.1| (NC_002505) ribosomal large subunit pseudo... 65 9e-10
ref|NP_283855.1| (NC_003116) hypothetical protein NMA1085 [... 65 9e-10
ref|NP_597410.1| (NC_003232) similarity to HYPOTHETICAL PRO... 65 9e-10
ref|NP_269281.1| (NC_002737) conserved hypothetical protein... 65 9e-10
ref|NP_282427.1| (NC_002163) putative ribosomal pseudouridi... 65 9e-10
ref|NP_299883.1| (NC_002488) pseudouridylate synthase [Xyle... 65 9e-10
ref|NP_273908.1| (NC_003112) YabO/YceC/SfhB family protein ... 65 9e-10
ref|NP_602133.1| (NC_003450) COG0564:Pseudouridylate syntha... 65 9e-10
ref|NP_359981.1| (NC_003103) ribosomal large subunit pseudo... 65 1e-09
ref|NP_282921.1| (NC_003116) ribosomal large subunit pseudo... 65 1e-09
ref|NP_243408.1| (NC_002570) BH2542~unknown conserved prote... 64 2e-09
ref|NP_625900.1| (NC_003888) putative ribosomal pseudouridi... 64 2e-09
ref|NP_419272.1| (NC_002696) ribosomal large subunit pseudo... 64 2e-09
ref|NP_295407.1| (NC_001263) pseudouridine synthase, putati... 63 3e-09
ref|NP_102152.1| (NC_002678) ribosomal large subunit pseudo... 63 5e-09
ref|NP_562120.1| (NC_003366) ribosomal large subunit pseudo... 63 5e-09
ref|NP_218779.1| (NC_000919) conserved hypothetical protein... 63 5e-09
ref|NP_199927.1| (NM_124493) putative protein [Arabidopsis ... 62 8e-09
gb|AAL31256.1| (AY061753) AT5g51140/MWD22_8 [Arabidopsis th... 62 8e-09
ref|NP_301874.1| (NC_002677) putative pseudouridine synthas... 62 8e-09
ref|NP_104781.1| (NC_002678) pseudouridine synthase [Mesorh... 62 8e-09
ref|NP_644614.1| (NC_003919) pseudouridylate synthase [Xant... 62 8e-09
ref|NP_355395.1| (NC_003062) AGR_C_4432p [Agrobacterium tum... 62 1e-08
ref|NP_389044.1| (NC_000964) similar to hypothetical protei... 62 1e-08
ref|NP_533115.1| (NC_003304) pseudouridine synthase homolog... 62 1e-08
ref|NP_283249.1| (NC_003116) putative psedouridine synthase... 62 1e-08
ref|NP_420787.1| (NC_002696) ribosomal large subunit pseudo... 61 1e-08
ref|NP_441760.1| (NC_000911) hypothetical protein [Synechoc... 61 1e-08
ref|NP_250733.1| (NC_002516) hypothetical protein [Pseudomo... 61 1e-08
ref|NP_275010.1| (NC_003112) conserved hypothetical protein... 61 1e-08
ref|NP_493778.1| (NM_061377) K07E8.7.p [Caenorhabditis eleg... 60 2e-08
ref|NP_519162.1| (NC_003295) PROBABLE RIBOSOMAL LARGE SUBUN... 60 2e-08
ref|NP_077944.1| (NC_002162) pseudouridine synthase (uracil... 60 3e-08
ref|NP_386831.1| (NC_003047) PUTATIVE RIBOSOMAL LARGE SUBUN... 60 3e-08
ref|NP_488120.1| (NC_003272) ribosomal large chain pseudour... 60 3e-08
dbj|BAB13516.1| (AB037369) pseudouridine synthase homolog [... 60 3e-08
ref|XP_165571.1| (XM_165571) hypothetical protein FLJ14494 ... 59 5e-08
gb|AAM61068.1| (AY084499) unknown [Arabidopsis thaliana] 59 7e-08
ref|NP_440308.1| (NC_000911) hypothetical protein [Synechoc... 59 9e-08
ref|NP_599568.1| (NC_003450) COG0564:Pseudouridylate syntha... 59 9e-08
ref|NP_218671.1| (NC_000919) conserved hypothetical protein... 58 1e-07
ref|NP_116184.1| (NM_032795) hypothetical protein FLJ14494 ... 58 1e-07
ref|NP_640600.1| (NC_003919) pseudouridylate synthase [Xant... 57 2e-07
ref|NP_639523.1| (NC_003902) pseudouridylate synthase [Xant... 57 3e-07
ref|NP_325948.1| (NC_002771) RIBOSOMAL LARGE SUBUNIT PSEUDO... 55 7e-07
gb|AAD12509.1| (U02214) Homology to M62747 [Mycoplasma geni... 55 7e-07
ref|NP_635620.1| (NC_003902) pseudouridylate synthase [Xant... 54 2e-06
ref|XP_134644.1| (XM_134644) RIKEN cDNA 2410001E19 [Mus mus... 53 4e-06
ref|NP_439586.1| (NC_000907) conserved hypothetical protein... 52 8e-06
ref|NP_212949.1| (NC_001318) conserved hypothetical protein... 52 1e-05
ref|NP_266520.1| (NC_002662) pseudouridine synthase [Lactoc... 51 1e-05
dbj|BAB26589.1| (AK009926) data source:SPTR, source key:Q9U... 50 3e-05
ref|NP_218593.1| (NC_000919) conserved hypothetical protein... 49 7e-05
pir||S26602 hypothetical protein 185 - Pseudomonas aerugino... 49 9e-05
gb|AAB07777.1| (U67934) 44.9 kDa protein C18B11 homolog [Ho... 49 9e-05
gb|AAH12951.1|AAH12951 (BC012951) Unknown (protein for IMAG... 48 1e-04
ref|NP_188575.1| (NM_112831) unknown protein [Arabidopsis t... 47 2e-04
gb|AAM33173.1| (AC117072) hypothetical protein [Dictyosteli... 47 2e-04
gb|AAB09035.1| (U68242) orfEU5; uncharacterized orf upstrea... 47 2e-04
gb|AAA03374.1| (U02220) unknown [Mycoplasma genitalium] 46 6e-04
ref|NP_224603.1| (NC_000922) predicted pseudouridine synthe... 45 0.001
gb|AAG24942.1|AF128845_1 (AF128845) RluD [Sinorhizobium mel... 44 0.002
emb|CAC00347.2| (AL160371) possible hypothetical 46.8 Kd pr... 42 0.008
>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 = 596 bits (1537), Expect = e-170
Identities = 298/298 (100%), Positives = 298/298 (100%)
Query: 1 MPFVEEEFEILKPTKALFFVRDVLKCSLKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRLI 60
MPFVEEEFEILKPTKALFFVRDVLKCSLKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRLI
Sbjct: 1 MPFVEEEFEILKPTKALFFVRDVLKCSLKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRLI 60
Query: 61 HFKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDY 120
HFKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDY
Sbjct: 61 HFKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDY 120
Query: 121 ETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLH 180
ETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLH
Sbjct: 121 ETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLH 180
Query: 181 IRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
IRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG
Sbjct: 181 IRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
Query: 241 VADENAREYLQLKRENNAPLLMLHAASLEFEFKGAIYKIASPMPERFMPFLKDLSFFY 298
VADENAREYLQLKRENNAPLLMLHAASLEFEFKGAIYKIASPMPERFMPFLKDLSFFY
Sbjct: 241 VADENAREYLQLKRENNAPLLMLHAASLEFEFKGAIYKIASPMPERFMPFLKDLSFFY 298
>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 = 547 bits (1410), Expect = e-155
Identities = 274/293 (93%), Positives = 281/293 (95%)
Query: 1 MPFVEEEFEILKPTKALFFVRDVLKCSLKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRLI 60
MPFVEEEFEILKPTKALF VRDVLKCSLKEAQRHLDKQRLKQNQQ VRKSQIIQGVVRLI
Sbjct: 1 MPFVEEEFEILKPTKALFLVRDVLKCSLKEAQRHLDKQRLKQNQQTVRKSQIIQGVVRLI 60
Query: 61 HFKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDY 120
+FKPNEK + LVFE KDFGVFDKP Q+YTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDY
Sbjct: 61 YFKPNEKQEKLVFEAKDFGVFDKPAQIYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDY 120
Query: 121 ETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLH 180
ETSGLVLAGKTLQS KDLKALFMQKKVKKTYLALAHGLV+KS+ I+KPILTPQNIQKDL
Sbjct: 121 ETSGLVLAGKTLQSTKDLKALFMQKKVKKTYLALAHGLVDKSIIINKPILTPQNIQKDLR 180
Query: 181 IRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
IRS+ISPLGK SITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG
Sbjct: 181 IRSQISPLGKPSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
Query: 241 VADENAREYLQLKRENNAPLLMLHAASLEFEFKGAIYKIASPMPERFMPFLKD 293
VADENAREYLQLKRENNAP LMLHAASLEFEFKGA YKIASPMPERFMPFLKD
Sbjct: 241 VADENAREYLQLKRENNAPTLMLHAASLEFEFKGAHYKIASPMPERFMPFLKD 293
>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 = 177 bits (449), Expect = 1e-43
Identities = 111/275 (40%), Positives = 161/275 (58%), Gaps = 9/275 (3%)
Query: 15 KALFFVRDVLKCSLKEAQRHLDKQRLKQNQQAVR-KSQIIQGVVRLIHFKPNEKTQALVF 73
KA + + LK S+ EAQ+ +DK+RL + V K++I+ G+V LI ++ N K +VF
Sbjct: 14 KAFQVLMENLKISINEAQKLIDKKRLFCDGILVEEKNKILNGLVELIVYENNPKGVEIVF 73
Query: 74 ETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDYETSGLVLAGKTLQ 133
E +DF + +K + +HP G SL D I +GK A AHRLD ETSGL+L K +
Sbjct: 74 ENEDFAILEKESGILSHPNGRHCKYSLSDEIWHLWGKEACVAHRLDKETSGLILIAKNKK 133
Query: 134 SVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPLGKQSI 193
+ DLK+LF +K V+K YLALAHG +E++ +DK I +N D+ R +I GKQ+I
Sbjct: 134 AQIDLKSLFEKKLVQKEYLALAHGKIEENFIVDKAINLTKNYD-DVKTRMQICKEGKQAI 192
Query: 194 TLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLK 253
T E L Y P ++ +LL PLTGR HQIR+HL +H I+G+ LYG++ + L K
Sbjct: 193 TEFEILEYFPKINATLLLCKPLTGRQHQIRVHLHYKNHTILGDPLYGLSKQQIESILDEK 252
Query: 254 -------RENNAPLLMLHAASLEFEFKGAIYKIAS 281
+ A L LH+ L+F++K + I S
Sbjct: 253 LNPKERLKLTGALRLCLHSYRLKFQYKNQNFDINS 287
>gb|AAC69259.1| (AF025970) hypothetical protein [Helicobacter pylori]
Length = 83
Score = 163 bits (412), Expect = 2e-39
Identities = 80/83 (96%), Positives = 81/83 (97%)
Query: 211 KITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAASLEF 270
KITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLKRENNAP LMLHAASLEF
Sbjct: 1 KITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLKRENNAPTLMLHAASLEF 60
Query: 271 EFKGAIYKIASPMPERFMPFLKD 293
EFKGA YKIASPMP+RFMPFLKD
Sbjct: 61 EFKGAHYKIASPMPKRFMPFLKD 83
>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 = 103 bits (257), Expect = 2e-21
Identities = 87/295 (29%), Positives = 145/295 (48%), Gaps = 31/295 (10%)
Query: 9 EILKPTKALFFVRDVLKCSLKEAQRHLDKQRLKQNQQAVRKSQIIQGVV----RLIHFKP 64
+ LK + R +++ ++KE + ++ Q +K+ +++ +I++ + + +P
Sbjct: 17 QFLKEKTPSWISRSMIQKAIKEGKVKVNGQ-IKKPSYKLKEGEIVEVDLPEKPQEATVQP 75
Query: 65 NEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSH------FGKNAHPA--H 116
E +++E +D V DKP + HP +L++ + H G P H
Sbjct: 76 EEIELKVLYEDRDIIVIDKPGDMIVHPVPSKLSGTLVNALLHHCKDLQGVGGKLRPGIVH 135
Query: 117 RLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILT-PQNI 175
RLD ETSG+++ K + + L F +KVKKTY+ L G MK D+ ++ P
Sbjct: 136 RLDKETSGVIVVAKNDFAHQSLSKQFKDRKVKKTYILLVKG----KMKNDEGVIDLPLAR 191
Query: 176 QKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKIT-PLTGRTHQIRLHLSSVDHRIV 234
L I+ + GK++IT L F D++ L + P TGRTHQIR+H+ S+ H I+
Sbjct: 192 HPVLRIKMAVVETGKEAITEYRVLKR--FDDVATLVLAFPKTGRTHQIRVHMKSLGHPIM 249
Query: 235 GEGLYGVADENAREYLQLKRENNAPLLMLHAASLEF--EFKGAIYKIASPMPERF 287
G+ +YG E+ E +KR+ MLHA L F G + SP+PE F
Sbjct: 250 GDKIYGKPKED--EIFGIKRQ------MLHALKLGFFHPRTGEWMEFVSPLPEDF 296
>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 = 98.2 bits (243), Expect = 1e-19
Identities = 63/230 (27%), Positives = 122/230 (52%), Gaps = 21/230 (9%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-NAHPAHRLDYETSGLVLAG 129
++FE +D + +KP + HP + +L + ++ + N + HRLD TSGL++
Sbjct: 81 IIFEDQDLLIVNKPSGMLVHPTSFHEQNTLANALKYYLKTDNFYITHRLDKNTSGLIIIC 140
Query: 130 KTLQSVKDLKALFMQKKVKKTYLALAHGLVEKS---MKIDKPILTPQNIQKDLHIRSKIS 186
K ++ L+ FMQK ++K+Y A+ H + I++PI + Q L +++ S
Sbjct: 141 KNQIALNSLQQQFMQKTIRKSYYAIVHNRFDMQHLHFMINEPI--GHSYQDKLRMKTGNS 198
Query: 187 PLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENA 246
K++I++V+ L + + +L++++ +TGRTHQIR+H+ ++H + + LYG++ ++
Sbjct: 199 KNTKEAISIVKVL--EQYKNTALVEVSIITGRTHQIRVHMRYINHPVYNDPLYGIS-KHT 255
Query: 247 REYLQLKRENNAPLLMLHAASLEFEFKGAIYKIASP--MPERFMPFLKDL 294
EY Q LH+ + F K+ MP+ FM +++L
Sbjct: 256 TEYEQ----------YLHSFYISFNHPSTNKKVEFKINMPKEFMELIREL 295
>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 = 97.8 bits (242), Expect = 1e-19
Identities = 70/229 (30%), Positives = 115/229 (49%), Gaps = 26/229 (11%)
Query: 53 IQGVVRLIHFKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG--- 109
IQ L+ P V+E V +KP + HP +H +L+ + G
Sbjct: 66 IQEKEELLELLPEAIPLDKVYEDGMILVINKPRDMVVHPAPGHFHGTLVHALLHEIGERL 125
Query: 110 KNAHP--------AHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEK 161
K P HRLD +TSGL++ KT Q+ K LF K++KK+YLA+ G +
Sbjct: 126 KEEFPEEPWRPGIVHRLDKDTSGLIITAKTRQAKKVFSELFSTKRLKKSYLAVCIG-KPR 184
Query: 162 SMKIDKPILTPQNIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQ 221
S I I QN +K++ + S+ GK+++T + L++N +S + ++P TGRTHQ
Sbjct: 185 STTIHTHISRHQNKRKEMTVSSQ----GKEAVTHCQVLAFNG--KLSFVALSPETGRTHQ 238
Query: 222 IRLHLSSVDHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAASLEF 270
+R+H+ + I+G+ +YG+ N+ L ++ LHA S++F
Sbjct: 239 LRVHMKHLGTPILGDPVYGIPSMNSSYGLDKQQ--------LHAYSVDF 279
>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 = 95.5 bits (236), Expect = 6e-19
Identities = 77/282 (27%), Positives = 134/282 (47%), Gaps = 19/282 (6%)
Query: 19 FVRDVLKCSLKEAQRHLDKQRLKQNQQAVRKSQIIQGVV---RLIHFKPNEKTQALVFET 75
F R +K +KE +++ + +++ + +R+ + + V + KP +++E
Sbjct: 29 FSRSYIKKLVKEGLVYVNGEEVRKPSRKLREGERVILHVPEPEPLDVKPENIPINIIYED 88
Query: 76 KDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHF------GKNAHPA--HRLDYETSGLVL 127
+D V +KP + HP + +L++ + H G P HRLD ET+G+++
Sbjct: 89 EDIAVVEKPCGLVVHPSPGYTSGTLVNALLYHIKDLSSIGGVERPGIVHRLDKETAGVMV 148
Query: 128 AGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-KIDKPILTPQNIQKDLHIRSKIS 186
K + ++L F ++K +K Y L GLV+K ID PI +K +R +
Sbjct: 149 IAKNNTAHRNLVRQFQERKTEKFYKVLVKGLVKKDYGAIDTPIARHPVDRKRFWVRKE-- 206
Query: 187 PLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENA 246
GK+++T L +I+LLK+ TGRTHQIR+H +S+ H ++G+ YG +
Sbjct: 207 --GKEALTEYWVLKRYEKYEITLLKVKIHTGRTHQIRVHFASIGHPVLGDRTYGFKSSSV 264
Query: 247 -REYLQLKRENNAPLLMLHAASLEFEFKGAIYKIASPMPERF 287
+E L L E N +L+ + KG PE F
Sbjct: 265 PKELLSLMGECN--MLIAYHLGFYHPTKGEWMVFEIEEPETF 304
>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 = 94.0 bits (232), Expect = 2e-18
Identities = 72/222 (32%), Positives = 108/222 (48%), Gaps = 29/222 (13%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHPAHRLDYETSGL 125
+++E V +KP + THP + ++ + +Q + K NA HRLD TSGL
Sbjct: 80 IIYEDDFLLVVNKPVDMKTHPNDSYETDTCANAVQYYLEKTGQDANALAVHRLDQTTSGL 139
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMK-IDKPILTPQNIQKDLH--IR 182
VL K ++ L + + +TYLA G M+ I+KPI +D H R
Sbjct: 140 VLFAKNKLAIAGLSWQMENRAIHRTYLAAVDGTWGLVMQTINKPI------GEDRHHGSR 193
Query: 183 SKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVA 242
+ISP G+ ++T V+ L + + SL++ TGRTHQIR+HLS + H I+G+ LYG +
Sbjct: 194 RQISPYGQPAVTHVKVLENDNEKNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLYGGS 253
Query: 243 DENAREYLQLKRENNAPLLMLHAASLEFE--FKGAIYKIASP 282
R +MLHA L FKG ++P
Sbjct: 254 PRANR-------------IMLHAEKLHLNHPFKGKEMNFSAP 282
>ref|NP_563038.1| (NC_003366) conserved hypothetical protein [Clostridium
perfringens]
dbj|BAB81828.1| (AP003193) conserved hypothetical protein [Clostridium perfringens]
Length = 298
Score = 91.7 bits (226), Expect = 9e-18
Identities = 69/199 (34%), Positives = 97/199 (48%), Gaps = 28/199 (14%)
Query: 61 HFKPNEKTQALVFETKDFGVFDKP-----HQVYTHPKG-------YFYHESLLDCIQSHF 108
+ +P + +V+E D V +K H +HP G Y++ ES DCI
Sbjct: 71 NIEPEKMDIEIVYEDSDILVLNKKPFMVVHPTRSHPNGTLANGILYYFKESNQDCI---- 126
Query: 109 GKNAHPAHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDK 167
RLD TSGL++ GK + L K +K YLA+ HG L EK I++
Sbjct: 127 ---VRLVSRLDMNTSGLIIIGKNQYAHMVLSNEMKTDKFQKRYLAIVHGNLEEKEGTINR 183
Query: 168 PILTPQNIQKDLHIRSKISPLGKQSITLVEPL-SYNPFLDISLLKITPLTGRTHQIRLHL 226
PI P I+ + G++SIT + + SYN L++ TGRTHQIR+HL
Sbjct: 184 PIYRPAEDT----IKRVVDERGQESITHYKVIESYN---GADLVECLLETGRTHQIRVHL 236
Query: 227 SSVDHRIVGEGLYGVADEN 245
SS+ H I G+ LYG DE+
Sbjct: 237 SSLGHPIFGDSLYGTEDED 255
>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 = 91.3 bits (225), Expect = 1e-17
Identities = 75/288 (26%), Positives = 134/288 (46%), Gaps = 40/288 (13%)
Query: 4 VEEEFEILKPTKALFFVRDVLKCSLKEAQRHLDKQRLKQNQQAVRKS----------QII 53
V E+E ++ K + + + + ++ +D +K N + + K+ +++
Sbjct: 17 VNSEYEGMRLDK--YLSEQIEEATRSYLEKLIDNNFVKVNSKIINKNGRKLKLGEKIEVL 74
Query: 54 QGVVRLIHFKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQ------SH 107
I +P +V+E DF + +K + + HP Y +L++ + S
Sbjct: 75 IPEEENIDIEPENIPLNIVYENDDFILINKSYGMVVHPAYGNYTGTLVNALLYYTNNLSS 134
Query: 108 FGKNAHPA--HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEK---S 162
N P HRLD +TSGL+L K + L ++F+ K + KTYL + G + S
Sbjct: 135 VNGNIRPGIIHRLDKDTSGLILVAKNNYAHAKLASMFIDKTIHKTYLCIVKGNFSEENLS 194
Query: 163 MKIDKPILTPQNIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQI 222
+I+ I +K + I + + + +VE + SL+++ TGRTHQI
Sbjct: 195 GRIENLIGRDSKDRKKMTIVKENGKIAISNYKVVEQVE-----GYSLVEVAIETGRTHQI 249
Query: 223 RLHLSSVDHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAASLEF 270
R+H+ S++H I+G+ +YG D+N +KR+ MLHA LEF
Sbjct: 250 RVHMKSINHVILGDSVYGTEDKN------VKRQ------MLHAYKLEF 285
>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 = 91.3 bits (225), Expect = 1e-17
Identities = 67/245 (27%), Positives = 119/245 (48%), Gaps = 31/245 (12%)
Query: 63 KPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG--------KNAHP 114
+P+ A+++E + V +KP + +HP + +++++ + H + P
Sbjct: 88 RPSNIPIAIIYEDSNVIVLNKPQGILSHPGISHWDDTVVNFLLYHIKSLKINFNEEKIRP 147
Query: 115 A--HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTP 172
HRLD +TSG+++ K + +++ L F K+ K Y+A+ G +
Sbjct: 148 GIVHRLDKDTSGVLICAKNISTLRFLAQQFKDKRTNKVYIAIVKGNFNSFFGSIESF--- 204
Query: 173 QNIQKDLHIRSKIS---PLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSV 229
I +D H R K S GK+++T L F + SLL + P TGRTHQ+R+H+ +
Sbjct: 205 --IDRDKHNRKKFSVSKDRGKKALTEYRLLLN--FGEYSLLALKPKTGRTHQLRVHMKYL 260
Query: 230 DHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAASLEFEF-KGAIYKIASPMPERFM 288
+ I+G+ +YG D + ++ LMLH+ LE + K + K S P+RF+
Sbjct: 261 NFPILGDEVYGRVDGSLKKI----------TLMLHSYKLEIDVGKNSFKKFISEFPKRFV 310
Query: 289 PFLKD 293
FL +
Sbjct: 311 IFLSN 315
>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 = 91.3 bits (225), Expect = 1e-17
Identities = 65/163 (39%), Positives = 91/163 (54%), Gaps = 24/163 (14%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKA--LFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQ 173
HRLD ETSG++L K S LKA F + VKK YLA+ G++E+ +I+ PILT
Sbjct: 90 HRLDKETSGVILLVKE-NSEFHLKAKKAFKDRAVKKEYLAIVQGIIEEEREINAPILTI- 147
Query: 174 NIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRI 233
K SKIS G++++T++ PL +LLK+ TGRTHQIR+HL ++H I
Sbjct: 148 ---KTTKAFSKISKKGQEAVTIITPLKI--INKKTLLKVGIKTGRTHQIRVHLKHINHPI 202
Query: 234 VGEGLYGVADENAREYLQLKRENNAPLLMLHA---ASLEFEFK 273
+G+ LY ++A LMLHA A L +EF+
Sbjct: 203 IGDTLYN------------NEPSSAKRLMLHAHKIALLGYEFE 233
>sp|P70870|RLUD_BORBU Ribosomal large subunit pseudouridine synthase D (Pseudouridylate
synthase) (Uracil hydrolyase)
Length = 326
Score = 91.3 bits (225), Expect = 1e-17
Identities = 67/245 (27%), Positives = 119/245 (48%), Gaps = 31/245 (12%)
Query: 63 KPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG--------KNAHP 114
+P+ A+++E + V +KP + +HP + +++++ + H + P
Sbjct: 78 RPSNIPIAIIYEDSNVIVLNKPQGILSHPGISHWDDTVVNFLLYHIKSLKINFNEEKIRP 137
Query: 115 A--HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTP 172
HRLD +TSG+++ K + +++ L F K+ K Y+A+ G +
Sbjct: 138 GIVHRLDKDTSGVLICAKNISTLRFLAQQFKDKRTNKVYIAIVKGNFNSFFGSIESF--- 194
Query: 173 QNIQKDLHIRSKIS---PLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSV 229
I +D H R K S GK+++T L F + SLL + P TGRTHQ+R+H+ +
Sbjct: 195 --IDRDKHNRKKFSVSKDRGKKALTEYRLLLN--FGEYSLLALKPKTGRTHQLRVHMKYL 250
Query: 230 DHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAASLEFEF-KGAIYKIASPMPERFM 288
+ I+G+ +YG D + ++ LMLH+ LE + K + K S P+RF+
Sbjct: 251 NFPILGDEVYGRVDGSLKKI----------TLMLHSYKLEIDVGKNSFKKFISEFPKRFV 300
Query: 289 PFLKD 293
FL +
Sbjct: 301 IFLSN 305
>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 = 91.3 bits (225), Expect = 1e-17
Identities = 68/255 (26%), Positives = 122/255 (47%), Gaps = 27/255 (10%)
Query: 51 QIIQGVVRLIHFKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK 110
++I+ + + I KP + +V+E + V +KP + HP Y ++L++ + HF
Sbjct: 57 EVIKVIDKTIDLKPEKMDLDIVYEDEHLIVINKPSGLVVHPAPGHYSQTLVNGLIYHFKN 116
Query: 111 NAHP--------AHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVE-K 161
++ HR+D +TSGL++ KT Q + L + ++K++Y+A+ G E K
Sbjct: 117 LSNENGLLRPGIVHRIDKDTSGLLIIAKTNQVHQLLAKMLKNHEIKRSYIAIVEGFFENK 176
Query: 162 SMKIDKPILTPQNIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQ 221
+ ++ PI Q +K + I + S + L++ Y +SL++ TGRTHQ
Sbjct: 177 IVHLNLPIGRSQKDRKKMEITNNNSKNAITHVYLIKQFYYEK-QPLSLVECQLETGRTHQ 235
Query: 222 IRLHLSSVDHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAAS---LEFEFKGAIYK 278
IR+HL+ H + + LYG + + +YL + L +H + L FE
Sbjct: 236 IRVHLNYFKHPVWNDPLYGKSFSDYGQYLHAYK-----LFFVHPITNQELTFEI------ 284
Query: 279 IASPMPERFMPFLKD 293
PMPE F + +
Sbjct: 285 ---PMPEEFQRIINN 296
>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 = 90.9 bits (224), Expect = 2e-17
Identities = 67/163 (41%), Positives = 90/163 (55%), Gaps = 24/163 (14%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKA--LFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQ 173
HRLD ETSG+VL K S LKA F + VKK YLAL G++E+ +I+ PILT
Sbjct: 90 HRLDKETSGVVLLVKE-NSEFHLKAKKAFKDRAVKKEYLALTQGIIEEEREINAPILT-- 146
Query: 174 NIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRI 233
K SKIS G++++T++ PL +LLK+ TGRTHQIR+HL ++H I
Sbjct: 147 --FKTTKAFSKISKKGQEAVTIITPLKI--INKKTLLKVGIKTGRTHQIRVHLKHINHPI 202
Query: 234 VGEGLYGVADENAREYLQLKRENNAPLLMLHA---ASLEFEFK 273
+G+ LY + A LMLHA A L +EF+
Sbjct: 203 IGDTLYN------------NEPSLAKRLMLHAHKIALLGYEFE 233
>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 = 90.9 bits (224), Expect = 2e-17
Identities = 68/236 (28%), Positives = 117/236 (48%), Gaps = 19/236 (8%)
Query: 20 VRDVLKCSLKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRL-IHFKPNEKTQAL------- 71
++ LK S Q + Q++K N ++V + I++ R+ I + +E + +
Sbjct: 25 LKTALKASKPVIQDWMSHQQIKVNHESVLNNMIVKKGDRVFIDLQESEASSVIPEYGELD 84
Query: 72 -VFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPA-----HRLDYETSGL 125
+FE + +KP + THP +L + I H+ N HRLD +TSG
Sbjct: 85 ILFEDNHMLIINKPAGIATHPNEDGQTGTLANLIAYHYQINGETCKVRHVHRLDQDTSGA 144
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHIRSK 184
++ K + L +K +K+TY A+A G L K I+ PI + R +
Sbjct: 145 IVFAKHRLAHAILDQQLEKKTLKRTYTAIAEGKLRTKKGTINPPI----GRDRSHPTRRR 200
Query: 185 ISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
+SP G+ ++T + ++ N +SL+++ TGRTHQIR+HL+S+ H + G+ LYG
Sbjct: 201 VSPGGQTAVTHFKVMASNAKERLSLVELELETGRTHQIRVHLASLGHPLTGDSLYG 256
>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 = 90.9 bits (224), Expect = 2e-17
Identities = 55/185 (29%), Positives = 91/185 (48%), Gaps = 17/185 (9%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDYETSGLVLAGK 130
+VFE + V DKP + HP G FY ++ + ++ H G +A P +RLD TSGL++ K
Sbjct: 121 IVFEDESILVIDKPSGIPVHPTGQFYQNTITELLKLH-GVDALPCYRLDKITSGLLILAK 179
Query: 131 TLQSVKDLKALFMQKKVKKTYLALAHGLVEKS-MKIDKPILTPQNIQKDLHIRSKISPL- 188
QS +++ + + K YLA G S + +D + + +++P+
Sbjct: 180 NSQSAGEIQKSIRSRDMIKIYLARVKGRFPHSELILDNENAAETTFEDTSKVTVEMTPIY 239
Query: 189 --------------GKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
K +IT P+ Y D +++ P+TGRTHQIR+HL+ + H IV
Sbjct: 240 SIDPKRQFPVGLSTSKDAITKFYPIRYFSHADETVVACKPITGRTHQIRIHLARLGHPIV 299
Query: 235 GEGLY 239
+ +Y
Sbjct: 300 NDSVY 304
>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 = 90.1 bits (222), Expect = 3e-17
Identities = 71/222 (31%), Positives = 107/222 (47%), Gaps = 29/222 (13%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHPAHRLDYETSGL 125
+++E V +KP + TH + ++ + +Q + K NA HRLD TSGL
Sbjct: 80 IIYEDDFLLVVNKPVGMKTHANDSYETDTCANAVQYYLEKTGQEANALAVHRLDQTTSGL 139
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMK-IDKPILTPQNIQKDLH--IR 182
VL K ++ L + + +TYLA G M+ I+KPI +D H R
Sbjct: 140 VLFAKNKLAIAGLSWQMENRAIHRTYLAAVDGTWGLVMQTINKPI------GEDRHHGSR 193
Query: 183 SKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVA 242
+ISP G+ ++T V+ L + + SL++ TGRTHQIR+HLS + H I+G+ LYG
Sbjct: 194 RQISPYGQPAVTHVKVLENDNENNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLYG-- 251
Query: 243 DENAREYLQLKRENNAPLLMLHAASLEFE--FKGAIYKIASP 282
+ A +MLHA L FKG ++P
Sbjct: 252 -----------GSSRANRIMLHAEKLHLNHPFKGKEMNFSAP 282
>ref|XP_130420.1| (XM_130420) similar to CG6187 gene product [Mus musculus]
Length = 519
Score = 89.7 bits (221), Expect = 3e-17
Identities = 59/217 (27%), Positives = 110/217 (50%), Gaps = 8/217 (3%)
Query: 25 KCSLKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRLIHFKPNEKTQALVFETKDFGVFDKP 84
+ +++ + HL+++ ++ ++ + ++ V + L+ E D V DKP
Sbjct: 158 EAAVRAGRLHLNEEPVQDLSIVLKDNDFLRNTVHRHEPPVTAEPIHLLAENNDVVVIDKP 217
Query: 85 HQVYTHPKGYFYHESLLDCI-QSHFGKNAHPAHRLDYETSGLVLAGKTLQSVKDLKALFM 143
+ HP G F H +++ + + H K HP HRLD TSG+++ KT + +
Sbjct: 218 SSIPVHPCGRFRHNTVIFILGKEHQLKELHPLHRLDRLTSGVLMFAKTAAVSEKIHEQVR 277
Query: 144 QKKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHIRSKISPLGKQSITLVEPLSYN 202
++++K Y+ G +K + +PIL + + + ++ P GK T+ + LSYN
Sbjct: 278 DRQLEKEYVCRVAGEFPDKEVICKEPILV---VSYKVGV-CRVDPRGKPCETVFQRLSYN 333
Query: 203 PFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
S+++ PLTGRTHQIR+HL + H I+ + +Y
Sbjct: 334 G--RSSVVQCRPLTGRTHQIRVHLQFLGHPILNDPIY 368
>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 = 89.4 bits (220), Expect = 5e-17
Identities = 77/231 (33%), Positives = 113/231 (48%), Gaps = 28/231 (12%)
Query: 64 PNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHF---GKNA--HPAHRL 118
P + +V+E D V +KP + HP + H +L + + +F G+N +RL
Sbjct: 76 PEKMDLNIVYEDSDIIVLNKPANMIVHPTKNYQHGTLSNGLLYYFREKGENCIVRLVNRL 135
Query: 119 DYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMK--IDKPILTPQNIQ 176
D +TSGLVL K S L KK Y+A+ G + S+K IDKPI +
Sbjct: 136 DMDTSGLVLVAKNQFSHMALARDMKLDTFKKEYIAVVRGNLS-SLKGTIDKPIYK----E 190
Query: 177 KDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGE 236
++ IR I G++SIT E + + + +K+ TGRTHQIR+HLSS+ + I+G+
Sbjct: 191 EEEPIRRTIDDRGQESITHFEVVER--YKNADKVKLVLETGRTHQIRVHLSSIGNPIIGD 248
Query: 237 GLYGVADENAREYLQLKRENNAPLLMLHAASLEFEF--KGAIYKIASPMPE 285
LYG E +KR+ LHA L+F G I I +PE
Sbjct: 249 SLYGEESE------LIKRQ------ALHAFKLQFPHPRDGRIVNIEVKLPE 287
>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 = 89.0 bits (219), Expect = 6e-17
Identities = 71/292 (24%), Positives = 136/292 (46%), Gaps = 18/292 (6%)
Query: 19 FVRDVLKCSLKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRL---IHFKPNEKTQALVFET 75
+ R LK +++ H++ + + V + I+ VV + F+P +V+E
Sbjct: 30 YSRSRLKTWIEQNLVHVNGDVVNVPRAKVYGGEQIEIVVEIDDDTRFEPENLPLNIVYED 89
Query: 76 KDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHP-----AHRLDYETSGLVLAGK 130
D V +KP HP ++L+ + H+ A HRLD +T+GL++ K
Sbjct: 90 DDILVINKPKDFVVHPGAGNASGTVLNALLYHYPAIAEVPRAGIVHRLDKDTTGLMVIAK 149
Query: 131 TLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPLGK 190
T+ + L ++K+ + Y A+A G++ K +D+P+ ++ K H+ + P+GK
Sbjct: 150 TIPAQTKLVRDLQKRKITREYEAIACGIMTKGGMVDQPM--ARHPTKRTHM--AVHPMGK 205
Query: 191 QSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG----VADENA 246
++T + F + + L++ TGRTHQIR+H++ + H ++G+ YG +
Sbjct: 206 PAVTHYRIM--ERFRNYTRLRLRLETGRTHQIRVHMAHIAHPLLGDQTYGGRPRPPKNAS 263
Query: 247 REYLQLKRENNAPLLMLHAASLEFEFKGAIYKIASPMPERFMPFLKDLSFFY 298
E +Q R+ L L G + + +P+P F+ ++ L Y
Sbjct: 264 EELMQTLRDFKRQALHAIMLRLAHPITGELMEWHAPLPTDFVELVEALKADY 315
>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 = 88.2 bits (217), Expect = 1e-16
Identities = 60/188 (31%), Positives = 92/188 (48%), Gaps = 6/188 (3%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKN-AHPAHRLDYETSGLVLAG 129
++FE KD V +KP + THP + SLL H KN + HRLD +TSG ++
Sbjct: 82 VLFEDKDLMVINKPSGLLTHPTTFNEKASLLAACIFHNNKNPVYLVHRLDRDTSGAIVVC 141
Query: 130 KTLQSVKDLKALFMQKKVKKTYLALAHGLVEK-SMKIDKPILTPQNIQKDLHIRSKISPL 188
K S+ +L+ + +K+ Y+AL H + I+ P+ N + I
Sbjct: 142 KNQASLLNLQNQLQNRTLKRYYVALVHFPFNALTGSINAPLARVNNNKVMFKIAQTAK-- 199
Query: 189 GKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENARE 248
KQ+IT + ++ N +L+ + LTGRTHQIR+HL + H + + LYG+ E
Sbjct: 200 AKQAITKFKVINQNE--KAALISLELLTGRTHQIRVHLKFIQHPVYNDPLYGIKSEKKDS 257
Query: 249 YLQLKREN 256
Y Q N
Sbjct: 258 YGQFLHAN 265
>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 = 87.8 bits (216), Expect = 1e-16
Identities = 67/215 (31%), Positives = 102/215 (47%), Gaps = 19/215 (8%)
Query: 60 IHFKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPA---H 116
+ +P + +++E + V +KP+ + +HP + ESLL H N P H
Sbjct: 71 VEVQPYDFPLDILYEDEQIMVVNKPNGLISHPTSFNESESLLGAALFHC--NHQPVFLVH 128
Query: 117 RLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEK-SMKIDKPILTPQNI 175
RLD +TSG+++ K S+ L+ Q+ +K+ YLAL H ++ S I P+ N
Sbjct: 129 RLDRDTSGVIMLAKNQSSLLHLQKQLQQRVMKRYYLALVHFPLDSLSGTISAPLERVGN- 187
Query: 176 QKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVG 235
K + S K + T L+ N +L+K LTGRTHQIR+HL + H +
Sbjct: 188 NKVMWKVGNSSNKAKNAFTKFTVLNQNE--KAALIKCELLTGRTHQIRVHLQFIKHPVYN 245
Query: 236 EGLYGVADENAREYLQLKRENNAPLLMLHAASLEF 270
+ LYG+ E A EY Q LHA + F
Sbjct: 246 DPLYGLKSEQATEYGQ----------YLHAQQISF 270
>gb|AAF52961.1| (AE003628) CG6187 gene product [Drosophila melanogaster]
Length = 569
Score = 87.4 bits (215), Expect = 2e-16
Identities = 69/233 (29%), Positives = 111/233 (47%), Gaps = 22/233 (9%)
Query: 19 FVRDVLKCSLKEAQRHLDKQRLKQNQQAVRK------SQIIQGVVRLIHFKPNEKTQALV 72
FVR+ +E +R L+ +L N + V K + ++ VV + +V
Sbjct: 214 FVREFRAAPPEEYERSLEAGKLTVNSEKVPKDYKIKHNDLLANVVHRHEVPVTSQPIKIV 273
Query: 73 FETKDFGVFDKPHQVYTHPKGYFYHESLLDCI-QSHFGKNAHPAHRLDYETSGLVLAGKT 131
+ KD V +KP + HP G + H +++ + + H KN HRLD TSGL+L G+T
Sbjct: 274 YMDKDIVVVNKPASIPVHPCGRYRHNTVVFILAKEHNLKNLRTIHRLDRLTSGLLLFGRT 333
Query: 132 LQSVKDLKALFMQKKVKKTYLA-----LAHGLVEKSMKIDKPILTPQNIQKDLHIRSKIS 186
+ ++L+ ++V+K Y+ G+VE + KID + + + K+S
Sbjct: 334 AEKARELELQIRTRQVQKEYVCRVEGRFPDGIVECNEKIDV-------VSYKIGV-CKVS 385
Query: 187 PLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
P GK T + + I L K PLTGR HQIR+HL + + I + LY
Sbjct: 386 PKGKDCKTTFKRIGEVGSDSIVLCK--PLTGRMHQIRVHLQFLGYPISNDPLY 436
>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 = 87.4 bits (215), Expect = 2e-16
Identities = 55/171 (32%), Positives = 91/171 (53%), Gaps = 8/171 (4%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCI-QSHFGKNAHPAHRLDYETSGLVLAG 129
L+ E +D V DKP + HP G F H +++ + + H K HP HRLD TSG+++
Sbjct: 225 LLAENEDVVVVDKPSSIPVHPCGRFRHNTVIFILGKEHQLKELHPLHRLDRLTSGVLMFA 284
Query: 130 KTLQSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHIRSKISPL 188
KT + + ++++K Y+ G + + +PIL + + + ++ P
Sbjct: 285 KTAAVSERIHEQVRDRQLEKEYVCRVEGEFPTEEVTCKEPILV---VSYKVGV-CRVDPR 340
Query: 189 GKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
GK T+ + LSYN S+++ PLTGRTHQIR+HL + H I+ + +Y
Sbjct: 341 GKPCETVFQRLSYNG--QSSVVRCRPLTGRTHQIRVHLQFLGHPILNDPIY 389
>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 = 87.4 bits (215), Expect = 2e-16
Identities = 69/228 (30%), Positives = 115/228 (50%), Gaps = 28/228 (12%)
Query: 63 KPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCI--------QSHF----GK 110
+P + ++FE + +KP + THP +L++ + Q F G
Sbjct: 90 EPEDVPLDVIFEDEHLIAINKPPGMVTHPAPGVISGTLVNALLGRMSLPEQQDFDGPDGY 149
Query: 111 NAHPAHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGL--VEKSMKIDKP 168
HRLD +TSG+++ KT+ + L A F ++ KKTYLA+A G E+ +++D P
Sbjct: 150 RPGIVHRLDKDTSGVIVVAKTVAAHARLAAAFKDRETKKTYLAIAAGAWKAERPVQVDAP 209
Query: 169 ILTPQNIQKDLHIRSKISPLG-KQSITLVEPLSYNP---FLDISLLKITPLTGRTHQIRL 224
I Q IQ+ R + G +++ TL PL +P ++L++ P TGRTHQIR+
Sbjct: 210 IGRHQ-IQRQ---RMTVGGAGAREAQTLFTPLDAHPDGHGRTLALVRAQPRTGRTHQIRV 265
Query: 225 HLSSVDHRIVGEGLYGVADENA------REYLQLKRENNAPLLMLHAA 266
HL+ + I+G+ +YG A E ++L++ + +L L AA
Sbjct: 266 HLAHLGSPILGDAVYGRASEIMPRHALHAQFLEVPHPVSGDILHLQAA 313
>ref|NP_609411.1| (NM_135567) CG6187 gene product [Drosophila melanogaster]
gb|AAL13915.1| (AY058686) LD40728p [Drosophila melanogaster]
Length = 547
Score = 87.4 bits (215), Expect = 2e-16
Identities = 69/233 (29%), Positives = 111/233 (47%), Gaps = 22/233 (9%)
Query: 19 FVRDVLKCSLKEAQRHLDKQRLKQNQQAVRK------SQIIQGVVRLIHFKPNEKTQALV 72
FVR+ +E +R L+ +L N + V K + ++ VV + +V
Sbjct: 160 FVREFRAAPPEEYERSLEAGKLTVNSEKVPKDYKIKHNDLLANVVHRHEVPVTSQPIKIV 219
Query: 73 FETKDFGVFDKPHQVYTHPKGYFYHESLLDCI-QSHFGKNAHPAHRLDYETSGLVLAGKT 131
+ KD V +KP + HP G + H +++ + + H KN HRLD TSGL+L G+T
Sbjct: 220 YMDKDIVVVNKPASIPVHPCGRYRHNTVVFILAKEHNLKNLRTIHRLDRLTSGLLLFGRT 279
Query: 132 LQSVKDLKALFMQKKVKKTYLA-----LAHGLVEKSMKIDKPILTPQNIQKDLHIRSKIS 186
+ ++L+ ++V+K Y+ G+VE + KID + + + K+S
Sbjct: 280 AEKARELELQIRTRQVQKEYVCRVEGRFPDGIVECNEKIDV-------VSYKIGV-CKVS 331
Query: 187 PLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
P GK T + + I L K PLTGR HQIR+HL + + I + LY
Sbjct: 332 PKGKDCKTTFKRIGEVGSDSIVLCK--PLTGRMHQIRVHLQFLGYPISNDPLY 382
>emb|CAA70352.1| (Y09142) product homologous to E.coli YfiI [Borrelia burgdorferi]
Length = 309
Score = 87.4 bits (215), Expect = 2e-16
Identities = 67/249 (26%), Positives = 120/249 (47%), Gaps = 35/249 (14%)
Query: 63 KPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG--------KNAHP 114
+P+ A+++E + V +KP + +HP + +++++ + H + P
Sbjct: 78 RPSNIPIAIIYEDSNVIVLNKPQGILSHPGISHWDDTVVNFLLYHIKSLKINFNEEKIRP 137
Query: 115 A--HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTP 172
HRLD +TSG+++ K + +++ L F K++ K Y+A+ G +
Sbjct: 138 GIVHRLDKDTSGVLICAKNISTLRFLAQQFKDKRINKVYIAIVKGNFNSFFGSIESF--- 194
Query: 173 QNIQKDLHIRSKIS---PLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSV 229
I +D H R K S GK+++T L F + SLL + P TGRTHQ+R+H+ +
Sbjct: 195 --IDRDKHNRKKFSVSKDRGKKALTEYRLLLN--FGEYSLLALKPKTGRTHQLRVHMKYL 250
Query: 230 DHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAASLEFEF-KGAIYKIASPMPER-- 286
+ I+G+ +YG D + + LMLH+ LE + K + K S P+R
Sbjct: 251 NFPILGDEVYGRVDGSLEKI----------TLMLHSYKLEIDVGKNSFKKFISEFPKRIC 300
Query: 287 --FMPFLKD 293
F+ FL++
Sbjct: 301 YFFVKFLQE 309
>gb|AAH07697.1|AAH07697 (BC007697) Unknown (protein for IMAGE:3953315) [Homo sapiens]
Length = 554
Score = 87.4 bits (215), Expect = 2e-16
Identities = 55/171 (32%), Positives = 91/171 (53%), Gaps = 8/171 (4%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCI-QSHFGKNAHPAHRLDYETSGLVLAG 129
L+ E +D V DKP + HP G F H +++ + + H K HP HRLD TSG+++
Sbjct: 234 LLAENEDVVVVDKPSSIPVHPCGRFRHNTVIFILGKEHQLKELHPLHRLDRLTSGVLMFA 293
Query: 130 KTLQSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHIRSKISPL 188
KT + + ++++K Y+ G + + +PIL + + + ++ P
Sbjct: 294 KTAAVSERIHEQVRDRQLEKEYVCRVEGEFPTEEVTCKEPILV---VSYKVGV-CRVDPR 349
Query: 189 GKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
GK T+ + LSYN S+++ PLTGRTHQIR+HL + H I+ + +Y
Sbjct: 350 GKPCETVFQRLSYNG--QSSVVRCRPLTGRTHQIRVHLQFLGHPILNDPIY 398
>ref|NP_246775.1| (NC_002663) RsuA [Pasteurella multocida]
gb|AAK03920.1| (AE006221) RsuA [Pasteurella multocida]
Length = 219
Score = 86.7 bits (213), Expect = 3e-16
Identities = 65/210 (30%), Positives = 108/210 (50%), Gaps = 19/210 (9%)
Query: 64 PNEKTQALVFETKDFGVFDKPHQVYTHPKGY-FYHESLLDCIQSHFGKNAHPAHRLDYET 122
P + +V F V +KP + + P Y++S + ++ +G PAHRLD T
Sbjct: 9 PTDPYLDIVHYDDHFVVINKPSGLLSVPGNQPQYYDSAMSRVKEKYGF-CEPAHRLDMST 67
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-KIDKPILTPQNIQKDLHI 181
SGL+L + + ++LK F +++ KK Y AL G +E+ +++ P++ +
Sbjct: 68 SGLILFALSKVADRELKRQFREREPKKHYQALVWGHLEEDQGEVNLPLICDWENRP---- 123
Query: 182 RSKIS-PLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
R KI GK ++TL E L+ P + + +K+TP+TGR+HQ+RLH+ ++ H I+G+ Y
Sbjct: 124 RQKICFERGKPALTLYEVLARYP-NNTTRVKLTPITGRSHQLRLHMLALGHPILGDKFYA 182
Query: 241 VADENAREYLQLKRENNAPLLMLHAASLEF 270
A +P L LHA L F
Sbjct: 183 PPQAKAL----------SPRLCLHAEQLAF 202
>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 = 86.3 bits (212), Expect = 4e-16
Identities = 77/292 (26%), Positives = 137/292 (46%), Gaps = 31/292 (10%)
Query: 17 LFFVRDVLKCSLKEAQRHLDKQRLKQNQQAVRKSQIIQGV--VRLIHFKPNEKTQALVFE 74
L + R +K ++E ++ + +K + + ++I + I P +++E
Sbjct: 28 LDYSRSYIKKLIEEGLVLVNGKNVKPSYKVKEDDEVIVNIKEAEKIEVVPENIPLDILYE 87
Query: 75 TKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHP---------AHRLDYETSGL 125
+D V +KP + HP Y +L++ + H KN HRLD +TSG+
Sbjct: 88 DEDIIVINKPQGMVVHPAPGNYSGTLVNALLYHC-KNLSGINGILRPGIVHRLDKDTSGV 146
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLV-EKSMKIDKPILTPQNIQKDLHIRSK 184
++ K ++ L ++ V K Y+A+ G++ E+ KI+ PI +K R
Sbjct: 147 MVVAKNDKAHMSLSNQIKERSVLKKYVAIVEGVIKEEEGKIEAPIGRHPVDRK----RMA 202
Query: 185 ISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADE 244
+ G+ ++TL + L F + + ++ T TGRTHQIR+HLS + H +VG+ +YG +
Sbjct: 203 VVQDGRYALTLYKVLER--FKNNTFVEATIKTGRTHQIRVHLSYIGHPVVGDPVYGYKKQ 260
Query: 245 NAREYLQLKRENNAPLLMLHAASLEF--EFKGAIYKIASPMPERFMPFLKDL 294
+ K E A LH+ L F KG + +P+P+ F L+ L
Sbjct: 261 ------KFKLEGQA----LHSKVLGFIHPTKGVYMEFEAPLPDYFTRLLEIL 302
>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 = 86.3 bits (212), Expect = 4e-16
Identities = 68/234 (29%), Positives = 113/234 (48%), Gaps = 18/234 (7%)
Query: 62 FKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHPAH 116
F P +V+E V +KP + HP + +LL+ + +H + A H
Sbjct: 98 FVPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQIPRAGIVH 157
Query: 117 RLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQ 176
RLD ETSGL++ KTL + L ++ VK+ Y A+A+G+V KI+ I
Sbjct: 158 RLDKETSGLMVVAKTLPAQNSLVWQLQERTVKRIYRAVANGIVPFDGKIE------TQIG 211
Query: 177 KDLHIRSKISPL---GKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRI 233
+D H R K++ + GK ++T V+ L +L S ++ + TGRTHQIR+H+ +H +
Sbjct: 212 RDPHNRLKMAVVKFGGKPAVTHVKVL--ERYLAHSYIECSLETGRTHQIRVHMREANHPL 269
Query: 234 VGEGLYGVADENAREYLQLKRENNAPLLMLHAASLEFEF--KGAIYKIASPMPE 285
G+ +YG + ++ ++ LHA L F G +P+P+
Sbjct: 270 AGDPVYGNPRHPCGDTVKEAVKSLGARQALHAYRLSFTHPESGETVSFEAPIPD 323
>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 = 85.5 bits (210), Expect = 7e-16
Identities = 66/229 (28%), Positives = 107/229 (45%), Gaps = 28/229 (12%)
Query: 64 PNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNA-----HPAHRL 118
P E ++ +E + + DKP + HP + +L + + +F K P +RL
Sbjct: 52 PQEMDLSICYEDDEILIVDKPAGMVVHPTRRYREGTLANGVAYYFEKKGIKTLIRPVNRL 111
Query: 119 DYETSGLVLAGKTLQSVKDLKALFMQ--KKVKKTYLALAHGLVEKSMKIDKPILTPQNIQ 176
D TSG+V+ K + ++Q K + K Y A+ +G +E ID PI +
Sbjct: 112 DKGTSGIVIFAK-----EPFMQYYLQIVKPMSKFYYAIVNGKLEGEGIIDVPIKR----K 162
Query: 177 KDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGE 236
+ I ++S G ++IT + L + SLLKI TGRTHQIR+HL+ + H IVG+
Sbjct: 163 SFMTIEREVSEEGDRAITYYKSLKATE--EFSLLKIKIATGRTHQIRVHLNYIGHPIVGD 220
Query: 237 GLYGVADENAREYLQLKRENNAPLLMLHAASLEFEFKGAIYKIASPMPE 285
LYG Y++ P L + + K + + +P+PE
Sbjct: 221 DLYG----EPTSYIE------RPALHAYRVTFFHPLKEKVISVYAPLPE 259
>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 = 85.5 bits (210), Expect = 7e-16
Identities = 63/221 (28%), Positives = 103/221 (46%), Gaps = 26/221 (11%)
Query: 91 PKGYFYHESLLD---------CIQSHFGKNAHPAHRLDYETSGLVLAGKTLQSVKDLKAL 141
P G+ H S LD ++ G++ AHRLD TSG++L G + ++ + L
Sbjct: 17 PAGWLVHRSWLDRDEKVVVMQTVRDQIGQHVFTAHRLDRPTSGVLLMGLSSEAGRRLAQQ 76
Query: 142 FMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISP-------LGKQSIT 194
F Q ++K Y A+ G + +D P++ ++ D R +P G ++
Sbjct: 77 FEQHHIRKRYHAIVRGWLIDDAVLDYPLVEERDKIADKFAREDKAPQPAVTQYRGLATVE 136
Query: 195 LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADEN--AREYLQL 252
+ P P L+++ P TGR HQ+R HL+ + H I+G+ +G +N A E+
Sbjct: 137 MAVPTGRYPTTRYGLVELEPKTGRKHQLRRHLAHLRHPIIGDSKHGDLRQNRSAAEHFAC 196
Query: 253 KRENNAPLLMLHAASLEF--EFKGAIYKIASPMPERFMPFL 291
+R LMLHA+ LE F G I + + E +M L
Sbjct: 197 RR------LMLHASRLELTHPFTGQPLIIQAGLDETWMQVL 231
>ref|NP_461885.1| (NC_003197) putative synthase [Salmonella typhimurium LT2]
gb|AAL21844.1| (AE008835) putative synthase [Salmonella typhimurium LT2]
Length = 260
Score = 85.5 bits (210), Expect = 7e-16
Identities = 63/221 (28%), Positives = 103/221 (46%), Gaps = 26/221 (11%)
Query: 91 PKGYFYHESLLD---------CIQSHFGKNAHPAHRLDYETSGLVLAGKTLQSVKDLKAL 141
P G+ H S LD ++ G++ AHRLD TSG++L G + ++ + L
Sbjct: 17 PAGWLVHRSWLDRDEKVVVMQTVRDQIGQHVFTAHRLDRPTSGVLLMGLSSEAGRRLAQQ 76
Query: 142 FMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISP-------LGKQSIT 194
F Q ++K Y A+ G + +D P++ ++ D R +P G ++
Sbjct: 77 FEQHHIRKRYHAIVRGWLMDDAVLDYPLVEERDKIADKFAREDKAPQPAVTQYRGLATVE 136
Query: 195 LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADEN--AREYLQL 252
+ P P L+++ P TGR HQ+R HL+ + H I+G+ +G +N A E+
Sbjct: 137 MAVPTGRYPTTRYGLVELEPKTGRKHQLRRHLAHLRHPIIGDSKHGDLRQNRSAAEHFAC 196
Query: 253 KRENNAPLLMLHAASLEF--EFKGAIYKIASPMPERFMPFL 291
+R LMLHA+ LE F G I + + E +M L
Sbjct: 197 RR------LMLHASRLELTHPFTGQPLIIQAGLDETWMQAL 231
>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 = 85.1 bits (209), Expect = 9e-16
Identities = 66/223 (29%), Positives = 106/223 (46%), Gaps = 18/223 (8%)
Query: 58 RLIHFKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSH-------FGK 110
R H +P + +VFE + V +KP + HP Y +L++ + H G
Sbjct: 71 RPAHNEPQDIPLEIVFEDEHLLVVNKPAGMVVHPAAGNYDNTLVNALLYHCAGKLSGIGG 130
Query: 111 NAHPA--HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKP 168
A P HR+D +TSGL++ KT + L A F + + Y A+ G +D P
Sbjct: 131 VARPGIVHRIDKDTSGLLVVAKTDPAHAGLAAQFADHSINRRYRAIVDGNPSLQGHVDAP 190
Query: 169 ILTPQNIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSS 228
+ ++ + I S GK+++T P + SL++ TGRTHQ+R+H+SS
Sbjct: 191 LARSSVNRQKMAIVS--DGRGKRAVT--HYCMITPLKNASLIECRLETGRTHQVRVHMSS 246
Query: 229 VDHRIVGEGLYGVADENAREYLQ-LKRENNAPLLMLHAASLEF 270
+ H ++G+ +YG + + LQ L + A LHAA L F
Sbjct: 247 IGHSLLGDPVYGRSKKAHHALLQSLAFQRQA----LHAAHLGF 285
>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 = 84.7 bits (208), Expect = 1e-15
Identities = 60/237 (25%), Positives = 114/237 (47%), Gaps = 15/237 (6%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHPAHRLDYETSGL 125
+V+E D V +KP + HP + ++L+ + H+ A HRLD +T+GL
Sbjct: 85 IVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIVEVPRAGIVHRLDKDTTGL 144
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKI 185
++ KT+ + L ++K+ + Y A+A G++ K +D+P+ +
Sbjct: 145 MVVAKTIPAQTKLVRDLQKRKITREYEAVASGIMTKGGTVDQPMAR----HATKRTLMAV 200
Query: 186 SPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG---VA 242
P+GK ++T + + + + L++ TGRTHQIR+H++ + H ++G+ YG
Sbjct: 201 HPMGKPAVTHYRIM--ENYRNYTRLRLRLETGRTHQIRVHMAHIAHPLLGDQTYGGRPRP 258
Query: 243 DENARE-YLQLKRENNAPLLMLHAASLEFEFKGAIYKIASPMPERFMPFLKDLSFFY 298
+NA E ++++ R L L G + + +P+P+ F+ L L Y
Sbjct: 259 PKNASEDFMEVLRNFKRQALHAVMLRLAHPITGEMMEWYAPLPDDFVELLNALKADY 315
>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 = 84.3 bits (207), Expect = 1e-15
Identities = 55/175 (31%), Positives = 90/175 (51%), Gaps = 5/175 (2%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDYETSGLVLAGK 130
+VFE +D V DKP + HP G + ++ ++ G + HP +RLD TSGL+ K
Sbjct: 163 IVFEDEDILVIDKPSSIPVHPTGRYRFNTITKMLERQLGYSVHPCNRLDKPTSGLMFLAK 222
Query: 131 TLQSVKDLKALFMQKKVKKTYLALAHGLVEKS-MKIDKPILTPQNIQKDLHIRSKIS-PL 188
T + ++V K Y+A G +++DKP+ + N + L+ ++S
Sbjct: 223 TPLGADRMGDQMKAREVTKEYVARVKGEFPIGIVEVDKPVRS-VNPKVALNAVCEMSDEN 281
Query: 189 GKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVAD 243
K + T+ + +SY+ S++K PLTGRTHQIR+HL + I + +Y D
Sbjct: 282 AKHAKTVFQRVSYDG--QTSIVKCKPLTGRTHQIRVHLQYLGFPIANDPIYSNPD 334
>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 = 84.3 bits (207), Expect = 1e-15
Identities = 67/233 (28%), Positives = 111/233 (46%), Gaps = 18/233 (7%)
Query: 62 FKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHPAH 116
F P +V+E V +KP + HP + +LL+ + +H + A H
Sbjct: 98 FVPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQVPRAGIVH 157
Query: 117 RLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQ 176
RLD ETSGL++ KTL + L ++ VK+ Y A+A+G+V KI+ I
Sbjct: 158 RLDKETSGLMVVAKTLPAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIE------TQIG 211
Query: 177 KDLHIRSKISPL---GKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRI 233
+D H R K++ + GK ++T V+ L +L S ++ + TGRTHQIR+H+ +H +
Sbjct: 212 RDPHNRLKMAVVKFGGKPAVTHVKVL--ERYLTHSYIECSLETGRTHQIRVHMREANHPL 269
Query: 234 VGEGLYGVADENAREYLQLKRENNAPLLMLHAASLEFEF--KGAIYKIASPMP 284
+ +YG + ++ ++ LHA L F G +P+P
Sbjct: 270 AADPVYGNPRHPCGDTVKEAVKSLGARQALHAYRLSFTHPESGETVSFEAPIP 322
>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 = 84.0 bits (206), Expect = 2e-15
Identities = 53/178 (29%), Positives = 99/178 (54%), Gaps = 9/178 (5%)
Query: 65 NEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNA-HPAHRLDYETS 123
+++ +V E + + V DKP V HP G + H ++L + + +P +RLD TS
Sbjct: 101 SDQPVGIVHEDESYVVIDKPAGVPVHPTGRYNHNTVLHILMKENKCSLLYPCNRLDRLTS 160
Query: 124 GLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKI--DKPILTPQNIQKDLHI 181
GL+ K+ ++ ++++ + K +KK Y+A G S ++ D P+LT + L +
Sbjct: 161 GLMFFSKSPKAAEEMRVHMISKSLKKEYVARVIGEFPNSGEVICDAPLLT---VAPTLGL 217
Query: 182 RSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
++I P GK++ T+ + ++++ + L K PLTGRTHQ+R+HL + + I + +Y
Sbjct: 218 -NRIHPDGKEASTVFKRIAFDGHTSLVLCK--PLTGRTHQLRVHLQYLGYPIANDPIY 272
>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 = 83.6 bits (205), Expect = 2e-15
Identities = 61/174 (35%), Positives = 95/174 (54%), Gaps = 14/174 (8%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHE-SLLDCIQSHFGKNAHPAHRLDYETSGLVLAG 129
+++E + V +KP + TH G E +L + + + + HRLD TSG VL
Sbjct: 83 ILYEDEHLIVVNKPEGMKTH--GNTADELALQNHVAAAINQEVFVVHRLDQATSGAVLFA 140
Query: 130 KTLQSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHIRSK--IS 186
K + L +F + K+ + YLAL G E ID+ I ++ H ++K +S
Sbjct: 141 KNQFVLPILGKMFEENKIHREYLALVKGHFSENQFTIDRAI------GQNRHDKNKRILS 194
Query: 187 PLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
G++++T VE + F D +L+K T TGRTHQIR+HLSS++H I+G+ LYG
Sbjct: 195 AKGQKAVTHVEIIK--KFTDKTLVKCTLDTGRTHQIRVHLSSLNHPIIGDALYG 246
>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 = 83.6 bits (205), Expect = 2e-15
Identities = 77/307 (25%), Positives = 135/307 (43%), Gaps = 35/307 (11%)
Query: 18 FFVRDVLKCSLKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRLI---------HFKPNEKT 68
+ + V + + Q+ +++QR+ N + V+ + I+ + P +
Sbjct: 17 YLTQQVENATRNKVQKAIEEQRVLVNGKPVKSNYRIKSCDHIHITFLRPPAPELAPEDIP 76
Query: 69 QALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHP----------AHRL 118
++++E D V DK + HP + +L + I H GK+A HRL
Sbjct: 77 ISILYEDDDLMVIDKEAGMVVHPAFGNWTGTLANAILHHLGKDADDLDKTEMRPGIVHRL 136
Query: 119 DYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKD 178
D +TSGL++ K ++ L F +++V+K Y A+ G+ K + + +
Sbjct: 137 DKDTSGLIIVAKNPVALHKLATQFARRQVEKVYKAIVWGVPNPPSGTIKTNIGRSHKNRK 196
Query: 179 LHIRSKISPL-GKQSIT---LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
+ GK +IT +VE L+Y +D++L TGRTHQIR+HL + H I+
Sbjct: 197 VMANFPFEGAEGKHAITDYLVVEDLAYFALMDMTLH-----TGRTHQIRVHLQHLGHPIL 251
Query: 235 GEGLYGVADENAREYLQLKR-ENNAPLLM----LHAASLEFE--FKGAIYKIASPMPERF 287
G+ YG A + + + +N LM LHA +L F G +P+PE
Sbjct: 252 GDQTYGGATPRTLPFSKSEPFTHNLLELMGRQALHAETLRFRQPTTGEPLAFTAPLPEDM 311
Query: 288 MPFLKDL 294
L+ +
Sbjct: 312 KTVLEKI 318
>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 = 83.6 bits (205), Expect = 2e-15
Identities = 79/293 (26%), Positives = 127/293 (42%), Gaps = 30/293 (10%)
Query: 23 VLKCSLKEAQRHLDKQRLKQNQQAVRKS-------QIIQGVVRLIH-FK-------PNEK 67
VL +E R K+ + NQ V +S +I+ G IH F P
Sbjct: 23 VLSKLFREYSRSYLKKLIIMNQVLVNESIVNQPDKKILGGETLTIHPFSKDLLVDIPENI 82
Query: 68 TQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKN-----AHPAHRLDYET 122
+V+E D + +KP + HP ++L+ + H+ + A HRLD +T
Sbjct: 83 FLDIVYEDSDILIINKPAGLVVHPGSGNKSGTILNALLYHYKNSKDLPRAGIVHRLDKDT 142
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIR 182
SGL++ K + S L L +KK+ + Y + HG + I+KPI+ N + + +
Sbjct: 143 SGLMVIAKNIFSYNHLLLLLKEKKIIREYEGIVHGKMIAGGTINKPIMRHYNRRTCMMVH 202
Query: 183 SKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG-- 240
LGK S+T + LS F +++ TGRTHQIR+H+ + + +VG+ Y
Sbjct: 203 H----LGKPSVTHYKVLSRFKFHTHIAIRLE--TGRTHQIRVHMLHIKYPLVGDPCYSGF 256
Query: 241 VADENAREYLQLKRENNAPLLMLHA--ASLEFEFKGAIYKIASPMPERFMPFL 291
N R+ + + P LHA SL K + P+P+ L
Sbjct: 257 KIQSNYRKDKKTNKIYKFPRQALHANHLSLHHPIKKNVMSWTVPLPQDIQELL 309
>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 = 83.2 bits (204), Expect = 3e-15
Identities = 61/182 (33%), Positives = 92/182 (50%), Gaps = 11/182 (6%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-KIDKPILTPQN 174
HR+D +TSG+++ K +S+ L +KKV+K Y+AL HGL S+ K+ +P+L
Sbjct: 140 HRIDRDTSGVLMLAKKRRSLLSLHKQIREKKVQKKYIALVHGLWPLSLRKVSEPLLKTHL 199
Query: 175 IQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
K I I+ GK + T + +L +L+ ITP TGRTHQIR+H H I+
Sbjct: 200 KNKQRKI--LINKEGKPAETYFK--IKKQYLFTTLVSITPKTGRTHQIRVHTLHAGHPIL 255
Query: 235 GEGLYGVADENAREYLQLKRENNAPLLMLHAASLEF--EFKGAIYKIASPMPERFMPFLK 292
+ YG D + +K + L+LHA S+ F G I +P+ F +L
Sbjct: 256 FDKRYGKRDLDC----NIKNKTKINRLLLHATSINFIHPETGKKMHIVAPLDVYFKNYLN 311
Query: 293 DL 294
L
Sbjct: 312 TL 313
>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 = 83.2 bits (204), Expect = 3e-15
Identities = 61/226 (26%), Positives = 107/226 (46%), Gaps = 19/226 (8%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHP-----AHRLDYETSGL 125
+V+E D V +KP HP +++L+ + H+ A HRLD +T+GL
Sbjct: 86 IVYEDDDIIVINKPRDFVVHPGAGQADKTVLNALLFHYSPIAEVPRAGIVHRLDKDTTGL 145
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKI 185
++ KT+ + L ++ V + Y A+ G + IDKPI +
Sbjct: 146 MVVAKTVPAQTRLVRALQKRDVTREYEAIVIGTMTAGGMIDKPI----GRHSTKRTLMSV 201
Query: 186 SPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG----V 241
SP+GK ++T + F + + L++ TGRTHQIR+H++ + H ++G+ YG +
Sbjct: 202 SPMGKHAVTHYRVAEH--FREHTRLRLRLETGRTHQIRVHMAYLQHPLLGDTAYGGRARI 259
Query: 242 ADENAREYLQLKRENNAPLLMLHAASLEFE--FKGAIYKIASPMPE 285
E ++ R+ + LHA L+FE G + +P+P+
Sbjct: 260 PKGATEELTEMIRDFDRQ--ALHAVMLKFEHPVTGEELEFHAPVPD 303
>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 = 83.2 bits (204), Expect = 3e-15
Identities = 67/229 (29%), Positives = 110/229 (47%), Gaps = 19/229 (8%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHP-----AHRLDYETSGL 125
+V+E + V DKP + HP +LL+ + H A+ HRLD +T+GL
Sbjct: 85 IVYEDEHILVIDKPAGLVVHPAAGHQDGTLLNALLYHVPDIANVPRAGIVHRLDKDTTGL 144
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKI 185
++ KTL++ L A + V + Y A+ G++ ID PI +Q+ + +
Sbjct: 145 MVVAKTLEAHTKLVAQLQARSVSRIYEAIVIGVITSGGTIDAPI-GRHGVQRQ---KMAV 200
Query: 186 SPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG----V 241
GK +++ L F + ++ TGRTHQIR+H+S + + +VG+ +YG +
Sbjct: 201 VDAGKVAVSHYRVL--ERFRAHTHTRVKLETGRTHQIRVHMSHIGYPLVGDPVYGGRFRI 258
Query: 242 ADENAREYLQLKRENNAPLLMLHAASLEFEF--KGAIYKIASPMPERFM 288
++ +Q RE P LHA LE + G K SP+PE F+
Sbjct: 259 PPVASQTLVQTLRE--FPRQALHARFLELDHPATGVRMKWESPLPEDFL 305
>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 = 83.2 bits (204), Expect = 3e-15
Identities = 60/205 (29%), Positives = 102/205 (49%), Gaps = 31/205 (15%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHF---GKNAHPAHRLDYETSGLVL 127
+++E + V +KP + HP + +L++ + + G + HRLD ETSGL++
Sbjct: 87 VLYEDDHYLVLNKPPNIAIHPGKGVHVATLIEGLLYYGQEKGFSPFLVHRLDKETSGLLV 146
Query: 128 AGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISP 187
K ++ + L LF + ++K Y+ L G+ E +MKI P+
Sbjct: 147 VAKNREAARILTELFKGRNIEKEYVTLVRGVPENNMKITIPL------------------ 188
Query: 188 LGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENA- 246
G+++++ E +S P D+SLL++ TGR HQIR HLS + +VG+ YG N
Sbjct: 189 DGQEAVS--EIVSVKPLKDVSLLRVKIHTGRKHQIRRHLSQIGFPVVGDDTYGDRHFNRE 246
Query: 247 -REYLQLKRENNAPLLMLHAASLEF 270
R+ LKR+ LH+ ++F
Sbjct: 247 FRKRYGLKRQ------FLHSYRMKF 265
>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 = 82.4 bits (202), Expect = 6e-15
Identities = 58/214 (27%), Positives = 110/214 (51%), Gaps = 23/214 (10%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHES--LLDCIQSHFGKNAHPAHRLDYETSGLVLA 128
+V++ + +KP + H HE+ ++ ++ G++ P HRLD TSG+++
Sbjct: 4 IVYQDEYLVAVNKPAGMLVHRSWLDKHETEFVMQTLRDQIGQHVFPLHRLDRPTSGVLVF 63
Query: 129 GKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPI------LTPQNIQKDLHIR 182
+ Q ++ +F +++KTY A+ G +E++ +D P+ + + ++D +
Sbjct: 64 ALSSQIASEVMPMFANHEMEKTYHAIVRGWIEEANVLDYPLKEELDKIADKFAKQDKEAQ 123
Query: 183 SKIS---PLGKQSITLVEPLSYNPFLD--ISLLKITPLTGRTHQIRLHLSSVDHRIVGEG 237
S ++ PL K + P++ F L+++ P TGR HQ+R H++ + H IVG+
Sbjct: 124 SAVTAYRPLAKVEL----PIATGKFATTRYCLMEMQPKTGRKHQLRRHMAHLRHPIVGDT 179
Query: 238 LYGVADENAREYLQLKREN-NAPLLMLHAASLEF 270
+G N +L RE+ +A LMLHA+ L F
Sbjct: 180 THGDGVHN-----RLFREHFSAQRLMLHASELRF 208
>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 = 82.4 bits (202), Expect = 6e-15
Identities = 73/242 (30%), Positives = 113/242 (46%), Gaps = 15/242 (6%)
Query: 64 PNEKTQALVFETKDFGVFDKPHQVYTHP-KGYFYHESLLDCIQSHFGK-NAHPAHRLDYE 121
P EK + +V E DF V KP THP + LL +Q+ G+ + P HRLD E
Sbjct: 18 PTEKPRIIV-EHPDFYVVHKPALWLTHPVRARVDVPDLLTFMQAETGETDLAPPHRLDRE 76
Query: 122 TSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMK-IDKPI--LTPQNIQKD 178
TSG L + + + LF V KTYLA+ HG E + +D P+ L K
Sbjct: 77 TSGAQLLTRDSDAARTFFTLFKTHLVGKTYLAIVHGEPEWDRRTLDAPLGDLGLGGANK- 135
Query: 179 LHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGL 238
+ IR + P GK ++T + +L++ P +GR HQIR HL+ + +VG+ +
Sbjct: 136 IQIRQAVVPDGKPAVTDFRVVGRR--AGHALIECYPRSGRLHQIRAHLAHLGLPMVGDKI 193
Query: 239 YGVADENAREYL------QLKRENNAPLLMLHAASLEFEFKGAIYKIASPMPERFMPFLK 292
YG + +++ +L P LHAA + F + GA + P+ + + +
Sbjct: 194 YGRDPQVFLDFMEQGQTPELTARLGLPRQALHAARIAFPWAGAQMAVEVPLAPDLVAYWE 253
Query: 293 DL 294
L
Sbjct: 254 GL 255
>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 = 82.0 bits (201), Expect = 7e-15
Identities = 72/243 (29%), Positives = 111/243 (45%), Gaps = 26/243 (10%)
Query: 64 PNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHP--------- 114
P + +++E D V DK + HP + +L + I H GK+A
Sbjct: 72 PEDIPITILYEDDDLMVIDKEAGMVVHPAFGNWTGTLANAILHHLGKDADELDKTEMRPG 131
Query: 115 -AHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVE-KSMKIDKPILTP 172
HRLD +TSGL++ K ++ L F ++V+K Y A+ G+ + +S I I
Sbjct: 132 IVHRLDKDTSGLIIIAKNPTALHKLARQFANRQVEKVYKAIVWGVPKAESGTIKTNIGRS 191
Query: 173 QNIQKDLHIRSKISPLGKQSIT---LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSV 229
+K + GK +IT +VE L Y SL+ +T TGRTHQIR+HL +
Sbjct: 192 HKNRKVMANFPYEGAEGKHAITDYQVVEDLGY-----FSLMDVTLHTGRTHQIRVHLQHL 246
Query: 230 DHRIVGEGLYGVADENAREYLQLK--RENNAPLL---MLHAASLEFE--FKGAIYKIASP 282
H I+G+ YG A + + + N L+ LHA +L F G ++P
Sbjct: 247 GHSILGDETYGGATPRTLPFSKSEPFTRNLLELMSRQALHAQTLRFRQPTTGEPLSFSAP 306
Query: 283 MPE 285
+PE
Sbjct: 307 LPE 309
>sp|Q45826|YMDA_CHLAU Hypothetical protein in MDH 5'region (ORFA)
emb|CAA61435.1| (X89038) ORFA [Chloroflexus aurantiacus]
Length = 253
Score = 82.0 bits (201), Expect = 7e-15
Identities = 72/234 (30%), Positives = 110/234 (46%), Gaps = 27/234 (11%)
Query: 71 LVFETKDFGVFDKP-----HQVYTHPKGYFYHESLLDCIQSHFGKNAHPA--HRLDYETS 123
+V+E D V +KP H HP+G + L G P HRLD +TS
Sbjct: 30 VVYEDADIAVINKPAGMVVHPAPGHPRGTLVNALLARYPDLAIGGELRPGIVHRLDRDTS 89
Query: 124 GLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPI-LTPQNIQKDLHIR 182
GL++ + Q+++ L ++++K Y AL G ++ ID PI P++ +R
Sbjct: 90 GLLVIARHDQAMRSLVDQQQARRMRKIYQALVIGRPPETGTIDAPIGRDPRD-----RLR 144
Query: 183 SKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVA 242
+ P G+ + T L + F D SLL++ TGRTHQIR+HL + + IVG+ +YG
Sbjct: 145 MAVVPDGRPARTHYRLL--DTFGDYSLLEVQLETGRTHQIRVHLRHLGYPIVGDPVYG-- 200
Query: 243 DENAREYLQLKRENNAPLLMLHAA--SLEFEFKGAIYKIASPMPERFMPFLKDL 294
R +L L R+ LHAA L G + +P+P L+ L
Sbjct: 201 --PRRSHLHLSRQ------FLHAAYLGLVHPRSGRWQEFTAPLPADLQIVLRQL 246
>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 = 81.6 bits (200), Expect = 9e-15
Identities = 75/256 (29%), Positives = 122/256 (47%), Gaps = 32/256 (12%)
Query: 28 LKEAQRHLDKQRLKQNQQAVRKSQIIQGVVR--LIHFKPNEKTQALVFETKDFGVFDKPH 85
L+ + +L+ +R+K N + ++K I + + K + + +E ++ + +K
Sbjct: 30 LRNLEIYLNGKRIKNNAKKIKKLNRIVVIEKEKSTGIKAMDIPIDIAYEDENLLIVNKEP 89
Query: 86 QVYTHPKGYFYHESLLDCIQSHF----GKNAHPA--HRLDYETSGLVLAGKTLQSVKDLK 139
+ HP ++L + + ++F GK P +RLD TSGL++ K +
Sbjct: 90 YIIVHPTQKKVDKTLANAVVNYFEKTLGKTLVPRFYNRLDMNTSGLIIIAKNAYT----- 144
Query: 140 ALFMQKK--VKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPL--GKQSITL 195
F+Q K VKKTY +A G++EK D I P D R ++S GK + T
Sbjct: 145 QAFLQDKTEVKKTYKVIASGIIEKD---DFFIKIPIGKVGDDLRRIELSEENGGKSAKTH 201
Query: 196 VEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLKRE 255
++ L N +I+ L+ TGRTHQIR HLS + H +VG+ LYG + A+
Sbjct: 202 IKVLEKNYEKNITFLEARLYTGRTHQIRAHLSLIGHSLVGDELYGGDMKLAKRQ------ 255
Query: 256 NNAPLLMLHAASLEFE 271
MLHA LEF+
Sbjct: 256 ------MLHAYKLEFQ 265
>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 = 81.6 bits (200), Expect = 9e-15
Identities = 61/183 (33%), Positives = 97/183 (52%), Gaps = 15/183 (8%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVE-KSMKIDKPILTPQN 174
HRLD +TSG++L KT + L K+ +K+YLA+ G E K ID P L ++
Sbjct: 83 HRLDRDTSGVILTAKTKPAAAMLGKALEAKRFRKSYLAIVAGAPEPKGGMIDSP-LRRES 141
Query: 175 IQKDLHIR--SKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHR 232
I ++ ++R P + + + L++N +L++++P TGR HQ+R+H++S+
Sbjct: 142 IGREAYMRVCEPDHPDAETARSRYRTLAHNGL--AALVELSPDTGRMHQLRVHMASIGRP 199
Query: 233 IVGEGLYGVADENAREYLQLKRENNAPLLMLHAASLEFEFK-GAIYKIASPMPERFMPFL 291
+ G+ YG A + AP LMLHAASL F G KI +P+P F+ L
Sbjct: 200 LAGDSRYGGA--------LMLGGVPAPRLMLHAASLAFPHPLGGERKILAPLPPDFVSML 251
Query: 292 KDL 294
+ L
Sbjct: 252 EAL 254
>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 = 81.6 bits (200), Expect = 9e-15
Identities = 54/177 (30%), Positives = 91/177 (50%), Gaps = 17/177 (9%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDYETSGLVLAGK 130
++FE + V DKP + HP G + ++ +Q++ G +P +RLD TSGL+ K
Sbjct: 190 VIFEDDNIMVIDKPSGIPVHPTGRYRFNTITKMLQNNLGFVVNPCNRLDRLTSGLMFLAK 249
Query: 131 TLQSVKDLKALFMQKKVKKTYLALAHG-------LVEKSMKIDKPILTPQNIQKDLHIRS 183
T + ++ ++V K Y+A G +VEK +K+ +P L L+
Sbjct: 250 TPKGADNIGDQLKAREVTKEYVAKVVGEFPETEVIVEKPLKLIEPRLA-------LNAVC 302
Query: 184 KISPLG-KQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
++ G K + T+ +SY+ S++K PLTGR+HQIR+HL + H I + +Y
Sbjct: 303 QMDEKGAKHAKTVFNRISYDG--KTSIVKCKPLTGRSHQIRVHLQYLGHPIANDPIY 357
>gb|EAA14556.1| (AAAB01008980) ebiP4675 [Anopheles gambiae str. PEST]
Length = 472
Score = 81.3 bits (199), Expect = 1e-14
Identities = 59/229 (25%), Positives = 108/229 (46%), Gaps = 14/229 (6%)
Query: 19 FVRDVLKCSLKEAQRHLDKQRLKQNQQAV------RKSQIIQGVVRLIHFKPNEKTQALV 72
F R+ +E +R + L N + V + + ++ +V + +V
Sbjct: 84 FAREFRAHPAEEYERCIKAGTLTVNYEKVPTDYRLKHNDLLANIVHRHEVPVTSQPITIV 143
Query: 73 FETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG-KNAHPAHRLDYETSGLVLAGKT 131
D V +KP + HP G + H +++ + + KN HRLD TSGL+L G++
Sbjct: 144 HMDDDIVVVNKPASIPVHPCGRYRHNTVVFILAKEYNLKNLRTIHRLDRLTSGLLLFGRS 203
Query: 132 LQSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHIRSKISPLGK 190
+ + ++ ++V+K Y+ G + ++ +PI + + + + K+SP GK
Sbjct: 204 PKKARQMEHQIRNRQVQKEYICRVEGEFPDGIIECKEPI---EVVSYKIGV-CKVSPKGK 259
Query: 191 QSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
+ T + L +N + L K PLTGR HQIR+HL + + +V + LY
Sbjct: 260 ECTTTFQKLGFNGNSSVVLCK--PLTGRMHQIRVHLQYLGYPVVNDPLY 306
>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 = 81.3 bits (199), Expect = 1e-14
Identities = 53/182 (29%), Positives = 96/182 (52%), Gaps = 11/182 (6%)
Query: 64 PNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHPAHRL 118
P E +V+E D V +KP + HP ++L+ + ++ + A HRL
Sbjct: 79 PQEIPLDIVYEDNDILVINKPRGLVVHPGAGNPDGTVLNALLHYYPEIMDVPRAGIVHRL 138
Query: 119 DYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKD 178
D +T+GL++ KT+ + L +++ + Y A+A G + ++D+PI ++ K
Sbjct: 139 DKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGNMTAGGRVDEPI--SRHSTKR 196
Query: 179 LHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGL 238
H+ + P+GK + T + + F + L++ TGRTHQIR+H+S ++H +VG+ L
Sbjct: 197 THMA--VHPMGKPATTHYRIMEH--FRAHTRLRLRLETGRTHQIRVHMSHINHPLVGDQL 252
Query: 239 YG 240
YG
Sbjct: 253 YG 254
>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 = 80.1 bits (196), Expect = 3e-14
Identities = 58/158 (36%), Positives = 82/158 (51%), Gaps = 13/158 (8%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGL-VEKSMKIDKPILTPQ- 173
HR+D +TSG+++ K S+ L +KK+KK Y+AL HGL + KI +P+L Q
Sbjct: 140 HRIDRDTSGVLILAKKRTSLVSLHEQLREKKIKKEYIALVHGLWPDHIKKISEPLLKIQF 199
Query: 174 -NIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHR 232
N QK + I K GK S T + F +LL I P TGRTHQIR+H H
Sbjct: 200 KNKQKMVLIDKK----GKPSETYFQ--IKKKFSSSTLLSIIPKTGRTHQIRVHALHAGHP 253
Query: 233 IVGEGLYGVADENAREYLQLKRENNAPLLMLHAASLEF 270
I + YG D +A +K + L+LH++ + F
Sbjct: 254 IFFDKRYGKNDLDA----DIKNNHKINRLLLHSSGVHF 287
>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 = 80.1 bits (196), Expect = 3e-14
Identities = 51/184 (27%), Positives = 98/184 (52%), Gaps = 11/184 (5%)
Query: 62 FKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHPAH 116
F+P + +V+E +D V +KP + HP ++L+ + ++ A H
Sbjct: 77 FEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVH 136
Query: 117 RLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQ 176
RLD +T+GL++ KT+ + L ++++ + Y A+A G + +D+PI ++
Sbjct: 137 RLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI--SRHPT 194
Query: 177 KDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGE 236
K H+ + P+GK ++T + + F + L++ TGRTHQIR+H++ + H +VG+
Sbjct: 195 KRTHMA--VHPMGKPAVTHYRIMEH--FRVHTRLRLRLETGRTHQIRVHMAHITHPLVGD 250
Query: 237 GLYG 240
+YG
Sbjct: 251 PVYG 254
>ref|NP_562766.1| (NC_003366) conserved hypothetical protein [Clostridium
perfringens]
dbj|BAB81556.1| (AP003192) conserved hypothetical protein [Clostridium perfringens]
Length = 306
Score = 79.7 bits (195), Expect = 4e-14
Identities = 68/235 (28%), Positives = 116/235 (48%), Gaps = 26/235 (11%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHF----GKNA--HPA--HRLDYET 122
+V+E +D V +KP + HP Y +L++ + H G N P HR+D +T
Sbjct: 84 IVYEDEDVIVVNKPKGMVVHPAPGNYTGTLVNALLHHCDDLSGINGVIRPGIVHRIDKDT 143
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-KIDKPILTPQNIQKDLHI 181
SG+++ K + + L F +K+ Y A+ G +K ID P+ +D +
Sbjct: 144 SGILVVAKNDNAHQKLAEQFKDHSIKREYYAIVEGRFKKEGGTIDAPL---GRHHRD-RL 199
Query: 182 RSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGV 241
+ + GK+++T E L F SL+K T TGRTHQIR+H++ + H ++G+ +YG+
Sbjct: 200 KYAVVKDGKRAVTHYEVLKV--FNSCSLVKCTLETGRTHQIRVHMAFIGHPLLGDTVYGL 257
Query: 242 ADENAREYLQLKRENNAPLLMLHAASLEF--EFKGAIYKIASPMPERFMPFLKDL 294
++ +L +E +LHA +L F G + S +PE F ++ L
Sbjct: 258 -----KKQKKLSQEGQ----VLHAKTLGFIHPTTGEYVEFDSELPEYFEKIVEKL 303
>dbj|BAA16479.1| (D90887) similar to [SwissProt Accession Number P33643]~start codon
is not identified yet [Escherichia coli]
Length = 352
Score = 79.7 bits (195), Expect = 4e-14
Identities = 50/184 (27%), Positives = 98/184 (53%), Gaps = 11/184 (5%)
Query: 62 FKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHPAH 116
F+P + +V+E +D + +KP + HP ++L+ + ++ A H
Sbjct: 121 FEPQDIPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVH 180
Query: 117 RLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQ 176
RLD +T+GL++ KT+ + L ++++ + Y A+A G + +D+PI ++
Sbjct: 181 RLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI--SRHPT 238
Query: 177 KDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGE 236
K H+ + P+GK ++T + + F + L++ TGRTHQIR+H++ + H +VG+
Sbjct: 239 KRTHMA--VHPMGKPAVTHYRIMEH--FRVHTRLRLRLETGRTHQIRVHMAHITHPLVGD 294
Query: 237 GLYG 240
+YG
Sbjct: 295 PVYG 298
>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 = 79.7 bits (195), Expect = 4e-14
Identities = 50/184 (27%), Positives = 98/184 (53%), Gaps = 11/184 (5%)
Query: 62 FKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHPAH 116
F+P + +V+E +D + +KP + HP ++L+ + ++ A H
Sbjct: 77 FEPQDIPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVH 136
Query: 117 RLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQ 176
RLD +T+GL++ KT+ + L ++++ + Y A+A G + +D+PI ++
Sbjct: 137 RLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI--SRHPT 194
Query: 177 KDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGE 236
K H+ + P+GK ++T + + F + L++ TGRTHQIR+H++ + H +VG+
Sbjct: 195 KRTHMA--VHPMGKPAVTHYRIMEH--FRVHTRLRLRLETGRTHQIRVHMAHITHPLVGD 250
Query: 237 GLYG 240
+YG
Sbjct: 251 PVYG 254
>ref|NP_245416.1| (NC_002663) unknown [Pasteurella multocida]
gb|AAK02563.1| (AE006084) unknown [Pasteurella multocida]
Length = 243
Score = 79.3 bits (194), Expect = 5e-14
Identities = 58/196 (29%), Positives = 89/196 (44%), Gaps = 20/196 (10%)
Query: 91 PKGYFYHESLLDCIQSHF---------GKNAHPAHRLDYETSGLVLAGKTLQSVKDLKAL 141
P G H S LD ++ F G++ +P HRLD TSG++L + + L
Sbjct: 18 PAGMLVHRSWLDRHETQFVMQTLRDQIGQHVYPIHRLDRPTSGVLLFALSSEVANLLCLQ 77
Query: 142 FMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISP-------LGKQSIT 194
F K+V+K+YLA+ G + +ID P+ + D + +P LG +
Sbjct: 78 FENKQVQKSYLAIVRGYLVGEGRIDYPLKVQLDKIADKFAQDDKAPQEAVTDYLGLAKVE 137
Query: 195 LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLKR 254
+ + P SL+++ P TGR HQ+R H+ + H I+G+ YG +N L
Sbjct: 138 MPYCVKKYPTTRYSLVRLIPHTGRKHQLRRHMKHLFHPILGDTQYGDLHQNR----ALTT 193
Query: 255 ENNAPLLMLHAASLEF 270
LMLHA L F
Sbjct: 194 HTGVQRLMLHAERLIF 209
>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 = 79.3 bits (194), Expect = 5e-14
Identities = 61/226 (26%), Positives = 103/226 (44%), Gaps = 26/226 (11%)
Query: 91 PKGYFYHESLLD---------CIQSHFGKNAHPAHRLDYETSGLVLAGKTLQSVKDLKAL 141
P G+ H S LD ++ G++ AHRLD TSG++L G + ++ + L
Sbjct: 17 PSGWLVHRSWLDRDEKVVVMQTVRDQIGQHVFTAHRLDRPTSGVLLMGLSSEAGRLLAQQ 76
Query: 142 FMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISP-------LGKQSIT 194
F Q +++K Y A+ G + + +D P++ + D R P G ++
Sbjct: 77 FEQHQIQKRYHAIVRGWLMEEAVLDYPLVEELDKIADKFAREDKGPQPAVTHYRGLATVE 136
Query: 195 LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADEN--AREYLQL 252
+ P L+++ P TGR HQ+R HL+ + H I+G+ +G +N E+ L
Sbjct: 137 MPVATGRYPTTRYGLVELEPKTGRKHQLRRHLAHLRHPIIGDSKHGDLRQNRSGAEHFGL 196
Query: 253 KRENNAPLLMLHAA--SLEFEFKGAIYKIASPMPERFMPFLKDLSF 296
+R LMLHA+ SL F G I + + + +M L +
Sbjct: 197 QR------LMLHASQLSLTHPFTGEPLTIHAGLDDTWMQALSQFGW 236
>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 = 79.3 bits (194), Expect = 5e-14
Identities = 51/184 (27%), Positives = 97/184 (52%), Gaps = 11/184 (5%)
Query: 62 FKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHPAH 116
F+P + +V+E +D V +KP + HP + L+ + ++ A H
Sbjct: 77 FEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTXLNALLHYYPPIADVPRAGIVH 136
Query: 117 RLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQ 176
RLD +T+GL++ KT+ + L ++++ + Y A+A G + +D+PI ++
Sbjct: 137 RLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI--SRHPT 194
Query: 177 KDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGE 236
K H+ + P+GK ++T + + F + L++ TGRTHQIR+H++ + H +VG+
Sbjct: 195 KRTHMA--VHPMGKPAVTHYRIMEH--FRVHTRLRLRLETGRTHQIRVHMAHITHPLVGD 250
Query: 237 GLYG 240
+YG
Sbjct: 251 PVYG 254
>gb|AAF52959.1| (AE003628) CG7475 gene product [Drosophila melanogaster]
Length = 506
Score = 79.3 bits (194), Expect = 5e-14
Identities = 52/171 (30%), Positives = 89/171 (51%), Gaps = 8/171 (4%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG-KNAHPAHRLDYETSGLVLAG 129
+V +D V +KP + HP G + H +++ + F KN HRLD TSGL+L G
Sbjct: 151 IVHMDEDIVVVNKPASIPVHPCGRYRHNTVVFILAKEFNLKNLRTIHRLDRLTSGLLLFG 210
Query: 130 KTLQSVKDLKALFMQKKVKKTYLALAHGLV-EKSMKIDKPILTPQNIQKDLHIRSKISPL 188
++ + + ++ ++V+K Y+ G+ + ++ +PI + + + + K+S
Sbjct: 211 RSPKKARQMEQQIRNRQVEKEYICRVEGVFPDGIVECKEPI---EVVSYKIGV-CKVSAK 266
Query: 189 GKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
GK T + LS N + L K PLTGR HQIR+HL + + I+ + LY
Sbjct: 267 GKDCTTTFQKLSQNGTTSVVLCK--PLTGRMHQIRVHLQYLGYPILNDPLY 315
>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 = 79.3 bits (194), Expect = 5e-14
Identities = 61/226 (26%), Positives = 103/226 (44%), Gaps = 26/226 (11%)
Query: 91 PKGYFYHESLLD---------CIQSHFGKNAHPAHRLDYETSGLVLAGKTLQSVKDLKAL 141
P G+ H S LD ++ G++ AHRLD TSG++L G + ++ + L
Sbjct: 17 PSGWLVHRSWLDRDEKVVVMQTVRDQIGQHVFTAHRLDRPTSGVLLMGLSSEAGRLLAQQ 76
Query: 142 FMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISP-------LGKQSIT 194
F Q +++K Y A+ G + + +D P++ + D R P G ++
Sbjct: 77 FEQHQIQKRYHAIVRGWLMEEAVLDYPLVEELDKIADKFAREDKGPQPAVTHYRGLATVE 136
Query: 195 LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADEN--AREYLQL 252
+ P L+++ P TGR HQ+R HL+ + H I+G+ +G +N E+ L
Sbjct: 137 MPVATGRYPTTRYGLVELEPKTGRKHQLRRHLAHLRHPIIGDSKHGDLRQNRSGAEHFGL 196
Query: 253 KRENNAPLLMLHAA--SLEFEFKGAIYKIASPMPERFMPFLKDLSF 296
+R LMLHA+ SL F G I + + + +M L +
Sbjct: 197 QR------LMLHASQLSLTHPFTGEPLTIHAGLDDTWMQALSQFGW 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 = 79.0 bits (193), Expect = 6e-14
Identities = 58/208 (27%), Positives = 107/208 (50%), Gaps = 19/208 (9%)
Query: 64 PNEKTQALVFETKDFGVFDKPHQVYTHPKGY-FYHESLLDCIQSHFGKNAHPAHRLDYET 122
P E ++++ V +KP + + P Y++S + ++ FG PAHRLD T
Sbjct: 9 PLEPYLDIIYQDNHLCVVNKPSGLLSVPGNQPQYYDSAMSRVKEKFGF-CEPAHRLDMAT 67
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-KIDKPILTPQNIQKDLHI 181
SG+++ + + ++LK F +++ KK Y A+ G +E +++ P++ +
Sbjct: 68 SGIIVFALSKAADRELKRQFREREPKKHYQAIVWGHLENDYGEVNLPMICDWENRP---- 123
Query: 182 RSKIS-PLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
R ++ LGK+++T E L+ P + + +K+TP+TGR+HQ+RLH+ ++ H I+G+ Y
Sbjct: 124 RQRLDFVLGKRAVTKFEVLARLPN-NSTRVKLTPVTGRSHQLRLHMLALGHPILGDKFYS 182
Query: 241 VADENAREYLQLKRENNAPLLMLHAASL 268
+P L LHA L
Sbjct: 183 HPQAKVM----------SPRLCLHAEEL 200
>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 = 79.0 bits (193), Expect = 6e-14
Identities = 60/171 (35%), Positives = 86/171 (50%), Gaps = 12/171 (7%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMK-IDKPILTPQN 174
HRLD +TSG++L K +++ L K ++K YLAL G + K I P+L +N
Sbjct: 141 HRLDRDTSGVLLVAKKRSALRSLHEQLRLKSMQKDYLALVRGQWQSHCKAIQAPLL--KN 198
Query: 175 IQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
I + K+S GK S T + F +L+K +P+TGRTHQIR+H H I
Sbjct: 199 IMQSGERVVKVSSEGKPSETRFK--IEERFEHATLVKASPVTGRTHQIRVHALHAGHPIA 256
Query: 235 GEGLYGVADENAREYLQLKRENNAPLLMLHAASLEFEF--KGAIYKIASPM 283
+ YG RE+ Q + L LHAA+L FE G +I +P+
Sbjct: 257 FDDRYGY-----REFDQQLQGTGLHRLFLHAAALRFEHPNTGETMRIEAPL 302
>ref|NP_655191.1| (NC_003995) PseudoU_synth_2, RNA pseudouridylate synthase [Bacillus
anthracis A2012] [Bacillus anthracis str. A2012]
Length = 307
Score = 79.0 bits (193), Expect = 6e-14
Identities = 56/178 (31%), Positives = 91/178 (50%), Gaps = 14/178 (7%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNA-----HPAHRLDYETSGL 125
+V+E + +KP ++ THP +L + + H+ HRLD +T+G
Sbjct: 87 VVYEDDHVLIVNKPEKMDTHPAEKGGMGTLANLVAFHYQMKGLETKVRHIHRLDKDTTGG 146
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-KIDKPILTPQNIQKDLH--IR 182
V+ K + + L M++K+K+TY AL G V+K ID I +D H R
Sbjct: 147 VVFAKHRIAGAIMDRLLMERKIKRTYAALVEGKVKKKQGTIDAAI------GRDRHHATR 200
Query: 183 SKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
++SP G Q+IT + Y +++ + + TGRTHQIR+H+S + +VG+ LYG
Sbjct: 201 RRVSPKGDQAITYYKVEEYFKKQNVTFVTLQLETGRTHQIRVHMSYNGNPLVGDVLYG 258
>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 = 79.0 bits (193), Expect = 6e-14
Identities = 68/239 (28%), Positives = 112/239 (46%), Gaps = 27/239 (11%)
Query: 70 ALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDYETSGLVLAG 129
A+VFE +KP V +H ++ ++ HRLD +TSGL++
Sbjct: 101 AIVFEDARLLALNKPSGVASHGGSGISFGAIETLRALRPNQSLELVHRLDRDTSGLLIVA 160
Query: 130 KTLQSVKDLKALFMQ------KKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHIR 182
K ++ +L+AL + + + K YL L G + + M +D P+ + H++
Sbjct: 161 KKRSALTELQALMREDDRVEGRGITKRYLTLLVGRMPDGVMTVDAPLHIGLRQGGERHVQ 220
Query: 183 SKISPLGKQSIT---LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
++ +GK S++ L+E + + ++ + TGRTHQIR+H + H + G+ Y
Sbjct: 221 --VNAIGKPSLSHFKLLERRGGHSYCEVRIE-----TGRTHQIRVHAQHLGHPVAGDDKY 273
Query: 240 GVADEN--AREYLQLKRENNAPLLMLHAASLEFEFKG--AIYKIASPMPERFMPFLKDL 294
G AD N R+ L LKR L LHAASLEF Y +++P+ L L
Sbjct: 274 GEADVNKRLRDQLGLKR------LFLHAASLEFALDAGKTPYVLSAPLAPELAEALDQL 326
>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 = 79.0 bits (193), Expect = 6e-14
Identities = 59/211 (27%), Positives = 104/211 (48%), Gaps = 16/211 (7%)
Query: 63 KPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQS--HFGKNAHPAHRLDY 120
K E +V+E + +KP H G H ++ +++ + HR+D
Sbjct: 89 KVAELEHCIVYEDDHLLILNKPSGTAVHG-GSGLHFGAIEALRALRPQARFLELVHRIDR 147
Query: 121 ETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMK-IDKPILTPQNIQKDL 179
+TSG++L K +++ L+A F +K V+K Y AL G + K ++ P+L + ++
Sbjct: 148 DTSGILLVAKKRSALRHLQAQFREKTVQKYYYALVMGHWDAECKVVNAPLL-----KNEV 202
Query: 180 HIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
+ +++P GK S T L F + +L++ +P+TGRTHQIR+H + H I + Y
Sbjct: 203 NSIVRVNPNGKPSETRFRIL--EKFAEATLVQASPVTGRTHQIRVHTQYMGHPIAWDDRY 260
Query: 240 GVADENAREYLQLKRENNAPLLMLHAASLEF 270
G R + + L LHAA+++F
Sbjct: 261 G-----DRRFDAYTAQFGIERLFLHAANIQF 286
>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 = 78.2 bits (191), Expect = 1e-13
Identities = 75/287 (26%), Positives = 125/287 (43%), Gaps = 23/287 (8%)
Query: 3 FVEEEFEILKPTKALFFVRDVLKCSLKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRLIHF 62
FV +E I + K L + + + Q L + R+ Q + QG + +
Sbjct: 24 FVVDERLIGRLDKGLVLHNNAYSRAFYQQQIDLGRVRVNGRVQTRASYLLSQGDLVDLEL 83
Query: 63 KPNEKTQAL---------VFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG---K 110
E +L V+E V +KP + HP +++ + G K
Sbjct: 84 VEEETPSSLTPENIPLDKVYEDNMILVINKPRNMVVHPAPGHVQGTVVHALLHEIGERLK 143
Query: 111 NAHP--------AHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKS 162
P HRLD +TSGL++ KT ++ LF K++KK Y+A+ +
Sbjct: 144 QEFPEEPWRPGIVHRLDKDTSGLLITVKTRRAKAVYSELFSSKQMKKMYIAICINSPAQK 203
Query: 163 MKIDKPILTPQNIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQI 222
I I +K++ + SK + GK++IT L+ N L S++ + P TGRTHQ+
Sbjct: 204 -HIHTRIARHPVKRKEMTVLSKDTEGGKEAITHCHVLASNGRL--SVVALYPETGRTHQL 260
Query: 223 RLHLSSVDHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAASLE 269
R+H+ + I+G+ +YGV N R L ++ + L+ H S E
Sbjct: 261 RVHMKHLGTPILGDPVYGVPSINFRYGLDKQQLHAYSLVFTHPESAE 307
>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 = 78.2 bits (191), Expect = 1e-13
Identities = 64/237 (27%), Positives = 113/237 (47%), Gaps = 17/237 (7%)
Query: 68 TQALVFETKDFGVFDKPHQVYTHP-KGYFYH-ESLLDCIQSHFGKNAHPAHRLDYETSGL 125
+Q L++E VF+KP + G H + +L+ +S G+ HR+D +TSG+
Sbjct: 109 SQMLLYEDPKIFVFNKPAGLAVQGGSGVTRHIDGMLEAWRSKKGEKPRLVHRIDRDTSGV 168
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEK-SMKIDKPILTPQNIQKD-LHIRS 183
++ +T + + L A F ++ KKTY AL G+ K KI ++ Q D + +
Sbjct: 169 LVVARTRGAAQALTASFRERDTKKTYWALVKGVPRKREDKISTWLVKEQTPDGDKMRVCQ 228
Query: 184 KISPLGKQSIT---LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
P +++ ++E N ++ L++ P TGRTHQ+R+H + + H I+G+ Y
Sbjct: 229 HGEPDSDHAVSYYRIIEKAGNN----LAWLEMEPYTGRTHQLRVHAAYIGHPIIGDPKYF 284
Query: 241 VADENAREYLQLKRENNAPLLMLHAASLEF-EFKGAIYKIASPMPERFMPFLKDLSF 296
AD+N +++ L LHA + G I + +P+P + L F
Sbjct: 285 EADQNWEFPGGIQKR-----LHLHARRIRIPNPSGGIIDVTAPLPPHMVQSWNLLGF 336
>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 = 78.2 bits (191), Expect = 1e-13
Identities = 65/214 (30%), Positives = 106/214 (49%), Gaps = 19/214 (8%)
Query: 60 IHFKPNEKTQALVFETKDFGVFDKPHQVYTHP-KGYFYHESLLDCIQSHFGKNAHPAHRL 118
I+ P + +V D V DKP + + P + +SL+ +Q F K A +RL
Sbjct: 9 IYNPPLDPWLTIVHRDDDLLVLDKPSGLLSVPGRDPALSDSLMTRVQKQFPK-ALMINRL 67
Query: 119 DYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVE-KSMKIDKPILTPQNIQK 177
D +TSG+VL ++ + A F +++ +K+Y+A+ G V + ++D P+ I
Sbjct: 68 DKDTSGIVLMSLNRKAHAAIAAQFEKRETRKSYVAIVWGTVAGEEGEVDLPLA----IDP 123
Query: 178 DLHIRSKIS-PLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGE 236
D R ++ GK + +L L P L + L +TPLTGRTHQ+R+H+ ++ H I+G+
Sbjct: 124 DNKPRHRVDHENGKPAQSLWRVLERLP-LPATRLALTPLTGRTHQLRVHMKALGHPILGD 182
Query: 237 GLYGVADENAREYLQLKRENNAPLLMLHAASLEF 270
Y + AP LMLHA + F
Sbjct: 183 EFYAEGEALTA----------APRLMLHAQEVGF 206
>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 = 78.2 bits (191), Expect = 1e-13
Identities = 52/179 (29%), Positives = 89/179 (49%), Gaps = 15/179 (8%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHP--------AHRLDYET 122
+++E + +KP + HP E++++ + H + HR+D +T
Sbjct: 76 IIYEDDALAIINKPQGMVVHPSAGHPSETMVNALMYHIKDLSSINGVVRPGIVHRIDKDT 135
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHI 181
SGL++ KT + + L KK + YLA+ HG L I+ PI + +K +
Sbjct: 136 SGLLMVAKTDAAHQALTEELKAKKSLRKYLAIVHGNLPNDRGMIEAPIGRSEKDRKKQAV 195
Query: 182 RSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
+K GK+++T L F D SL+++ TGRTHQIR+H++ + H + G+ LYG
Sbjct: 196 TAK----GKEAVTRFTVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVAGDPLYG 248
>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 = 77.8 bits (190), Expect = 1e-13
Identities = 55/179 (30%), Positives = 91/179 (50%), Gaps = 15/179 (8%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHP--------AHRLDYET 122
+++E D V +KP + HP +L++ I H + HR+D +T
Sbjct: 79 IIYEDSDVAVVNKPQGMVVHPAAGHASGTLVNAIMYHIKDLSSINGVIRPGIVHRIDKDT 138
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-KIDKPILTPQNIQKDLHI 181
SGL++ K ++ + L A K K+ YLA+ HG + I+ PI +N+ KD
Sbjct: 139 SGLLMIAKNDKAHESLAAQLKDKTSKRRYLAIVHGEIANDKGTIEAPI--GRNL-KDRKK 195
Query: 182 RSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
++ +S GK ++T E L F +L+ + TGRTHQIR+H++ + H + G+ LYG
Sbjct: 196 QAVVSG-GKPAVTHFEVLER--FYGYTLIALRLETGRTHQIRVHMNYIGHPVAGDPLYG 251
>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 = 77.8 bits (190), Expect = 1e-13
Identities = 61/184 (33%), Positives = 95/184 (51%), Gaps = 14/184 (7%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMK-IDKPILTPQN 174
HRLD +TSG++L K +++ L +K ++K YLAL G + +K + P+L +N
Sbjct: 141 HRLDRDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRGQWQSHVKTVQAPLL--KN 198
Query: 175 IQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
I + ++S GK S T + F +L++ +P+TGRTHQIR+H H I
Sbjct: 199 ILQSGERIVRVSQEGKPSETRFKVEERYAF--ATLVRCSPVTGRTHQIRVHTQYAGHPIA 256
Query: 235 GEGLYGVADENAREYLQLKRENNAPL--LMLHAASLEFEFKGA--IYKIASPMPERFMPF 290
+ YG RE+ Q E L L LHAA+L+F G + +I +PM ++
Sbjct: 257 FDDRYG-----DREFDQQLTEAGTGLKRLFLHAAALKFTHPGTGDVMRIEAPMDKQLKRC 311
Query: 291 LKDL 294
L+ L
Sbjct: 312 LEVL 315
>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 = 77.8 bits (190), Expect = 1e-13
Identities = 63/211 (29%), Positives = 97/211 (45%), Gaps = 20/211 (9%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHP----------AHRLDY 120
++FE + V DKP V P +L + + H G N + AHR+D
Sbjct: 89 VIFEDEQLIVVDKPAGVVCQPDAKHELFNLANSLLKHCGYNQYFKNSLSFIPRFAHRIDR 148
Query: 121 ETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLH 180
T GLV+ KT Q++++L+A+F + K Y L G K Q +
Sbjct: 149 NTCGLVIGAKTNQALQELEAVFRHNLLMKQYQGLVFGPFNFK-GTQKAYWAKDAYQALVT 207
Query: 181 IRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
+++K P K T+ E Y LD+SLL I ++G+THQIR L+ ++ ++VG+ Y
Sbjct: 208 VKAKPFPNAKPITTIFENSKYLTKLDLSLLTIRLVSGKTHQIRACLNLLNTQLVGDRKY- 266
Query: 241 VADENAREYLQLKREN-NAPLLMLHAASLEF 270
+ LQ K N + LHA +L F
Sbjct: 267 -------QLLQFKNRNRDFKHQALHATNLSF 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 = 77.8 bits (190), Expect = 1e-13
Identities = 65/204 (31%), Positives = 99/204 (47%), Gaps = 24/204 (11%)
Query: 72 VFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDYETSGLVLAGKT 131
++E + + +KP + TH +LL+ + ++ G+ + HRLD ETSG +L KT
Sbjct: 61 LYEDEHIIIVNKPEGMKTHGNDPT-ELALLNHVSAYTGQTCYVVHRLDKETSGAILFAKT 119
Query: 132 LQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQN-IQKDLHIRSK--ISPL 188
+ L L ++ + + YLAL HG +D P +T + I + H R K + P+
Sbjct: 120 PFILPILNRLLEKRDIHREYLALVHG------SLDSPRVTYHHPIGRHRHDRRKRVVDPI 173
Query: 189 -GKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAR 247
GK++IT V L N SLL TGRTHQIR+HL+ H + G+ LY
Sbjct: 174 NGKKAITEV-TLVKNFHKTASLLNCQLQTGRTHQIRVHLAHQGHVLFGDPLYS------- 225
Query: 248 EYLQLKRENNAPLLMLHAASLEFE 271
+ + LMLHA L +
Sbjct: 226 -----NGKKDCARLMLHAYQLRLK 244
>ref|NP_655109.1| (NC_003995) PseudoU_synth_2, RNA pseudouridylate synthase [Bacillus
anthracis A2012] [Bacillus anthracis str. A2012]
Length = 297
Score = 77.4 bits (189), Expect = 2e-13
Identities = 70/245 (28%), Positives = 113/245 (45%), Gaps = 39/245 (15%)
Query: 44 QQAVRKSQIIQGVVRLIHFKPNEKTQAL---------VFETKDFGVFDKPHQVYTHPKGY 94
Q A + Q+ G I F E+++ + V+E V +K + T P
Sbjct: 48 QHASVRHQLQVGEELRIFFPVEERSEGMIAEDIPLCIVYEDDAVLVINKEANMSTIPSRE 107
Query: 95 FYHESLLDCIQSHFGKN-----AHPAHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKK 149
S+ + + SH+ K H RLD +TSGL+L K L QK VK+
Sbjct: 108 HPSGSVANALLSHYDKQYLPSTVHIVTRLDRDTSGLMLIAKNRFVHHLLSKQHQQKAVKR 167
Query: 150 TYLALAHG-LVEKSMKIDKPILTPQNIQKDLHIRSKISPLGKQSIT---LVEPLSYNPFL 205
TY A+ HG +VE+ ID PI + D I + G++++T +++ ++ +
Sbjct: 168 TYEAIVHGEMVEREGTIDAPI----GRKSDSIIERTVCEEGQRAVTHFRVIDSANHKTHV 223
Query: 206 DISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHA 265
+ L TGRTHQIR+HL+ + H ++G+ LYG + ++KR+ LH+
Sbjct: 224 SLELD-----TGRTHQIRVHLAHIGHPLLGDNLYGGKRD------EMKRQ------ALHS 266
Query: 266 ASLEF 270
SL F
Sbjct: 267 TSLTF 271
>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 = 77.4 bits (189), Expect = 2e-13
Identities = 65/204 (31%), Positives = 99/204 (47%), Gaps = 24/204 (11%)
Query: 72 VFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDYETSGLVLAGKT 131
++E + + +KP + TH +LL+ + ++ G+ + HRLD ETSG +L KT
Sbjct: 61 LYEDEHIIIVNKPEGMKTHGNDPT-ELALLNHVSAYTGQTCYVVHRLDKETSGAILFAKT 119
Query: 132 LQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQN-IQKDLHIRSK--ISPL 188
+ L L ++ + + YLAL HG +D P +T + I + H R K + P+
Sbjct: 120 PFILPILNRLLEKRDIHREYLALVHG------SLDSPRVTYHHPIGRHRHDRRKRVVDPI 173
Query: 189 -GKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAR 247
GK++IT V L N SLL TGRTHQIR+HL+ H + G+ LY
Sbjct: 174 NGKKAITEV-TLVKNFHKTASLLTCQLQTGRTHQIRVHLAHQGHVLFGDPLYS------- 225
Query: 248 EYLQLKRENNAPLLMLHAASLEFE 271
+ + LMLHA L +
Sbjct: 226 -----NGKKDCARLMLHAYQLRLK 244
>gb|AAF78056.1|AF263561_1 (AF263561) 23S rRNA pseudouridine synthase [secondary endosymbiont
of Glycaspis brimblecombei]
Length = 314
Score = 77.4 bits (189), Expect = 2e-13
Identities = 57/216 (26%), Positives = 107/216 (49%), Gaps = 13/216 (6%)
Query: 60 IHFKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHP 114
+ ++P +V+E + V +KP + HP ++L+ + + + A
Sbjct: 64 MRWQPQNIPLNIVYEDDEIIVINKPRDLVVHPGAGNPDGTVLNALLYRYPEIINVPRAGI 123
Query: 115 AHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQN 174
HRLD +T+GL++ KT+ + L +++ + Y A+ +G + +D+PI ++
Sbjct: 124 VHRLDKDTTGLMVIAKTIPAQTHLVEALQLREITREYEAVVNGRMTAGGTVDEPIA--RH 181
Query: 175 IQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
K H+ I PLGK +IT + + F + L++ +GRTHQIR+H++ ++H +V
Sbjct: 182 PTKRTHMA--IHPLGKPAITHYRVMEH--FRAHTRLRLRLESGRTHQIRVHMAHINHPLV 237
Query: 235 GEGLYGVADENAREYLQLKRE--NNAPLLMLHAASL 268
G+ +YG + + R+ NN LHA L
Sbjct: 238 GDPVYGGRPRPLKGVSEEFRQVMNNFDRQALHATML 273
>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 = 77.4 bits (189), Expect = 2e-13
Identities = 62/233 (26%), Positives = 106/233 (44%), Gaps = 23/233 (9%)
Query: 20 VRDVLKCSLKEAQRHLDKQRLK---QNQQAVRKSQIIQGVVRLIHFKPNEKTQALVFETK 76
++D +K L A + K K + V + ++++ + P + +E
Sbjct: 34 IQDWIKAGLVVANDKVVKSNYKVKLNDHIVVTEKEVVEADIL-----PENLNLDIYYEDD 88
Query: 77 DFGVFDKPHQVYTHPKGYFYHESLLDCIQ------SHFGKNAHPA--HRLDYETSGLVLA 128
D V KP + HP Y +L++ + S P HR+D +TSGL++
Sbjct: 89 DVAVVYKPKGMVVHPSPGHYTNTLVNGLMYQIKNLSGINGEIRPGIVHRIDMDTSGLLMV 148
Query: 129 GKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-KIDKPILTPQNIQKDLHIRSKISP 187
K + + L M K VK+ Y+AL HG + ID PI +N ++ + +
Sbjct: 149 AKNDIAHRGLVEQLMDKSVKRKYIALVHGNIPHDYGTIDAPIGRNKNDRQSMAVVDD--- 205
Query: 188 LGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
GK+++T L + F D +L++ TGRTHQIR+H+ + +VG+ YG
Sbjct: 206 -GKEAVTHFNVLEH--FKDYTLVECQLETGRTHQIRVHMKYIGFPLVGDPKYG 255
>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 = 77.4 bits (189), Expect = 2e-13
Identities = 61/184 (33%), Positives = 94/184 (50%), Gaps = 14/184 (7%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMK-IDKPILTPQN 174
HRLD +TSG++L K +++ L +K ++K YLAL G + +K + P+L +N
Sbjct: 141 HRLDRDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRGQWQSHVKSVQAPLL--KN 198
Query: 175 IQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
I + ++S GK S T + F +L++ +P+TGRTHQIR+H H I
Sbjct: 199 ILQSGERIVRVSQEGKPSETRFKVEERYAF--ATLVRCSPVTGRTHQIRVHTQYAGHPIA 256
Query: 235 GEGLYGVADENAREYLQLKRENNAPL--LMLHAASLEFEFKGA--IYKIASPMPERFMPF 290
+ YG RE+ + E L L LHAA+L+F G + +I +PM E
Sbjct: 257 FDDRYG-----DREFDRQLTEAGTGLNRLFLHAAALKFTHPGTGEVMRIEAPMDEGLKRC 311
Query: 291 LKDL 294
L+ L
Sbjct: 312 LQKL 315
>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 = 77.0 bits (188), Expect = 2e-13
Identities = 60/209 (28%), Positives = 101/209 (47%), Gaps = 14/209 (6%)
Query: 72 VFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG---KNAHP--------AHRLDY 120
V+E V +KP + HP +++ + G K P HRLD
Sbjct: 91 VYEDDMMLVINKPRDMVVHPAPGHTQGTVVHALLHEIGERLKQEFPEEPWRPGIVHRLDK 150
Query: 121 ETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLH 180
+TSGL++ KT ++ LF K+VKK Y+A+ + +I I +K++
Sbjct: 151 DTSGLLITVKTRRAKALYSELFATKQVKKLYVAICINAPSQE-RIHTRIARHPLKRKEMT 209
Query: 181 IRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
+ S + GK++IT + L+ N L S++ + P TGRTHQ+R+H+ + I+G+ +YG
Sbjct: 210 VLSTHAEGGKEAITHCQVLATNGRL--SVVALYPETGRTHQLRVHMKHLGTPILGDPVYG 267
Query: 241 VADENAREYLQLKRENNAPLLMLHAASLE 269
+ N R L ++ + L+ H S E
Sbjct: 268 IPSINFRYGLDKQQLHAYSLVFAHPESAE 296
>ref|NP_190794.1| (NM_115086) pseudouridine synthase, putative [Arabidopsis thaliana]
Length = 346
Score = 77.0 bits (188), Expect = 2e-13
Identities = 59/200 (29%), Positives = 94/200 (46%), Gaps = 34/200 (17%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAH-----------PAHRLD 119
+++E D +KP + P G F ++L +Q FGKN P HRL
Sbjct: 99 VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLTQLQWCFGKNDSYIGSRESPHPVPVHRLG 158
Query: 120 YETSGLVLAGKTLQSVKDLKALFMQ-----------------KKVKKTYLALAHGLVEKS 162
TSG++L KT + L A F + +K+ K Y ALA G+VE+
Sbjct: 159 RGTSGILLCAKTKLAKTKLAAYFAEGTSLVGSGNLDQECGTGRKLSKIYRALADGIVEED 218
Query: 163 MKIDKP---ILTPQNIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRT 219
+ K ++ + + L++ S P GK + + V L + + SL+K+ +GR
Sbjct: 219 EVVIKQPIGVVRYPGVAQGLYVAS---PEGKPAFSKVFVLERDREKNCSLVKVEIQSGRP 275
Query: 220 HQIRLHLSSVDHRIVGEGLY 239
HQIR+HL+ + H +VG+ LY
Sbjct: 276 HQIRIHLAYMGHPLVGDPLY 295
>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 = 77.0 bits (188), Expect = 2e-13
Identities = 64/208 (30%), Positives = 103/208 (48%), Gaps = 20/208 (9%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNA-----HPAHRLDYETSGL 125
+VFE + +KP + + P Y S+ + ++ H+ H RLD ETSGL
Sbjct: 82 VVFEDDFLLIINKPAGMASIPSQYHPTGSVANFVKGHYENQGLTSAIHIVTRLDRETSGL 141
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHIRSK 184
+L K + L + Q +K+ Y A G L E++ I+ PI +KD+ I +
Sbjct: 142 MLIAKNRYAHARLSSFLQQGLLKRRYQAFTSGTLEEEAGSIEAPIG-----RKDVSIMER 196
Query: 185 -ISPLGKQSITLVEPLS-YNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVA 242
++P GK + T E L YN F L I TGRTHQIR+H S + H ++G+ +YG
Sbjct: 197 FVTPEGKYAKTNYEVLMRYNGF---DHLAIQLETGRTHQIRVHFSYIGHPLIGDDMYG-- 251
Query: 243 DENAREYLQLKRENNAPLLMLHAASLEF 270
+E L+ + ++ L ++H + E+
Sbjct: 252 --GDQELLKRQALHSCHLHLVHPVTEEY 277
>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 = 77.0 bits (188), Expect = 2e-13
Identities = 59/173 (34%), Positives = 90/173 (51%), Gaps = 14/173 (8%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMK-IDKPILTPQN 174
HRLD +TSG++L K +++ L +K ++K YLAL G + +K + P+L +N
Sbjct: 141 HRLDRDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRGQWQSHVKTVQAPLL--KN 198
Query: 175 IQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
I + ++S GK S T + F +L++ +P+TGRTHQIR+H H I
Sbjct: 199 ILQSGERIVRVSQEGKPSETRFKVEERYAF--ATLVRCSPVTGRTHQIRVHTQYAGHPIA 256
Query: 235 GEGLYGVADENAREYLQLKRENNAPL--LMLHAASLEFEFKGA--IYKIASPM 283
+ YG RE+ Q E L L LHAA+L+F G + +I +PM
Sbjct: 257 FDDRYG-----DREFDQQLTEAGTGLKRLFLHAAALKFTHPGTGEVMRIEAPM 304
>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 = 76.6 bits (187), Expect = 3e-13
Identities = 64/223 (28%), Positives = 108/223 (47%), Gaps = 19/223 (8%)
Query: 71 LVFETKDFGVFDKPHQVYTHP-KGYFYH-ESLLDCIQSHFGKNAHPAHRLDYETSGLVLA 128
L+ E VF+KP + G H + LL+ S G+ HRLD +TSG+++
Sbjct: 81 LLHEDDKVLVFNKPAGIAVQGGSGVNRHIDGLLEAWTSPKGEKPRLVHRLDRDTSGVLVV 140
Query: 129 GKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-KIDKPILTPQNIQKDLHIRSKISP 187
+T + + L A F ++ KKTY AL G+ K KI ++ Q D R +I+
Sbjct: 141 ARTRGAAQKLTAAFRERDTKKTYWALVRGVPRKHQDKISTWLVKEQTPDGD---RMRIAK 197
Query: 188 LGKQSITLVEPLSYNPFLD-----ISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVA 242
G++ +SY +D ++ L++ P TGRTHQ+R+H + H I+G+ Y +
Sbjct: 198 HGEEGAD--HAISYYRVIDTAAQNLAWLEMEPYTGRTHQLRVHALHMGHPIIGDPKYYID 255
Query: 243 DENAREYLQLKRENNAPLLMLHAASLEFEF-KGAIYKIASPMP 284
D N +++ L LHA ++ G ++++P+P
Sbjct: 256 DPNWDFPGGVQKR-----LHLHARHIDIPHPNGGRLRVSAPLP 293
>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 = 76.6 bits (187), Expect = 3e-13
Identities = 63/190 (33%), Positives = 91/190 (47%), Gaps = 18/190 (9%)
Query: 111 NAHPAHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPIL 170
N H HRLD +TSG +L K ++ + LF +++ K Y+AL G + I
Sbjct: 97 NVHLVHRLDRDTSGCILFAKHAKASSLITQLFKNREIDKRYIALVFGQPRQESGIITTYT 156
Query: 171 TP--QNIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSS 228
P + I L + + GK +IT E L+ P +LL P+TGRTHQIRLH+ +
Sbjct: 157 APCYRRIGAVLFGNTDQNS-GKITITKWEILTRYP--KYTLLLCRPVTGRTHQIRLHMKT 213
Query: 229 VDHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAASLEF--EFKGAIYKIASPMPER 286
+ H IVG+ YG ++ N +LHAASL F F +++S P +
Sbjct: 214 IGHPIVGDVDYG----------NQEQPKNVVRTLLHAASLAFISPFSNEKIEVSSLTPSQ 263
Query: 287 F-MPFLKDLS 295
PF D S
Sbjct: 264 DPYPFYADFS 273
>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 = 76.6 bits (187), Expect = 3e-13
Identities = 64/223 (28%), Positives = 108/223 (47%), Gaps = 19/223 (8%)
Query: 71 LVFETKDFGVFDKPHQVYTHP-KGYFYH-ESLLDCIQSHFGKNAHPAHRLDYETSGLVLA 128
L+ E VF+KP + G H + LL+ S G+ HRLD +TSG+++
Sbjct: 96 LLHEDDKVLVFNKPAGIAVQGGSGVNRHIDGLLEAWTSPKGEKPRLVHRLDRDTSGVLVV 155
Query: 129 GKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-KIDKPILTPQNIQKDLHIRSKISP 187
+T + + L A F ++ KKTY AL G+ K KI ++ Q D R +I+
Sbjct: 156 ARTRGAAQKLTAAFRERDTKKTYWALVRGVPRKHQDKISTWLVKEQTPDGD---RMRIAK 212
Query: 188 LGKQSITLVEPLSYNPFLD-----ISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVA 242
G++ +SY +D ++ L++ P TGRTHQ+R+H + H I+G+ Y +
Sbjct: 213 HGEEGAD--HAISYYRVIDTAAQNLAWLEMEPYTGRTHQLRVHALHMGHPIIGDPKYYID 270
Query: 243 DENAREYLQLKRENNAPLLMLHAASLEFEF-KGAIYKIASPMP 284
D N +++ L LHA ++ G ++++P+P
Sbjct: 271 DPNWDFPGGVQKR-----LHLHARHIDIPHPNGGRLRVSAPLP 308
>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 = 76.6 bits (187), Expect = 3e-13
Identities = 59/186 (31%), Positives = 92/186 (48%), Gaps = 15/186 (8%)
Query: 111 NAHPAHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPIL 170
+ H HRLD +TSG +L K +++ + LF +++ K Y+AL G + I
Sbjct: 97 HVHLVHRLDRDTSGCILFAKHEKAITPITQLFKTRQIDKRYIALVFGHPRQQSGIITTYT 156
Query: 171 TPQNIQKDLHIRSKISP-LGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSV 229
P + + + LGK++IT E L++ + +LL P+TGRTHQIRLH+ ++
Sbjct: 157 APCHRRIGAVLFGNTDEKLGKKTITEWEVLTH--YSKYALLLCRPITGRTHQIRLHMKTI 214
Query: 230 DHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAASLEF--EFKGAIYKIASPMPERF 287
H IVG+ YG N + + R +LHA SL F F +++S P+
Sbjct: 215 GHPIVGDIDYG----NKEQPKHVVRP------LLHANSLCFISPFSKKKIEVSSLTPDTL 264
Query: 288 MPFLKD 293
PF D
Sbjct: 265 YPFDAD 270
>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 = 76.3 bits (186), Expect = 4e-13
Identities = 60/184 (32%), Positives = 94/184 (50%), Gaps = 14/184 (7%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMK-IDKPILTPQN 174
HRLD +TSG++L K +++ L +K ++K YLAL G + +K + P+L +N
Sbjct: 141 HRLDRDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRGQWQSHVKSVQAPLL--KN 198
Query: 175 IQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
I + ++S GK S T + F +L++ +P+TGRTHQIR+H H I
Sbjct: 199 ILQSGERIVRVSQEGKPSETRFKVEERYAF--ATLVRCSPVTGRTHQIRVHTQYAGHPIA 256
Query: 235 GEGLYGVADENAREYLQLKRENNAPL--LMLHAASLEFEFKGA--IYKIASPMPERFMPF 290
+ YG RE+ + E L L LHAA+L+F G + +I +PM +
Sbjct: 257 FDDRYG-----DREFDRQLTEAGTGLNRLFLHAAALKFTHPGTGEVMRIEAPMDDGLKRC 311
Query: 291 LKDL 294
L+ L
Sbjct: 312 LQKL 315
>sp|P44197|YQCB_HAEIN Hypothetical protein HI1435
Length = 239
Score = 76.3 bits (186), Expect = 4e-13
Identities = 58/196 (29%), Positives = 89/196 (44%), Gaps = 20/196 (10%)
Query: 91 PKGYFYHESLLDCIQSHF---------GKNAHPAHRLDYETSGLVLAGKTLQSVKDLKAL 141
P G H S LD ++ F G++ P HRLD TSG++L + + +
Sbjct: 17 PAGMLVHRSWLDPHETQFVMQTLRDQIGQHVFPIHRLDRPTSGVLLFALSSEIANLMCEQ 76
Query: 142 FMQKKVKKTYLALAHGLVEKSMKIDKPI------LTPQNIQKDLHIRSKISPL-GKQSIT 194
F QK V+K+YLA+ G ++ +ID P+ + + Q+D + I+ G + +
Sbjct: 77 FEQKYVQKSYLAVVRGYLQGKERIDYPLKIQLDKIADKFSQEDKEPQEAITDYEGLKIVE 136
Query: 195 LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLKR 254
+ P SL+K+ P TGR H +R H+ V H I G+ YG +N L
Sbjct: 137 MPYPAGRYQTARYSLVKLIPHTGRKHXLRXHMKHVFHPIXGDTQYGDLHQNR----ALMS 192
Query: 255 ENNAPLLMLHAASLEF 270
L LH+ SL F
Sbjct: 193 HLGCSRLFLHSDSLSF 208
>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 = 75.9 bits (185), Expect = 5e-13
Identities = 60/203 (29%), Positives = 95/203 (46%), Gaps = 9/203 (4%)
Query: 61 HFKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLD-CIQSHFGKNAHPAHRLD 119
++ P+ + + +E D + KP V THP +L++ I + P HRLD
Sbjct: 66 NYVPSYRYAQIKYEDDDMAIVMKPKGVKTHPNDLKESNTLMNHVIYTIDSDYVEPIHRLD 125
Query: 120 YETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVE-KSMKIDKPILTPQNIQKD 178
ET GL++ K K L + + + Y A L+ K ID PI K
Sbjct: 126 QETVGLLIVAKNPLMKKILDRMLEDNDITRIYKANVKALLPLKPQTIDMPI----GKDKF 181
Query: 179 LHIRSKISPLGKQSITLVEPLSYNPFLD-ISLLKITPLTGRTHQIRLHLSSVDHRIVGEG 237
+ ++SP G+++IT + L+ + + L+I TGRTHQIR+HL+ + H ++G+
Sbjct: 182 HSNKRRVSPTGQRAITHI--LTSKMIKEAVCQLEIKLDTGRTHQIRVHLAEIGHPVIGDP 239
Query: 238 LYGVADENAREYLQLKRENNAPL 260
LYG + E K E PL
Sbjct: 240 LYGDSTLRQLELESYKIEFVHPL 262
>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 = 75.5 bits (184), Expect = 7e-13
Identities = 51/179 (28%), Positives = 88/179 (48%), Gaps = 15/179 (8%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHP--------AHRLDYET 122
+++E + +KP + HP ++++ + H + HR+D +T
Sbjct: 76 IIYEDDALAIINKPQGMVVHPSAGHPSGTMVNALMYHIKDLSSINGVVRPGIVHRIDKDT 135
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHI 181
SGL++ KT + + L KK + YLA+ HG L I+ PI + +K +
Sbjct: 136 SGLLMVAKTDAAHQALAEELKAKKSLRKYLAIVHGNLPNDRGMIEAPIGRSEKDRKKQAV 195
Query: 182 RSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
+K GK+++T L F D SL+++ TGRTHQIR+H++ + H + G+ LYG
Sbjct: 196 TAK----GKEAVTRFTVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVAGDPLYG 248
>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 = 75.5 bits (184), Expect = 7e-13
Identities = 55/173 (31%), Positives = 84/173 (47%), Gaps = 10/173 (5%)
Query: 70 ALVFETKDFGVFDKP-HQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDYETSGLVLA 128
A+V++TK V P H T G Y L I HR+D +TSGL++
Sbjct: 91 AVVYKTKGMVVHPSPGHYTNTLVNGLMYQIKNLSGINGEIRPGI--VHRIDMDTSGLLMV 148
Query: 129 GKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-KIDKPILTPQNIQKDLHIRSKISP 187
K + + L M K VK+ Y+AL HG + ID PI +N ++ + +
Sbjct: 149 AKNDIAHRGLVEQLMDKSVKRKYIALVHGNIPHDYGTIDAPIGRNKNDRQSMAVVDD--- 205
Query: 188 LGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
GK+++T L + F D +L++ TGRTHQIR+H+ + +VG+ YG
Sbjct: 206 -GKEAVTHFNVLEH--FKDYTLVECQLETGRTHQIRVHMKYIGFPLVGDPKYG 255
>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 = 75.5 bits (184), Expect = 7e-13
Identities = 66/236 (27%), Positives = 106/236 (43%), Gaps = 29/236 (12%)
Query: 28 LKEAQRHLDKQRLKQNQQAVR------KSQIIQGVVRLIHFKPNEKTQ--------ALVF 73
L E R L +++K Q V K + +G V H E + +V+
Sbjct: 19 LSELSRSLANEQIKSGQVLVNGQVKKAKYTVQEGDVVTYHVPEPEVLEYVAEDLPLEIVY 78
Query: 74 ETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHF----GKNA--HPA--HRLDYETSGL 125
+ +D V +KP + HP +L++ + H G N P HR+D +TSGL
Sbjct: 79 QDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVHRIDKDTSGL 138
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHIRSK 184
++ K + L KK + Y A+ HG L I+ PI + +K + +K
Sbjct: 139 LMIAKNDDAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKDRKKQAVTAK 198
Query: 185 ISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
GK ++T L F D SL+++ TGRTHQIR+H++ + H + G+ +YG
Sbjct: 199 ----GKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVAGDEVYG 248
>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 = 75.5 bits (184), Expect = 7e-13
Identities = 62/236 (26%), Positives = 109/236 (45%), Gaps = 25/236 (10%)
Query: 70 ALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHP--------AHRLDYE 121
++V+++ DF V +K + K + +L ++ HF + A P H+LD+
Sbjct: 10 SIVYQSSDFLVVNKHWDLRIDSKTWRETLTLQKQLRHHFPELADPDTCYGFRFCHQLDFS 69
Query: 122 TSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHI 181
TSG + + F +++V K YLAL G V++S + + + H
Sbjct: 70 TSGALCVALNKAAAGSAYKCFKERRVTKAYLALVRGHVQESQVTINYAIGRNSTEGRTHT 129
Query: 182 RSKISPLG----KQSITLVEPLSYNPFLD--ISLLKITPLTGRTHQIRLHLSSVDHRIVG 235
G K S+T + L + + +S + + PLTGRTHQ+R+H S++ H IVG
Sbjct: 130 MCIEGTHGCENPKPSLTELLVLEHGLYAGDPVSKVLLKPLTGRTHQLRVHCSALGHPIVG 189
Query: 236 EGLYGVADENAREYLQLKRENNAPLLMLHAASLEFEFKGAIYKIASPMPERFMPFL 291
+ YG A++ +E+ +MLHA L + ++ + P+ F+P L
Sbjct: 190 DLTYGQAED---------QEDQPFRMMLHAFYLRIPTQAE--RVEACTPDPFLPAL 234
>gb|AAF32394.1|AF224466_1 (AF224466) putative pseudouridylate synthase [Haemophilus ducreyi]
Length = 250
Score = 75.1 bits (183), Expect = 9e-13
Identities = 46/182 (25%), Positives = 92/182 (50%), Gaps = 11/182 (6%)
Query: 60 IHFKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPA---- 115
I F+P +V E D + +KP + HP ++L+ + ++ A
Sbjct: 75 IRFEPQNIPLNIVHEDDDIIIINKPKNLVVHPGAGNPDGTVLNALLYYYPPIAEVPRAGI 134
Query: 116 -HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQN 174
HRLD +T+GL++ K + + L ++++ + Y A+A G++ + K+D+P+
Sbjct: 135 IHRLDKDTTGLMVVAKNIPAQTHLVTALQKRRITREYEAIASGIMTQGGKVDEPMARHPT 194
Query: 175 IQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
+ + + P+GK +IT + F + + L++ TGRTHQIR+H++ + H ++
Sbjct: 195 KRTAM----AVHPMGKPAITHYRIM--ERFRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 248
Query: 235 GE 236
G+
Sbjct: 249 GD 250
>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 = 75.1 bits (183), Expect = 9e-13
Identities = 53/157 (33%), Positives = 79/157 (49%), Gaps = 10/157 (6%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNI 175
HRLD +TSG++L K ++++L K V+K YLAL G + +K+ + L +
Sbjct: 146 HRLDRDTSGILLIAKKRSALRNLHEQLRVKTVQKDYLALVRGQWQSHIKVIQASLLKNEL 205
Query: 176 QKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVG 235
I ++S GK S T +++ +L+K +P+TGRTHQIR+H H I
Sbjct: 206 SSGERI-VRVSEQGKPSETRFS--IEERYINATLVKASPVTGRTHQIRVHTQYAGHPIAL 262
Query: 236 EGLYGVAD-ENAREYLQLKRENNAPLLMLHAASLEFE 271
+ YG D + L L R L LHA S+ FE
Sbjct: 263 DDKYGDKDFDKQMNELGLNR------LFLHAFSIRFE 293
>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 = 75.1 bits (183), Expect = 9e-13
Identities = 67/236 (28%), Positives = 103/236 (43%), Gaps = 30/236 (12%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSH------FGKNAHPA--HRLDYET 122
+ FE KD V +KP + HP +L++ + H P HR+D +T
Sbjct: 81 IYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCDDLSGINGKIRPGIVHRIDKDT 140
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDKPI-LTPQNIQKDLH 180
SGL++ K + + L K + Y+AL HG +V + I+ PI ++ QK
Sbjct: 141 SGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKGTIEAPIGRAKEDRQKMAV 200
Query: 181 IRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
+R GK++ T E + P + K+ TGRTHQIR+HL + H + G+ YG
Sbjct: 201 VRD-----GKEARTHFEVIERLPGYTLINCKLD--TGRTHQIRVHLKYIGHPLAGDPKYG 253
Query: 241 VADENAREYLQLKRENNAPLLMLHAASLEFEFKGAIYKIA--SPMPERFMPFLKDL 294
K LHAA L F+ ++ +P+P+ F LK L
Sbjct: 254 P-----------KNTIKGNGQFLHAAKLGFDHPTTNERMTFEAPLPDSFEQALKSL 298
>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 = 75.1 bits (183), Expect = 9e-13
Identities = 50/186 (26%), Positives = 96/186 (50%), Gaps = 11/186 (5%)
Query: 60 IHFKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHP 114
I F+ + +V+E D V +KP + HP ++L+ + ++ A
Sbjct: 75 IRFEAQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGI 134
Query: 115 AHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQN 174
HRLD +T+GL++ KT+ + L +++ + Y A+A G + +++PI ++
Sbjct: 135 VHRLDKDTTGLMVVAKTVPAQTRLVESLQLREITREYEAVAIGHMTAGGTVNEPI--SRH 192
Query: 175 IQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
K H+ + P+GK ++T + + F + L++ TGRTHQIR+H++ + H +V
Sbjct: 193 PTKRTHM--SVHPMGKPAVTHYRIMEH--FRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248
Query: 235 GEGLYG 240
G+ +YG
Sbjct: 249 GDQVYG 254
>ref|NP_337928.1| (NC_002755) RNA pseudouridylate synthase family protein
[Mycobacterium tuberculosis CDC1551]
gb|AAK47742.1| (AE007148) RNA pseudouridylate synthase family protein
[Mycobacterium tuberculosis CDC1551]
Length = 305
Score = 75.1 bits (183), Expect = 9e-13
Identities = 58/202 (28%), Positives = 105/202 (51%), Gaps = 16/202 (7%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG-KNAHPAHRLDYETSGLVLAG 129
++ + D V DKPH + T P+G ++ L ++ G PAHRLD T+G++L
Sbjct: 87 VLHQDADIVVVDKPHFLATMPRGRHVAQTALVRLRRELGLPELSPAHRLDRLTAGVLLFT 146
Query: 130 KTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPLG 189
+ + +F + V+KTYLA A V + + + ++ + +++ H+++ P
Sbjct: 147 TRREVRGSYQTMFARGLVRKTYLARAP--VAPGLALPR-LVRSRIVKRRGHLQAVCEPGV 203
Query: 190 KQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREY 249
+ TLVE ++ + L ++TP TGRTHQ+R+H++++ I+G+ LY A Y
Sbjct: 204 PNAETLVERIARD-----GLYRLTPTTGRTHQLRVHMAALGIPIMGDPLYPNVISVAAHY 258
Query: 250 LQLKRENNAPLLMLHAASLEFE 271
+ PL +L A +EF+
Sbjct: 259 F------STPLQLL-AQRIEFD 273
>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 = 75.1 bits (183), Expect = 9e-13
Identities = 68/236 (28%), Positives = 102/236 (42%), Gaps = 30/236 (12%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSH------FGKNAHPA--HRLDYET 122
+ FE KD V +KP + HP +L++ + H P HR+D +T
Sbjct: 81 IYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCDDLSGINGKIRPGIVHRIDKDT 140
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDKPI-LTPQNIQKDLH 180
SGL++ K + + L K + Y+AL HG +V + I+ PI ++ QK
Sbjct: 141 SGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKGTIEAPIGRAKEDRQKMAV 200
Query: 181 IRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
+R GK++ T E L P + K+ TGRTHQIR+HL + H + G+ YG
Sbjct: 201 VRD-----GKEARTHFEVLERLPGYTLINCKLD--TGRTHQIRVHLKYIGHPLAGDPKYG 253
Query: 241 VADENAREYLQLKRENNAPLLMLHAASLEFEFKGAIYKIA--SPMPERFMPFLKDL 294
K LHAA L F+ ++ +P+P F LK L
Sbjct: 254 P-----------KNTIKGNGQFLHAAKLGFDHPTTNERMTFEAPLPSSFEKALKSL 298
>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 = 75.1 bits (183), Expect = 9e-13
Identities = 66/236 (27%), Positives = 106/236 (43%), Gaps = 29/236 (12%)
Query: 28 LKEAQRHLDKQRLKQNQQAVR------KSQIIQGVVRLIHFKPNEKTQ--------ALVF 73
L E R L +++K Q V K + +G V H E + +V+
Sbjct: 19 LSELSRSLANEQIKSGQVLVNGQVKKAKYTVQEGDVVTYHVPEPEVLEYVAEDLPLEIVY 78
Query: 74 ETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHF----GKNA--HPA--HRLDYETSGL 125
+ +D V +KP + HP +L++ + H G N P HR+D +TSGL
Sbjct: 79 QDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVHRIDKDTSGL 138
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHIRSK 184
++ K + L KK + Y A+ HG L I+ PI + +K + +K
Sbjct: 139 LMIAKNDDAHLVLAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKDRKKQAVTAK 198
Query: 185 ISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
GK ++T L F D SL+++ TGRTHQIR+H++ + H + G+ +YG
Sbjct: 199 ----GKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVAGDEVYG 248
>gb|AAG10501.1|AF279106_63 (AF279106) predicted ribosomal large subunit pseudouridine synthase
D [uncultured proteobacterium EBAC31A08]
Length = 310
Score = 75.1 bits (183), Expect = 9e-13
Identities = 71/234 (30%), Positives = 111/234 (47%), Gaps = 21/234 (8%)
Query: 73 FETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHPAHRLDYETSGLVL 127
FE +DF + +KP + HP Y +L + + F + + HRLD +TSG++L
Sbjct: 82 FENEDFIIINKPAGLIMHPGSGCYDGTLANGLIYKFPELINIPRSGIVHRLDKDTSGILL 141
Query: 128 AGKTLQSVKDLKALFMQ-KKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKIS 186
+ +S ++ MQ ++V K Y ++ G S I++PI +N + + IR
Sbjct: 142 VARN-ESFRNFFINEMQERRVVKKYTSIVIGSTLGSFSIEEPIGRDKNNRTKMAIRED-- 198
Query: 187 PLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY----GVA 242
GK ++T V+ L N + S+L I TGRTHQIR+HLSS I+G+ Y +A
Sbjct: 199 --GKDALTFVK-LKEN-IGNYSVLDIRIETGRTHQIRVHLSSKKLPIIGDKTYDPSRSIA 254
Query: 243 DENAREYLQLKRENNAPLLMLHAASLEF--EFKGAIYKIASPMPERFMPFLKDL 294
+ E + + R P LHA L F + I+ P P L +L
Sbjct: 255 RDTPEELINIIR--GFPRQALHATHLSFNDQKTNNIFSFDIPTPNDMEELLLEL 306
>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 = 74.7 bits (182), Expect = 1e-12
Identities = 58/206 (28%), Positives = 98/206 (47%), Gaps = 17/206 (8%)
Query: 98 ESLLDCIQSHFGKNAHPAHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHG 157
+ +L+ S G+ HRLD +TSG+++ +T + + L A F ++ KKTY AL G
Sbjct: 126 DKMLEAWTSQKGEKPRLVHRLDRDTSGVLVVARTRGAAQQLTAAFRERDTKKTYWALVRG 185
Query: 158 LVEK-SMKIDKPILTPQNIQKDLHIRSKISPLGKQSITLVEPLSYNPFLD-----ISLLK 211
+ K KI ++ D R +I+ G+ +SY ++ ++ L+
Sbjct: 186 VPRKREDKISTWLVKEPTPDGD---RVRIAKHGEDGAD--HAISYYRIVEQAGQNLAWLE 240
Query: 212 ITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAASLEFE 271
+ P TGRTHQ+R+H + + H I+G+ Y AD N ++ L LHA ++
Sbjct: 241 MEPYTGRTHQLRVHAAHIGHPIIGDPKYFEADVNWTFPGGMQNR-----LHLHARHIDIP 295
Query: 272 F-KGAIYKIASPMPERFMPFLKDLSF 296
G KI +P+P+ + L F
Sbjct: 296 HPNGGRLKITAPLPQHMVQSWNLLGF 321
>pir||T46096 hypothetical protein T25B15.30 - Arabidopsis thaliana
emb|CAC07917.1| (AL132972) putative protein [Arabidopsis thaliana]
Length = 376
Score = 74.3 bits (181), Expect = 2e-12
Identities = 61/207 (29%), Positives = 96/207 (45%), Gaps = 41/207 (19%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAH-----------PAHRLD 119
+++E D +KP + P G F ++L +Q FGKN P HRL
Sbjct: 99 VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLTQLQWCFGKNDSYIGSRESPHPVPVHRLG 158
Query: 120 YETSGLVLAGKTLQSVKDLKALFMQ-----------------KKVKKTYLALAHGLVEKS 162
TSG++L KT + L A F + +K+ K Y ALA G+VE+
Sbjct: 159 RGTSGILLCAKTKLAKTKLAAYFAEGTSLVGSGNLDQECGTGRKLSKIYRALADGIVEED 218
Query: 163 --------MKIDKPI--LTPQNIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKI 212
+ I +PI + + + L++ S P GK + + V L + + SL+K+
Sbjct: 219 EARPFLLFVVIKQPIGVVRYPGVAQGLYVAS---PEGKPAFSKVFVLERDREKNCSLVKV 275
Query: 213 TPLTGRTHQIRLHLSSVDHRIVGEGLY 239
+GR HQIR+HL+ + H +VG+ LY
Sbjct: 276 EIQSGRPHQIRIHLAYMGHPLVGDPLY 302
>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 = 74.3 bits (181), Expect = 2e-12
Identities = 65/228 (28%), Positives = 108/228 (46%), Gaps = 19/228 (8%)
Query: 63 KPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQS--HFGKNAHPAHRLDY 120
K ++ + ++FE + V +KP + H G +++ +++ + HRLD
Sbjct: 93 KVSQLEKQILFEDECLLVLNKPSGIAVHG-GSGLSFGVIEALRTLRPDARFLELVHRLDR 151
Query: 121 ETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLH 180
+TSG++L K +++ L +K V+K YLAL G + K+ K L +
Sbjct: 152 DTSGILLVAKKRSALRSLHEQLREKTVQKDYLALVRGQWQSHCKVVKAPLLKNELSSGER 211
Query: 181 IRSKISPLGKQSIT---LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEG 237
I ++S GK S T + E Y +L+K +P+TGRTHQIR+H H I +
Sbjct: 212 I-VRVSEQGKPSETRFSIEERYEY-----ATLVKASPVTGRTHQIRVHTQYAGHPIALDD 265
Query: 238 LYGVADENAREYLQLKRENNAPLLMLHAASLEFEF--KGAIYKIASPM 283
YG D++ E + + L LHA S+ FE G +I +P+
Sbjct: 266 KYG--DKHFDEQM---TQLGLTRLFLHAFSIRFEHPKTGETLRINAPL 308
>ref|NP_245570.1| (NC_002663) unknown [Pasteurella multocida]
gb|AAK02717.1| (AE006099) unknown [Pasteurella multocida]
Length = 220
Score = 73.9 bits (180), Expect = 2e-12
Identities = 64/213 (30%), Positives = 103/213 (48%), Gaps = 23/213 (10%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDYETSGLVLAGK 130
L+++ DF V DKP + H + L Q + HRLD TSGL+L
Sbjct: 6 LIYQHPDFVVIDKPCGISVHKDEEAVGLTTLVAQQLDVPQ-VWLVHRLDKITSGLLLLAL 64
Query: 131 TLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPL-G 189
++ + L LF + +++KTYLAL+ +K K L ++QK K+ P
Sbjct: 65 NQRAARALSLLFAEHRIQKTYLALSQHKPKK-----KQGLIVGDMQKARRGAWKLCPTKT 119
Query: 190 KQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY-GVADENARE 248
+IT ++ P L + +LK P TG+THQ+R+ + S+ I+G+ LY G + + R
Sbjct: 120 NPAITRFHSINCEPNLRLFILK--PQTGKTHQLRVAMKSLGSPILGDALYAGNSAKIDRT 177
Query: 249 YLQLKRENNAPLLMLHAASLEFEFKGAIYKIAS 281
Y LHA L+F+++G ++ I S
Sbjct: 178 Y-------------LHAYRLQFDYQGQVFDIQS 197
>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 = 73.9 bits (180), Expect = 2e-12
Identities = 59/211 (27%), Positives = 100/211 (46%), Gaps = 21/211 (9%)
Query: 70 ALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDYETSGLVLAG 129
A+VFE +KP V +H ++ + HRLD +TSGL++
Sbjct: 101 AIVFEDARLLALNKPTGVASHGGSGISFGAIETLRALRPNQTLELVHRLDRDTSGLLIVA 160
Query: 130 KTLQSVKDLKALFMQ------KKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHIR 182
K ++ +L+AL + + + K YL L G + + M +D P+ + H++
Sbjct: 161 KKRSALTELQALMREDDRVDGRSITKRYLTLLVGRMPDGVMSVDAPLHIGLRQGGERHVQ 220
Query: 183 SKISPLGKQSIT---LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
++ +GK S++ L+E + + ++ + TGRTHQIR+H + H + G+ Y
Sbjct: 221 --VNAIGKPSLSHFRLLERRGGHSYCEVRIE-----TGRTHQIRVHAQHLGHAVAGDDKY 273
Query: 240 GVADENAREYLQLKRENNAPLLMLHAASLEF 270
G + N R L+ + L LHAASLEF
Sbjct: 274 GDPEVNKR----LRDQVGLRRLFLHAASLEF 300
>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 = 73.9 bits (180), Expect = 2e-12
Identities = 61/211 (28%), Positives = 96/211 (44%), Gaps = 20/211 (9%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK--------NAHP--AHRLDY 120
++FE ++ V DKP + P +L + + H G N +P AHR+D
Sbjct: 90 IIFEDENIIVVDKPTGIVCQPDKKHSIINLSNMLLKHCGYRQFDSNKLNFYPQFAHRIDR 149
Query: 121 ETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLH 180
TSG+V+ KT +++K+L +F + K Y L G + + N +
Sbjct: 150 NTSGIVIGAKTNKALKELNKVFKNNHLTKRYKGLVFGQFNH-LGLQTAYWKKDNNNGIVT 208
Query: 181 IRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
++ K P K+ T E SY D+SL+ I ++GRTHQIR L+ +++VG+ Y
Sbjct: 209 VKWKPFPEAKKISTFFENSSYIAQKDMSLITIRLISGRTHQIRACLNLFSNQLVGDKKYS 268
Query: 241 VADENAREYLQLKRENNA-PLLMLHAASLEF 270
+ +Q K NN LHA L F
Sbjct: 269 L--------IQFKNRNNKYKHQALHAYELVF 291
>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 = 73.9 bits (180), Expect = 2e-12
Identities = 73/308 (23%), Positives = 140/308 (44%), Gaps = 38/308 (12%)
Query: 4 VEEEFEILKPTKALFFVRDVLKCSLKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRL-IHF 62
+EEE+E + ++ ++ S Q + K+++ N +AV+ + ++ +
Sbjct: 8 IEEEYENQRID--VYLAQEFENISRSHIQDLIGKKKVFVNGKAVKSNYKLKSRDNVEFEI 65
Query: 63 KPNEKTQA--------LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHF----GK 110
NE+ + +V+E +D V +K + HP Y+ +L++ + H G
Sbjct: 66 PDNEELKIEAENIPLDIVYEDRDIVVVNKAQGMVVHPAPGNYNGTLVNALLYHCKDLSGI 125
Query: 111 NA--HPA--HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLV-EKSMKI 165
N P HR+D +TSG+++ K + K+L + + + Y A+ G++ E +
Sbjct: 126 NGVLRPGIVHRIDKDTSGILVVAKNDAAHKNLANQLKEHSMNRVYRAVVEGIIKEDEGTV 185
Query: 166 DKPILTPQNIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLH 225
DKP L +++ ++ + G+ ++T + L + + +L++ TGRTHQIR+H
Sbjct: 186 DKP-LARHPVER---VKIAVVKGGRNAVTHYKVLER--YRNSTLIECKLETGRTHQIRVH 239
Query: 226 LSSVDHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAASLEF--EFKGAIYKIASPM 283
++ + H +VG+ LYG K+ N MLHA L F KG +
Sbjct: 240 MAYIGHALVGDPLYGYK----------KQRFNLEGQMLHAQKLGFIHPTKGKYMEFEREA 289
Query: 284 PERFMPFL 291
P F +
Sbjct: 290 PSHFQKII 297
>ref|NP_657862.1| (NC_003995) PseudoU_synth_2, RNA pseudouridylate synthase [Bacillus
anthracis A2012] [Bacillus anthracis str. A2012]
Length = 302
Score = 73.9 bits (180), Expect = 2e-12
Identities = 62/239 (25%), Positives = 109/239 (44%), Gaps = 28/239 (11%)
Query: 60 IHFKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHF----GKNA--H 113
+ +P + + +E D V +KP + HP +L++ + H G N
Sbjct: 72 LDIQPEDMNLEIYYEDADVLVVNKPRSMVVHPAPGHTSGTLVNGLMHHCTDLSGINGVMR 131
Query: 114 PA--HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-KIDKPIL 170
P HR+D +TSGL++ K + + L + K V + Y A+ HG++ ID PI
Sbjct: 132 PGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIA 191
Query: 171 TPQNIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVD 230
+ ++ + + GK ++T + L F D +L++ TGRTHQIR+H+ +
Sbjct: 192 RDKKERQSMTVDEN----GKHAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIG 245
Query: 231 HRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAASLEFEF--KGAIYKIASPMPERF 287
+ + G+ YG ++ L + + LHA L F+ G + +P+PE F
Sbjct: 246 YPLAGDPKYG-----PKKTLDMNGQ------ALHAGILGFDHPRTGEYIQFEAPIPEVF 293
>ref|NP_217817.1| (NC_000962) hypothetical protein Rv3300c [Mycobacterium
tuberculosis H37Rv]
pir||F70533 probable deaminase - Mycobacterium tuberculosis (strain H37RV)
emb|CAB09445.1| (Z96070) hypothetical protein Rv3300c [Mycobacterium tuberculosis
H37Rv]
Length = 305
Score = 73.9 bits (180), Expect = 2e-12
Identities = 50/170 (29%), Positives = 93/170 (54%), Gaps = 9/170 (5%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG-KNAHPAHRLDYETSGLVLAG 129
++ + D V DKPH + T P+G ++ L ++ G PAHRLD T+G++L
Sbjct: 87 VLHQDADIVVVDKPHFLATMPRGRHVAQTALVRLRRELGLPELSPAHRLDRLTAGVLLFT 146
Query: 130 KTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPLG 189
+ + +F + V+KTYLA A V + + + ++ + +++ H+++ P
Sbjct: 147 TRREVRGSYQTMFARGLVRKTYLARAP--VAPGLALPR-LVRSRIVKRRGHLQAVCEPGV 203
Query: 190 KQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
+ TLVE ++ + L ++TP TGRTHQ+R+H++++ I+G+ LY
Sbjct: 204 PNAETLVERIARD-----GLYRLTPTTGRTHQLRVHMAALGIPIMGDPLY 248
>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 = 73.9 bits (180), Expect = 2e-12
Identities = 55/176 (31%), Positives = 86/176 (48%), Gaps = 9/176 (5%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHPAHRLDYETSGL 125
+V+E V +KP + HP + ++L+ + + + A HRLD ETSGL
Sbjct: 118 VVYEDDTLLVINKPAGLVVHPAAGNWSGTVLNGLLHRYPQAAGLPRAGIVHRLDKETSGL 177
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKI 185
++ +TL + DL + VK+TYLAL G ++ ID PI + + I
Sbjct: 178 MVVARTLPAQTDLVRQLQARTVKRTYLALVWGETPEAGTIDAPIGRDPRDRTRMAIIETA 237
Query: 186 SPLGKQSITLVEPLSYNPF--LDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
S GK + T + L +SL++ TGRTHQIR+H S H ++G+ +Y
Sbjct: 238 S--GKPARTHFKTLDVVDLGRAQVSLVQCQLETGRTHQIRVHFESEGHPLLGDPVY 291
>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 = 73.6 bits (179), Expect = 3e-12
Identities = 66/227 (29%), Positives = 106/227 (46%), Gaps = 35/227 (15%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNA-----HPAHRLDYETSGL 125
+VFE + +KP + + P Y + S+ + ++ H+ H RLD ETSGL
Sbjct: 82 IVFEDDFLLIINKPAGMASIPSQYHPNGSVANFVKGHYEAQGLTNAIHIVTRLDRETSGL 141
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHIRSK 184
+L K + L + +K+ Y A G LVE+ I+ PI +K++ I +
Sbjct: 142 MLIAKNRFAHARLSTFLQKGLLKRRYQAFISGVLVEQKGSIEAPIG-----RKEVSIMER 196
Query: 185 -ISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVAD 243
++P GK + T E L+ D +++ TGRTHQIR+H S + H ++G+ +YG D
Sbjct: 197 FVTPEGKYAKTNYEVLARYRAFDHVAIQLE--TGRTHQIRVHFSYIGHPLIGDDMYG-GD 253
Query: 244 ENAREYLQLKRENNAPLLMLHAASLEFEFKGAIYKIASPMPERFMPF 290
N LKR+ LH+ L + P+ E +M F
Sbjct: 254 TNL-----LKRQ------ALHSCHLH---------LVHPLTEEYMAF 280
>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 = 73.2 bits (178), Expect = 3e-12
Identities = 56/202 (27%), Positives = 104/202 (50%), Gaps = 21/202 (10%)
Query: 71 LVFETKDFGVFDKPHQVYTHP-KGYFYHESLLDCIQSHFGKNAHPAHRLDYETSGLVLAG 129
++++ K V +KP + + P + +S++ +Q+ F A HRLD TSG+++
Sbjct: 3 VLYQDKHIMVVNKPSGLLSVPGRAPENKDSVMTRVQNDF-PTAESVHRLDMATSGVIVVA 61
Query: 130 KTLQSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDKPILT--PQNIQKDLHIRSKIS 186
T + ++LK F +++ KKTY+A G L + ID P++ P ++ + +
Sbjct: 62 LTKAAERELKRQFREREPKKTYIARVWGHLAQDEGLIDLPLICDWPNRPKQKVCYET--- 118
Query: 187 PLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENA 246
GK + T + +S + + +K++P+TGR+HQ+R+H+ ++ H I+G+G Y + A
Sbjct: 119 --GKSAQTEYQVISRDDD-GSTRVKLSPITGRSHQLRVHMLAMGHPILGDGFYAHPEAKA 175
Query: 247 REYLQLKRENNAPLLMLHAASL 268
A L LHA L
Sbjct: 176 M----------ASRLQLHAQQL 187
>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 = 72.8 bits (177), Expect = 4e-12
Identities = 44/149 (29%), Positives = 80/149 (53%), Gaps = 22/149 (14%)
Query: 102 DCIQSHFGKNAHP----AHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHG 157
DC+ + +N +P HRLD+ETSGL++ + S ++L F ++ +K Y AL G
Sbjct: 36 DCLVTRLQENGYPEARIVHRLDWETSGLMVLARDADSHRELSRQFHDRETEKAYTALCWG 95
Query: 158 L-------VEKSMKIDKPILTPQNIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLL 210
L +E ++ D P P+++ H G+ ++T + + S +
Sbjct: 96 LPELDSGRIELPLRYDPP-TKPRHVVDFEH--------GRHALTFWRVIERHE--RWSRV 144
Query: 211 KITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
++TP+TGR+HQ+R+H+ S+ H ++G+ LY
Sbjct: 145 ELTPITGRSHQLRVHMLSIGHPLLGDRLY 173
>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 = 72.8 bits (177), Expect = 4e-12
Identities = 68/231 (29%), Positives = 111/231 (47%), Gaps = 14/231 (6%)
Query: 70 ALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQS--HFGKNAHPAHRLDYETSGLVL 127
A+V+E K V +KP + H G +++ + K+ HRLD +TSGL++
Sbjct: 96 AIVYEDKALIVVNKPAGIAVHG-GSGVSAGVIEVFRQLRPDAKDIELVHRLDRDTSGLLM 154
Query: 128 AGKTLQSVKDL-KALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKIS 186
K ++ L +AL +K V K Y AL G K + L N++ + +++
Sbjct: 155 IAKKRSMLRHLHEALRGEKIVDKRYHALVRGHWPAGKKNVRAPLLKNNLRSGERM-VEVN 213
Query: 187 PLGKQSITLVEPLS-YNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADEN 245
GK ++T L + F +L++ P+TGRTHQIR+H H I G+ YG DE
Sbjct: 214 VEGKDALTEFRVLRRFGDFA--TLVEARPITGRTHQIRVHAKHAGHAIAGDPKYG--DE- 268
Query: 246 AREYLQLKRENNAPLLMLHAASLEFEF-KGAIYKIASPMPERFMPFLKDLS 295
++ + RE L LHAA L G + ++ +P+ E + L+ L+
Sbjct: 269 --DFSREIRELGGKRLFLHAAQLRVPLPDGQVLELEAPVDEMWQRSLERLN 317
>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 = 72.8 bits (177), Expect = 4e-12
Identities = 73/251 (29%), Positives = 118/251 (46%), Gaps = 39/251 (15%)
Query: 37 KQRLKQNQQAVRKSQIIQ-GVVRLIHFKPNEKTQAL-----------VFETKDFGVFDKP 84
K+ + NQ+ VR ++I+ G V + F + Q V++ + + +KP
Sbjct: 37 KKHILINQEEVRWNEIVNPGDVCQLTFDEEDYPQKTIPWGNPDLVQEVYQDQHLIIVNKP 96
Query: 85 HQVYTHPKGYFYHE-SLLDCIQSHFGKNAHPAHRLDYETSGLVLAGKTLQSVKDLKALFM 143
+ TH G +E +LL+ + ++ G+ + HRLD ETSGLVL K + L L
Sbjct: 97 EGMKTH--GNQPNEIALLNHVSTYVGQTCYVVHRLDMETSGLVLFAKNPFILPILNRLLE 154
Query: 144 QKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSK---ISPLGKQSITLVEPL- 199
+K++ + Y AL G + + K ++ I +D H R K + GK + T V L
Sbjct: 155 KKEISREYWALVDGNINR-----KELVFRDKIGRDRHDRRKRIVDAKNGKYAETHVSRLK 209
Query: 200 SYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLKRENNAP 259
++ ++ K+ TGRTHQIR+HL + I+G+ LY + +R
Sbjct: 210 QFSNKTSLAHCKLK--TGRTHQIRVHLLHHNLPILGDPLYNSKSKTSR------------ 255
Query: 260 LLMLHAASLEF 270
LMLHA L F
Sbjct: 256 -LMLHAFRLSF 265
>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 = 72.4 bits (176), Expect = 6e-12
Identities = 71/253 (28%), Positives = 115/253 (45%), Gaps = 43/253 (16%)
Query: 37 KQRLKQNQQAVRKSQIIQ-GVVRLIHFKPNEKTQAL-----------VFETKDFGVFDKP 84
K+ + NQ+ V +I+ G V + F + +Q V++ + + +KP
Sbjct: 37 KKHILINQEEVHWKEIVNPGDVCQLTFDEEDYSQKTIPWGNPDLVQEVYQDQHLIIVNKP 96
Query: 85 HQVYTHPKGYFYHE-SLLDCIQSHFGKNAHPAHRLDYETSGLVLAGKTLQSVKDLKALFM 143
+ TH G +E +LL+ + ++ G+ + HRLD ETSGLVL K + L L
Sbjct: 97 EGMKTH--GNQPNEIALLNHVSTYVGQTCYVVHRLDMETSGLVLFAKNPFILPILNRLLE 154
Query: 144 QKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIR------SKISPLGKQSITLVE 197
+K++ + Y AL G + + K ++ I +D H R +K + ++ ++
Sbjct: 155 KKEISREYWALVDGNINR-----KELVFRDKIGRDRHDRRKRIVDAKNGQYAETHVSRLK 209
Query: 198 PLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLKRENN 257
S L LK TGRTHQIR+HLS + I+G+ LY + +R
Sbjct: 210 QFSNKTSLAHCKLK----TGRTHQIRVHLSHHNLPILGDPLYNSKSKTSR---------- 255
Query: 258 APLLMLHAASLEF 270
LMLHA L F
Sbjct: 256 ---LMLHAFRLSF 265
>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 = 72.0 bits (175), Expect = 7e-12
Identities = 80/303 (26%), Positives = 133/303 (43%), Gaps = 48/303 (15%)
Query: 19 FVRDVLKCSLKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRL---IHFKPNEKTQALVFET 75
F R L +K LD + + + + +R + +Q V L H P + ++++E
Sbjct: 38 FSRSRLSEWIKSGDALLDGE-MARPRDTLRGGESVQVQVVLETQTHAAPQDIPLSVLYED 96
Query: 76 KDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHPAHRLDYETSGLVLAGK 130
+ V DKP + HP +L++ + A HRLD +TSG+++ +
Sbjct: 97 EQVLVIDKPAGLVVHPGAGNPDRTLVNALLFRDPALASVPRAGVVHRLDKDTSGVMVVAR 156
Query: 131 TLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPL-- 188
T+Q+ L ++V + YLA+ G + + PI D H R ++
Sbjct: 157 TVQAQTALVEQLSAREVHRQYLAVVVGALVSGGTANAPI--------DRHPRDRLKMAVR 208
Query: 189 --GKQSIT---LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVA- 242
G+ ++T L E + L+ L TGRTHQIR+H++ + IVG+ LYG A
Sbjct: 209 DDGRDAVTHYRLRERFRAHTALECRLE-----TGRTHQIRVHMAHLKSPIVGDPLYGGAL 263
Query: 243 -------DENAREYLQLKRENNAPLLMLHAASLEF--EFKGAIYKIASPMP---ERFMPF 290
DE E KR+ LHA +LEF G + ++P+P +R M
Sbjct: 264 KLPKGATDELVHELRTFKRQ------ALHAETLEFLHPVSGEPVRASAPVPADLQRLMTV 317
Query: 291 LKD 293
L++
Sbjct: 318 LRE 320
>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 = 72.0 bits (175), Expect = 7e-12
Identities = 71/276 (25%), Positives = 134/276 (47%), Gaps = 45/276 (16%)
Query: 4 VEEEFEILKPTKALFFVRDVLK-CSLKEAQRHLDKQRLKQNQQAVRKS-QIIQGVVRLI- 60
++EE+E ++ + F+R LK +L E + L K ++K N + + + +++ G V I
Sbjct: 6 IDEEYEKVRVDR---FLRKHLKNINLSEIYKMLRKGKIKVNNKKISQDYRLVLGDVVFIF 62
Query: 61 ---HFKPNEKT--------------QALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDC 103
+FK N + + +VFE ++ V +K H KG + SLL+
Sbjct: 63 LPENFKENNEEKFIELSQERKEKLKEMIVFENENLFVINKLLGDVVH-KGSGHDISLLEE 121
Query: 104 IQSHFGKN-AHPAHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKS 162
+S++ N + +R+D TSGL++ K +++ +++ + K Y L +G +EK
Sbjct: 122 FRSYYSNNNINFVNRIDKLTSGLIIGAKNIKTAREVAKEIQADNIIKRYYILVNGKIEKD 181
Query: 163 -------MKIDKPILTPQNIQKDLHIRSKISPLGKQSITLVEPLS-YNPFLDISLLKITP 214
+K D+ + +I+K+ + K+SIT + + +N + +LL+
Sbjct: 182 NFILENYLKKDEEKVIVSDIEKEGY---------KKSITYFKKIKEHNKY---TLLEAEL 229
Query: 215 LTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYL 250
TGRTHQ+R L+ + + IVG+ YG + YL
Sbjct: 230 KTGRTHQLRAQLNHIGNNIVGDTKYGKDEREDMMYL 265
>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 = 72.0 bits (175), Expect = 7e-12
Identities = 59/170 (34%), Positives = 81/170 (46%), Gaps = 14/170 (8%)
Query: 117 RLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQ 176
RLD TSG+++ + + LK F + V KTY AL G + + I P
Sbjct: 140 RLDVGTSGVMVVAASERGYTVLKRAFRDRTVDKTYHALVQGHPDP---LTGTIEAPIGRH 196
Query: 177 KDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGE 236
R ++ GK ++T E L F + +LLKI TGRTHQIR+H S++ H G+
Sbjct: 197 PSAGWRFAVTTEGKHAVTHYETLE--AFQEATLLKIHLETGRTHQIRVHFSALHHPCCGD 254
Query: 237 GLYGVADENAREYLQLKRENNAPLLMLHAASLEFEF--KGAIYKIASPMP 284
+YG +D E L L R+ LHA SL F G +I SP P
Sbjct: 255 PMYG-SDPALSERLGLNRQ------WLHAVSLGFNHPADGRWMEIVSPYP 297
>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 = 71.6 bits (174), Expect = 1e-11
Identities = 64/237 (27%), Positives = 111/237 (46%), Gaps = 32/237 (13%)
Query: 71 LVFETKDFGVFDKPHQVYTHP------------KGYFYHESLLDCIQSHFGKNAHPAHRL 118
+++E F V +KP+ V + P KGY+ Q++ + H RL
Sbjct: 78 ILYEDDHFLVLNKPYGVASIPSVNHSNTIANFIKGYYVK-------QNYENQQVHIVTRL 130
Query: 119 DYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKD 178
D +TSGL+L K + L +K ++K Y AL G + ++ + I+ P +D
Sbjct: 131 DRDTSGLMLFAKHGYAHARLDKQLQKKSIEKRYFALVKG--DGHLEPEGEIIAPIARDED 188
Query: 179 LHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGL 238
I +++ GK + T + ++ + +I L+ I TGRTHQIR+H S + ++G+ L
Sbjct: 189 SIITRRVAKGGKYAHTSYKIVA--SYGNIHLVYIHLHTGRTHQIRVHFSHIGFPLLGDDL 246
Query: 239 YGVADENAREYLQLKRENNAPLLMLHAASLEFEFKGAIYKIASPMPERFMPFLKDLS 295
YG + E+ ++R+ L H S F ++ SP+P+ F + LS
Sbjct: 247 YGGSLEDG-----IQRQ----ALHCHYLSFYHPFLEQDLQLESPLPDDFSNLITQLS 294
>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 = 71.6 bits (174), Expect = 1e-11
Identities = 61/236 (25%), Positives = 104/236 (43%), Gaps = 25/236 (10%)
Query: 70 ALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHP--------AHRLDYE 121
++V+ ++DF V +K V K + +L ++ F + A P H+LD+
Sbjct: 10 SIVYRSRDFLVVNKHWDVRIDSKAWRETLTLQKQLRYRFPELADPDTCYGFRFCHQLDFS 69
Query: 122 TSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHI 181
TSG + + F +++V K YLAL G +++S + + + H
Sbjct: 70 TSGALCVALNKAAAGSAYRCFKERRVTKAYLALLRGHIQESRVTISHAIGRNSTEGRAHT 129
Query: 182 RSKISPLG----KQSITLVEPLSYNPFLD--ISLLKITPLTGRTHQIRLHLSSVDHRIVG 235
G K S+T + L + + +S + + PLTGRTHQ+R+H S++ H +VG
Sbjct: 130 MCIEGSQGCENPKPSLTDLVVLEHGLYAGDPVSKVLLKPLTGRTHQLRVHCSALGHPVVG 189
Query: 236 EGLYGVADENAREYLQLKRENNAPLLMLHAASLEFEFKGAIYKIASPMPERFMPFL 291
+ YG RE+ +MLHA L ++ +P P F+P L
Sbjct: 190 DLTYGEVS---------GREDRPFRMMLHAFYLRIPTDTECVEVCTPDP--FLPSL 234
>ref|NP_404651.1| (NC_003143) Conserved hypothetical protein [Yersinia pestis]
emb|CAC89880.1| (AJ414146) Conserved hypothetical protein [Yersinia pestis]
Length = 257
Score = 71.6 bits (174), Expect = 1e-11
Identities = 53/194 (27%), Positives = 92/194 (47%), Gaps = 20/194 (10%)
Query: 91 PKGYFYHESLLD---------CIQSHFGKNAHPAHRLDYETSGLVLAGKTLQSVKDLKAL 141
P G+ H S LD ++ G++ + HRLD TSG++L + + L
Sbjct: 17 PAGWLVHRSWLDRNETVFVMQTVRDQIGQHVYTVHRLDRPTSGVLLMALSSDVARMLSLQ 76
Query: 142 FMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPLGK----QSITLVE 197
F Q +++KTY A+ G V + +D + + D +S +P +++ VE
Sbjct: 77 FEQHQIQKTYHAVVRGYVLEGGTVDYAMAEELDKIADKFAKSDKAPQPSVSHYEALAQVE 136
Query: 198 -PLSYNPF--LDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLKR 254
PL+ + SL+ + P TGR HQ+R H++ + H I+G+ +G + R+ + +
Sbjct: 137 VPLAIGRYETARYSLVALKPETGRKHQLRRHMAHIRHPIIGDSTHG----DLRQNRGVAQ 192
Query: 255 ENNAPLLMLHAASL 268
LMLHA+ L
Sbjct: 193 HFGCSRLMLHASHL 206
>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 = 71.2 bits (173), Expect = 1e-11
Identities = 58/213 (27%), Positives = 101/213 (47%), Gaps = 29/213 (13%)
Query: 64 PNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYH-ESLLDCIQSHFGKNAHPAHRLDYET 122
P E ++++ V +KP + + P H +S++ IQ + + A HRLD T
Sbjct: 9 PQEPWLVILYQDDHIMVVNKPSGLLSVPGRLEEHKDSVMTRIQRDYPQ-AESVHRLDMAT 67
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLAL-------AHGLVEKSMKIDKPILTPQNI 175
SG+++ T + ++LK F +++ KK Y+A A GLV+ + D P Q +
Sbjct: 68 SGVIVVALTKAAERELKRQFREREPKKQYVARVWGHPSPAEGLVDLPLICDWPNRPKQKV 127
Query: 176 QKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVG 235
+ GK + T E + Y + + + + P+TGR+HQ+R+H+ ++ H I+G
Sbjct: 128 CYE---------TGKPAQTEYEVVEYAAD-NTARVVLKPITGRSHQLRVHMLALGHPILG 177
Query: 236 EGLYGVADENAREYLQLKRENNAPLLMLHAASL 268
+ Y + A AP L+LHA L
Sbjct: 178 DRFYASPEARAM----------APRLLLHAEML 200
>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 = 70.9 bits (172), Expect = 2e-11
Identities = 67/213 (31%), Positives = 100/213 (46%), Gaps = 22/213 (10%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQ--------SHFGKNAHPAHRLDYET 122
+V + +D V KP V HP + +++ + S + HRLD T
Sbjct: 87 IVHDDEDVVVVVKPVGVAAHPSPGWSGPTVIGGLAAAGYRVSTSGAAERQGIVHRLDVGT 146
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEK-SMKIDKPILTPQNIQKDLHI 181
SGL+ K+ ++ LK F ++ V K Y L G + S ID PI ++ Q D
Sbjct: 147 SGLMAVAKSERAYTSLKRQFKERTVDKRYHTLVQGHPDPTSGTIDAPI--GRHPQHDY-- 202
Query: 182 RSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGV 241
+ ++ GK S+T + + F SLL + TGRTHQIR+H+++ H VG+ YG
Sbjct: 203 KWAVTAEGKPSVTHYDLIE--AFRAASLLDVKLETGRTHQIRVHMAAHRHPCVGDLTYG- 259
Query: 242 ADENAREYLQLKRENNAPLLMLHAASLEFEFKG 274
AD + L+L R+ LHA L FE G
Sbjct: 260 ADPTLAKRLRLTRQ------WLHAVRLGFEHPG 286
>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 = 70.9 bits (172), Expect = 2e-11
Identities = 60/198 (30%), Positives = 93/198 (46%), Gaps = 16/198 (8%)
Query: 60 IHFKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSH---FGKNAHP-- 114
++ P + +++E + KP+ P HESL++ + H G+N +P
Sbjct: 66 VNLIPYARKLEVLYEDAFIIIVTKPNNQNCTPSREHPHESLIEQVLYHCQEHGENINPHI 125
Query: 115 AHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQN 174
RLD T+G+V+ K + LF + +KK Y L +G S I+ I
Sbjct: 126 VTRLDRNTTGIVIFAK----YGHIHHLFSKVNLKKIYTCLVYGKTHTSGIIEANIRR--- 178
Query: 175 IQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
KD I +++ GK + T E ++ N SL K+ TGRTHQIR+H + H IV
Sbjct: 179 -SKDSIITREVASDGKYAKTSYEVINQND--KYSLCKVHLHTGRTHQIRVHFQHIGHPIV 235
Query: 235 GEGLY-GVADENAREYLQ 251
G+ LY G D+ + LQ
Sbjct: 236 GDSLYDGFHDKIHGQVLQ 253
>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 = 70.9 bits (172), Expect = 2e-11
Identities = 56/203 (27%), Positives = 92/203 (44%), Gaps = 21/203 (10%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG-KNAHPAHRLDYETSGLVLAG 129
+V++ DF + +K + H + L + + HRLD TSGL++
Sbjct: 5 VVYQHSDFIIINKSEGISVHKDQE--EQGLTELVAKQLNVPKVWLVHRLDKVTSGLLILA 62
Query: 130 KTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPLG 189
+S + LF + K+ KTYLAL++ +K + + ++K +P
Sbjct: 63 LNAESAAEFSRLFSEHKIHKTYLALSNQKPKKKQGLIIGDMKKAREGAWKLCQTKDNP-- 120
Query: 190 KQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREY 249
+IT E +S P L + +LK P TG+THQ+R+ + S+ I+G+GLYG
Sbjct: 121 --AITRFESVSCEPNLRLFILK--PQTGKTHQLRVAMKSLGSPILGDGLYG--------- 167
Query: 250 LQLKRENNAPLLMLHAASLEFEF 272
K LHA LEF++
Sbjct: 168 ---KNTEKIDRTYLHATQLEFDY 187
>ref|NP_360947.1| (NC_003103) sfhB protein homolog [Rickettsia conorii]
gb|AAL03848.1| (AE008677) sfhB protein homolog [Rickettsia conorii]
Length = 313
Score = 70.5 bits (171), Expect = 2e-11
Identities = 62/242 (25%), Positives = 115/242 (46%), Gaps = 29/242 (11%)
Query: 21 RDVLKCSLKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRLIHFKPNEKTQA--------LV 72
R+ ++ ++K++Q ++ + V+++ II L FK E+ + ++
Sbjct: 28 RNQIQKAIKDSQVLVNDVIISDPDVLVKENDII-----LFSFKEPEELKIAAANVALDII 82
Query: 73 FETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSH------FGKNAHPA--HRLDYETSG 124
+E D V +K + HP + ++L++ + H G + P HRLD +T+G
Sbjct: 83 YEDDDLIVINKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSERPGIVHRLDKDTTG 142
Query: 125 LVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSK 184
L++ K ++ L Q++V + Y L G++ + K NI + R K
Sbjct: 143 LMVVAKNNKAHMLLANQIEQRQVIRKYKVLVWGVINPLEGVIK-----NNIGRSRSDRQK 197
Query: 185 ISPL---GKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGV 241
++ L GK+++T + L IS+++ TGRTHQIR+ LS + H +VG+ YG
Sbjct: 198 MTILKYGGKEAVTHYKILELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSVVGDQTYGN 257
Query: 242 AD 243
D
Sbjct: 258 ND 259
>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 = 70.1 bits (170), Expect = 3e-11
Identities = 54/207 (26%), Positives = 93/207 (44%), Gaps = 21/207 (10%)
Query: 80 VFDKPHQVYTH-PKGYFYHESLLD---------CIQSHFGKNAHPAHRLDYETSGLVLAG 129
++ H V + P G+ H S LD ++ G++ + HRLD TSG++L
Sbjct: 119 IYQDEHLVAVNKPSGWLVHRSWLDRKEKVVVMQTVRDQIGQHVYTVHRLDRPTSGVLLLA 178
Query: 130 KTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPLG 189
+ + + L F +++KTY A+ G V ID + + D +P
Sbjct: 179 LSSEVARALSQQFESHQMQKTYHAVVRGYVLDDGVIDYALTEELDKIADKFTNPDKAPQP 238
Query: 190 K----QSITLVE---PLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVA 242
+S+ E + P SL+++ P TGR HQ+R H+S + H I+G+ +G
Sbjct: 239 AVTHYRSLAQAEMPVAIGRYPTARYSLMELKPQTGRKHQLRRHMSHIHHPIIGDTAHG-- 296
Query: 243 DENAREYLQLKRENNAPLLMLHAASLE 269
+ R ++ + LMLHA+ L+
Sbjct: 297 --DLRHNRGMESHFSCGRLMLHASELQ 321
>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 = 70.1 bits (170), Expect = 3e-11
Identities = 67/233 (28%), Positives = 108/233 (45%), Gaps = 38/233 (16%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHF--GKNAHPAHRLDYETSGLVLA 128
+V++ V +KP + + P G H+S+L +++ F + HRLD TSGL++
Sbjct: 20 IVYQDDAIVVVNKPAEFLSVP-GVHVHDSVLTRLKAQFTQAEGVFALHRLDMSTSGLLVF 78
Query: 129 GKTLQSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHIRSKIS- 186
T ++ K L+ F+ + V+K Y+AL G L E +I P+ D R K+
Sbjct: 79 ALTRRANKQLQKQFISRAVQKRYVALIEGKLSETQGEIQLPLCG----DLDDRPRQKVCW 134
Query: 187 PLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLS---SVDHRIVGEGLYGVAD 243
GK ++T E + + + + + P TGRTHQ+R+H + ++ IVG+ LYG+ D
Sbjct: 135 QQGKPALTHWETVQVEQ--NRTRVYLYPHTGRTHQLRVHCAHHLGLNAPIVGDDLYGLQD 192
Query: 244 ENAREYLQLKRENNAPLLMLHAASLEFEFKGAIYKIASPMPERFMPFLKDLSF 296
+ L LHA L F A P ++ M F D F
Sbjct: 193 KR---------------LFLHAEQLSF---------AHPYTKQPMTFQVDADF 221
>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 = 70.1 bits (170), Expect = 3e-11
Identities = 59/198 (29%), Positives = 91/198 (45%), Gaps = 16/198 (8%)
Query: 60 IHFKPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNA-----HP 114
++ P + +++E + KP+ P HESL++ + H +N H
Sbjct: 66 VNLIPYARKLEVLYEDAFIIIVTKPNNQNCTPSREHPHESLIEQVLYHCQENGENINPHI 125
Query: 115 AHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQN 174
RLD T+G+V+ K + LF + +KK Y L +G S I+ I
Sbjct: 126 VTRLDRNTTGIVIFAK----YGYIHHLFSKVNLKKIYTCLVYGKTHTSGIIEANIRR--- 178
Query: 175 IQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
KD I +++ GK + T E ++ N SL K+ TGRTHQIR+H + H IV
Sbjct: 179 -SKDSIITREVASDGKYAKTSYEVINQND--KYSLCKVHLHTGRTHQIRVHFQHIGHPIV 235
Query: 235 GEGLY-GVADENAREYLQ 251
G+ LY G D+ + LQ
Sbjct: 236 GDSLYDGFHDKIHGQVLQ 253
>ref|NP_347651.1| (NC_003030) Pseudouridylate synthase [Clostridium acetobutylicum]
gb|AAK78991.1|AE007617_3 (AE007617) Pseudouridylate synthase [Clostridium acetobutylicum]
Length = 318
Score = 70.1 bits (170), Expect = 3e-11
Identities = 45/136 (33%), Positives = 72/136 (52%), Gaps = 10/136 (7%)
Query: 114 PAHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQ 173
P +RLD TSG+V+ GK +++K L + ++++KK Y AL G ++ I + +
Sbjct: 137 PCNRLDRNTSGIVIYGKNFEALKCLNEMIRERRIKKYYYALVKGKIKDG--IYEAYIKKD 194
Query: 174 NIQKDLHIRSKISPLGKQ---SITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVD 230
I + +P KQ I VE F++I L LTGR+HQ+R HLS +
Sbjct: 195 VSSNKSEIINTPAPGAKQISMEIKCVETCGTFSFIEIEL-----LTGRSHQLRAHLSHLG 249
Query: 231 HRIVGEGLYGVADENA 246
+ I+G+ YG+ D N+
Sbjct: 250 NPILGDPKYGIKDINS 265
>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 = 70.1 bits (170), Expect = 3e-11
Identities = 66/258 (25%), Positives = 120/258 (45%), Gaps = 28/258 (10%)
Query: 4 VEEEFEILKPTKALFFVRDVLKCSLKEAQRHLDKQRLKQNQQAVRKSQII--QGVVRLIH 61
V +E + KAL + + K S + Q+ + ++ N + S ++ + L
Sbjct: 6 VPKELNNTRLDKALSLL--LKKVSRNQVQKAIKNYCVQVNGVIISDSDVLVKENDTILFS 63
Query: 62 FKPNEK--------TQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSH------ 107
FK E+ T +++E D V +K + HP + +L++ + H
Sbjct: 64 FKEPEELKITAANITLDIIYEDDDLIVINKAAGMTVHPGIRHHDNTLVNALLHHTKYLSD 123
Query: 108 FGKNAHPA--HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKI 165
G P HRLD +T+GL++ K ++ L Q++V + Y AL G++ I
Sbjct: 124 IGSAERPGIVHRLDKDTTGLMVVAKNNKTHILLANQIKQRQVIRKYKALVWGVINPLEGI 183
Query: 166 DKPILTPQNIQKDLHIRSKISPL---GKQSITLVEPLSYNPFLDISLLKITPLTGRTHQI 222
K N+ ++ + R K++ L GK+++T + L +S+++ TGRTHQI
Sbjct: 184 IK-----NNVGRNRNNRKKMTILKYGGKKAVTYYKTLELFYGGTLSMVECKLSTGRTHQI 238
Query: 223 RLHLSSVDHRIVGEGLYG 240
R+ LS++ H +VG+ YG
Sbjct: 239 RVQLSNLKHSVVGDQTYG 256
>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 = 70.1 bits (170), Expect = 3e-11
Identities = 62/235 (26%), Positives = 107/235 (45%), Gaps = 28/235 (11%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHF----GKNA--HPA--HRLDYET 122
+ +E +D V +KP + HP +L++ + +H G N P HR+D +T
Sbjct: 82 IYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCTDLSGINGVMRPGIVHRIDKDT 141
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLV-EKSMKIDKPILTPQNIQKDLHI 181
SGL++ K + + L + K V + Y A+ HGL+ ID PI + ++ + +
Sbjct: 142 SGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRDKKDRQSMTV 201
Query: 182 RSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGV 241
GK ++T L F D +L++ TGRTHQIR+H+ + + G+ YG
Sbjct: 202 TRD----GKNAVTHFHVL--ERFQDFTLVECQLETGRTHQIRVHMKYIGFPLAGDPKYG- 254
Query: 242 ADENAREYLQLKRENNAPLLMLHAASLEFEF--KGAIYKIASPMPERFMPFLKDL 294
R+ + + LHA L F+ G + +P+PE +++L
Sbjct: 255 ----PRKTIDFNGQ------ALHAGVLGFDHPRTGEYVEFEAPLPEDMAELIENL 299
>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 = 69.3 bits (168), Expect = 5e-11
Identities = 82/303 (27%), Positives = 128/303 (42%), Gaps = 48/303 (15%)
Query: 19 FVRDVLKCSLKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRL---IHFKPNEKTQALVFET 75
F R L +K LD + + + +R + +Q V L H P + +++E
Sbjct: 38 FSRSRLSEWIKSGDALLDGETARP-RDTLRGGETVQVQVVLETQTHAAPQDIPLNVLYED 96
Query: 76 KDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHPAHRLDYETSGLVLAGK 130
V DKP + HP +L++ + A HRLD +TSG+++ +
Sbjct: 97 DHVLVIDKPAGLVVHPGAGNPDGTLVNALLFRDPNLAAVPRAGVVHRLDKDTSGVMVVAR 156
Query: 131 TLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPL-- 188
TLQ+ L + V + YLA+ G + D PI D H R ++
Sbjct: 157 TLQAQTALVEQLSARDVHRQYLAVVVGALVSGGTADAPI--------DRHPRDRLKMAVR 208
Query: 189 --GKQSIT---LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVA- 242
G+ ++T L E + L+ L TGRTHQIR+H++ + IVG+ LYG A
Sbjct: 209 DDGRDAVTHYRLRERFRAHTALECRLE-----TGRTHQIRVHMAHLKSPIVGDPLYGGAL 263
Query: 243 -------DENAREYLQLKRENNAPLLMLHAASLEF--EFKGAIYKIASPMPE---RFMPF 290
D E KR+ LHA +LEF G + ++P+PE R M
Sbjct: 264 KLPKGATDTLVAELRGFKRQ------ALHAETLEFLHPVSGEPIRASAPVPEDLQRLMSA 317
Query: 291 LKD 293
L++
Sbjct: 318 LRE 320
>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 = 69.3 bits (168), Expect = 5e-11
Identities = 62/182 (34%), Positives = 87/182 (47%), Gaps = 16/182 (8%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-KIDKPILTPQN 174
HRLD TSG+++ + ++ LK F + V K Y AL G + S ID PI
Sbjct: 136 HRLDVGTSGVMVVAISERAYTVLKRAFKYRTVDKRYHALVQGHPDPSSGTIDAPI----G 191
Query: 175 IQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
+ + I+ G+ S+T + L F+ SLL + TGRTHQIR+H +++ H
Sbjct: 192 RHRGHEWKFAITKNGRHSLTHYDTLE--AFVAASLLDVHLETGRTHQIRVHFAALHHPCC 249
Query: 235 GEGLYGVADENAREYLQLKRENNAPLLMLHAASLEFEF--KGAIYKIASPMPERFMPFLK 292
G+ +YG AD + L L R+ LHA SL F G +I SP P LK
Sbjct: 250 GDLVYG-ADPKLAKRLGLDRQ------WLHARSLAFAHPADGRRVEIVSPYPADLQHALK 302
Query: 293 DL 294
L
Sbjct: 303 IL 304
>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 = 68.6 bits (166), Expect = 8e-11
Identities = 57/213 (26%), Positives = 99/213 (45%), Gaps = 29/213 (13%)
Query: 64 PNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYH-ESLLDCIQSHFGKNAHPAHRLDYET 122
P E ++++ V +KP + + P H +S++ IQ + + A HRLD T
Sbjct: 9 PQEPWLVILYQDDHIMVVNKPSGLLSVPGRLEEHKDSVMTRIQRDYPQ-AESVHRLDMAT 67
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLAL-------AHGLVEKSMKIDKPILTPQNI 175
SG+++ T + ++LK F ++ KK Y+ A GLV+ + D P Q +
Sbjct: 68 SGVIVVALTKAAERELKRQFRERVPKKQYVTRVWGHPSPAEGLVDLPLICDWPNRPKQKV 127
Query: 176 QKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVG 235
+ GK + T E + Y + + + + P+TGR+HQ+R+H+ ++ H I+G
Sbjct: 128 CYET---------GKPAQTEYEVVEYAAD-NTARVVLKPITGRSHQLRVHMLALGHPILG 177
Query: 236 EGLYGVADENAREYLQLKRENNAPLLMLHAASL 268
+ Y + A AP L+LHA L
Sbjct: 178 DRFYASPEARAM----------APRLLLHAEML 200
>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 = 68.6 bits (166), Expect = 8e-11
Identities = 60/184 (32%), Positives = 91/184 (48%), Gaps = 18/184 (9%)
Query: 108 FGKNAHPA--HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-K 164
FG P+ HRLD +TSG +L + + + L F Q +VKK Y A+ G+ EK+
Sbjct: 45 FGFKRWPSIVHRLDRDTSGCLLLARNPKMHRRLSEAFSQGQVKKCYWAILEGVPEKNEGT 104
Query: 165 IDKPILTPQNIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRL 224
ID P+L + + I + GK+++T E L+ N SL+ P TGRTHQ+R+
Sbjct: 105 IDLPLLKISSPKSGWRIVA--DDKGKRAVTHWEILAKNK--GRSLVAFRPETGRTHQLRV 160
Query: 225 HLSSVDHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAASLEF-EFKGAIYKIASPM 283
H ++ G GL V D + ++ N +MLHA SLE + +P+
Sbjct: 161 HAAT------GLGLPIVGD----PFYSSHKDENISRMMLHAHSLEIARLEKKPIAAEAPL 210
Query: 284 PERF 287
P+ F
Sbjct: 211 PKAF 214
>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 = 68.6 bits (166), Expect = 8e-11
Identities = 48/163 (29%), Positives = 75/163 (45%), Gaps = 19/163 (11%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNI 175
HRLD TSG++L + + +L F ++KV+K YLA+ +K + +
Sbjct: 48 HRLDKMTSGILLLARNATAASELSQGFAKRKVEKFYLAIGSKKPKKKQGLICGDMERSRR 107
Query: 176 QKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVG 235
+ S+ +P Q + FL P TG+THQIR+ L S+ IVG
Sbjct: 108 SSWKLVNSQENPAITQFFSAAAATGERLFL------CKPHTGKTHQIRVALKSIGSAIVG 161
Query: 236 EGLYGVADENAREYLQLKRENNAPLLMLHAASLEFEFKGAIYK 278
+ +Y ADE+ R Y LHA +L F ++G +Y+
Sbjct: 162 DPIYNTADESDRGY-------------LHAFALRFTYQGEVYQ 191
>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 = 68.2 bits (165), Expect = 1e-10
Identities = 73/283 (25%), Positives = 129/283 (44%), Gaps = 33/283 (11%)
Query: 28 LKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRLIHFKPNEKTQAL----VFETKDFGVFDK 83
+KE K+ +K+ A+++ I + I KP +K L +FE +D V +K
Sbjct: 33 IKEGLVFCQKKEVKKGGLALKEGDAITLLTPKIVPKPLKKELDLEIEVIFEDEDLLVLNK 92
Query: 84 PHQVYTHPKGYFYHESLLDCIQSH--------FGKNAHPAHRLDYETSGLVLAGKTLQSV 135
P + H +L+D ++S + HRLD +TSG ++ K +
Sbjct: 93 PPNLVVHKAPSVKEPTLVDWLKSQNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTH 152
Query: 136 KDLKALFMQKKVKKTYLAL-AHGLVEKSMKIDKPIL-TPQNIQKDLHIRSKISPLGKQSI 193
L K + + Y+AL + L E+ M ++ + P N K + +++ + S
Sbjct: 153 VCLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAAKKEKSRYSK 212
Query: 194 T-LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQL 252
+ L+ +D+ K+ TGRTHQIR HL ++ I+G+ LYG+ ++E ++
Sbjct: 213 SEFTSLLTSQNGMDLIGAKL--FTGRTHQIRAHLEYLNRHIIGDNLYGLNGVLSKEEIR- 269
Query: 253 KRENNAPLLMLHAASLEFEFKGAIYKIASPMPERF-MPFLKDL 294
+MLHA +EF+ + K+ RF +P LKD+
Sbjct: 270 --------IMLHAYLIEFKHPRSEQKL------RFKVPLLKDM 298
>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 = 68.2 bits (165), Expect = 1e-10
Identities = 52/182 (28%), Positives = 89/182 (48%), Gaps = 18/182 (9%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSH------FGKNAHPA--HRLDYET 122
+++E + +KP + HP H +L++ + +H G P HRLD +T
Sbjct: 82 ILYEDDQLLILNKPAGLVVHPAPGHSHGTLVNALLAHCPDLPGIGGVQRPGIVHRLDKDT 141
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEK-SMKIDKPILTPQNIQKDLHI 181
+G + KT + K ++A K ++ YL + +G + S K+D PI +K + +
Sbjct: 142 TGAIAIAKTDIAYKHIQAQLQAKTARREYLGVVYGAPKTASGKVDLPIGRHPQDRKKMAV 201
Query: 182 RSKISPLGKQSIT---LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGL 238
I G+ +IT + E L + +L+ TGRTHQIR+H + + H IVG+ +
Sbjct: 202 -VPIEEGGRSAITHWQIQERLG-----NFTLIHFQLETGRTHQIRVHSAKMGHPIVGDPV 255
Query: 239 YG 240
YG
Sbjct: 256 YG 257
>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 = 68.2 bits (165), Expect = 1e-10
Identities = 50/175 (28%), Positives = 92/175 (52%), Gaps = 10/175 (5%)
Query: 65 NEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDYETSG 124
++K + V + K+ + + ++ K Y Y + + ++ F NA +RLD ETSG
Sbjct: 44 SDKARFNVIKAKNPQIIFEDDKIIAINKPYAY---VSEDLEKKF--NAKLLNRLDKETSG 98
Query: 125 LVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSK 184
++L K K F + +V K+Y+A+ G++ + +++++PI T I+ SK
Sbjct: 99 VILLCKDEDFRKLCIEEFKKHRVYKSYIAVLDGVLAEEVEVNEPIFT---IKVKGGALSK 155
Query: 185 ISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
+S G +++++ P+ +L KI TGRTHQIR+H + H +VG+ Y
Sbjct: 156 VSKDGLSALSIITPIMMQS--KKTLAKIVIQTGRTHQIRVHAKFIKHGVVGDEKY 208
>gb|EAA09234.1| (AAAB01008898) agCP13979 [Anopheles gambiae str. PEST]
Length = 273
Score = 67.8 bits (164), Expect = 1e-10
Identities = 53/223 (23%), Positives = 102/223 (44%), Gaps = 26/223 (11%)
Query: 61 HFKPNEKTQALVFETKDFGVFDKPHQVYTHPKGY-------FYHESLLDCIQSHFGKNAH 113
++K ++T +++ + +F V +K H + + + + +Q + + +
Sbjct: 17 NYKKKDETVDVLYTSGNFLVINKKHDLLINSNDTKKKTVQTIMRKQFPEYVQDNLTHDFY 76
Query: 114 PAHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQ 173
AHRLD+ TSG++ + K++ +F +++ +K YLAL G + ++ +
Sbjct: 77 FAHRLDFATSGILCIPLNKNACKEVCQVFEEQRARKYYLALLRGHTDFDEEVIDIAIGED 136
Query: 174 NIQKDLH------IRSKISPLGKQSIT--LVEPLSYNPFLDISLLKITPLTGRTHQIRLH 225
KD + ++ ++SIT LV Y ++ + + P+TGR HQ+RLH
Sbjct: 137 VRFKDTSKKMCTILEDELCQNPRRSITKVLVLDRGYYNGKPVTKVLLRPITGRRHQLRLH 196
Query: 226 LSSVDHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAASL 268
S + H IVG+ Y LK + + P + LHA L
Sbjct: 197 CSQIGHVIVGDYTY-----------SLKIDTSPPRMFLHAFRL 228
>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 = 67.8 bits (164), Expect = 1e-10
Identities = 60/209 (28%), Positives = 97/209 (45%), Gaps = 26/209 (12%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHF----GKNA--HPA--HRLDYET 122
+ +E +D V +KP + HP +L++ + +H G N P HR+D +T
Sbjct: 82 IYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCTDLSGINGVMRPGIVHRIDKDT 141
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLV-EKSMKIDKPILTPQNIQKDLHI 181
SGL++ K + + L + K V + Y A+ HGL+ ID PI + ++ + +
Sbjct: 142 SGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRDKKDRQSMTV 201
Query: 182 RSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGV 241
GK ++T L F D +L++ TGRTHQIR+H+ + + G+ YG
Sbjct: 202 TRD----GKNAVTHFHVL--EGFQDFTLVECQLETGRTHQIRVHMKYIGFPLAGDPKYG- 254
Query: 242 ADENAREYLQLKRENNAPLLMLHAASLEF 270
R+ + N P LHAAS F
Sbjct: 255 ----PRKTIDF---NGQP---LHAASFRF 273
>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 = 67.4 bits (163), Expect = 2e-10
Identities = 58/213 (27%), Positives = 102/213 (47%), Gaps = 29/213 (13%)
Query: 64 PNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYH-ESLLDCIQSHFGKNAHPAHRLDYET 122
P E ++++ + V +KP + + P H +S++ IQ + + A HRLD T
Sbjct: 9 PQEPWLVILYQDEHIMVVNKPSGLLSVPGRLEAHKDSIMTRIQRDYPQ-AESVHRLDMAT 67
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLAL-------AHGLVEKSMKIDKPILTPQNI 175
SG+++ T + ++LK F +++ KK Y+A A GLV+ + D P Q +
Sbjct: 68 SGVIVVALTKAAERELKRQFREREPKKQYVARVWGHPSPAEGLVDLPLICDWPNRPKQKV 127
Query: 176 QKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVG 235
+ GK + T + + + + + + P+TGR+HQ+R+H+ ++ H I+G
Sbjct: 128 CYE---------TGKPAQTEYNVVEFAAD-NTARVVLKPITGRSHQLRVHMLALGHPILG 177
Query: 236 EGLYGVADENAREYLQLKRENNAPLLMLHAASL 268
+ Y + E L L AP L LHA L
Sbjct: 178 DQFYA-----SPEALSL-----APRLQLHAEML 200
>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 = 67.4 bits (163), Expect = 2e-10
Identities = 58/213 (27%), Positives = 102/213 (47%), Gaps = 29/213 (13%)
Query: 64 PNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYH-ESLLDCIQSHFGKNAHPAHRLDYET 122
P E ++++ + V +KP + + P H +S++ IQ + + A HRLD T
Sbjct: 9 PQEPWLVILYQDEHIMVVNKPSGLLSVPGRLEAHKDSIMTRIQRDYPQ-AESVHRLDMAT 67
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLAL-------AHGLVEKSMKIDKPILTPQNI 175
SG+++ T + ++LK F +++ KK Y+A A GLV+ + D P Q +
Sbjct: 68 SGVIVVALTKAAERELKRQFREREPKKQYVARVWGHPSPAEGLVDLPLICDWPNRPKQKV 127
Query: 176 QKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVG 235
+ GK + T + + + + + + P+TGR+HQ+R+H+ ++ H I+G
Sbjct: 128 CYE---------TGKPAQTEYNVVEFAAD-NTARVVLKPITGRSHQLRVHMLALGHPILG 177
Query: 236 EGLYGVADENAREYLQLKRENNAPLLMLHAASL 268
+ Y + E L L AP L LHA L
Sbjct: 178 DRFYA-----SPEALSL-----APRLQLHAEML 200
>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 = 67.0 bits (162), Expect = 2e-10
Identities = 75/284 (26%), Positives = 130/284 (45%), Gaps = 35/284 (12%)
Query: 28 LKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRLIHFKPNEKTQAL----VFETKDFGVFDK 83
+KE K+ +K+ A+++ I + I KP +K L +FE +D V +K
Sbjct: 33 IKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLKKELDLEIEVIFEDEDLLVLNK 92
Query: 84 PHQVYTHPKGYFYHESLLDCIQ------SHFGKNAHPA--HRLDYETSGLVLAGKTLQSV 135
P + H +L+D ++ S+ G HRLD +TSG ++ K +
Sbjct: 93 PPNLVVHKALSVKEPTLVDWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTH 152
Query: 136 KDLKALFMQKKVKKTYLAL-AHGLVEKSMKIDKPIL-TPQNIQKDLHIRSKISPLGKQSI 193
L K + + Y+AL + L E+ M ++ + P N K + +++ + S
Sbjct: 153 VHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKEKSRYSK 212
Query: 194 TLVEPL--SYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQ 251
+ L S N +++L+ TGRTHQIR HL ++ I+G+ LYG+ +E ++
Sbjct: 213 SEFISLLTSQN---NLNLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGLNGALPKEEIR 269
Query: 252 LKRENNAPLLMLHAASLEFEFKGAIYKIASPMPERF-MPFLKDL 294
+MLHA +EF+ + K+ RF +P LKD+
Sbjct: 270 ---------IMLHAYLIEFKHPRSEQKL------RFKVPLLKDM 298
>pir||B23747 ORFX protein, 5' of ams - Escherichia coli (fragment)
gb|AAA23442.1| (M62747) orfX [Escherichia coli]
Length = 285
Score = 67.0 bits (162), Expect = 2e-10
Identities = 52/154 (33%), Positives = 79/154 (50%), Gaps = 12/154 (7%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMK-IDKPILTPQN 174
HRLD +TSG++L K +++ L +K ++K YLAL G + +K + P+L +N
Sbjct: 141 HRLDRDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRGQWQSHVKSVQAPLL--KN 198
Query: 175 IQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
I + ++S GK S T + F +L++ +P+TGRTHQIR+H H I
Sbjct: 199 ILQSGERIVRVSQEGKPSETRFKVEERYAF--ATLVRCSPVTGRTHQIRVHTQYAGHPIA 256
Query: 235 GEGLYGVADENAREYLQLKRENNAPL--LMLHAA 266
+ YG RE+ + E L L LHAA
Sbjct: 257 FDDRYG-----DREFDRQLTEAGTGLNRLFLHAA 285
>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 = 67.0 bits (162), Expect = 2e-10
Identities = 55/207 (26%), Positives = 95/207 (45%), Gaps = 14/207 (6%)
Query: 72 VFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHPAHRLDYETSGLV 126
++E + + +KP + HP ++L+ + + HRLD +TSGL+
Sbjct: 87 IYEDSNILIINKPPGLVVHPGAGNQDGTILNALLYRYTNISSIPRCGIIHRLDKDTSGLM 146
Query: 127 LAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKIS 186
+ KT+ S L L ++K+ + Y + G + ++ PI+ I
Sbjct: 147 VIAKTIFSYNKLVTLLKKRKIIRKYQGIIKGNMISGGIVNYPIMR----HPFKRICMTTD 202
Query: 187 PLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENA 246
LGK+SIT + + N F + + TGRTHQIR+H+ + + ++G+ LYG D
Sbjct: 203 SLGKKSITHYKII--NRFKFHTHVSFRLETGRTHQIRVHMLHIGYPLLGDPLYGGIDYGC 260
Query: 247 ---REYLQLKRENNAPLLMLHAASLEF 270
+E + R+ N LHA +EF
Sbjct: 261 NYFQENRNIYRKFNLFRQALHADYIEF 287
>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 = 66.6 bits (161), Expect = 3e-10
Identities = 49/178 (27%), Positives = 87/178 (48%), Gaps = 16/178 (8%)
Query: 71 LVFETKDFGVFDKPHQVYT-----HPKGYFYHESLLDCIQSHFGKNAHPAHRLDYETSGL 125
+++E + V +KP V T HP+G + L + H +RLD +TSGL
Sbjct: 86 VIYENDHYLVVNKPAGVPTIPSRDHPQGTLANGLLNYFQRQKMAATFHAVNRLDKDTSGL 145
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKI 185
++ K + L Q +K+TY+A+ G +E+ + I P +++ I ++
Sbjct: 146 LIVAKHQLAHDQLSKQQRQGNIKRTYMAIVQGEIEQQ---EGTITAPIARKEESLITREV 202
Query: 186 SPLGKQSIT---LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
G+ +IT +++ L+ + + L TGRTHQIR+H S + + + G+ LYG
Sbjct: 203 REDGQLAITHFKVIDRLNQGTIVQVQL-----ETGRTHQIRVHFSYLGYPLFGDDLYG 255
>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 = 66.2 bits (160), Expect = 4e-10
Identities = 59/182 (32%), Positives = 89/182 (48%), Gaps = 19/182 (10%)
Query: 68 TQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQ--SHFGKNAHPAHRLDYETSGL 125
T L++E +KP + T G + S+ ++ ++ G + HRLD ETSGL
Sbjct: 88 TDYLIYEDDHLIAINKPASLATQG-GSKINLSIDSALKYLNYQGADFKLVHRLDKETSGL 146
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKI 185
+L K S L F +K V K Y A+ +G K++ K NI K SKI
Sbjct: 147 LLIAKNYLSSVKLHNAFKEKLVIKKYFAITYGRPVKNVGTVK-----SNIGKSKRRLSKI 201
Query: 186 SPL----GKQSIT---LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGL 238
+ + GK +IT L++ L+ N F L++ P+TGR HQ+RLH + I+G+
Sbjct: 202 ANIDSDDGKLAITYYKLLKSLNNNLF----LIEFMPVTGRMHQLRLHAQLLGCPILGDDK 257
Query: 239 YG 240
YG
Sbjct: 258 YG 259
>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 = 65.9 bits (159), Expect = 5e-10
Identities = 66/241 (27%), Positives = 113/241 (46%), Gaps = 35/241 (14%)
Query: 64 PNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK-----NAHPAHRL 118
P + +++E + V +KP + HP +L++ + A HRL
Sbjct: 85 PQDIPLDILYEDEHVFVLNKPAGLVVHPGAGNPDGTLVNALLHRDPALAAVPRAGVVHRL 144
Query: 119 DYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKD 178
D +TSG+++ +TLQ+ L ++V + YLA+ + ++ I + +D
Sbjct: 145 DKDTSGVMVVARTLQAQTALVEQLSSRQVHRQYLAVVVSALVSGGTVNAAI---ERHPRD 201
Query: 179 LHIRSKISPLGKQSIT---LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVG 235
+R +S GK+++T L E + L+ L TGRTHQIR+H++ + H IVG
Sbjct: 202 -RLRMAVSDTGKEAVTHYRLRERFRAHTALECRLD-----TGRTHQIRVHMAHLRHPIVG 255
Query: 236 EGLYGVADENAREYLQLKRENNAPLLM---------LHAASLEFEFK-GAI-YKIASPMP 284
+ LYG + L+L + L++ LHA LEF GA+ +I +P+P
Sbjct: 256 DRLYGGS-------LKLPKVGTDALVVMLRGFKRQALHAEVLEFLHPVGALPVRIVAPVP 308
Query: 285 E 285
E
Sbjct: 309 E 309
>gb|AAL47436.1| (AY069882) AT3g52260/T25B15_30 [Arabidopsis thaliana]
Length = 294
Score = 65.9 bits (159), Expect = 5e-10
Identities = 54/192 (28%), Positives = 87/192 (45%), Gaps = 34/192 (17%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAH-----------PAHRLD 119
+++E D +KP + P G F ++L +Q FGKN P HRL
Sbjct: 99 VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLTQLQWCFGKNDSYIGSRESPHPVPVHRLG 158
Query: 120 YETSGLVLAGKTLQSVKDLKALFMQ-----------------KKVKKTYLALAHGLVEKS 162
TSG++L KT + L A F + +K+ K Y ALA G+VE+
Sbjct: 159 RGTSGILLCAKTKLAKTKLAAYFAEGTSLVGSGNLDQECGTGRKLSKIYRALADGIVEED 218
Query: 163 MKIDKP---ILTPQNIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRT 219
+ K ++ + + L++ S P K + + V L + + SL+K+ +GR
Sbjct: 219 EVVIKQPIGVVRYPGVAQGLYVAS---PEWKPAFSKVFVLERDREKNCSLVKVEIQSGRP 275
Query: 220 HQIRLHLSSVDH 231
HQIR+HL+ + H
Sbjct: 276 HQIRIHLAYMGH 287
>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 = 65.9 bits (159), Expect = 5e-10
Identities = 54/191 (28%), Positives = 93/191 (48%), Gaps = 18/191 (9%)
Query: 63 KPNEKTQALVF------ETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKN----- 111
+P EK +A+ F E F V +KP + P + ++ + I++++ N
Sbjct: 64 EPFEKLEAIPFDLDIVHEDDHFLVINKPIGFASIPSA-IHSNTIANFIKAYYVDNHYLDQ 122
Query: 112 -AHPAHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPIL 170
H RLD +TSGL+L K + L + ++K Y AL G ++ + I+
Sbjct: 123 QVHIVTRLDRDTSGLMLFAKHGYAHARLDKQLQTRSIEKRYFALVSG--NGTLPDEGDII 180
Query: 171 TPQNIQKDLHIRSKISPLGKQSITLVEPLS-YNPFLDISLLKITPLTGRTHQIRLHLSSV 229
P KD I + P+GK + T + ++ Y+ ++ L+ I TGRTHQIR+H + +
Sbjct: 181 APIGRSKDSIITRAVDPMGKYAKTSYKVVARYSE--NVHLVDIKLHTGRTHQIRVHFAHI 238
Query: 230 DHRIVGEGLYG 240
++G+ LYG
Sbjct: 239 GFPLLGDDLYG 249
>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 = 65.5 bits (158), Expect = 7e-10
Identities = 74/263 (28%), Positives = 117/263 (44%), Gaps = 33/263 (12%)
Query: 28 LKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRLIHFK-PNEKTQAL-------VFETKDFG 79
++ + L+K+R K + + + VR+ + P+E+ A+ V+E
Sbjct: 45 IRAGEVRLNKKRCKPDSRIAEGDTVRIPPVRVAEKEMPSERRAAVPARAFDVVYEDDALL 104
Query: 80 VFDKPHQVYTHPKGYFYHESLLDCIQSHF--GKNAHPAHRLDYETSGLVLAGKTLQSVKD 137
V DKP V H G +++ ++ K HRLD +TSGL++ K ++
Sbjct: 105 VIDKPSGVAVHG-GSGVSFGVIEQLRRARPEAKYLELVHRLDKDTSGLLMVAKKRSALVK 163
Query: 138 LKALFMQKKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHIRSKISPLGKQSITLV 196
L KK YLAL G L + + + P+ Q + +R +S G+ + T+
Sbjct: 164 LHEAIRNDHPKKIYLALGVGKLPDDNFHVKLPLFKYTGAQGEKMVR--VSADGQSAHTVF 221
Query: 197 EPLSYNPFLD----------ISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENA 246
LS F D ++L++ T TGRTHQIR+HL S I G+ YG N
Sbjct: 222 RVLSR--FSDGILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERYGDYQANR 279
Query: 247 R-EYLQLKRENNAPLLMLHAASL 268
R + L LKR + LHA+ L
Sbjct: 280 RLQKLGLKR------MFLHASEL 296
>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 = 65.1 bits (157), Expect = 9e-10
Identities = 55/210 (26%), Positives = 96/210 (45%), Gaps = 20/210 (9%)
Query: 64 PNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDYETS 123
P + +++E + +KP + + P H + + + HRLD TS
Sbjct: 9 PKDPWIDVIYEDEHIIAANKPSGLLSVPGRPVEHYDSMWARLVDYCPDVKVVHRLDMSTS 68
Query: 124 GLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-KIDKPILT--PQNIQKDLH 180
GL+L K LK F + K Y A G++E++ +++ P+ P ++ +
Sbjct: 69 GLILFAKGKHMESALKKQFQYRLTHKIYYARVWGVMEQNEGEVNLPLCCDWPNRPKQKVC 128
Query: 181 IRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
G+ S+T + + +++++ P+TGR+HQ+R+H+ S+ H IVG+ LY
Sbjct: 129 FEE-----GRDSLTRYQVVKREE--KTTVVRLIPITGRSHQLRVHMQSLGHPIVGDDLY- 180
Query: 241 VADENAREYLQLKRENNAPLLMLHAASLEF 270
A A E+ A L LHAA L F
Sbjct: 181 -APPEAVEF--------ADRLQLHAAELCF 201
>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 = 65.1 bits (157), Expect = 9e-10
Identities = 48/175 (27%), Positives = 81/175 (45%), Gaps = 11/175 (6%)
Query: 80 VFDKPHQVYTHPKGYFYHESLLDCIQ-----SHFG-KNAHPAHRLDYETSGLVLAGKTLQ 133
V DKPH + P G F E+LL ++ H ++ P HRLD +T+G++L
Sbjct: 106 VVDKPHFLPVIPSGRFLRETLLTRLRLRPELQHLNVEDITPLHRLDKDTAGVMLLSHNPA 165
Query: 134 SVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPLGKQSI 193
+ + +F K V KTY ALA + +D + + ++ P ++
Sbjct: 166 TRGAYQTMFQNKTVWKTYEALAPTRTDLPYPLDVVSRLVRGEKFFTTQEAEGEPNAHTTV 225
Query: 194 TLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENARE 248
L+E + SL ++TP TG+ HQ+R+H+ + ++ + LY V E E
Sbjct: 226 ELIENRG-----EFSLYRLTPHTGKKHQLRVHMMGLGMPLLNDALYPVPSEAGSE 275
>ref|NP_597410.1| (NC_003232) similarity to HYPOTHETICAL PROTEIN OF THE FAMILY OF
PSEUDOURIDINE SYNTHASES YD36_YEAST [Encephalitozoon
cuniculi]
emb|CAD26587.1| (AL590445) similarity to HYPOTHETICAL PROTEIN OF THE FAMILY OF
PSEUDOURIDINE SYNTHASES YD36_YEAST [Encephalitozoon
cuniculi]
Length = 318
Score = 65.1 bits (157), Expect = 9e-10
Identities = 61/208 (29%), Positives = 100/208 (47%), Gaps = 30/208 (14%)
Query: 43 NQQAVRKSQIIQ--GVVR-LIHFK-PNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHE 98
N +AV+ ++I+ V+R +H P ++ E D+ V +KP + HP G +
Sbjct: 53 NGEAVKPTRILGMGDVIRHTVHIHDPAHPEIGVIKEEGDYIVVNKPPGIPCHPTGGYREY 112
Query: 99 SLLDCIQSHFG-KNAHPAHRLDYETSG-LVLA----GKTLQSVKDLKALFMQKKVKKTYL 152
+ + FG + +RLD SG L+LA K L++++D KK Y+
Sbjct: 113 CVTKAL---FGDEKVACINRLDMPVSGVLILAVRNHSKCLEAIRD---------AKKIYV 160
Query: 153 ALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKI 212
A +G+ + +DK I + + H+ + GK +TL L Y SL++
Sbjct: 161 AKVYGMFPDKVDVDKRIGCTEGRYR--HVNAG----GKACLTLFRRLEYRD--GYSLVEC 212
Query: 213 TPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
P+TGRTHQIR+HL S+ I + +YG
Sbjct: 213 RPVTGRTHQIRIHLQSIGFPIANDIMYG 240
>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 = 65.1 bits (157), Expect = 9e-10
Identities = 54/191 (28%), Positives = 92/191 (47%), Gaps = 18/191 (9%)
Query: 63 KPNEKTQALVF------ETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKN----- 111
+P EK +A+ F E F V +KP + P + ++ + I++++ N
Sbjct: 64 EPFEKLEAIPFDLDIVHEDDHFLVINKPIGFASIPSA-IHSNTIANFIKAYYVDNHYLDQ 122
Query: 112 -AHPAHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPIL 170
H RLD +TSGL+L K + L + ++K Y AL G + + I+
Sbjct: 123 QVHIVTRLDRDTSGLMLFAKHGYAHARLDKQLQTRSIEKRYFALVSG--NGMLPDEGDII 180
Query: 171 TPQNIQKDLHIRSKISPLGKQSITLVEPLS-YNPFLDISLLKITPLTGRTHQIRLHLSSV 229
P KD I + P+GK + T + ++ Y+ ++ L+ I TGRTHQIR+H + +
Sbjct: 181 APIGRSKDSIITRAVDPMGKYAKTSYKVVARYSE--NVHLVDIKLHTGRTHQIRVHFAHI 238
Query: 230 DHRIVGEGLYG 240
++G+ LYG
Sbjct: 239 GFPLLGDDLYG 249
>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 = 65.1 bits (157), Expect = 9e-10
Identities = 55/186 (29%), Positives = 89/186 (47%), Gaps = 25/186 (13%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCI------QSHFGKN--AHPAHRLDYET 122
+++E +D V +KP + H + +L+D + S+ G A HRLD +T
Sbjct: 79 VLYEDEDLLVLNKPSNLVVHGASSVKNATLVDWLIEKKYTLSNLGGEIRAGLVHRLDKDT 138
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPIL------TPQNIQ 176
SG +L K + + L K + + YLAL ++ +K DK I+ +P N
Sbjct: 139 SGAILIAKNNFTHQKLSEQLADKSMGRIYLAL----IDLPLKEDKIIVEKFLMRSPSNAI 194
Query: 177 KDLHI--RSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
K + I +K S K + V +++L+ TGRTHQIR HL+S++ I+
Sbjct: 195 KKIAIDKENKFSKNAKSAFINVVKTE-----NLTLMAAKLFTGRTHQIRAHLASLNRYIL 249
Query: 235 GEGLYG 240
G+ LYG
Sbjct: 250 GDSLYG 255
>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 = 65.1 bits (157), Expect = 9e-10
Identities = 57/193 (29%), Positives = 87/193 (44%), Gaps = 25/193 (12%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVK--------KTYLALAHGLVEKS-MKID 166
HRLD +TSGL++ K ++ +L+AL + V K YL L G + M +D
Sbjct: 149 HRLDRDTSGLLIMAKKRAALIELQALMREASVNGKEGRGIAKRYLTLLSGRMPNGVMSVD 208
Query: 167 KPILTPQNIQKDLHIRSKISPLGKQS---ITLVEPLSYNPFLDISLLKITPLTGRTHQIR 223
P+ + H+R + GK S L+E + ++ + TGRTHQIR
Sbjct: 209 APLHINLRQGGERHVR--VHHDGKPSKSRFRLLERRGGQSYCEVLIE-----TGRTHQIR 261
Query: 224 LHLSSVDHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAASLEFEFKGAI--YKIAS 281
+H + H + G+ YG + N R L+ + L LHA SLEF Y + +
Sbjct: 262 VHAQHLGHPVTGDDKYGDQEVNRR----LRDQIGLQRLFLHAVSLEFALDAGSTPYVLNA 317
Query: 282 PMPERFMPFLKDL 294
P+ E + L L
Sbjct: 318 PLAEDLVAALDRL 330
>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 = 65.1 bits (157), Expect = 9e-10
Identities = 48/175 (27%), Positives = 81/175 (45%), Gaps = 11/175 (6%)
Query: 80 VFDKPHQVYTHPKGYFYHESLLDCIQ-----SHFG-KNAHPAHRLDYETSGLVLAGKTLQ 133
V DKPH + P G F E+LL ++ H ++ P HRLD +T+G++L
Sbjct: 106 VVDKPHFLPVIPSGRFLRETLLTRLRLRPELQHLNVEDITPLHRLDKDTAGVMLLSHNPA 165
Query: 134 SVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPLGKQSI 193
+ + +F K V KTY ALA + +D + + ++ P ++
Sbjct: 166 TRGAYQTMFQNKTVWKTYEALAPTRTDLPYPLDVVSRLVRGEKFFTTQEAEGEPNAHTTV 225
Query: 194 TLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENARE 248
L+E + SL ++TP TG+ HQ+R+H+ + ++ + LY V E E
Sbjct: 226 ELIENRG-----EFSLYRLTPHTGKKHQLRVHMMGLGMPLLNDALYPVPSEAGSE 275
>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 = 65.1 bits (157), Expect = 9e-10
Identities = 51/185 (27%), Positives = 95/185 (50%), Gaps = 15/185 (8%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKN-AHPAHRLDYETSGLVLAG 129
++ E D V DKP + T P+G E+ L ++ G N PAHRLD TSG+++
Sbjct: 97 VIHEDDDILVIDKPPYLATMPRGRHITETALVKMRVLTGNNDLTPAHRLDRLTSGVLVMV 156
Query: 130 KTLQSVKDLKALFMQKKVKKTYLALAH---GLV-------EKSMKIDKPILTPQNIQKDL 179
K + + LF +++ KTY A+A GL+ E ++ ++ I+ ++ +
Sbjct: 157 KKPELRGAYQTLFARREASKTYEAIAEFVPGLLDDGPAIWESRIEKERGIVQAFVVEGPV 216
Query: 180 HIRSK---ISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGE 236
+ R++ ++P+ +++E + + P + + P TG+THQ+R+H+ I+G+
Sbjct: 217 NARTELVSVTPVEDAEQSILEEM-HGPLPRQARYVLAPSTGKTHQLRIHMRDFAAPILGD 275
Query: 237 GLYGV 241
LY V
Sbjct: 276 PLYPV 280
>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 = 64.7 bits (156), Expect = 1e-09
Identities = 48/132 (36%), Positives = 70/132 (52%), Gaps = 16/132 (12%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNI 175
HRLD +TSGL+L K S L F +K V KTY A+ +G K++ + NI
Sbjct: 137 HRLDKKTSGLLLIAKNYLSSVKLHNAFKEKLVVKTYFAVTYGKPIKNVGEVR-----SNI 191
Query: 176 QKDLHIRSKISPL----GKQSIT---LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSS 228
+K KI+ + GK +IT +++ L N F L++ TP+TGR HQ+RLH
Sbjct: 192 EKSKGSTPKITDIDSENGKLAITYYKVLKSLDNNLF----LIEFTPVTGRMHQLRLHAKL 247
Query: 229 VDHRIVGEGLYG 240
+ I+G+ YG
Sbjct: 248 LGCPILGDDKYG 259
>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 = 64.7 bits (156), Expect = 1e-09
Identities = 75/268 (27%), Positives = 118/268 (43%), Gaps = 43/268 (16%)
Query: 28 LKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRLIHFK-PNEKTQAL-------VFETKDFG 79
++ + L+K+R K + + + VR+ + P+E+ A+ V+E
Sbjct: 45 IRAGEVRLNKKRCKPDSRIAEGDTVRIPPVRVAEKEMPSERRAAVPARAFDVVYEDDALL 104
Query: 80 VFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHP-------AHRLDYETSGLVLAGKTL 132
V DKP V H G +++ + + A P HRLD +TSGL++ K
Sbjct: 105 VIDKPSGVAVHG-GSGVSFGVIEQL-----RRARPEARYLELVHRLDKDTSGLLMVAKKR 158
Query: 133 QSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHIRSKISPLGKQ 191
++ L KK YLAL G L + + + P+ Q + +R +S G+
Sbjct: 159 SALVKLHEAIRNDHPKKIYLALGVGKLPDDNFHVKLPLFKYTGAQGEKMVR--VSEDGQS 216
Query: 192 SITLVEPLSYNPFLD----------ISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGV 241
+ T+ LS F D ++L++ T TGRTHQIR+HL S I G+ YG
Sbjct: 217 AHTVFRVLSR--FSDGILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERYGD 274
Query: 242 ADENAR-EYLQLKRENNAPLLMLHAASL 268
N R + L LKR + LHA+ L
Sbjct: 275 YQANRRLQKLGLKR------MFLHASEL 296
>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 = 63.9 bits (154), Expect = 2e-09
Identities = 56/235 (23%), Positives = 98/235 (40%), Gaps = 27/235 (11%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHP--------AHRLDYET 122
+++E +D V +KP + HP +L++ + H + HR+D +T
Sbjct: 83 IIYEDEDVAVVNKPRGMVVHPAPGHTTGTLVNALMYHCNDLSSINGVVRPGIVHRIDKDT 142
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-KIDKPILTPQNIQKDLHI 181
SGL++ K ++ + L K ++ Y A+ HG + ID PI + ++ + +
Sbjct: 143 SGLLMIAKNDRAHESLVNQLKAKTTERVYQAIVHGNIPHDHGTIDAPIGRDKVDRQSMTV 202
Query: 182 RSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGV 241
+ S T++E F D + ++ TGRTHQIR+H + + G+ YG
Sbjct: 203 TEENSRDAVTHFTVLER-----FGDFTFVECQLETGRTHQIRVHFKYIGFPLAGDPKYGP 257
Query: 242 ADENAREYLQLKRENNAPLLMLHAASLEFEF--KGAIYKIASPMPERFMPFLKDL 294
K+ + LHA L FE G + MPE ++ L
Sbjct: 258 -----------KKTLSIDGQALHAQKLGFEHPRTGEFMRFKVEMPEEMKKLIRQL 301
>ref|NP_625900.1| (NC_003888) putative ribosomal pseudouridine synthase [Streptomyces
coelicolor A3(2)]
emb|CAB59478.1| (AL132648) putative ribosomal pseudouridine synthase [Streptomyces
coelicolor A3(2)]
Length = 324
Score = 63.9 bits (154), Expect = 2e-09
Identities = 50/171 (29%), Positives = 83/171 (48%), Gaps = 6/171 (3%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNA-HPAHRLDYETSGLVLAG 129
+V+ V DKPH + T P+G ++ L ++ A AHRLD T+GLVL
Sbjct: 97 IVYRDAHIVVADKPHFLATTPRGGHVTQTALARLRRELDIPALGAAHRLDRLTAGLVLFT 156
Query: 130 KTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPLG 189
+ LF ++V K Y A+A + P I K+ + + G
Sbjct: 157 VRPGERGAYQGLFADRRVHKVYEAVA----PYDAALALPRTVRSRILKERGVLAAREVAG 212
Query: 190 K-QSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
+ ++T VE L++ P + ++ P TG+THQ+R+HL+++ I+G+ LY
Sbjct: 213 EPNAVTRVELLAHRPEHGLGRYRLVPGTGQTHQLRVHLNALGVPILGDPLY 263
>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 = 63.9 bits (154), Expect = 2e-09
Identities = 69/245 (28%), Positives = 112/245 (45%), Gaps = 35/245 (14%)
Query: 63 KPNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKN-------AHPA 115
+P ++++E V DK + HP Y+ +L++ + H G + A P
Sbjct: 97 EPEALPLSILYEDAHLIVVDKAAGMAVHPAPGTYNGTLVNALLHHCGASLSGVGGVARPG 156
Query: 116 --HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQ 173
HRLD +TSG+++A K+ + + L LF + + Y+AL G + P T Q
Sbjct: 157 IVHRLDKDTSGVMVAAKSDAAHRGLSTLFATHDIDRLYVALTRGAP------NPPTGTIQ 210
Query: 174 -NIQKDLHIRSKISPL---GKQSITLVEPLSYNPFLDISLLKITPL---TGRTHQIRLHL 226
I + R K++ L G+++IT + D L TGRTHQIR+H+
Sbjct: 211 TQIGRSPGDRKKMAVLRAGGREAITHYRVEAAFGPADRPLAARVACRLETGRTHQIRVHM 270
Query: 227 SSVDHRIVGEGLYGVADENA--REYLQ---LKRENNAPLLMLHAASLEF--EFKGAIYKI 279
+S +G+ +YG A A RE ++ L+R+ LHAA L F G +
Sbjct: 271 ASKGSPCLGDPVYGAAQPAAAVRERIEAAGLRRQ------ALHAAVLGFVHPITGETLRF 324
Query: 280 ASPMP 284
+P+P
Sbjct: 325 ETPLP 329
>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 = 63.2 bits (152), Expect = 3e-09
Identities = 63/219 (28%), Positives = 98/219 (43%), Gaps = 17/219 (7%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDYETSGLVLAGK 130
+++E D KP + T P G F +LL ++ + +A P HRL TSGLVL
Sbjct: 105 VIYEDADLLAVSKPSGLPTMPGGGFLEHTLLHQVRGRW-PDASPLHRLGRGTSGLVLFSL 163
Query: 131 TLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPLGK 190
T Q+ L + +V+K Y AL+ G+ E+ + D + L S GK
Sbjct: 164 TSQAGAALLKDWRAGRVQKVYRALSAGVAEQD-EYDITVPIGPVAHPRLGQVFAASTAGK 222
Query: 191 QSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYL 250
+ + L D +L ++ TGR HQIR+HL+S+ + + LY
Sbjct: 223 TAHSRARVLERRE--DTTLFEVEIFTGRPHQIRIHLASLGLPLAVDPLYVSGG------- 273
Query: 251 QLKRENNAP---LLMLHAASLEFEF--KGAIYKIASPMP 284
L R + P LHA++L F+ GA +++P P
Sbjct: 274 -LPRPDALPGDLGYALHASTLTFQHPAHGAALTLSAPAP 311
>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 = 62.8 bits (151), Expect = 5e-09
Identities = 43/154 (27%), Positives = 78/154 (49%), Gaps = 11/154 (7%)
Query: 98 ESLLDCIQSHFGKNAHPAHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHG 157
+ +L+ ++ G+ HRLD +TSG+++ +T + L F ++ KKTY AL G
Sbjct: 124 DDMLEAWRNQKGEKPRLVHRLDRDTSGVLVVARTRLAAMKLSEAFRARETKKTYWALVKG 183
Query: 158 LVEK-SMKIDKPILTPQNIQKDLHIRSKISPLGKQSITLVEPLSYNPFLD-----ISLLK 211
+ K KI ++ D R +++ G++ +SY ++ ++ L+
Sbjct: 184 VPPKREDKISTWLIKEPTEDGD---RVRVAAHGEKGAD--HAVSYYRIIEQAAQTMTWLE 238
Query: 212 ITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADEN 245
+ P TGRTHQ+R+H + + I+G+ Y AD N
Sbjct: 239 MEPYTGRTHQLRVHAAYIGCPIIGDPKYFEADTN 272
>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 = 62.8 bits (151), Expect = 5e-09
Identities = 44/125 (35%), Positives = 66/125 (52%), Gaps = 4/125 (3%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNI 175
+RLD TSG+V GK + +K L + ++KVKK Y AL G ++ K + I +
Sbjct: 143 NRLDRNTSGIVFFGKNFEGLKLLNEMIRERKVKKYYCALVKGKIQPG-KYEAYISKDDEL 201
Query: 176 QKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVG 235
K + P K+ V+ L N SLL+I +TGR+HQ+R HL+ + + IVG
Sbjct: 202 NKST-VYDTERPDTKKIKMDVKVLQTNG--AFSLLEIELITGRSHQLRAHLAHLGNPIVG 258
Query: 236 EGLYG 240
+ YG
Sbjct: 259 DFKYG 263
>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 = 62.8 bits (151), Expect = 5e-09
Identities = 49/182 (26%), Positives = 89/182 (47%), Gaps = 14/182 (7%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNI 175
HRLD +TSG++L + + + + L F +++V+K YLAL G+ + + + + +
Sbjct: 160 HRLDKDTSGVLLTSRNMHAHEALVRSFKKRQVRKVYLALLQGVPARGVGVIETTIVRDRR 219
Query: 176 QKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVG 235
++ + S+ GK + T + + + ++ TGRTHQIR+H + +VG
Sbjct: 220 RRTRFVASEDFSKGKYARTRYKVMKICG--ACAFVQFLLDTGRTHQIRVHARYLGCPVVG 277
Query: 236 EGLYGVADENAREYLQLKRENNAPLLMLHAASLEFEFKGAIYKI--ASPMPERFMPFLKD 293
+ LYG +R + LMLHA ++ F +I +P+P RF+ +
Sbjct: 278 DPLYG-----SRNICGI-----PTTLMLHAYAVRFVLPRTKKRITLVAPIPLRFVRLIHR 327
Query: 294 LS 295
LS
Sbjct: 328 LS 329
>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 = 62.0 bits (149), Expect = 8e-09
Identities = 56/214 (26%), Positives = 91/214 (42%), Gaps = 15/214 (7%)
Query: 39 RLKQNQQAVRKSQIIQGVVRLIHFKPNEKTQALV------FETKDFGVFDKPHQVYTHPK 92
R+K + + V S I++ ++ HF + ++ + D KP V HP
Sbjct: 100 RIKVDGEIVPVSYIVKSSQKITHFLHRHEPPVMIDDVVILHQEPDVVTVCKPASVPVHPC 159
Query: 93 GYFYHESLLDCIQS-HFGKNAHPAHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTY 151
G + +++ + + H P HRLD SGL++ +T + VKK Y
Sbjct: 160 GQYRKNTIVGILDAEHDLGTLFPIHRLDRLVSGLLIIARTAAKADFFRQQIEGGMVKKRY 219
Query: 152 LALAHGLV-EKSMKIDKPI----LTPQNIQKDLHIRSKISPL-GKQSITLVEPLSYNPFL 205
+A G+ E M +D I ++ +D + + GK + T + N
Sbjct: 220 IAKVIGVFPEDEMIVDANINYNGSEGRSTAEDANSSGDDKKVKGKPACTKFTRIDTNG-- 277
Query: 206 DISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
SL+ P+TGRTHQIR+HL H I + LY
Sbjct: 278 THSLVSCEPVTGRTHQIRVHLQYTGHPIANDPLY 311
>gb|AAL31256.1| (AY061753) AT5g51140/MWD22_8 [Arabidopsis thaliana]
Length = 367
Score = 62.0 bits (149), Expect = 8e-09
Identities = 56/214 (26%), Positives = 91/214 (42%), Gaps = 15/214 (7%)
Query: 39 RLKQNQQAVRKSQIIQGVVRLIHFKPNEKTQALV------FETKDFGVFDKPHQVYTHPK 92
R+K + + V S I++ ++ HF + ++ + D KP V HP
Sbjct: 72 RIKVDGEIVPVSYIVKSSQKITHFLHRHEPPVMIDDVVILHQEPDVVTVCKPASVPVHPC 131
Query: 93 GYFYHESLLDCIQS-HFGKNAHPAHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTY 151
G + +++ + + H P HRLD SGL++ +T + VKK Y
Sbjct: 132 GQYRKNTIVGILDAEHDLGTLFPIHRLDRLVSGLLIIARTAAKADFFRQQIEGGMVKKRY 191
Query: 152 LALAHGLV-EKSMKIDKPI----LTPQNIQKDLHIRSKISPL-GKQSITLVEPLSYNPFL 205
+A G+ E M +D I ++ +D + + GK + T + N
Sbjct: 192 IAKVIGVFPEDEMIVDANINYNGSEGRSTAEDANSSGDDKKVKGKPACTKFTRIDTNG-- 249
Query: 206 DISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
SL+ P+TGRTHQIR+HL H I + LY
Sbjct: 250 THSLVSCEPVTGRTHQIRVHLQYTGHPIANDPLY 283
>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 = 62.0 bits (149), Expect = 8e-09
Identities = 54/156 (34%), Positives = 76/156 (48%), Gaps = 14/156 (8%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-KIDKPILTPQN 174
HRLD TSG++L + ++ LK F + V K Y AL G + S ID PI
Sbjct: 136 HRLDVGTSGVMLVAISERAYTVLKRAFKCRTVDKRYHALVQGHPDPSSGTIDAPI----G 191
Query: 175 IQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
+ + ++ G+ SIT + L F+ SLL + TGRTHQIR H + +
Sbjct: 192 RHRGHTWKFAVTKDGRHSITHYDTLE--AFVAASLLDVHLETGRTHQIRAHFAELHRPCC 249
Query: 235 GEGLYGVADENAREYLQLKRENNAPLLMLHAASLEF 270
G+ +YG AD + L L+R+ LHA SL F
Sbjct: 250 GDLVYG-ADPKLAKRLGLERQ------WLHARSLSF 278
>ref|NP_104781.1| (NC_002678) pseudouridine synthase [Mesorhizobium loti]
dbj|BAB50567.1| (AP003002) pseudouridine synthase [Mesorhizobium loti]
Length = 329
Score = 62.0 bits (149), Expect = 8e-09
Identities = 51/195 (26%), Positives = 89/195 (45%), Gaps = 28/195 (14%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHP---------AHRLDYE 121
+++E V +KP + HP + +L++ + H G + HRLD E
Sbjct: 80 VLYEDDALIVINKPAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGGVRRPGIVHRLDKE 139
Query: 122 TSGLVLAGKTLQSVKDLKALFMQK----KVKKTYLALAHGLVEKSM-KIDKPILTPQNIQ 176
TSG+++ KT ++ K L F +++ YLAL G+ ++ +D P+ +
Sbjct: 140 TSGVMVVAKTDRAHKALSEAFADHGRTGDLERAYLALVWGIPQRPTGTVDAPLGRAAD-- 197
Query: 177 KDLHIRSKISPLGKQS-------ITLVEPLSYNP--FLDISLLKITPLTGRTHQIRLHLS 227
+R + P G+ + E N F SL++ TGRTHQIR+H++
Sbjct: 198 ---RVRRAVVPEGRDDARHAVTHFAVQERFGENQQEFATASLVECRLETGRTHQIRVHMA 254
Query: 228 SVDHRIVGEGLYGVA 242
+ H ++G+ YG A
Sbjct: 255 HIGHPVIGDPDYGQA 269
>ref|NP_644614.1| (NC_003919) pseudouridylate synthase [Xanthomonas axonopodis pv.
citri str. 306]
gb|AAM39150.1| (AE012085) pseudouridylate synthase [Xanthomonas axonopodis pv.
citri str. 306]
Length = 298
Score = 62.0 bits (149), Expect = 8e-09
Identities = 47/159 (29%), Positives = 81/159 (50%), Gaps = 8/159 (5%)
Query: 83 KPHQVYTHPKGYFYHESLLDCIQSHFGKNAH-PAHRLDYETSGLVLAGKTLQSVKDLKAL 141
KPH + P G + E+LL + A P HR+D ET+GLVL + +AL
Sbjct: 101 KPHFLPVAPAGAYVRETLLTRLVRRLDNPALVPLHRIDRETAGLVLFSANPATRGIYQAL 160
Query: 142 FMQKKVKKTYLALAHGLVE-KSMKIDKPILTPQNIQKDLHIRSKISPLGKQSITLVEPLS 200
F +++++K YLA+A L E + + + L P + R + S T++E ++
Sbjct: 161 FRERRIRKHYLAVAAPLPELRFPYVHRSRLEP----GEPFFRMREGVGEPNSETVIEVVA 216
Query: 201 YNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
N D ++ P+TGR HQ+R+H++++ I+ + Y
Sbjct: 217 RN--ADTWTYRLEPVTGRKHQLRVHMAALGAPILHDRFY 253
>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 = 61.6 bits (148), Expect = 1e-08
Identities = 63/241 (26%), Positives = 104/241 (43%), Gaps = 33/241 (13%)
Query: 73 FETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG---------KNAHPAHRLDYETS 123
+E +D V KP + HP + +L++ + H G K HRLD ETS
Sbjct: 94 YEDEDLIVLVKPAGLVVHPGAGNWTGTLVNALIYHCGDSLSGIGGVKRPGIVHRLDKETS 153
Query: 124 GLVLAGKTLQSVKDLKALFMQK----KVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDL 179
G+++ K + + L A F +++ Y A+ G L +
Sbjct: 154 GVMVVAKNDNAHRHLAAQFADHGRTGPLERAYKAVVWGRPRTLRGTVDAALGRGTDRTKR 213
Query: 180 HIRSKISPLGKQSIT---LVEPLSYNPFLDI--SLLKITPLTGRTHQIRLHLSSVDHRIV 234
++++ S +++IT ++E P S+++ TGRTHQIR+H++ + H ++
Sbjct: 214 AVKNEDSFDAREAITHYEVMERFHEKPDASCLASMVECRLETGRTHQIRVHMAHIGHPLI 273
Query: 235 GEGLYGVA--------DENAREYLQLKRENNAPLLMLHAASLEFEF--KGAIYKIASPMP 284
G+ YG A DE AR + N P LHA L FE G + + + MP
Sbjct: 274 GDPEYGAAFRTKANLLDEPARSTV-----NRFPRQALHAYLLAFEHPRTGEVMEFETDMP 328
Query: 285 E 285
E
Sbjct: 329 E 329
>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 = 61.6 bits (148), Expect = 1e-08
Identities = 49/176 (27%), Positives = 83/176 (46%), Gaps = 12/176 (6%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNA-----HPAHRLDYETSGL 125
+++E + V +K V + P S+ + I H+ H RLD +TSG+
Sbjct: 68 ILYEDEHVLVINKQPYVSSIPSREHPSGSIANGIIDHYQTTGVRATVHLVTRLDRDTSGI 127
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHG-LVEKSMKIDKPILTPQNIQKDLHIRSK 184
+L K + L + VK+ Y A+ HG + + +D PI D I
Sbjct: 128 MLVAKHRFAHSILSSAQKNGLVKRRYAAVVHGRMAQMEGTVDAPI----GRHPDSIIERT 183
Query: 185 ISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
++P G++++T N D++ + + TGRTHQIR+H+S + H + G+ LYG
Sbjct: 184 VTPDGQKAVTHFYVTCAND--DMTSVALQLETGRTHQIRVHMSYLGHPLCGDTLYG 237
>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 = 61.6 bits (148), Expect = 1e-08
Identities = 63/241 (26%), Positives = 104/241 (43%), Gaps = 33/241 (13%)
Query: 73 FETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG---------KNAHPAHRLDYETS 123
+E +D V KP + HP + +L++ + H G K HRLD ETS
Sbjct: 79 YEDEDLIVLVKPAGLVVHPGAGNWTGTLVNALIYHCGDSLSGIGGVKRPGIVHRLDKETS 138
Query: 124 GLVLAGKTLQSVKDLKALFMQK----KVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDL 179
G+++ K + + L A F +++ Y A+ G L +
Sbjct: 139 GVMVVAKNDNAHRHLAAQFADHGRTGPLERAYKAVVWGRPRTLRGTVDAALGRGTDRTKR 198
Query: 180 HIRSKISPLGKQSIT---LVEPLSYNPFLDI--SLLKITPLTGRTHQIRLHLSSVDHRIV 234
++++ S +++IT ++E P S+++ TGRTHQIR+H++ + H ++
Sbjct: 199 AVKNEDSFDAREAITHYEVMERFHEKPDASCLASMVECRLETGRTHQIRVHMAHIGHPLI 258
Query: 235 GEGLYGVA--------DENAREYLQLKRENNAPLLMLHAASLEFEF--KGAIYKIASPMP 284
G+ YG A DE AR + N P LHA L FE G + + + MP
Sbjct: 259 GDPEYGAAFRTKANLLDEPARSTV-----NRFPRQALHAYLLAFEHPRTGEVMEFETDMP 313
Query: 285 E 285
E
Sbjct: 314 E 314
>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 = 61.6 bits (148), Expect = 1e-08
Identities = 54/215 (25%), Positives = 92/215 (42%), Gaps = 25/215 (11%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDYETSGLVLAGK 130
++F +DF +KP + H + IQ + HRLD +TSG++L
Sbjct: 6 ILFRHQDFVAINKPGGISVHQDSGETRLARTLAIQLGV-ERVWLLHRLDKQTSGILLFAL 64
Query: 131 TLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQ--NIQKDLHIRSKISPL 188
+S L F+ K +KKTYLAL+ K K + + K I+
Sbjct: 65 NRESASALSGQFVGKSIKKTYLALSDRKPSKKQGWIKGGMEKSRCGMWKLTRNTENIAVT 124
Query: 189 GKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENARE 248
SI++ E L L + P TG+THQ+R+ + S+ I+G+ LYG +
Sbjct: 125 RFHSISIAEKL--------RLFILEPHTGKTHQLRVAMKSLGSPILGDSLYGGTESET-- 174
Query: 249 YLQLKRENNAPLLMLHAASLEFEFKGAIYKIASPM 283
+ L+A ++F+++ +I +P+
Sbjct: 175 ------------MFLYAWKIQFDYQNRQIEIVAPL 197
>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 = 61.2 bits (147), Expect = 1e-08
Identities = 45/159 (28%), Positives = 75/159 (46%), Gaps = 19/159 (11%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNI 175
HRLD +TSG++L GKT + L F ++K +KTY A+ G + + + L + +
Sbjct: 139 HRLDRDTSGVLLLGKTPSAAARLSGAFAKRKAQKTYWAIVAGNPHPTEGVMELHLAKRGV 198
Query: 176 -QKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIV 234
++L + ++ Q ++ + + P TGRTHQ+R H+ ++ H I+
Sbjct: 199 GDRELVVPAQPKDPDAQPAETEFVTISRAGPRVTWMALRPHTGRTHQLRAHMKAMGHPIL 258
Query: 235 GEGLYGVADENAREYLQLKRENNAPL-----LMLHAASL 268
G+ YG E +APL L LHA S+
Sbjct: 259 GDPKYG-------------DEKSAPLSEGLKLQLHARSI 284
>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 = 61.2 bits (147), Expect = 1e-08
Identities = 57/238 (23%), Positives = 102/238 (41%), Gaps = 35/238 (14%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSH------FGKNAHPA--HRLDYET 122
+++E + + +KP + HP ++++ + +H G P HRLD +T
Sbjct: 100 ILYEDEQLIIINKPAGLVVHPGPGHPDGTVVNALLAHCPDLAGIGGVQRPGIVHRLDKDT 159
Query: 123 SGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIR 182
+G ++ KT ++ +L+ +K ++ Y + +G +I + P +
Sbjct: 160 TGAMVVAKTELALHNLQVQLKEKTARRLYWGIVYG---SPKEIQGTVNLPVGRHPGDRQK 216
Query: 183 SKISPL---GKQSIT---LVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGE 236
I P+ G++++T L+E + + +L+ L TGRTHQIR+H + H +VG+
Sbjct: 217 MGIVPVEKGGREAVTHWRLLERIGNHSWLEFQLE-----TGRTHQIRVHSKQMGHPLVGD 271
Query: 237 GLY---GVADENAREYLQLKRENNAPLLMLHAASLEFEFKGAIYKIASPMPERFMPFL 291
LY G + N L H SL G I +PMP F L
Sbjct: 272 NLYTSPGSVNVNL----------PGQALHAHQLSLIHPVSGEIITAIAPMPAHFEKLL 319
>ref|NP_250733.1| (NC_002516) hypothetical protein [Pseudomonas aeruginosa]
pir||D83391 hypothetical protein PA2043 [imported] - Pseudomonas aeruginosa
(strain PAO1)
gb|AAG05431.1|AE004630_8 (AE004630) hypothetical protein [Pseudomonas aeruginosa]
Length = 300
Score = 61.2 bits (147), Expect = 1e-08
Identities = 47/171 (27%), Positives = 85/171 (49%), Gaps = 8/171 (4%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG-KNAHPAHRLDYETSGLVLAG 129
+++ + V DKPH + P G + ++LL + G ++ P HR+D T+GLVL
Sbjct: 89 ILYRDEHLLVADKPHFLPVMPAGGYVEQTLLARLARSTGNRDLVPLHRIDRHTAGLVLFS 148
Query: 130 KTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPIL-TPQNIQKDLHIRSKISPL 188
S +ALF ++++ K Y A+A L + +D P+L + + + R +
Sbjct: 149 TNPGSRGRYQALFRERRIDKCYEAIAPALPQ----LDFPLLRRTRLVPGEPFFRMREGEG 204
Query: 189 GKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
S T +E + N ++ P+TG+ HQ+R+HL+++ I +G Y
Sbjct: 205 EPNSETRIEVVERNG--RWWRYRLYPVTGKKHQLRVHLAALGAGIQNDGFY 253
>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 = 61.2 bits (147), Expect = 1e-08
Identities = 54/216 (25%), Positives = 91/216 (42%), Gaps = 27/216 (12%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG-KNAHPAHRLDYETSGLVLAG 129
++F +DF +KP + H L + G + HRLD +TSG++L
Sbjct: 6 ILFRHQDFVAINKPGGISVHQDSG--ETGLARTLAIQLGVERVWLLHRLDKQTSGILLFA 63
Query: 130 KTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQ--NIQKDLHIRSKISP 187
+S L F K +KKTYLAL+ K K + + K I+
Sbjct: 64 LNKESASALSGQFAGKSIKKTYLALSDRKPSKKQGWIKGGMEKSRCGMWKLTRNTENIAV 123
Query: 188 LGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAR 247
SI++ E L L + P TG+THQ+R+ + S+ I+G+ LYG +
Sbjct: 124 TRFHSISIAEKL--------RLFILEPHTGKTHQLRVAMKSLGSPILGDSLYGGTESET- 174
Query: 248 EYLQLKRENNAPLLMLHAASLEFEFKGAIYKIASPM 283
+ L+A ++F+++ +I +P+
Sbjct: 175 -------------MFLYAWKIQFDYQNRQIEIVAPL 197
>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 = 60.5 bits (145), Expect = 2e-08
Identities = 45/173 (26%), Positives = 79/173 (45%), Gaps = 6/173 (3%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNA-HPAHRLDYETSGLVLAG 129
++ ET D V +KP + H G + ++L ++ + G+ HRLD TSG++L
Sbjct: 150 VISETDDLFVVEKPPSLPVHTCGQYAIHTVLGQLRVNEGRTGLRVLHRLDRATSGVLLFA 209
Query: 130 KTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPLG 189
K ++ + K Q + K Y+ G+ ++ + + P I + + P G
Sbjct: 210 KNYETDLEFKTTLKQGEWSKEYICKVDGVFPDEEQVCEQPIGPLVISMGIQC---VRPDG 266
Query: 190 KQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVA 242
K + + L + + + I TGRTHQIR+H + H I G+ +Y A
Sbjct: 267 KDAKSRFRKLWSDGTQSVVQVHIE--TGRTHQIRVHSQFLGHPIAGDQIYNSA 317
>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 = 60.5 bits (145), Expect = 2e-08
Identities = 55/187 (29%), Positives = 84/187 (44%), Gaps = 16/187 (8%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGL-VEKSMKIDKPILTPQN 174
HRLD ETSG++L K ++ L + ++ K Y A G+ + I P+
Sbjct: 142 HRLDRETSGVLLLAKKRSALVALHEQIREGQLDKRYFAAVKGVWPHQRQHIKAPLFKYST 201
Query: 175 IQKDLHIRSKISPLGKQSITLVEPLS-YNPFLDISLLKITPLTGRTHQIRLHLSSVDHRI 233
+ + +R + G+ S T+ + + P+ +LL+ TGRTHQIR+HL+ I
Sbjct: 202 PEGERRVRVQAD--GQPSHTVFNRVGVFGPY---TLLEAELKTGRTHQIRVHLAHAGFPI 256
Query: 234 VGEGLYGVADENAREYLQLKRENNAPLL---MLHAASLEFEF--KGAIYKIASPMPERFM 288
+G+ YG N L R N +P L LHA +L G I +P+P
Sbjct: 257 LGDDKYGDFALNK----ALSRANASPRLARMFLHAHTLRLTHPQSGEIVTFKAPLPAECA 312
Query: 289 PFLKDLS 295
FL S
Sbjct: 313 AFLNAFS 319
>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 = 60.1 bits (144), Expect = 3e-08
Identities = 49/187 (26%), Positives = 82/187 (43%), Gaps = 19/187 (10%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNA--HP----------AHRL 118
+++E K+ V KP + H + +++L + I+ + K HP HRL
Sbjct: 87 IIYEDKNILVVHKPIGLIVHEDNRYKNDTLQNRIKKYLVKKDEYHPFDESAFVPSLCHRL 146
Query: 119 DYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPIL--TPQNIQ 176
D TSGL++A KT +++ + +F V + Y L + + K+ + + N
Sbjct: 147 DLNTSGLIVAAKTANALRVITEMFKNNDVIRIYKCLTYNQLPKNNDVIYNFMYKADDNTM 206
Query: 177 KDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGE 236
+ ++K + T ++ DI L LTGRTHQIR L+ + IVGE
Sbjct: 207 IVQNFKTKFNKTAITKYTYIDKYKKYFIYDIEL-----LTGRTHQIRAVLNFLHAPIVGE 261
Query: 237 GLYGVAD 243
Y D
Sbjct: 262 QKYITKD 268
>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 = 60.1 bits (144), Expect = 3e-08
Identities = 66/249 (26%), Positives = 108/249 (42%), Gaps = 29/249 (11%)
Query: 64 PNEKTQAL----VFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG---------K 110
P K +A+ ++E D V KP + HP + +L++ + H G K
Sbjct: 81 PEPKGEAIPLDVLYEDADLIVLVKPAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGGVK 140
Query: 111 NAHPAHRLDYETSGLVLAGKTLQSVKDLKALFMQK----KVKKTYLALAHGLVEKSM-KI 165
HRLD +TSG+++ K + + L F +++ Y A+ G + KI
Sbjct: 141 RPGIVHRLDKDTSGVMVVAKNDAAHRHLSDQFADHGRNGPLERAYRAVVWGRPRQLKGKI 200
Query: 166 DKPILTPQNIQKDLHIRSKISPLGKQSITLVEPLS-YNPFLDISLLKITPL----TGRTH 220
D P+ + K ++ + S +++IT E + Y+ D + L T TGRTH
Sbjct: 201 DAPLGRAGDRTKRA-VKREDSDDAREAITHYEVVERYHEKPDGTSLASTVECHLETGRTH 259
Query: 221 QIRLHLSSVDHRIVGEGLYGVADENAREYLQLKRE---NNAPLLMLHAASLEFEF--KGA 275
QIR+H++ + H ++G+ YG A L N P LHA L+FE G
Sbjct: 260 QIRVHMAHIGHPLIGDPDYGAAFRTKANLLPEPARAAVNRFPRQALHAFMLQFEHPATGE 319
Query: 276 IYKIASPMP 284
+P+P
Sbjct: 320 TMHFETPVP 328
>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 = 60.1 bits (144), Expect = 3e-08
Identities = 61/219 (27%), Positives = 103/219 (46%), Gaps = 19/219 (8%)
Query: 47 VRKSQIIQGVVRLIHFKPN---EKTQA-LVFETKDFGVFDKPHQVYTHPKGYF-YHESLL 101
V + Q + G + L KP EK Q +++E + +KP + + P Y +S+L
Sbjct: 317 VERCQPLMGFL-LSGLKPTRNLEKEQINVIYEDEWLIAVNKPSGLLSVPGRYIDTQDSVL 375
Query: 102 DCIQSHFGKNAHPA--HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLV 159
++ + A HRLD +TSG++L + Q+ + F Q++V K Y A+ G++
Sbjct: 376 SRLRHMLPEEEMLAAVHRLDQDTSGILLLARDSQTYRQFSQQFQQRQVYKVYEAILAGVI 435
Query: 160 EKSMK-IDKPIL-TPQNIQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTG 217
ID P+ P+N + GK S+T ++ D + ++ PLTG
Sbjct: 436 NTDTGIIDLPLWGDPEN----RPYQQVDWQRGKPSVTNFREIAREG--DYTRVEFVPLTG 489
Query: 218 RTHQIRLHLSSVDHR---IVGEGLYGVADENAREYLQLK 253
RTHQ+R+H S V I+G+ YG + R +L +
Sbjct: 490 RTHQLRVHASDVQGLGVVILGDRFYGCTAKANRLHLHAR 528
>dbj|BAB13516.1| (AB037369) pseudouridine synthase homolog [Sinorhizobium meliloti]
Length = 264
Score = 60.1 bits (144), Expect = 3e-08
Identities = 66/249 (26%), Positives = 108/249 (42%), Gaps = 29/249 (11%)
Query: 64 PNEKTQAL----VFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG---------K 110
P K +A+ ++E D V KP + HP + +L++ + H G K
Sbjct: 2 PEPKGEAIPLDVLYEDADLIVLVKPAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGGVK 61
Query: 111 NAHPAHRLDYETSGLVLAGKTLQSVKDLKALFMQK----KVKKTYLALAHGLVEKSM-KI 165
HRLD +TSG+++ K + + L F +++ Y A+ G + KI
Sbjct: 62 RPGIVHRLDKDTSGVMVVAKNDAAHRHLSDQFADHGRNGPLERAYRAVVWGRPRQLKGKI 121
Query: 166 DKPILTPQNIQKDLHIRSKISPLGKQSITLVEPLS-YNPFLDISLLKITPL----TGRTH 220
D P+ + K ++ + S +++IT E + Y+ D + L T TGRTH
Sbjct: 122 DAPLGRAGDRTKRA-VKREDSDDAREAITHYEVVERYHEKPDGTSLASTVECHLETGRTH 180
Query: 221 QIRLHLSSVDHRIVGEGLYGVADENAREYLQLKRE---NNAPLLMLHAASLEFEF--KGA 275
QIR+H++ + H ++G+ YG A L N P LHA L+FE G
Sbjct: 181 QIRVHMAHIGHPLIGDPDYGAAFRTKANLLPEPARAAVNRFPRQALHAFMLQFEHPATGE 240
Query: 276 IYKIASPMP 284
+P+P
Sbjct: 241 TMHFETPVP 249
>ref|XP_165571.1| (XM_165571) hypothetical protein FLJ14494 [Homo sapiens]
gb|AAH14131.1|AAH14131 (BC014131) hypothetical protein FLJ14494 [Homo sapiens]
Length = 377
Score = 59.3 bits (142), Expect = 5e-08
Identities = 64/249 (25%), Positives = 112/249 (44%), Gaps = 42/249 (16%)
Query: 31 AQRHLDKQRLKQNQQAVRKSQI--------IQGVVR----LIHFKPNEKTQAL----VFE 74
AQR +K R ++ +Q +K + +Q +VR L PN +AL + +
Sbjct: 43 AQRLAEKLRAQKREQDTKKEPVSTNAVQRRVQEIVRFTRQLQRVHPNVLAKALTRGILHQ 102
Query: 75 TKDFGVFDKPHQVYTH--PKGYFYHESLLDCI----QSHFGKNAHPAHRLDYETSGLVLA 128
K+ V +KP+ + H P +L + H + H HRLD ET+G+++
Sbjct: 103 DKNLVVINKPYGLPVHGGPGVQLCITDVLPILAKMLHGHKAEPLHLCHRLDKETTGVMVL 162
Query: 129 GKTLQSVKDLKALFMQKKVKKTYLAL-AHGLVEKSMKIDKPILTPQNIQKDLHIRSKISP 187
++ LF ++V K Y A+ H + + +D PI+ + + H + +SP
Sbjct: 163 AWDKDMAHQVQELFRTRQVVKKYWAITVHVPMPSAGVVDIPIVEKEAQGQQQHHKMTLSP 222
Query: 188 L-----GKQ-----------SITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLS-SVD 230
GK ++T + LS L +L+++ P+TG HQ+R+HLS +D
Sbjct: 223 SYRMDDGKMVKVRRSRNAQVAVTQYQVLSST--LSSALVELQPITGIKHQLRVHLSFGLD 280
Query: 231 HRIVGEGLY 239
I+G+ Y
Sbjct: 281 CPILGDHKY 289
>gb|AAM61068.1| (AY084499) unknown [Arabidopsis thaliana]
Length = 395
Score = 58.9 bits (141), Expect = 7e-08
Identities = 55/214 (25%), Positives = 90/214 (41%), Gaps = 15/214 (7%)
Query: 39 RLKQNQQAVRKSQIIQGVVRLIHFKPNEKTQALV------FETKDFGVFDKPHQVYTHPK 92
R+K + + V S I++ ++ HF + ++ + D KP V HP
Sbjct: 100 RIKVDGEIVPVSYIVKSSQKITHFLHRHEPPVMIDDVVILHQEPDVVTVCKPASVPVHPC 159
Query: 93 GYFYHESLLDCIQS-HFGKNAHPAHRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTY 151
G + +++ + + H HRLD SGL++ +T + VKK Y
Sbjct: 160 GQYRKNTIVGILDAEHDLGTLFSIHRLDRLVSGLLIIARTAAKADFFRQQIEGGMVKKRY 219
Query: 152 LALAHGLV-EKSMKIDKPI----LTPQNIQKDLHIRSKISPL-GKQSITLVEPLSYNPFL 205
+A G+ E M +D I ++ +D + + GK + T + N
Sbjct: 220 IAKVIGVFPEDEMIVDANINYNGSEGRSTAEDANSSGDDKKVKGKPACTKFTRIDTNG-- 277
Query: 206 DISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
SL+ P+TGRTHQIR+HL H I + LY
Sbjct: 278 THSLVSCEPVTGRTHQIRVHLQYTGHPIANDPLY 311
>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 = 58.5 bits (140), Expect = 9e-08
Identities = 45/172 (26%), Positives = 85/172 (49%), Gaps = 4/172 (2%)
Query: 70 ALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNA-HPAHRLDYETSGLVLA 128
+++ +D DKP + P G F + ++L+ ++ + + + P HRL TSGL+L
Sbjct: 62 SVLHRDEDLWAIDKPSGLPVLPGGDFVYHTVLEQLKIQYPQESLFPLHRLGTGTSGLLLL 121
Query: 129 GKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPL 188
G++ ++L F + +K Y + G + K + + L S
Sbjct: 122 GRSTLGRRELSRQFREHICRKIYRTVI-GPCDLPEKFECHQAIGKIPYPQLGYIYAASSH 180
Query: 189 GKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
GK + + L+ +P + + L++ TGR HQIR+HL+S+ + ++G+ LYG
Sbjct: 181 GKPAQSYGRILARSP--EKTWLEVEIRTGRPHQIRIHLASLGYPLLGDRLYG 230
>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 = 58.5 bits (140), Expect = 9e-08
Identities = 58/226 (25%), Positives = 102/226 (44%), Gaps = 32/226 (14%)
Query: 70 ALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFG--KNAHPAHRLDYETSGLVL 127
+++FE + V +KP + H G + +++ ++ F ++ HRLD +TSGL+L
Sbjct: 88 SVLFEDAELLVINKPAGIPVHG-GTGHGGGVIEALRQKFPQERDLELVHRLDRDTSGLLL 146
Query: 128 AGKTLQSVKDLKALFM--QKKVKKTYLALAHGLVEKSMK-IDKPILTPQNIQKDLHIRSK 184
KT +++L+ + ++++ + YL G ++ ID P+ + +
Sbjct: 147 VSKTTSVLRELQEILRDREEEIFRGYLLKVEGAWPGDLRQIDVPLKRTE---------TT 197
Query: 185 ISPL--GKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVA 242
+ P G ++ T E + P +L+K TGR HQIR+H H IVG+ YG
Sbjct: 198 VVPHSDGLRARTYFEVVKRLP--GATLVKAQLATGRKHQIRVHAQYAGHPIVGDPRYG-- 253
Query: 243 DENAREYLQLKRENNAPLLMLHAASLEF-EFKGAIYKIASPMPERF 287
R A + LHAA L G K +P+P+ +
Sbjct: 254 ----------SRGGRAATMHLHAAELVAPRGAGKRQKFTAPLPKEW 289
>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 = 58.2 bits (139), Expect = 1e-07
Identities = 44/171 (25%), Positives = 80/171 (46%), Gaps = 12/171 (7%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDYETSGLVLAGK 130
++F+ DKP + P G ++D +Q G P HRLD +T+G++L K
Sbjct: 5 IIFQDAAVVAVDKPAGLAVQP-GARVRVCVVDVLQKQLGVRLFPLHRLDKDTAGVLLFAK 63
Query: 131 TLQSVKDLKALFMQKKVKKTYLALAHGLVEKSM-KIDKPILTPQNIQKDLHIRSKISPLG 189
++ + + +V K Y AL G + I PI T ++ +R+
Sbjct: 64 HARAAALYQGILGSMRVIKRYRALCFGRPPRECGDIRVPIRTGTAARRRQVVRA-----A 118
Query: 190 KQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYG 240
+ ++ + +L+++L +GRTHQIR+HL+++ I+G+ YG
Sbjct: 119 HTAYRVLRATDTHTYLELTL-----HSGRTHQIRIHLAALGCPIIGDDKYG 164
>ref|NP_116184.1| (NM_032795) hypothetical protein FLJ14494 [Homo sapiens]
dbj|BAB55086.1| (AK027400) unnamed protein product [Homo sapiens]
Length = 377
Score = 57.8 bits (138), Expect = 1e-07
Identities = 63/249 (25%), Positives = 112/249 (44%), Gaps = 42/249 (16%)
Query: 31 AQRHLDKQRLKQNQQAVRKSQI--------IQGVVR----LIHFKPNEKTQAL----VFE 74
A+R +K R ++ +Q +K + +Q +VR L PN +AL + +
Sbjct: 43 ARRLAEKLRAQKREQDTKKEPVSTNAVQRRVQEIVRFTRQLQRVHPNVLAKALTRGILHQ 102
Query: 75 TKDFGVFDKPHQVYTH--PKGYFYHESLLDCI----QSHFGKNAHPAHRLDYETSGLVLA 128
K+ V +KP+ + H P +L + H + H HRLD ET+G+++
Sbjct: 103 DKNLVVINKPYGLPVHGGPGVQLCITDVLPILAKMLHGHKAEPLHLCHRLDKETTGVMVL 162
Query: 129 GKTLQSVKDLKALFMQKKVKKTYLAL-AHGLVEKSMKIDKPILTPQNIQKDLHIRSKISP 187
++ LF ++V K Y A+ H + + +D PI+ + + H + +SP
Sbjct: 163 AWDKDMAHQVQELFRTRQVVKKYWAITVHVPMPSAGVVDIPIVEKEAQGQQQHHKMTLSP 222
Query: 188 L-----GKQ-----------SITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLS-SVD 230
GK ++T + LS L +L+++ P+TG HQ+R+HLS +D
Sbjct: 223 SYRMDDGKMVKVRRSRNAQVAVTQYQVLSST--LSSALVELQPITGIKHQLRVHLSFGLD 280
Query: 231 HRIVGEGLY 239
I+G+ Y
Sbjct: 281 CPILGDHKY 289
>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 = 57.0 bits (136), Expect = 2e-07
Identities = 58/212 (27%), Positives = 87/212 (40%), Gaps = 28/212 (13%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHES--LLDCIQSHFGKNAHPAHRLDYETSGLVLA 128
++++ V DKP + H E L D ++ GK HRLD TSG +L
Sbjct: 10 ILYQDDVLAVVDKPAGLMVHDSKLARGEDDFLADRLREQLGKPIFLVHRLDRATSGCLLL 69
Query: 129 GKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPL 188
S L M +V+K YL + G + I + DL P+
Sbjct: 70 AFDRDSASALGKALMAGEVEKQYLTVCRGWPAEERFI---------VDHDLD-GGPGKPV 119
Query: 189 GKQSITLVEPLSYNPFLDI----------SLLKITPLTGRTHQIRLHLSSVDHRIVGEGL 238
K ++T + L+ L+I +LL+ P TGR QIR H+ + H +VG+
Sbjct: 120 KKPAVTHFQRLATGE-LEIPSTGFTTSRYALLRCQPQTGRFRQIRRHMKHLSHHMVGDTS 178
Query: 239 YGVADENAREYLQLKRENNAPLLMLHAASLEF 270
+G N R + L ++LHA LEF
Sbjct: 179 HGDGRHN-RSFRML----GIHRMLLHAERLEF 205
>ref|NP_639523.1| (NC_003902) pseudouridylate synthase [Xanthomonas campestris pv.
campestris str. ATCC 33913]
gb|AAM43405.1| (AE012545) pseudouridylate synthase [Xanthomonas campestris pv.
campestris str. ATCC 33913]
Length = 298
Score = 56.6 bits (135), Expect = 3e-07
Identities = 47/169 (27%), Positives = 84/169 (48%), Gaps = 28/169 (16%)
Query: 83 KPHQVYTHPKGYFYHESLLDCIQSHFGK-NAHPAHRLDYETSGLVLAGKTLQSVKDLKAL 141
KPH + P G + E+LL + F + P HR+D +T+GLVL + +AL
Sbjct: 101 KPHFLPVVPAGAYVRETLLARLVRRFDNPSLVPLHRIDRDTAGLVLFSANPATRGIYQAL 160
Query: 142 FMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISP----------LGK- 190
F ++++ K YLA+A L P LT + RS++ P +G+
Sbjct: 161 FRERRIHKHYLAVAPPL---------PALTFPYVH-----RSRLEPGEPFFRMREGVGEP 206
Query: 191 QSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
S T+++ ++ D+ ++ P+TGR HQ+R+H++++ I+ + Y
Sbjct: 207 NSETVIDVVARG--ADMWTYRLEPVTGRKHQLRVHMAALGVPILHDRFY 253
>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 = 55.5 bits (132), Expect = 7e-07
Identities = 63/249 (25%), Positives = 113/249 (45%), Gaps = 31/249 (12%)
Query: 32 QRHLDKQRLKQNQQAVRKSQIIQ-----GVVRLIHFKPNEKTQALVFETKDFGVFDKPHQ 86
+R++DK + V K +IQ V + + FK E+ ++FE ++ V +K
Sbjct: 45 KRNIDKNFI------VSKDDLIQIYGLTNVKQKLVFKKIEQKFNVIFEDQNILVINKQAG 98
Query: 87 VYTHPKGYFYHESLLDCIQSHFGKNAHPAH--RLDYETSGLVLAGKTLQSVKDLKALFMQ 144
V H + +L + + P+ RLD TSG+V+ K +K LK+
Sbjct: 99 VSMHSDENSLDKQVLSYLNFKQVDSFVPSSIGRLDKVTSGVVVYAKNYSILKTLKS---N 155
Query: 145 KKVKKTYLALAHGLVEKSMKIDKPILTPQN-IQKDLHIRSKISPLGKQSITLVEPLSYNP 203
+ ++KTY+ +++ +E + KI+ N I+K + + K + TL+ + N
Sbjct: 156 EHLRKTYVFMSNITLEPNQKIEHVFYHKYNPIKKKAELFKENVEESKITKTLLYKVKNNN 215
Query: 204 FLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLKRENNAPLLML 263
+ ++ +TGR HQIR LS + I G+ YG ++ R YL + +
Sbjct: 216 YAEL-------ITGRKHQIRATLSKLGFPIFGDVKYG-GKKDKRVYLHSYK------IKF 261
Query: 264 HAASLEFEF 272
H+ EFE+
Sbjct: 262 HSLKGEFEY 270
>gb|AAD12509.1| (U02214) Homology to M62747 [Mycoplasma genitalium]
Length = 119
Score = 55.5 bits (132), Expect = 7e-07
Identities = 37/119 (31%), Positives = 62/119 (52%), Gaps = 5/119 (4%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAH-GLVEKSMKIDKPILTPQN 174
HRLD +TSG ++ K S+ +L+ + +K+ Y+AL H + I+ P+ N
Sbjct: 4 HRLDRDTSGAIVVCKNQASLLNLQNQLQNRTLKRYYVALVHFPFNALTGSINAPLARVNN 63
Query: 175 IQKDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRI 233
+ I + KQ+IT + ++ N +L+ + LTGRTHQIR+HL + H +
Sbjct: 64 NKVMFKIAQ--TAKAKQAITKFKVINQNE--KAALISLELLTGRTHQIRVHLKFIQHPV 118
>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 = 54.3 bits (129), Expect = 2e-06
Identities = 59/231 (25%), Positives = 93/231 (39%), Gaps = 30/231 (12%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHES--LLDCIQSHFGKNAHPAHRLDYETSGLVLA 128
++++ V DKP + H E L D ++ G+ HRLD TSG +L
Sbjct: 10 ILYQDAVLAVVDKPAGLMVHDSKLARGEDDFLADRLRVQLGRPIFLVHRLDRATSGCLLL 69
Query: 129 GKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPL 188
+ L M +V+K YLA+ G + I + DL P+
Sbjct: 70 AFDRDTASALGKALMAGEVEKDYLAICRGWPAEERFI---------VDHDLD-GGPGKPI 119
Query: 189 GKQSITLVEPLSYNPFLDI----------SLLKITPLTGRTHQIRLHLSSVDHRIVGEGL 238
K ++T + L+ L+I +LL+ P TGR QIR HL + H ++G+
Sbjct: 120 KKPAVTHFQRLATGE-LEIPSTGFATSRYALLRCQPQTGRFRQIRRHLKHLSHHMIGDTS 178
Query: 239 YGVADENAREYLQLKRENNAPLLMLHAASLEFEF--KGAIYKIASPMPERF 287
+G N R + L ++LHA L F G + +P+ F
Sbjct: 179 HGDGRHN-RSFRML----GIHRMLLHAERLGFPHPADGRRISVVAPLDVEF 224
>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 = 53.1 bits (126), Expect = 4e-06
Identities = 61/259 (23%), Positives = 111/259 (42%), Gaps = 46/259 (17%)
Query: 26 CSLKEAQRHLDKQRL-------KQNQQAV-----------RKSQIIQGVVRLIHFKPN-- 65
CS + R L+ QRL KQ Q+A R ++++ +L PN
Sbjct: 32 CSSATSSRPLNAQRLAEKLRAQKQEQKAKEVRVPTNPVQRRVQELVRFTQQLQRVHPNVL 91
Query: 66 --EKTQALVFETKDFGVFDKPHQVYTH--PKGYFYHESLLDCI----QSHFGKNAHPAHR 117
E ++ ++ + D V +KP+ + H P +L + H + H HR
Sbjct: 92 AKELSRRILHQDNDLVVINKPYGLPVHGGPGVQLCISDVLPILAKMLHGHKAEPLHLCHR 151
Query: 118 LDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLAL-------AHGLVEKSMKIDKPIL 170
LD ET+G+++ ++ LF ++V+K Y A+ + G+V+ +K +K +
Sbjct: 152 LDKETTGVMVLAWEKDMAHQVQELFRTRQVEKKYWAITVRVPLPSAGVVDIPIK-EKEVQ 210
Query: 171 TPQNIQK---------DLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQ 221
PQ K D K+ + + + + +L+++ P+TG HQ
Sbjct: 211 GPQQHHKMTLSPSYRLDNGKMVKVRASRDAHVAVTQYQVLSSASSSALVELQPVTGIKHQ 270
Query: 222 IRLHLS-SVDHRIVGEGLY 239
+R+HLS +D I+G+ Y
Sbjct: 271 LRVHLSFGLDCPILGDHKY 289
>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 = 52.0 bits (123), Expect = 8e-06
Identities = 40/144 (27%), Positives = 67/144 (45%), Gaps = 16/144 (11%)
Query: 91 PKGYFYHESLLDCIQSHF---------GKNAHPAHRLDYETSGLVLAGKTLQSVKDLKAL 141
P G H S LD ++ F G++ P HRLD TSG++L + + +
Sbjct: 17 PAGMLVHRSWLDPHETQFVMQTLRDQIGQHVFPIHRLDRPTSGVLLFALSSEIANLMCEQ 76
Query: 142 FMQKKVKKTYLALAHGLVEKSMKIDKPI------LTPQNIQKDLHIRSKISPL-GKQSIT 194
F QK V+K+YLA+ G ++ +ID P+ + + Q+D + I+ G + +
Sbjct: 77 FEQKYVQKSYLAVVRGYLQGKERIDYPLKIQLDKIADKFSQEDKEPQEAITDYEGLKIVE 136
Query: 195 LVEPLSYNPFLDISLLKITPLTGR 218
+ P SL+K+ P TG+
Sbjct: 137 MPYPAGRYQTARYSLVKLIPHTGQ 160
>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 = 51.6 bits (122), Expect = 1e-05
Identities = 40/176 (22%), Positives = 73/176 (40%), Gaps = 15/176 (8%)
Query: 71 LVFETKDFGVFDKPHQVYTH----PKGYFYHESLLDCIQSHFGKNAHPAHRLDYETSGLV 126
+++E D V DK + H + + LL HRLD TSG++
Sbjct: 94 IIYEDSDLLVLDKQKGILVHGGKNSLDFLVNSYLLSQNLRSLSFKPSAVHRLDRNTSGII 153
Query: 127 LAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKIS 186
+ K + + + L F + K Y A+ G ++ P++ ++ ++ +R
Sbjct: 154 IFAKNINTARKLSEAFSGGSIIKKYFAILLG------EVKSPVVYKNHLFRNKRLRKTFV 207
Query: 187 PLGKQSITLVEPLSYNPFLD---ISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
K + + + NP L +L++I TG THQIR S +H ++ + Y
Sbjct: 208 LEDKNFVNAITKV--NPILSCKRATLVEIVIETGFTHQIRSQCSFNNHPLINDKKY 261
>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 = 51.2 bits (121), Expect = 1e-05
Identities = 49/184 (26%), Positives = 84/184 (45%), Gaps = 11/184 (5%)
Query: 64 PNEKTQALVFETKDFGVFDKPHQVYT-----HPKGYFYHESLLDCIQSHFG-KNAHPAHR 117
P++ ++FE + V +KP + HP G + Q ++ + H R
Sbjct: 72 PDDFPLNVLFEDDHYLVVEKPAGKPSITGSLHPTGAMSNAVKGYISQKNYANQTVHIITR 131
Query: 118 LDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGL-VEKSMKIDKPILTPQNIQ 176
LD +TSGL+ K + + + ++K Y A+ + + S +ID PI +
Sbjct: 132 LDRDTSGLMFLAKHRYAHALMNQHKFRDTMEKRYFAIVNDQDLPDSGRIDLPI----GRR 187
Query: 177 KDLHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGE 236
D I+ ++ K L + D++LL I TGRTHQIR+H S + + ++G+
Sbjct: 188 DDSIIQRQVRFDEKAKDALTSYVVAERKNDLALLDIILHTGRTHQIRVHFSHLGYPLIGD 247
Query: 237 GLYG 240
LYG
Sbjct: 248 DLYG 251
>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 = 50.1 bits (118), Expect = 3e-05
Identities = 29/85 (34%), Positives = 48/85 (56%), Gaps = 11/85 (12%)
Query: 207 ISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAA 266
+S + + PLTGRTHQ+R+H S++ H IVG+ YG A++ +E+ +MLHA
Sbjct: 32 VSKVLLKPLTGRTHQLRVHCSALGHPIVGDLTYGQAED---------QEDQPFRMMLHAF 82
Query: 267 SLEFEFKGAIYKIASPMPERFMPFL 291
L + ++ + P+ F+P L
Sbjct: 83 YLRIPTQAE--RVEACTPDPFLPAL 105
>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 = 48.9 bits (115), Expect = 7e-05
Identities = 51/191 (26%), Positives = 83/191 (42%), Gaps = 40/191 (20%)
Query: 70 ALVFETKDFGVFDKPHQVYTH-PKGYFYHESLLDCIQSHFGKNAH----------PAHRL 118
++VF+T+D F KP + H P+ LD G+ AH P HRL
Sbjct: 106 SVVFKTQDLLFFHKPAGLCVHGPRS-------LDAWVRGQGR-AHVPPALSFRPGPLHRL 157
Query: 119 DYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTPQNIQKD 178
D T GL+ ++L+ + A Q ++K YLA +T +
Sbjct: 158 DRGTEGLIAFSRSLRGAQWFSAALQQHTLRKFYLA----------------ITAAPARTA 201
Query: 179 LHIRSKISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGL 238
R+ + P +T V+ + ++ + L I P+TG+ HQIR + ++ +VG+
Sbjct: 202 AAARTLVRP---GEVTHVQTVLHSCDSALVLRVIVPVTGKKHQIRRYCAAQGFPLVGDRT 258
Query: 239 YGVADE--NAR 247
YG A + NAR
Sbjct: 259 YGGASQHGNAR 269
>pir||S26602 hypothetical protein 185 - Pseudomonas aeruginosa
emb|CAA78140.1| (Z12154) putative protein of unknown function [Pseudomonas
aeruginosa]
Length = 185
Score = 48.5 bits (114), Expect = 9e-05
Identities = 30/101 (29%), Positives = 49/101 (47%), Gaps = 5/101 (4%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGKNAHP-----AHRLDYETSGL 125
+V+E + V DKP + HP +LL+ + H A+ HRLD +T+GL
Sbjct: 85 IVYEDEHILVIDKPAGLVVHPAAGHQDGTLLNALLYHVPDIANVPRAGIVHRLDKDTTGL 144
Query: 126 VLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKID 166
++ KTL++ L A + V + Y A+ G++ ID
Sbjct: 145 MVVAKTLEAHTKLVAQLQARSVSRIYEAIVIGVITSGGTID 185
>gb|AAB07777.1| (U67934) 44.9 kDa protein C18B11 homolog [Homo sapiens]
Length = 189
Score = 48.5 bits (114), Expect = 9e-05
Identities = 24/55 (43%), Positives = 35/55 (63%), Gaps = 2/55 (3%)
Query: 185 ISPLGKQSITLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLY 239
+ P GK T+ + LSYN S+++ PLTGRTHQIR+HL + H I+ + +Y
Sbjct: 4 VDPRGKPCETVFQRLSYNG--QSSVVRCRPLTGRTHQIRVHLQFLGHPILNDPIY 56
>gb|AAH12951.1|AAH12951 (BC012951) Unknown (protein for IMAGE:3853655) [Homo sapiens]
Length = 194
Score = 48.1 bits (113), Expect = 1e-04
Identities = 29/85 (34%), Positives = 44/85 (51%), Gaps = 11/85 (12%)
Query: 207 ISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLKRENNAPLLMLHAA 266
+S + + PLTGRTHQ+R+H S++ H +VG+ YG RE+ +MLHA
Sbjct: 43 VSKVLLKPLTGRTHQLRVHCSALGHPVVGDLTYGEVS---------GREDRPFRMMLHAF 93
Query: 267 SLEFEFKGAIYKIASPMPERFMPFL 291
L ++ +P P F+P L
Sbjct: 94 YLRIPTDTECVEVCTPDP--FLPSL 116
>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 = 47.4 bits (111), Expect = 2e-04
Identities = 46/180 (25%), Positives = 77/180 (42%), Gaps = 22/180 (12%)
Query: 98 ESLLDCIQSHFGKNAHPAHRLDYETSGLVLAGKTLQSVKDLKALFMQK------------ 145
E C++ ++ HRLD + SGL++ +T + L ++F +K
Sbjct: 215 ELAASCLKFDKSESPRLVHRLDRDCSGLLVLARTQTAATVLHSIFREKTTGASAYGVKKN 274
Query: 146 --KVKKTYLALAHGLVEKSMKIDKPILTPQNIQKDLHIRSKISPLGK-----QSITLVEP 198
+K+ Y+AL G + L + R ++ G+ +IT
Sbjct: 275 VKSLKRKYMALVIGCPPRQRGQISAPLRKVVVDDGKSERITVNDNGELVSTQHAITEYRV 334
Query: 199 LSYNPFLDISLLKITPLTGRTHQIRLHLSSV-DHRIVGEGLYGVADENAREYLQLKRENN 257
+ +P + L++ PLTGR HQ+R+H + V IVG+ YG ARE + ENN
Sbjct: 335 IESSPH-GYTWLELRPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQAHKAREPF-VSSENN 392
>gb|AAM33173.1| (AC117072) hypothetical protein [Dictyostelium discoideum]
Length = 316
Score = 47.4 bits (111), Expect = 2e-04
Identities = 34/111 (30%), Positives = 55/111 (48%), Gaps = 6/111 (5%)
Query: 64 PNEKTQALVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQS----HFGKNAHPAHRLD 119
P + ++ K++ V +KP V + +++ I++ HFG N +R+D
Sbjct: 16 PTDPKYETIYLDKEYIVVNKPFDVNIDDETGERLTTVVKYIETEYPEHFG-NVRFVNRID 74
Query: 120 YETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVE-KSMKIDKPI 169
Y TSGLV+ +S LF ++ +TYLA+ HG +E IDKPI
Sbjct: 75 YATSGLVVVSFNKKSTTVAMELFQCRETSETYLAIVHGHMEFDESIIDKPI 125
Score = 44.3 bits (103), Expect = 0.002
Identities = 24/75 (32%), Positives = 38/75 (50%), Gaps = 12/75 (16%)
Query: 199 LSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLKRENNA 258
++ + ++ I+ + + P TGR HQ+R+HL S+ H IVG+ YG D
Sbjct: 227 INNDEYIPITKVMLFPKTGRRHQLRVHLLSIGHVIVGDETYGPKDSTIHR---------- 276
Query: 259 PLLMLHAASLEFEFK 273
+MLH+ L FK
Sbjct: 277 --MMLHSWKLILPFK 289
>gb|AAB09035.1| (U68242) orfEU5; uncharacterized orf upstream of txpA similar to H.
influenzae HI0412 [Bartonella bacilliformis]
Length = 221
Score = 47.4 bits (111), Expect = 2e-04
Identities = 38/144 (26%), Positives = 64/144 (44%), Gaps = 18/144 (12%)
Query: 28 LKEAQRHLDKQRLKQNQQAVRKSQIIQGVVRLIHFKPNEKTQALVFETKDFGVFDKPHQV 87
L+ Q +D R+K N + V Q I+ I K N + V +D G K +
Sbjct: 70 LRSGQVRVDGGRVKANMRLVT-GQSIRVPSFFIESKRNISITSKVISQQDDGDLLKKMLL 128
Query: 88 YTHPKGYFYH-----------------ESLLDCIQSHFGKNAHPAHRLDYETSGLVLAGK 130
Y PK + ++ + +L+ ++ G+ HRLD ETSGL++ +
Sbjct: 129 YEDPKIFVFNKPAGLAVQGGSGLTRHVDGMLEAWRNKKGEKPRLVHRLDRETSGLLVVAR 188
Query: 131 TLQSVKDLKALFMQKKVKKTYLAL 154
+ + + L A F +++KK Y AL
Sbjct: 189 SXXAAQALTAAFRTREMKKIYWAL 212
>gb|AAA03374.1| (U02220) unknown [Mycoplasma genitalium]
Length = 119
Score = 45.8 bits (107), Expect = 6e-04
Identities = 29/97 (29%), Positives = 47/97 (47%), Gaps = 10/97 (10%)
Query: 71 LVFETKDFGVFDKPHQVYTHPKGYFYHESLLDCIQSHFGK--------NAHP--AHRLDY 120
++FE ++ V DKP + P +L + + H G N +P AHR+D
Sbjct: 10 IIFEDENIIVVDKPTGIVCQPDKKHSIINLSNMLLKHCGYRQFDSNKLNFYPQFAHRIDR 69
Query: 121 ETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHG 157
TSG+V+ KT +++K+L +F + K Y L G
Sbjct: 70 NTSGIVIGAKTNKALKELNKVFKNNHLTKRYKGLVFG 106
>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 = 45.1 bits (105), Expect = 0.001
Identities = 23/57 (40%), Positives = 31/57 (54%)
Query: 116 HRLDYETSGLVLAGKTLQSVKDLKALFMQKKVKKTYLALAHGLVEKSMKIDKPILTP 172
HRLD TSG +L GK+ Q+ +L LF Q+K+ K Y+A G +K K P
Sbjct: 118 HRLDKGTSGCLLMGKSKQAATELMKLFKQRKIHKQYIAFVFGHPKKKFGTVKSYTAP 174
>gb|AAG24942.1|AF128845_1 (AF128845) RluD [Sinorhizobium meliloti]
Length = 163
Score = 43.9 bits (102), Expect = 0.002
Identities = 26/74 (35%), Positives = 36/74 (48%), Gaps = 5/74 (6%)
Query: 216 TGRTHQIRLHLSSVDHRIVGEGLYGVADENAREYLQLKRE---NNAPLLMLHAASLEFEF 272
TGRTHQIR+H++ + H ++G+ YG A L N P LHA L+FE
Sbjct: 75 TGRTHQIRVHMAHIGHPLIGDPDYGAAFRTKANLLPEPARAAVNRFPRQALHAFMLQFEH 134
Query: 273 --KGAIYKIASPMP 284
G +P+P
Sbjct: 135 PATGETMHFETPVP 148
>emb|CAC00347.2| (AL160371) possible hypothetical 46.8 Kd protein in clc1-pds2
intergenic region [Leishmania major]
Length = 1067
Score = 42.0 bits (97), Expect = 0.008
Identities = 20/54 (37%), Positives = 34/54 (62%)
Query: 194 TLVEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVDHRIVGEGLYGVADENAR 247
T ++ + Y+ D +++K T TGRTHQ+R+HL+S+ H IV + Y + + R
Sbjct: 903 TALQVMHYDAATDQTVVKCTLGTGRTHQLRVHLASLGHPIVHDSKYIALEAHMR 956
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
0.322 0.139 0.398
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 184,957,637
Number of Sequences: 1026957
Number of extensions: 7562663
Number of successful extensions: 17257
Number of sequences better than 1.0e-02: 225
Number of HSP's better than 0.0 without gapping: 83
Number of HSP's successfully gapped in prelim test: 142
Number of HSP's that attempted gapping in prelim test: 16844
Number of HSP's gapped (non-prelim): 231
length of query: 298
length of database: 324,149,939
effective HSP length: 120
effective length of query: 178
effective length of database: 200,915,099
effective search space: 35762887622
effective search space used: 35762887622
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 97 (42.0 bits)