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|15646068|ref|NP_208250.1| conserved hypothetical
protein [Helicobacter pylori 26695]
(262 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_208250.1| (NC_000915) conserved hypothetical protein... 516 e-146
ref|NP_224070.1| (NC_000921) putative [Helicobacter pylori ... 507 e-143
ref|NP_282835.1| (NC_002163) putative ribosomal pseudouridi... 256 1e-67
ref|NP_603653.1| (NC_003454) Ribosomal large subunit pseudo... 112 3e-24
ref|NP_268692.1| (NC_002737) putative hypothetical protein ... 112 3e-24
ref|NP_230824.1| (NC_002505) pseudouridine synthase family ... 112 5e-24
ref|NP_299732.1| (NC_002488) conserved hypothetical protein... 112 5e-24
ref|NP_561996.1| (NC_003366) pseudouridylate synthase [Clos... 111 7e-24
ref|NP_606662.1| (NC_003485) putative hypothetical protein ... 111 7e-24
ref|NP_346306.1| (NC_003028) ribosomal large subunit pseudo... 109 3e-23
ref|NP_214009.1| (NC_000918) hypothetical protein [Aquifex ... 108 8e-23
ref|NP_519407.1| (NC_003295) HYPOTHETICAL PROTEIN [Ralstoni... 107 1e-22
ref|NP_658579.1| (NC_003995) PseudoU_synth_2, RNA pseudouri... 105 4e-22
ref|NP_372017.1| (NC_002758) ribosomal large subunit pseudo... 105 5e-22
ref|NP_251869.1| (NC_002516) conserved hypothetical protein... 104 8e-22
ref|NP_655377.1| (NC_003995) PseudoU_synth_2, RNA pseudouri... 104 1e-21
ref|NP_242442.1| (NC_002570) pseudouridylate synthase [Baci... 103 2e-21
ref|NP_390197.1| (NC_000964) similar to hypothetical protei... 102 3e-21
ref|NP_267431.1| (NC_002662) pseudouridine synthase [Lactoc... 102 3e-21
ref|NP_637570.1| (NC_003902) pseudouridylate synthase [Xant... 102 3e-21
ref|NP_642635.1| (NC_003919) pseudouridylate synthase [Xant... 100 1e-20
ref|NP_231854.1| (NC_002505) pseudouridine synthase family ... 100 2e-20
ref|NP_348475.1| (NC_003030) Predicted pseudouridylate synt... 100 2e-20
ref|NP_622950.1| (NC_003869) 16S rRNA uridine-516 pseudouri... 100 3e-20
gb|AAK38326.1| (AY028464) hypothetical pseudouridine syntha... 99 4e-20
ref|NP_643120.1| (NC_003919) pseudouridylate synthase [Xant... 99 5e-20
ref|NP_661379.1| (NC_002932) ribosomal small subunit pseudo... 99 6e-20
ref|NP_418446.1| (NC_000913) orf, hypothetical protein [Esc... 98 8e-20
ref|NP_405754.1| (NC_003143) putative RNA pseudouridylate s... 98 1e-19
ref|NP_660618.1| (NC_004061) hypothetical 30.2 kD protein i... 97 2e-19
ref|NP_290656.1| (NC_002655) orf, hypothetical protein [Esc... 97 2e-19
ref|NP_245598.1| (NC_002663) unknown [Pasteurella multocida... 97 2e-19
ref|NP_471397.1| (NC_003212) similar to unknown proteins [L... 95 7e-19
ref|NP_458512.1| (NC_003198) putative pseudouridine synthas... 95 9e-19
ref|NP_463058.1| (NC_003197) putative pseudouridine synthas... 95 9e-19
ref|NP_563229.1| (NC_003366) conserved hypothetical protein... 95 9e-19
ref|NP_637988.1| (NC_003902) pseudouridylate synthase [Xant... 94 1e-18
ref|NP_465473.1| (NC_003210) similar to unknown proteins [L... 94 1e-18
ref|NP_212263.1| (NC_001318) conserved hypothetical protein... 94 2e-18
ref|NP_268397.1| (NC_002662) ribosomal small subunit pseudo... 93 3e-18
ref|NP_439355.1| (NC_000907) conserved hypothetical protein... 93 3e-18
ref|NP_415785.1| (NC_000913) orf, hypothetical protein [Esc... 92 4e-18
gb|AAB59990.1| (U18111) ORF4 [Escherichia coli] 92 4e-18
ref|NP_287930.1| (NC_002655) orf, hypothetical protein [Esc... 92 4e-18
sp|P42395|Y282_BUCAP HYPOTHETICAL PROTEIN BU282 HOMOLOG >gi... 92 4e-18
ref|NP_460678.1| (NC_003197) putative ribosomal large subun... 92 6e-18
ref|NP_455778.1| (NC_003198) putative pseudouridine synthas... 92 7e-18
ref|NP_274379.1| (NC_003112) conserved hypothetical protein... 91 2e-17
ref|NP_284288.1| (NC_003116) putative pseudouridine synthas... 90 2e-17
ref|NP_384907.1| (NC_003047) HYPOTHETICAL PROTEIN [Sinorhiz... 90 3e-17
ref|NP_487913.1| (NC_003272) hypothetical protein [Nostoc s... 88 8e-17
gb|AAL88719.1|AC114257_4 (AC114257) Putative synthase [Dict... 88 1e-16
ref|NP_419672.1| (NC_002696) RNA pseudouridylate synthase, ... 88 1e-16
ref|NP_108388.1| (NC_002678) hypothetical protein [Mesorhiz... 88 1e-16
ref|NP_473106.1| (NC_000910) pseudouridine synthetase (RsuA... 87 1e-16
ref|NP_240106.1| (NC_002528) hypothetical protein [Buchnera... 87 1e-16
ref|NP_542017.1| (NC_003318) TRNA PSEUDOURIDINE SYNTHASE A ... 86 3e-16
ref|NP_419049.1| (NC_002696) S4 domain protein [Caulobacter... 86 4e-16
ref|NP_228077.1| (NC_000853) 16S pseudouridylate synthase [... 86 5e-16
ref|NP_357850.1| (NC_003098) Ribosomal small subunit pseudo... 86 5e-16
ref|NP_220917.1| (NC_000963) unknown [Rickettsia prowazekii... 86 5e-16
ref|NP_103585.1| (NC_002678) hypothetical protein [Mesorhiz... 86 5e-16
ref|NP_344818.1| (NC_003028) ribosomal small subunit pseudo... 86 5e-16
ref|NP_600644.1| (NC_003450) COG1187:16S rRNA uridine-516 p... 85 7e-16
ref|NP_213389.1| (NC_000918) hypothetical protein [Aquifex ... 85 7e-16
dbj|BAB98819.1| (AP005278) 16S rRNA uridine-516 pseudouridy... 85 7e-16
ref|NP_436567.1| (NC_003078) CONSERVED HYPOTHETICAL PROTEIN... 84 2e-15
ref|NP_326168.1| (NC_002771) RIBOSOMAL LARGE SUBUNIT PSEUDO... 84 2e-15
ref|NP_353713.1| (NC_003062) AGR_C_1238p [Agrobacterium tum... 80 2e-14
ref|NP_360444.1| (NC_003103) ribosomal large subunit pseudo... 79 4e-14
ref|NP_349283.1| (NC_003030) Predicted pseudouridylate synt... 79 4e-14
ref|NP_283794.1| (NC_003116) putative RNA-binding protein [... 79 5e-14
ref|NP_273848.1| (NC_003112) conserved hypothetical protein... 79 5e-14
ref|NP_296480.1| (NC_002620) ribosomal large subunit pseudo... 79 5e-14
ref|NP_220242.1| (NC_000117) predicted pseudouridine syntha... 77 1e-13
ref|NP_442012.1| (NC_000911) hypothetical protein [Synechoc... 77 1e-13
ref|NP_216227.1| (NC_000962) hypothetical protein Rv1711 [M... 77 2e-13
ref|NP_301978.1| (NC_002677) possible pseudouridine synthas... 76 4e-13
ref|NP_626039.1| (NC_003888) putative pseudouridine synthas... 76 4e-13
ref|NP_372277.1| (NC_002758) hypothetical protein [Staphylo... 76 4e-13
sp|O05668|YH11_MYCLE Hypothetical protein ML1370 >gi|206521... 76 4e-13
ref|NP_656240.1| (NC_003995) PseudoU_synth_2, RNA pseudouri... 75 5e-13
ref|NP_658736.1| (NC_003995) PseudoU_synth_2, RNA pseudouri... 74 2e-12
ref|NP_294620.1| (NC_001263) ribosomal large subunit pseudo... 74 2e-12
ref|NP_519522.1| (NC_003295) PROBABLE ARGININ/PROLIN RICH P... 71 1e-11
ref|NP_621756.1| (NC_003869) 16S rRNA uridine-516 pseudouri... 71 1e-11
ref|NP_636323.1| (NC_003902) pseudouridylate synthase [Xant... 71 1e-11
ref|NP_646513.1| (NC_003923) ORFID:MW1696~hypothetical prot... 70 2e-11
ref|NP_244139.1| (NC_002570) 16S pseudouridylate synthase [... 70 2e-11
ref|NP_300921.1| (NC_002491) pseudouridine synthase [Chlamy... 70 3e-11
ref|NP_439399.1| (NC_000907) 16s pseudouridylate 516 syntha... 69 4e-11
ref|NP_225059.1| (NC_000922) predicted pseudouridine syntha... 69 4e-11
ref|NP_471766.1| (NC_003212) similar to 16S pseudouridylate... 69 4e-11
ref|NP_218900.1| (NC_000919) conserved hypothetical protein... 67 1e-10
ref|NP_607497.1| (NC_003485) putative 16S pseudouridylate s... 67 1e-10
ref|NP_465865.1| (NC_003210) similar to 16S pseudouridylate... 67 1e-10
ref|NP_563180.1| (NC_003366) 16S pseudouridylate synthase [... 67 3e-10
ref|NP_244940.1| (NC_002663) RsuA [Pasteurella multocida] >... 66 4e-10
ref|NP_643985.1| (NC_003919) ribosomal small subunit pseudo... 66 4e-10
gb|AAM66944.1| (AY088622) unknown [Arabidopsis thaliana] 65 7e-10
ref|NP_249424.1| (NC_002516) probable pseudouridylate synth... 65 1e-09
ref|NP_641361.1| (NC_003919) pseudouridylate synthase [Xant... 64 2e-09
ref|NP_358191.1| (NC_003098) Ribosomal small subunit pseudo... 64 2e-09
ref|NP_345185.1| (NC_003028) ribosomal small subunit pseudo... 64 2e-09
ref|NP_269450.1| (NC_002737) putative 16S pseudouridylate s... 62 6e-09
ref|NP_607451.1| (NC_003485) putative 16S pseudouridylate s... 61 1e-08
ref|NP_288766.1| (NC_002655) 16S pseudouridylate 516 syntha... 60 2e-08
ref|NP_438854.1| (NC_000907) conserved hypothetical protein... 59 4e-08
ref|NP_638984.1| (NC_003902) ribosomal small subunit pseudo... 59 5e-08
ref|NP_603614.1| (NC_003454) Ribosomal small subunit pseudo... 59 5e-08
ref|NP_404865.1| (NC_003143) ribosomal small subunit pseudo... 59 7e-08
ref|NP_484589.1| (NC_003272) probable pseudouridine synthas... 58 1e-07
pir||S72955 hypothetical protein u0247g - Mycobacterium lep... 57 3e-07
ref|NP_456780.1| (NC_003198) ribosomal small subunit pseudo... 56 4e-07
ref|NP_231272.1| (NC_002505) ribosomal small subunit pseudo... 55 1e-06
ref|NP_267508.1| (NC_002662) pseudouridine synthase [Lactoc... 55 1e-06
ref|NP_298490.1| (NC_002488) ribosomal small subunit pseudo... 54 2e-06
ref|NP_420645.1| (NC_002696) ribosomal small subunit pseudo... 54 2e-06
ref|NP_252657.1| (NC_002516) probable pseudouridine synthas... 53 3e-06
ref|NP_249801.1| (NC_002516) hypothetical protein [Pseudomo... 53 4e-06
ref|NP_287349.1| (NC_002655) orf, hypothetical protein [Esc... 52 5e-06
ref|NP_309634.1| (NC_002695) hypothetical protein [Escheric... 52 5e-06
ref|NP_415653.1| (NC_000913) orf, hypothetical protein [Esc... 52 5e-06
sp|P75966|YMFC_ECOLI Hypothetical protein ymfC >gi|4062699|... 52 5e-06
sp|P72581|Y612_SYNY3 Hypothetical protein slr0612 52 6e-06
ref|NP_269493.1| (NC_002737) putative 16S pseudouridylate s... 52 8e-06
ref|NP_246544.1| (NC_002663) unknown [Pasteurella multocida... 51 1e-05
ref|NP_640646.1| (NC_003919) pseudouridylate synthase [Xant... 51 1e-05
ref|NP_460207.1| (NC_003197) putative ribosomal large subun... 50 3e-05
ref|NP_635668.1| (NC_003902) pseudouridylate synthase [Xant... 49 4e-05
ref|NP_390881.1| (NC_000964) similar to hypothetical protei... 47 3e-04
ref|NP_230785.1| (NC_002505) pseudouridine synthase family ... 47 3e-04
gb|AAG16128.1|AF261151_1 (AF261151) pseudouridylate synthas... 47 3e-04
emb|CAC19451.1| (AJ277766) hypothetical pseudouridine synth... 46 5e-04
ref|NP_455729.1| (NC_003198) putative ribosomal large subun... 46 5e-04
emb|CAB65436.1| (AJ250721) hypothetical protein [Synechococ... 43 0.003
ref|NP_439900.1| (NC_000911) hypothetical protein [Synechoc... 42 0.007
ref|NP_405221.1| (NC_003143) putative pseudouridine synthas... 42 0.009
gb|AAG10501.1|AF279106_63 (AF279106) predicted ribosomal la... 42 0.009
>ref|NP_208250.1| (NC_000915) conserved hypothetical protein [Helicobacter pylori
26695]
sp|P55986|YE59_HELPY Hypothetical protein HP1459
pir||C64702 conserved hypothetical protein HP1459 - Helicobacter pylori
(strain 26695)
gb|AAD08501.1| (AE000646) conserved hypothetical protein [Helicobacter pylori
26695]
Length = 262
Score = 516 bits (1330), Expect = e-146
Identities = 262/262 (100%), Positives = 262/262 (100%)
Query: 1 MEGFSLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKP 60
MEGFSLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKP
Sbjct: 1 MEGFSLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKP 60
Query: 61 LKNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDS 120
LKNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDS
Sbjct: 61 LKNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDS 120
Query: 121 KAVVSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFI 180
KAVVSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFI
Sbjct: 121 KAVVSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFI 180
Query: 181 GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRF 240
GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRF
Sbjct: 181 GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRF 240
Query: 241 LNRQEYNELHAFMANAANVKGD 262
LNRQEYNELHAFMANAANVKGD
Sbjct: 241 LNRQEYNELHAFMANAANVKGD 262
>ref|NP_224070.1| (NC_000921) putative [Helicobacter pylori J99]
sp|Q9ZJG0|YE59_HELPJ Hypothetical protein JHP1352
pir||B71817 hypothetical protein jhp1352 - Helicobacter pylori (strain J99)
gb|AAD06937.1| (AE001558) putative [Helicobacter pylori J99]
Length = 262
Score = 507 bits (1305), Expect = e-143
Identities = 256/262 (97%), Positives = 259/262 (98%)
Query: 1 MEGFSLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKP 60
MEGFSLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKEND+VFLDKRLIKP
Sbjct: 1 MEGFSLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDKVFLDKRLIKP 60
Query: 61 LKNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDS 120
LKNKKFSVLVYHKPKGELVSKADPLKR VIYESLEKKYAHFAPVGRLDFASEGVLLLSDS
Sbjct: 61 LKNKKFSVLVYHKPKGELVSKADPLKRHVIYESLEKKYAHFAPVGRLDFASEGVLLLSDS 120
Query: 121 KAVVSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFI 180
KAVVSALMHA+LEKEYL+KIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFI
Sbjct: 121 KAVVSALMHANLEKEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFI 180
Query: 181 GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRF 240
GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGK RF
Sbjct: 181 GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKARF 240
Query: 241 LNRQEYNELHAFMANAANVKGD 262
LNRQEYNELHAFMAN ANVKGD
Sbjct: 241 LNRQEYNELHAFMANRANVKGD 262
>ref|NP_282835.1| (NC_002163) putative ribosomal pseudouridine synthase
[Campylobacter jejuni]
pir||A81269 pseudouridylate synthase (EC 4.2.1.70) rRNA-specific Cj1709c
[imported] - Campylobacter jejuni (strain NCTC 11168)
emb|CAB73695.1| (AL139079) putative ribosomal pseudouridine synthase [Campylobacter
jejuni]
Length = 253
Score = 256 bits (655), Expect = 1e-67
Identities = 125/248 (50%), Positives = 185/248 (74%), Gaps = 2/248 (0%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNKK 65
+RIN+F++H T++SRREA++L+ +G VKIN++ A L+ VK +D+VF+ + ++ K +
Sbjct: 1 MRINKFISHNTRYSRREADELIKQGLVKINNKIALLSDEVKFDDKVFVKGKRVQ--KRTQ 58
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125
FSV++YHK KGE+VSK D R+ IY++L ++++ + VGRLD+ASEG+LLL+DS +
Sbjct: 59 FSVIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIAD 118
Query: 126 ALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYEII 185
ALMH+DLE+EY +K++G V++++ AMQ GL+++N KGAH KT I SM FAPFI +EI
Sbjct: 119 ALMHSDLEREYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEIF 178
Query: 186 KNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNRQE 245
+ Y+KLRV+INEGKNRELRRFF F+ V+DL+RV +G ++L L GK R+L E
Sbjct: 179 GSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKHRYLENGE 238
Query: 246 YNELHAFM 253
Y +L F+
Sbjct: 239 YEKLRDFL 246
>ref|NP_603653.1| (NC_003454) Ribosomal large subunit pseudouridine synthase B
[Fusobacterium nucleatum subsp. nucleatum ATCC 25586]
gb|AAL94952.1| (AE010585) Ribosomal large subunit pseudouridine synthase B
[Fusobacterium nucleatum subsp. nucleatum ATCC 25586]
Length = 234
Score = 112 bits (281), Expect = 3e-24
Identities = 75/248 (30%), Positives = 135/248 (54%), Gaps = 17/248 (6%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNKK 65
+RIN+FL+ SRR +K + EGR+ +N A + END +F+D + IK +++
Sbjct: 1 MRINKFLSTLGIASRRAIDKYIEEGRITVNGNTATTGMDINENDNIFIDGKKIKTKIDEE 60
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125
+ +KP L S +D R+ + + L K P+GRLD+ + G++LL++ + +
Sbjct: 61 KVYFMLNKPLEVLSSSSDDRGRKTVVD-LIKTDKRIFPIGRLDYMTSGLILLTNDGELFN 119
Query: 126 ALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183
++H +++ K+Y IK+ G + +E + +++G+ L++ K++ A G +
Sbjct: 120 RVVHPKSEIYKKYYIKVFGEIKKEEIDELKKGVLLDDG----------KTLP-AKISGIK 168
Query: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243
KN + + + I EG+NR++RR F VL LRR + G ++L LP GK R L +
Sbjct: 169 YDKNK---TSMYISIREGRNRQIRRMIEKFEYKVLMLRREKIGELSLGDLPEGKYRELTK 225
Query: 244 QEYNELHA 251
QE L++
Sbjct: 226 QEVEYLYS 233
>ref|NP_268692.1| (NC_002737) putative hypothetical protein [Streptococcus pyogenes]
[Streptococcus pyogenes M1 GAS]
gb|AAK33413.1| (AE006500) putative hypothetical protein [Streptococcus pyogenes M1
GAS]
Length = 240
Score = 112 bits (281), Expect = 3e-24
Identities = 78/261 (29%), Positives = 139/261 (52%), Gaps = 28/261 (10%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEH-AKLASVVKENDRVFLDKRLIKPLKNK 64
+RIN+++AH SRR+AE+L+ +G V +N + LA+ VK D V ++ P+ N+
Sbjct: 1 MRINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVVEIEG---SPIYNE 57
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 124
+ + +KP+G + S +D R+ + + L + PVGRLD+ + GVL+L++
Sbjct: 58 EKVYYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFT 117
Query: 125 SALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENA-TKGAHQKTPIKSMEFAPFIG 181
++H +++K YL +++G T+E + G+ ++ TK A
Sbjct: 118 DTMIHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPAR--------------- 162
Query: 182 YEIIKNHAKYSK--LRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMR 239
Y I++ A S+ + + I+EG+N ++++ F V L R R+G V+L L G+ R
Sbjct: 163 YNIVRVEADKSRSIVELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPGEAR 222
Query: 240 FLNRQEYNELHAFMANAANVK 260
LN++E ++LH N AN K
Sbjct: 223 RLNKKEISQLH----NLANTK 239
>ref|NP_230824.1| (NC_002505) pseudouridine synthase family 1 protein [Vibrio
cholerae]
pir||H82230 pseudouridine synthase family 1 protein VC1179 [imported] - Vibrio
cholerae (group O1 strain N16961)
gb|AAF94338.1| (AE004198) pseudouridine synthase family 1 protein [Vibrio
cholerae]
Length = 321
Score = 112 bits (279), Expect = 5e-24
Identities = 84/252 (33%), Positives = 135/252 (53%), Gaps = 21/252 (8%)
Query: 5 SLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVF-LDKRLIKPLKN 63
S ++ + LA SRRE E L+ GRV +N + A L +++++ V +D ++
Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDDNAVVRIDGHVVSVKAQ 61
Query: 64 KKF--SVLVYHKPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLSDS 120
++ VL Y+KP+GEL ++ DP RR +++ L K + + + VGRLD + G+LL +
Sbjct: 62 EEVICRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWISVGRLDANTSGLLLFTTD 121
Query: 121 KAVVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAP 178
+ + LMH +E+EYL+++ G VT E K+ N +G + + E
Sbjct: 122 GELANRLMHPSRQVEREYLVRVFGDVTEE---------KVRNLVRGVQLEDGMARFEDVM 172
Query: 179 FIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLN-ALPVGK 237
+ G E I NH Y V+INEG+NRE+RR + V L+RVRYG + L+ LP G
Sbjct: 173 YAGGEGI-NHTFY----VVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFLDKKLPRGG 227
Query: 238 MRFLNRQEYNEL 249
L+ ++ N L
Sbjct: 228 WMELDLKQVNYL 239
>ref|NP_299732.1| (NC_002488) conserved hypothetical protein [Xylella fastidiosa
9a5c]
pir||A82555 conserved hypothetical protein XF2453 [imported] - Xylella
fastidiosa (strain 9a5c)
gb|AAF85252.1|AE004054_4 (AE004054) conserved hypothetical protein [Xylella fastidiosa 9a5c]
Length = 476
Score = 112 bits (279), Expect = 5e-24
Identities = 76/228 (33%), Positives = 127/228 (55%), Gaps = 13/228 (5%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKR-LIKPLKNKK 65
R+++ LA SRR E+ + G +K+N + A+L VK D++ LD R + +
Sbjct: 28 RLHKVLAQAGLGSRRALEQRISNGLIKVNGDIAQLGMSVKSGDKIELDGRSFVASALTEP 87
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLSDSKAVV 124
VL+Y+KP+GE+ ++ DP R ++E+L K A + +GRLD + G+LLL+ +
Sbjct: 88 ARVLIYNKPEGEVTTREDPEGRPTVFETLPVLKGARWIAIGRLDINTTGLLLLTTDGELA 147
Query: 125 SALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 182
+A+MH +++E+EY+++++ + E E +Q+ L LE T+G + A F
Sbjct: 148 NAMMHPSSEIEREYVVRVR---SPEGEEHVQDEL-LEQLTRGVMLEDGT-----AKFDTI 198
Query: 183 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL 230
E I N + RV++ EG+NRE+RR + V L+R RYG V L
Sbjct: 199 ERIGNTDSHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGSVLL 246
>ref|NP_561996.1| (NC_003366) pseudouridylate synthase [Clostridium perfringens]
dbj|BAB80786.1| (AP003189) pseudouridylate synthase [Clostridium perfringens]
Length = 236
Score = 111 bits (278), Expect = 7e-24
Identities = 74/245 (30%), Positives = 135/245 (54%), Gaps = 21/245 (8%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHA-KLASVVKEN-DRVFLDKRLIKPLKNK 64
R+ +++A SRR+ E+++ G+VK+N L + V + D V ++ ++I+P +NK
Sbjct: 4 RLQKYMARCGVASRRKCEEIICSGKVKVNDTVVDSLGTKVDPSVDVVSVNNKVIRPEENK 63
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 124
+ +L +KP+G + + D R+ I + + K P+GRLD+ S G+LLL++ V
Sbjct: 64 VYIML--NKPEGYVTTNKDEKNRKTILD-IVKVNERIYPIGRLDYDSSGLLLLTNDGDVY 120
Query: 125 SALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 182
+ ++H +L KEY+ ++G T E N ++G+ + + K+ E
Sbjct: 121 NKIIHPRVNLNKEYIALVKGIFTEEEMNKFRKGVDIGD----------YKTAECE----I 166
Query: 183 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 242
E+++ + K+++II+EGKNR++RR A FN V+ L+R G + L L G+ R+L+
Sbjct: 167 ELLEKYTNSCKVKIIIHEGKNRQIRRMCAAFNHEVVSLKREAIGSLTLKNLKKGEWRYLS 226
Query: 243 RQEYN 247
E N
Sbjct: 227 SSEEN 231
>ref|NP_606662.1| (NC_003485) putative hypothetical protein [Streptococcus pyogenes
MGAS8232]
gb|AAL97161.1| (AE009983) putative hypothetical protein [Streptococcus pyogenes
MGAS8232]
Length = 248
Score = 111 bits (278), Expect = 7e-24
Identities = 77/261 (29%), Positives = 139/261 (52%), Gaps = 28/261 (10%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEH-AKLASVVKENDRVFLDKRLIKPLKNK 64
+RIN+++AH SRR+AE+L+ +G V +N + LA+ VK D V ++ P+ N+
Sbjct: 9 MRINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVVEIEG---SPIYNE 65
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 124
+ + +KP+G + S +D R+ + + L + PVGRLD+ + GVL+L++
Sbjct: 66 EKVYYLLNKPRGAISSVSDDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFT 125
Query: 125 SALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENA-TKGAHQKTPIKSMEFAPFIG 181
++H +++K YL +++G T+E + G+ ++ TK A
Sbjct: 126 DTMIHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPAR--------------- 170
Query: 182 YEIIKNHAKYSK--LRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMR 239
Y I++ A ++ + + I+EG+N ++++ F V L R R+G V+L L G+ R
Sbjct: 171 YNIVRVEADKNRSIVELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPGEAR 230
Query: 240 FLNRQEYNELHAFMANAANVK 260
LN++E ++LH N AN K
Sbjct: 231 RLNKKEISQLH----NLANTK 247
>ref|NP_346306.1| (NC_003028) ribosomal large subunit pseudouridine synthase B
[Streptococcus pneumoniae TIGR4]
ref|NP_359281.1| (NC_003098) Ribosomal large subunit pseudouridine synthase B
[Streptococcus pneumoniae R6]
gb|AAK75946.1| (AE007478) ribosomal large subunit pseudouridine synthase B
[Streptococcus pneumoniae TIGR4]
gb|AAL00492.1| (AE008534) Ribosomal large subunit pseudouridine synthase B
[Streptococcus pneumoniae R6]
Length = 240
Score = 109 bits (273), Expect = 3e-23
Identities = 70/250 (28%), Positives = 136/250 (54%), Gaps = 22/250 (8%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDRVFLDKRLIKPLKNK 64
+RIN+++AH SRR+AE+L+ +G V +N + + LA+ +K D+V ++ + P+ N+
Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQ---PIYNE 57
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 124
+ + +KP+G + S D R+ + + L PVGRLD+ + GVL+L++
Sbjct: 58 EKVYYLLNKPRGVISSVTDDKGRKTVVDLLPNVKERIYPVGRLDWDTSGVLILTNDGDFT 117
Query: 125 SALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 182
++H +++K Y+ +++G ++ + GL+++ G K + Y
Sbjct: 118 DEMIHPRNEIDKVYVARVKGVANKDNLRPLTRGLEID----GKKTKPAV----------Y 163
Query: 183 EIIKNHA--KYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRF 240
EI+K S +++ I+EG+N ++++ F V L R R+G ++L L G+ R
Sbjct: 164 EILKVDPVKNRSVVQLTIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRR 223
Query: 241 LNRQEYNELH 250
LN++E ++LH
Sbjct: 224 LNKKEISQLH 233
>ref|NP_214009.1| (NC_000918) hypothetical protein [Aquifex aeolicus]
sp|O67444|YE64_AQUAE Hypothetical protein AQ_1464
pir||B70427 conserved hypothetical protein aq_1464 - Aquifex aeolicus
gb|AAC07410.1| (AE000741) hypothetical protein [Aquifex aeolicus]
Length = 249
Score = 108 bits (269), Expect = 8e-23
Identities = 78/247 (31%), Positives = 128/247 (51%), Gaps = 18/247 (7%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNKK 65
+RIN+FL+ SRR+AEKL+LEGRVK+N E + VK N V + + KP+K ++
Sbjct: 4 VRINKFLSEAGVASRRKAEKLILEGRVKVNGEVVRSLG-VKVNPEVDIVEVDGKPVKPQR 62
Query: 66 FSVLVYHKPKGELVSKA-DPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 124
++ +KP L P R+ I E ++ PVGRLD+ +EG+L+L++ +
Sbjct: 63 KRYIILNKPCCYLTQLGRSPDGRKTIEELIKDIPERVFPVGRLDYNTEGLLILTNDGELA 122
Query: 125 SALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 182
+ ++H L K YL ++G V ++ M++G++LE+ FA
Sbjct: 123 NRILHPRYKLPKVYLALVEGKVDQKTLKRMKQGIELEDG--------------FAKPDNI 168
Query: 183 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 242
I++ K + L + +EG+ ++RF F V L+R+ G + L L GK R LN
Sbjct: 169 RIVRYEGKNTLLEITFHEGRKHLVKRFLGAFGHKVKRLKRIAIGPIKLGKLSPGKWRELN 228
Query: 243 RQEYNEL 249
+ E +L
Sbjct: 229 QGELAQL 235
>ref|NP_519407.1| (NC_003295) HYPOTHETICAL PROTEIN [Ralstonia solanacearum]
emb|CAD14988.1| (AL646063) HYPOTHETICAL PROTEIN [Ralstonia solanacearum]
Length = 598
Score = 107 bits (268), Expect = 1e-22
Identities = 76/248 (30%), Positives = 128/248 (50%), Gaps = 19/248 (7%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLI-KPLKNKK 65
++++ LA SRR+ E L+L+GRV +N A + + D+V ++ +LI + L +K
Sbjct: 215 KLHKILADAGLGSRRDMEDLILQGRVSVNGLPAHIGQRILPTDQVRVNGKLIQRKLPSKP 274
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLSDSKAVV 124
VL+YHKP GE+VS++DP R +++SL + K + VGRLDF +EG+L+ + S +
Sbjct: 275 PRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFNTEGLLIFTTSGDIA 334
Query: 125 SALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 182
+ MH +E+EY ++ G + + +G++L++ A F+
Sbjct: 335 NRFMHPRYGVEREYAVRTLGELPESDRQKLLQGIRLDDGE--------------ANFLRC 380
Query: 183 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYG-FVNLNALPVGKMRFL 241
V + EG+NRE+RR F N V L R RYG FV L G+ + +
Sbjct: 381 ADGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 440
Query: 242 NRQEYNEL 249
+ ++ L
Sbjct: 441 SAEDVRGL 448
>ref|NP_658579.1| (NC_003995) PseudoU_synth_2, RNA pseudouridylate synthase [Bacillus
anthracis A2012] [Bacillus anthracis str. A2012]
Length = 229
Score = 105 bits (263), Expect = 4e-22
Identities = 72/243 (29%), Positives = 124/243 (50%), Gaps = 25/243 (10%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNKK 65
++INQ+++ SRRE ++L+ GRV IN E ++V E D V +D ++I + +K
Sbjct: 1 MKINQYISEANSCSRRETDRLIKAGRVAINGEICTHGALVNEGDVVTIDGQVIAKEEKEK 60
Query: 66 FSVLVYHKPKGELVSKADPLKRRVI-YESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 124
+ +HKP G + A+ ++ +I Y + ++ PVGRLD ASEG++LL++ +
Sbjct: 61 V-YIAFHKPVGITCTAAEHIEGNIIDYINYPER---IFPVGRLDKASEGLILLTNDGGIA 116
Query: 125 SALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 182
+ ++H D EKEY++ + T N M G+K+++ + T +
Sbjct: 117 NQILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGITKPCKVTRVDK--------- 167
Query: 183 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 242
S R+++ +G NR++RR F V L+R R + LN L VGK R +
Sbjct: 168 ---------STCRIVLTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLEVGKWRDIT 218
Query: 243 RQE 245
+E
Sbjct: 219 AEE 221
>ref|NP_372017.1| (NC_002758) ribosomal large subunit pseudouridine synthase B
[Staphylococcus aureus subsp. aureus Mu50]
ref|NP_374607.1| (NC_002745) ribosomal large subunit pseudouridine synthase B
[Staphylococcus aureus subsp. aureus N315]
ref|NP_646264.1| (NC_003923) ribosomal large subunit pseudouridine synthase B
[Staphylococcus aureus subsp. aureus MW2]
dbj|BAB42586.1| (AP003134) ribosomal large subunit pseudouridine synthase B
[Staphylococcus aureus subsp. aureus N315]
dbj|BAB57655.1| (AP003362) ribosomal large subunit pseudouridine synthase B
[Staphylococcus aureus subsp. aureus Mu50]
dbj|BAB95312.1| (AP004827) ribosomal large subunit pseudouridine synthase B
[Staphylococcus aureus subsp. aureus MW2]
Length = 245
Score = 105 bits (262), Expect = 5e-22
Identities = 74/245 (30%), Positives = 132/245 (53%), Gaps = 24/245 (9%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHA-KLASVVKENDRVFLDKRLIKPLKNKK 65
R+ + +A+ SRR+AE L+ EG+VK+N +L + VK +D + ++ I+ L++K
Sbjct: 7 RLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIE-LEDKI 65
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125
+ +++HKP + S +D R V+ + + A PVGRLD+ + G+LLL++ +
Sbjct: 66 Y--ILFHKPTQVITSVSDDRGRTVVTDYFKDIEARIYPVGRLDYDTSGLLLLTNDGEFTN 123
Query: 126 ALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183
+ H ++K+Y+ K++G++ RE A+++G++LE+ G Q +K
Sbjct: 124 LMTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELED---GMTQPAEVK----------- 169
Query: 184 IIKNHAKYSK---LRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRF 240
+K K + + I EG+NR++RR F F V L R+ YG +N+ L G+ R
Sbjct: 170 -VKKQDKDKNTTLVEITITEGRNRQVRRMFEHFGHQVTKLSRIEYGPLNVVGLNAGEGRV 228
Query: 241 LNRQE 245
L E
Sbjct: 229 LTPHE 233
>ref|NP_251869.1| (NC_002516) conserved hypothetical protein [Pseudomonas aeruginosa]
pir||E83247 conserved hypothetical protein PA3179 [imported] - Pseudomonas
aeruginosa (strain PAO1)
gb|AAG06567.1|AE004742_3 (AE004742) conserved hypothetical protein [Pseudomonas aeruginosa]
Length = 386
Score = 104 bits (260), Expect = 8e-22
Identities = 77/249 (30%), Positives = 131/249 (51%), Gaps = 19/249 (7%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIK--PLKNK 64
++ + LA SRR+ E + EGRV +N A L V +D + +D LI+
Sbjct: 15 KLQKVLARLGVGSRRDVEVWIAEGRVNVNGSVASLGQRVDSHDAITVDGHLIRREEAAES 74
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLSDSKAV 123
VL+Y+KP+GE+ ++ DP R I++ L + + + VGRLD + G+LL + +
Sbjct: 75 VRRVLIYNKPEGEVCTRDDPEGRPTIFDRLPRLRTGRWINVGRLDINTTGLLLFTTDGEL 134
Query: 124 VSALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIG 181
+ LMH ++++EY ++++G VT EM + G+ LE+ P K + G
Sbjct: 135 ANRLMHPSYEMDREYAVRVRGEVTEEMIERLLNGVMLEDG--------PAKFSDIQQAPG 186
Query: 182 YEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNA-LPVGKMRF 240
E NH + ++ EG+NRE+RR + V L+RVR+G V L + L +G+ R
Sbjct: 187 GEGF-NHWYH----CVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLTSELTMGRYRE 241
Query: 241 LNRQEYNEL 249
++++E + L
Sbjct: 242 MDQREIDIL 250
>ref|NP_655377.1| (NC_003995) PseudoU_synth_2, RNA pseudouridylate synthase [Bacillus
anthracis A2012] [Bacillus anthracis str. A2012]
Length = 242
Score = 104 bits (259), Expect = 1e-21
Identities = 74/248 (29%), Positives = 131/248 (51%), Gaps = 18/248 (7%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDRVFLDKRLIKPLKNKK 65
R+ + +A SRR+AE+L+ +G+VK+N + K L + V D+V ++ PL+ ++
Sbjct: 3 RLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNI---PLEKEE 59
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125
+ +KP G + S +D R V+ + + P+GRLD+ + GVLL+++ +
Sbjct: 60 PVYFLLYKPTGVISSVSDDKGRSVVTDFSPEITQRLFPIGRLDYDTSGVLLMTNDGDFAN 119
Query: 126 ALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183
LMH +EK Y+ KI+G +T E ++ G+ LE+ K A + I S +
Sbjct: 120 VLMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVTLEDG-KTAPARVKIISWD-------- 170
Query: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243
+ + +++ I+EG+NR++RR F + V+ L+R RY F+ + +L G R L
Sbjct: 171 ---KRKEMAIVQLTIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTP 227
Query: 244 QEYNELHA 251
E +L A
Sbjct: 228 HEVKQLRA 235
>ref|NP_242442.1| (NC_002570) pseudouridylate synthase [Bacillus halodurans]
dbj|BAB05295.1| (AP001512) pseudouridylate synthase [Bacillus halodurans]
Length = 242
Score = 103 bits (256), Expect = 2e-21
Identities = 71/245 (28%), Positives = 129/245 (51%), Gaps = 16/245 (6%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNKKF 66
R+ + +A SRR+AE+L+LEG+VK+N + K + ++ ++ + K +
Sbjct: 3 RLQKVIAQAGIASRRKAEQLILEGKVKVNGQVVKELGIKVNPNQDDIEVEGVPVEKEEPV 62
Query: 67 SVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVSA 126
L+Y KP G + S D R+V+ + LE + + PVGRLD+ + G+LLL++ +
Sbjct: 63 YFLLY-KPTGVISSVKDDKGRKVVTDFLEIEQRVY-PVGRLDYDTSGLLLLTNDGEFANL 120
Query: 127 LMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYEI 184
LMH +EK Y+ K++G TR+ + G+KLE+ G +K +
Sbjct: 121 LMHPRHKIEKVYVAKVKGIPTRDQLKLLARGVKLED---GPTAPAKVKMLS--------- 168
Query: 185 IKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNRQ 244
+ + + +++ I+EG+NR++RR F V+ L+R ++ F++L+ + G +R L
Sbjct: 169 VDRRKQTAIVKLTIHEGRNRQVRRMFETIGCEVMKLKREQFAFLDLSGMNPGDVRPLKPI 228
Query: 245 EYNEL 249
E L
Sbjct: 229 EVKHL 233
>ref|NP_390197.1| (NC_000964) similar to hypothetical proteins [Bacillus subtilis]
sp|P35159|RLUB_BACSU Ribosomal large subunit pseudouridine synthase B (Pseudouridylate
synthase) (Uracil hydrolyase)
pir||S45555 conserved hypothetical protein ypuL - Bacillus subtilis
gb|AAA67493.1| (L09228) ORFX13 [Bacillus subtilis]
emb|CAB14248.1| (Z99116) similar to hypothetical proteins [Bacillus subtilis]
Length = 229
Score = 102 bits (255), Expect = 3e-21
Identities = 69/238 (28%), Positives = 128/238 (52%), Gaps = 18/238 (7%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHA-KLASVVKENDRVFLDKRLIKPLKNKK 65
R+ + +AH SR +AE+L+ EG+VK+N + +L V +D++ ++ +K + +
Sbjct: 3 RLQKVIAHAGVASRSKAEELIKEGKVKVNGKVVTELGVKVTGSDQIEVNG--LKVEREEP 60
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125
L+Y KP+G + + D R+V+ + + P+GRLD+ + G+LLL++ +
Sbjct: 61 VYFLLY-KPRGVISAAQDDKGRKVVTDFFKNIPQRIYPIGRLDYDTSGLLLLTNDGEFAN 119
Query: 126 ALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183
LMH +++K Y+ K++G +E+ ++ G++LE K A K + S++
Sbjct: 120 KLMHPKYEIDKTYVAKVKGIPPKELLRKLERGIRLEEG-KTAPAKAKLLSLD-------- 170
Query: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFL 241
+ S +++ I+EG+NR++RR F V+ L+R Y F+NL L G R L
Sbjct: 171 ---KKKQTSIIQLTIHEGRNRQVRRMFEAIGHEVIKLKREEYAFLNLRGLHTGDAREL 225
>ref|NP_267431.1| (NC_002662) pseudouridine synthase [Lactococcus lactis subsp.
lactis]
gb|AAK05373.1|AE006360_2 (AE006360) pseudouridine synthase [Lactococcus lactis subsp.
lactis]
Length = 257
Score = 102 bits (255), Expect = 3e-21
Identities = 71/249 (28%), Positives = 133/249 (52%), Gaps = 22/249 (8%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINH-EHAKLASVVKENDRVFLDKRLIKPLKNK 64
+RIN++LAH SRR+AE+L+L G+V +N+ L V D V ++ + N+
Sbjct: 19 MRINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDIVEVNGVAVY---NE 75
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 124
+ + +KP+G + S +D R+ + + + + PVGRLD+ + G+LLL++
Sbjct: 76 EPVYYLLNKPRGYISSVSDDKGRQTVMDLMPQVKERIYPVGRLDWDTSGLLLLTNDGEFT 135
Query: 125 SALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 182
+ + H ++K Y+ K++G +E + G+ +E + +P + Y
Sbjct: 136 NMMTHPRHGVDKVYVAKVEGQANKENLRPLTLGMTIEGK-----KVSPAR---------Y 181
Query: 183 EIIKNHA--KYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRF 240
EIIK +S + + I+EG+N ++++ FA V L R++YG + L+ LP G+ R
Sbjct: 182 EIIKQEKTKNHSIVSLTIHEGQNHQVKKMFAAAGLPVQKLSRIQYGSLTLDGLPTGQFRR 241
Query: 241 LNRQEYNEL 249
L+++E ++L
Sbjct: 242 LSKKEVSQL 250
>ref|NP_637570.1| (NC_003902) pseudouridylate synthase [Xanthomonas campestris pv.
campestris str. ATCC 33913]
gb|AAM41494.1| (AE012329) pseudouridylate synthase [Xanthomonas campestris pv.
campestris str. ATCC 33913]
Length = 492
Score = 102 bits (255), Expect = 3e-21
Identities = 70/228 (30%), Positives = 123/228 (53%), Gaps = 13/228 (5%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKR-LIKPLKNKK 65
R+++ LA SRR E+ + +G +K+N A+ V+ D++ LD R + +
Sbjct: 29 RLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQTGMSVRSGDKIELDGRSFVASALTES 88
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLSDSKAVV 124
VLVY+KP+GE+ ++ DP R ++ESL K + + +GRLD + G+LLL+ +
Sbjct: 89 SRVLVYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGELA 148
Query: 125 SALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 182
+A+MH ++E+EY+++++ E E + + + +E ++G + A F
Sbjct: 149 NAMMHPSYEVEREYVVRVRA---PEGEEKVPDSM-IERLSRGV-----LLEDGGAKFDEI 199
Query: 183 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL 230
E I + RV++ EG+NRE+RR + V L+R RYG V+L
Sbjct: 200 ERIGGTDSHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGKVSL 247
>ref|NP_642635.1| (NC_003919) pseudouridylate synthase [Xanthomonas axonopodis pv.
citri str. 306]
gb|AAM37171.1| (AE011869) pseudouridylate synthase [Xanthomonas axonopodis pv.
citri str. 306]
Length = 550
Score = 100 bits (250), Expect = 1e-20
Identities = 68/228 (29%), Positives = 123/228 (53%), Gaps = 13/228 (5%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKR-LIKPLKNKK 65
R+++ LA SRR E+ + +G +K+N A+ V+ D++ LD R + +
Sbjct: 29 RLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQTGMSVRSGDKIELDGRSFVASALTEP 88
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLSDSKAVV 124
VL+Y+KP+GE+ ++ DP R ++ESL K + + +GRLD + G+LLL+ +
Sbjct: 89 SRVLIYNKPEGEVTTREDPEGRPTVFESLPVLKGSRWIAIGRLDINTTGLLLLTTDGELA 148
Query: 125 SALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 182
+A+MH ++E+EY+++++ E E + + + +E ++G + A F
Sbjct: 149 NAMMHPSYEVEREYVVRVRA---PEGEEKVSDAI-IERLSRGV-----LLEDGGAKFDEI 199
Query: 183 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL 230
E I + RV++ EG+NRE+RR + V L+R RYG ++L
Sbjct: 200 ERIGGTDSHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISL 247
>ref|NP_231854.1| (NC_002505) pseudouridine synthase family 1 protein [Vibrio
cholerae]
pir||C82103 pseudouridine synthase family 1 protein VC2223 [imported] - Vibrio
cholerae (group O1 strain N16961)
gb|AAF95367.1| (AE004294) pseudouridine synthase family 1 protein [Vibrio
cholerae]
Length = 340
Score = 100 bits (249), Expect = 2e-20
Identities = 70/257 (27%), Positives = 130/257 (50%), Gaps = 26/257 (10%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNKKF 66
R+N+F++ SRREA+KL+ +GRV +N ++ S V E D V +D KPL++K+
Sbjct: 20 RLNKFISETGYCSRREADKLIEQGRVTLNGLQPEVGSKVTEQDEVCIDG---KPLRSKER 76
Query: 67 SVLV-YHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125
+ + +KP G + + ++ + P+GRLD S+G++ L++ +V+
Sbjct: 77 PIYIALNKPTGITCTTERDVPGNIV--DFIGHHKRIFPIGRLDKPSDGLIFLTNDGDIVN 134
Query: 126 ALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183
++ A + EKEY++++ +T E M G+ + + P K
Sbjct: 135 KILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVT-----LPCK----------- 178
Query: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243
+ +YS R+++ +G NR++RR V LRRVR + L+ +P GK R+L+
Sbjct: 179 -VTQETQYS-FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSE 236
Query: 244 QEYNELHAFMANAANVK 260
E +E+ A +++ +
Sbjct: 237 AEVSEILAMCEDSSGTE 253
>ref|NP_348475.1| (NC_003030) Predicted pseudouridylate synthase [Clostridium
acetobutylicum]
gb|AAK79815.1|AE007694_1 (AE007694) Predicted pseudouridylate synthase [Clostridium
acetobutylicum]
Length = 236
Score = 100 bits (248), Expect = 2e-20
Identities = 73/250 (29%), Positives = 130/250 (51%), Gaps = 23/250 (9%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLAS--VVKENDRVFLDKRLIKPLKNK 64
R+ +++A SRR+ EK++ +GRVK+N V + D + LD + IK K
Sbjct: 4 RLQKYMAECGVASRRKCEKMIQDGRVKVNGTIVTELGFKVDYKKDTIELDNKEIKLEDKK 63
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 124
+++L +KPKG L + +D R+ + + L K F PVGRLDF + G+L++++ +
Sbjct: 64 VYAIL--NKPKGYLTAASDYRGRKTVIDLLNFKERVF-PVGRLDFNTTGLLIVTNDGEIF 120
Query: 125 SALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLEN-ATKGAHQKTPIKSMEFAPFIG 181
+ +MH ++ K YL ++G + +A+++G+ + TK A
Sbjct: 121 NRIMHPRQNVNKCYLATVKGKPQFKHLDALRKGIDIGGYITKEAE--------------- 165
Query: 182 YEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFL 241
++ K S L+++I+EGK R++RR A V +L+R+ G + L L G +R L
Sbjct: 166 VSVVSFDGKNSILKIVIHEGKKRQVRRMCAAVGFPVEELKRISIGNIKLGDLKEGNVRML 225
Query: 242 NRQEYNELHA 251
N++E L +
Sbjct: 226 NKEEIEYLRS 235
>ref|NP_622950.1| (NC_003869) 16S rRNA uridine-516 pseudouridylate synthase and
related Pseudouridylate synthase [Thermoanaerobacter
tengcongensis]
gb|AAM24554.1| (AE013093) 16S rRNA uridine-516 pseudouridylate synthase and
related Pseudouridylate synthase [Thermoanaerobacter
tengcongensis]
Length = 236
Score = 99.8 bits (247), Expect = 3e-20
Identities = 73/248 (29%), Positives = 130/248 (51%), Gaps = 21/248 (8%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKL--ASVVKENDRVFLDKRLIKPLKN 63
+R+ ++LA SRR+ E+ +L+GRVK+N + K + + D + D ++++ +
Sbjct: 2 VRLQKYLAECGIASRRKCEEYILQGRVKVNGKVVKELGTKIDPDVDIIEFDDKIVRR-EE 60
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAV 123
KK +++Y KP G + S DP R + + ++ K + PVGRLDF + G+LLL++ +
Sbjct: 61 KKVYIMLY-KPAGYITSVKDPFGRPTVLDLVKVKERIY-PVGRLDFDTSGLLLLTNDGEL 118
Query: 124 VSALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIG 181
+ LMH ++ K Y+ KI+G T+E + GL ++ K A K I +
Sbjct: 119 ANILMHPKHEIVKTYVAKIKGIPTKEEMERFENGLIIDGR-KTAKAKIRILN-------- 169
Query: 182 YEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFL 241
+KN S + + I+EG+NR++++ V+ L+R + G + L L G+ R+L
Sbjct: 170 ---VKNGT--SVVEIQIHEGRNRQVKKMCKAIGHPVIALKRTKIGELELKGLKPGEWRYL 224
Query: 242 NRQEYNEL 249
E L
Sbjct: 225 TEDEIRYL 232
>gb|AAK38326.1| (AY028464) hypothetical pseudouridine synthase [Flavobacterium
johnsoniae]
Length = 304
Score = 99.4 bits (246), Expect = 4e-20
Identities = 76/254 (29%), Positives = 131/254 (50%), Gaps = 28/254 (11%)
Query: 1 MEGFSLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKP 60
ME R+N+F+ SRREA+KL+ EGRV IN A++ + V +D + +D +LI
Sbjct: 1 MEENLKRLNKFIGETGYCSRREADKLIEEGRVTINGAAAEMGTKVSSDDEIRIDGKLIVE 60
Query: 61 LKNKKFSVLVYHKPKG-ELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSD 119
K++K L ++KP G E + + V Y + K+ P+GRLD ASEG++ +++
Sbjct: 61 -KHEKLVYLAFNKPVGIECTTNLEVKNNIVDYINYPKR---IFPIGRLDKASEGLIFMTN 116
Query: 120 SKAVVSALMHA--DLEKEYLIKIQGFVTREMENAMQEGLK-LENATKGAHQKTPIKSMEF 176
+V+ ++ A + EKEY + + +T M G+ L+ TK
Sbjct: 117 DGDIVNKILRARNNHEKEYTVTVNKPITERFIQRMGNGVPILDTVTKKCK---------- 166
Query: 177 APFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVG 236
++ +KY+ ++I+ +G NR++RR + V L+R+R ++L+ +PVG
Sbjct: 167 --------VEQISKYT-FKIILTQGLNRQIRRMSEYLGYEVTALKRIRIINISLD-VPVG 216
Query: 237 KMRFLNRQEYNELH 250
+ R L E EL+
Sbjct: 217 RYRDLTDAEIKELN 230
>ref|NP_643120.1| (NC_003919) pseudouridylate synthase [Xanthomonas axonopodis pv.
citri str. 306]
gb|AAM37656.1| (AE011922) pseudouridylate synthase [Xanthomonas axonopodis pv.
citri str. 306]
Length = 240
Score = 99.0 bits (245), Expect = 5e-20
Identities = 76/252 (30%), Positives = 125/252 (49%), Gaps = 27/252 (10%)
Query: 5 SLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDK-----RLIK 59
++R+N+++A SRREA++L+ E RV +N A +VV E D V +D R K
Sbjct: 2 TIRLNKYIAETGFCSRREADRLIGERRVTVNGVPAGTGAVVGEEDTVLVDDQPLRIREAK 61
Query: 60 PLKNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSD 119
L +K + +KP G + +K ++ E + + F P+GRLD SEG++L++
Sbjct: 62 KLGGRKHVYIALNKPVGITCTTESSVKGNIV-EFVGHEQRIF-PIGRLDKDSEGLILMTS 119
Query: 120 SKAVVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFA 177
+ +V+ ++ A+ +KEYL+ + VT E M G+++ N T P ++ A
Sbjct: 120 NGNIVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRIHNET-----TLPCRTARIA 174
Query: 178 PFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGK 237
F R+++ +G NR++R A F V LRRVR + L AL G+
Sbjct: 175 KF-------------GFRIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQ 221
Query: 238 MRFLNRQEYNEL 249
R L+ E L
Sbjct: 222 WRNLSDAELRGL 233
>ref|NP_661379.1| (NC_002932) ribosomal small subunit pseudouridine synthase A
[Chlorobium tepidum TLS]
gb|AAM71721.1| (AE012824) ribosomal small subunit pseudouridine synthase A
[Chlorobium tepidum TLS]
Length = 247
Score = 98.6 bits (244), Expect = 6e-20
Identities = 78/249 (31%), Positives = 127/249 (50%), Gaps = 21/249 (8%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLAS--VVKENDRVFLDKRLIKPLKN 63
+RIN++LA SRR A++LVLEG+V +N A V ND V +D RL+ +
Sbjct: 10 VRINKYLAMCGVASRRAADQLVLEGKVSVNGHIADEPGFKVDPRNDEVIVDGRLMATPEA 69
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAV 123
+K +L ++KP+ + + D R+ I + ++ F PVGRLD S G+LLL++ +
Sbjct: 70 RKVYIL-FNKPRNVITTNHDERDRQQILDFIDVPERVF-PVGRLDRKSTGLLLLTNDGTL 127
Query: 124 VSALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIG 181
LMH + ++KEYL + M + G++L++ + +P ++ G
Sbjct: 128 AHRLMHPSSQVQKEYLAALDAKFPPAMLQKLTGGMRLKDT---GEKVSPCRAKILDD--G 182
Query: 182 YEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFL 241
++ V I+EGKN ++RR F+ V L RV Y + L L G+ RFL
Sbjct: 183 MSVL----------VSIHEGKNHQVRRMFSTLGFEVKRLDRVAYAGLTLGELRRGEWRFL 232
Query: 242 NRQEYNELH 250
+R E +L+
Sbjct: 233 SRNEVEKLY 241
>ref|NP_418446.1| (NC_000913) orf, hypothetical protein [Escherichia coli K12]
sp|P32684|YJBC_ECOLI Hypothetical protein yjbC
pir||E65209 hypothetical 32.5 kD protein in pepe-lysc intergenic region -
Escherichia coli (strain K-12)
gb|AAC43116.1| (U00006) No definition line found [Escherichia coli]
gb|AAC76992.1| (AE000475) orf, hypothetical protein [Escherichia coli K12]
Length = 290
Score = 98.2 bits (243), Expect = 8e-20
Identities = 74/257 (28%), Positives = 132/257 (50%), Gaps = 24/257 (9%)
Query: 5 SLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNK 64
S+R+N++++ SRREA++ + +G V +N + A + VK D V ++ +LI+P + +
Sbjct: 6 SVRLNKYISESGICSRREADRYIEQGNVFLNGKRATIGDQVKPGDVVKVNGQLIEPREAE 65
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 124
++ +KP G +VS + +R I + + F P+GRLD S+G++ L++ +V
Sbjct: 66 DLVLIALNKPVG-IVSTTEDGERDNIVDFVNHSKRVF-PIGRLDKDSQGLIFLTNHGDLV 123
Query: 125 SALMHA--DLEKEYLIKIQGFVTREMENAMQEGLK-LENATKGAHQKTPIKSMEFAPFIG 181
+ ++ A D EKEYL+ + +T E M G+ L TK K + APF+
Sbjct: 124 NKILRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPILGTVTK------KCKVKKEAPFV- 176
Query: 182 YEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFL 241
R+ + +G NR++RR F V L R R V+L+ +P+G+ R L
Sbjct: 177 ------------FRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDL 224
Query: 242 NRQEYNELHAFMANAAN 258
E +L + N+++
Sbjct: 225 TDDELIDLFKLIENSSS 241
>ref|NP_405754.1| (NC_003143) putative RNA pseudouridylate synthase-family protein
[Yersinia pestis]
emb|CAC91019.1| (AJ414151) putative RNA pseudouridylate synthase-family protein
[Yersinia pestis]
Length = 318
Score = 97.8 bits (242), Expect = 1e-19
Identities = 75/251 (29%), Positives = 127/251 (49%), Gaps = 22/251 (8%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVK--ENDRVFLDKRL--IKPLK 62
++ + LA SRRE E ++ +GRV ++ + +KL V+ ++ ++ LD L IK +
Sbjct: 4 KLQKILARAGHGSRREIEAIIQQGRVSVDGKVSKLGDRVEVTQSTKIRLDGHLLSIKESE 63
Query: 63 NKKFSVLVYHKPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLSDSK 121
VL Y+KP+GEL ++ DP R +++ L K + + + VGRLD + G+LL +
Sbjct: 64 ENVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTDG 123
Query: 122 AVVSALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
+ + LMH ++E+EY +++ G + + + G++LE+ + +
Sbjct: 124 ELANRLMHPSREVEREYAVRVFGQIDDDKIKQLSRGVQLEDGPA---------AFRTISY 174
Query: 180 IGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL-NALPVGKM 238
G E I V + EG+NRE+RR + V L RVRYG +NL LP G
Sbjct: 175 QGGEGINQW-----YNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGW 229
Query: 239 RFLNRQEYNEL 249
L+ + N L
Sbjct: 230 TELDLKATNYL 240
>ref|NP_660618.1| (NC_004061) hypothetical 30.2 kD protein in trpA 3' region
[Buchnera aphidicola str. Sg (Schizaphis graminum)]
gb|AAM67829.1| (AE014103) hypothetical 30.2 kD protein in trpA 3' region [Buchnera
aphidicola str. Sg (Schizaphis graminum)]
Length = 257
Score = 97.1 bits (240), Expect = 2e-19
Identities = 72/243 (29%), Positives = 122/243 (49%), Gaps = 19/243 (7%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKEND--RVFLDKRLIKPLKNK 64
+I + L+ SRR E ++ G++ IN E A + + + + + +DK+ I +NK
Sbjct: 4 KIQKILSDLGYGSRRFIECMIKCGKISINGEKAIIGQYLNKKNPGEILIDKKKIIVKRNK 63
Query: 65 KF-SVLVYHKPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLSDSKA 122
VL+Y+KP GE+ ++ D KR +++ L K + VGRLD ++G+LL ++
Sbjct: 64 NLPKVLIYNKPIGEVCTRDDFQKRLTVFDKLPKLNLNRWVSVGRLDINTKGLLLFTNDGT 123
Query: 123 VVSALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFI 180
+ + LMH + +E+EY I+I G + + N +++G+K+ + + P+
Sbjct: 124 LANKLMHPRSQIEREYNIRIFGEMNKNKINILRKGVKIIHGYVSFKEIVPLYD------- 176
Query: 181 GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL-NALPVGKMR 239
K K + I+ EGKNRE+R F V L RVRYG + L L G+
Sbjct: 177 -----KKEGKNKWFKGILCEGKNREIRLMFKSIQCQVNQLIRVRYGNIILPKNLKEGQWM 231
Query: 240 FLN 242
LN
Sbjct: 232 MLN 234
>ref|NP_290656.1| (NC_002655) orf, hypothetical protein [Escherichia coli O157:H7
EDL933]
ref|NP_313032.1| (NC_002695) hypothetical protein [Escherichia coli O157:H7]
gb|AAG59221.1|AE005635_1 (AE005635) orf, hypothetical protein [Escherichia coli O157:H7
EDL933]
dbj|BAB38428.1| (AP002567) hypothetical protein [Escherichia coli O157:H7]
Length = 290
Score = 96.7 bits (239), Expect = 2e-19
Identities = 74/257 (28%), Positives = 132/257 (50%), Gaps = 24/257 (9%)
Query: 5 SLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNK 64
S+R+N++++ SRREA++ + +G V +N + A + VK D V ++ +LI+P + +
Sbjct: 6 SVRLNKYISESGICSRREADRYIEQGNVFLNGKRATIGDQVKPGDVVKVNGQLIEPREAE 65
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 124
++ +KP G +VS + +R I + + F P+GRLD S+G++ L++ +V
Sbjct: 66 DLVLIALNKPVG-IVSTTEDGERDNIVDFVNHSKRVF-PIGRLDKDSQGLIFLTNHGDLV 123
Query: 125 SALMHA--DLEKEYLIKIQGFVTREMENAMQEGLK-LENATKGAHQKTPIKSMEFAPFIG 181
+ ++ A D EKEYL+ + +T E M G+ L TK K + APF+
Sbjct: 124 NKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTK------KCKVKKEAPFV- 176
Query: 182 YEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFL 241
R+ + +G NR++RR F V L R R V+L+ +P+G+ R L
Sbjct: 177 ------------FRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDL 224
Query: 242 NRQEYNELHAFMANAAN 258
E +L + N+++
Sbjct: 225 TDDELIDLFKLIENSSS 241
>ref|NP_245598.1| (NC_002663) unknown [Pasteurella multocida]
gb|AAK02745.1| (AE006102) unknown [Pasteurella multocida]
Length = 345
Score = 96.7 bits (239), Expect = 2e-19
Identities = 75/262 (28%), Positives = 133/262 (50%), Gaps = 22/262 (8%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKEND--RVFLDKRLIKPLKNK 64
++ + LA + SRRE E ++ E RV ++ + A L + + ++ +D LI L +
Sbjct: 65 KLQKVLARAGQGSRREIEAMIAENRVSVDGKIATLGDRIDVHAGVKIRIDGHLINLLHAQ 124
Query: 65 K--FSVLVYHKPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLSDSK 121
K VL+Y+KP+GEL ++ DP R +++ L + + + VGRLD + G+LL +
Sbjct: 125 KEVCRVLMYYKPEGELCTRHDPEGRPTVFDRLPRLTGSRWIAVGRLDINTSGLLLFTTDG 184
Query: 122 AVVSALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
+ + LMH ++E+EY +++ G V M + +++G++LE+ K ++FA
Sbjct: 185 ELANRLMHPSREVEREYSVRVFGQVDEAMLHRLKKGVQLEDGPAN------FKEIKFAGG 238
Query: 180 IGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL-NALPVGKM 238
+G V + EG+NRE+RR + V L R RYG ++L +LP G
Sbjct: 239 VGMN--------QWFDVTLMEGRNREVRRLWESQGVQVSRLIRTRYGNISLMKSLPRGGW 290
Query: 239 RFLNRQEYNELHAFMANAANVK 260
++ N L + A V+
Sbjct: 291 EEMDLTNVNYLRELVGLPAEVE 312
>ref|NP_471397.1| (NC_003212) similar to unknown proteins [Listeria innocua]
emb|CAC97293.1| (AL596170) similar to unknown proteins [Listeria innocua]
Length = 244
Score = 95.1 bits (235), Expect = 7e-19
Identities = 68/246 (27%), Positives = 127/246 (50%), Gaps = 18/246 (7%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHA-KLASVVKENDRVFLDKRLIKPLKNKK 65
R+ + +A+ SRR+AEKL+ EG+V +N + +L V +R+ ++ + +++
Sbjct: 3 RLQKVIANAGVTSRRKAEKLIQEGKVTVNGKVVTELGVKVSGTERIEVEGIQLTKEEHRY 62
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125
F +++KP+G + + D R + + PVGRLD+ + G+LL+++ +
Sbjct: 63 F---LFYKPRGTVSAVTDDKGRTTVADYFTDIPERLYPVGRLDYDTSGLLLMTNDGDFAN 119
Query: 126 ALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183
LMH ++ K Y+ +I+G RE+ ++ G+ ++ K A K ++S + A
Sbjct: 120 LLMHPKNEVSKTYIARIKGIPEREVIRELERGVVIDGR-KTAPAKVKVRSSDKA------ 172
Query: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243
K+ A + + I+EG+NR++R+ F V L R Y F+NL L G+ R L+
Sbjct: 173 --KDKAI---VEITIHEGRNRQVRKMFEAVGFEVQKLAREEYSFLNLRGLNAGERRELSH 227
Query: 244 QEYNEL 249
E +L
Sbjct: 228 HEVKQL 233
>ref|NP_458512.1| (NC_003198) putative pseudouridine synthase [Salmonella enterica
subsp. enterica serovar Typhi]
emb|CAD09198.1| (AL627282) putative pseudouridine synthase [Salmonella enterica
subsp. enterica serovar Typhi]
Length = 289
Score = 94.7 bits (234), Expect = 9e-19
Identities = 74/257 (28%), Positives = 129/257 (49%), Gaps = 24/257 (9%)
Query: 5 SLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNK 64
S R+N++++ SRREA++ + +G V IN + A + V D V ++ RLI+P +
Sbjct: 6 STRLNKYISESGICSRREADRFIEQGNVFINGKRAAIGDQVVAGDVVKVNGRLIEPREAD 65
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 124
++ +KP G +VS + +R I + + F P+GRLD S+G++ L++ +V
Sbjct: 66 DLVLIALNKPVG-IVSTTEDGERDNIVDFVNHSKRIF-PIGRLDKDSQGLIFLTNHGDLV 123
Query: 125 SALMHA--DLEKEYLIKIQGFVTREMENAMQEGLK-LENATKGAHQKTPIKSMEFAPFIG 181
+ ++ A D EKEYL+ + +T E M G+ L TK K + APF+
Sbjct: 124 NKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTK------KCKVKKEAPFV- 176
Query: 182 YEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFL 241
R+ + +G NR++RR +F V L R R V+L+ +P+G+ R L
Sbjct: 177 ------------FRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDL 224
Query: 242 NRQEYNELHAFMANAAN 258
E +L + +++
Sbjct: 225 TDDELIDLFKLIEGSSS 241
>ref|NP_463058.1| (NC_003197) putative pseudouridine synthase [Salmonella typhimurium
LT2]
gb|AAL23017.1| (AE008896) putative pseudouridine synthase [Salmonella typhimurium
LT2]
Length = 289
Score = 94.7 bits (234), Expect = 9e-19
Identities = 74/257 (28%), Positives = 129/257 (49%), Gaps = 24/257 (9%)
Query: 5 SLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNK 64
S R+N++++ SRREA++ + +G V IN + A + V D V ++ RLI+P +
Sbjct: 6 STRLNKYISESGICSRREADRFIEQGNVFINGKRAAIGDQVVAGDIVKVNGRLIEPREAD 65
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 124
++ +KP G +VS + +R I + + F P+GRLD S+G++ L++ +V
Sbjct: 66 DLVLIALNKPVG-IVSTTEDGERDNIVDFVNHSKRIF-PIGRLDKDSQGLIFLTNHGDLV 123
Query: 125 SALMHA--DLEKEYLIKIQGFVTREMENAMQEGLK-LENATKGAHQKTPIKSMEFAPFIG 181
+ ++ A D EKEYL+ + +T E M G+ L TK K + APF+
Sbjct: 124 NKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTK------KCKVKKEAPFV- 176
Query: 182 YEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFL 241
R+ + +G NR++RR +F V L R R V+L+ +P+G+ R L
Sbjct: 177 ------------FRITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDL 224
Query: 242 NRQEYNELHAFMANAAN 258
E +L + +++
Sbjct: 225 TDDELIDLFKLIERSSS 241
>ref|NP_563229.1| (NC_003366) conserved hypothetical protein [Clostridium
perfringens]
dbj|BAB82019.1| (AP003193) conserved hypothetical protein [Clostridium perfringens]
Length = 301
Score = 94.7 bits (234), Expect = 9e-19
Identities = 69/259 (26%), Positives = 129/259 (49%), Gaps = 28/259 (10%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNKK 65
+R+N++++ SRREA+KL+ +GRVKI+ A V V +D + +K +
Sbjct: 63 VRLNKYISETGFCSRREADKLIEQGRVKIDGVKATTGMKVSNGQSVSIDGKSLKV--ENE 120
Query: 66 FSVLVYHKPKGELVSKADPLKRRVI-YESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 124
+ +KP G + +K ++ + + EK+ P+GRLD S+G++ +++ +V
Sbjct: 121 LVYIALNKPVGITCTTESKIKGNIVDFINHEKR---IFPIGRLDKDSQGLIFMTNDGDIV 177
Query: 125 SALMHA--DLEKEYLIKIQGFVTREMENAMQEGLK-LENATKGAHQKTPIKSMEFAPFIG 181
+ ++ A + EKEY++ + +T E M G+ L TK
Sbjct: 178 NKILRAGNNHEKEYIVTVNKPITDEFIKGMSNGVPILGTVTKKC---------------- 221
Query: 182 YEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFL 241
++K +K S R+I+ +G NR++RR +F V L R+R V+L L +G R+L
Sbjct: 222 --LVKKESKNS-FRIILTQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKMGSWRYL 278
Query: 242 NRQEYNELHAFMANAANVK 260
++E E++ N++ +
Sbjct: 279 TKKELAEINRLTENSSKTE 297
>ref|NP_637988.1| (NC_003902) pseudouridylate synthase [Xanthomonas campestris pv.
campestris str. ATCC 33913]
gb|AAM41912.1| (AE012376) pseudouridylate synthase [Xanthomonas campestris pv.
campestris str. ATCC 33913]
Length = 240
Score = 94.0 bits (232), Expect = 1e-18
Identities = 75/250 (30%), Positives = 124/250 (49%), Gaps = 27/250 (10%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNKKF 66
R+N+ +A SRREA++L+ E RV +N A +VV E+D V +D + ++ + KK
Sbjct: 4 RLNKHIAETGFCSRREADRLIGERRVTVNGVIAGTGAVVGEDDTVLVDGQPLRVREAKKP 63
Query: 67 SV-----LVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSK 121
+ +KP G + +K ++ E + + F P+GRLD SEG++L++ +
Sbjct: 64 GTRRHVYIALNKPVGITSTTESSVKGNIV-EFVGHEQRIF-PIGRLDKDSEGLILMTSNG 121
Query: 122 AVVSALMHADL--EKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
+V+ ++ A+ +KEYL+ + VT E M G++L + T P ++ A F
Sbjct: 122 NIVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRLHDETT-----LPCRTARIAKF 176
Query: 180 IGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMR 239
R+++ +G NR++R A F V LRRVR + L AL G+ R
Sbjct: 177 -------------GFRIVLEQGLNRQIRLMAAAFGFRVTQLRRVRIDNIKLAALKPGQWR 223
Query: 240 FLNRQEYNEL 249
L QE L
Sbjct: 224 NLTDQELQGL 233
>ref|NP_465473.1| (NC_003210) similar to unknown proteins [Listeria monocytogenes
EGD-e]
emb|CAD00027.1| (AL591981) similar to unknown proteins [Listeria monocytogenes]
Length = 244
Score = 94.0 bits (232), Expect = 1e-18
Identities = 67/246 (27%), Positives = 126/246 (50%), Gaps = 18/246 (7%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHA-KLASVVKENDRVFLDKRLIKPLKNKK 65
R+ + +A+ SRR+AEKL+ EG+V +N + +L V +R+ ++ + +++
Sbjct: 3 RLQKVIANAGITSRRKAEKLIQEGKVTVNGKVVTELGVKVSGTERIEVEGIQLTKEEHRY 62
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125
F +++KP+G + + D R + + PVGRLD+ + G+LL+++ +
Sbjct: 63 F---LFYKPRGTVSAVTDDKGRTTVADYFADIPERLYPVGRLDYDTSGLLLMTNDGDFAN 119
Query: 126 ALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183
LMH ++ K Y+ +I+G RE+ ++ G+ ++ K A K ++S +
Sbjct: 120 LLMHPKNEVSKTYIARIKGIPEREVIRQLERGVVIDGR-KTAPAKVKVRSSD-------- 170
Query: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243
K K + + + I+EG+NR++R+ F V L R Y F+NL L G+ R L+
Sbjct: 171 --KTKDK-AIVEITIHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELSH 227
Query: 244 QEYNEL 249
E +L
Sbjct: 228 HEVKQL 233
>ref|NP_212263.1| (NC_001318) conserved hypothetical protein [Borrelia burgdorferi]
sp|O51155|Y129_BORBU Hypothetical protein BB0129
pir||A70116 conserved hypothetical protein BB0129 - Lyme disease spirochete
gb|AAC66508.1| (AE001124) conserved hypothetical protein [Borrelia burgdorferi]
Length = 249
Score = 93.6 bits (231), Expect = 2e-18
Identities = 67/248 (27%), Positives = 124/248 (49%), Gaps = 23/248 (9%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLI--KPLKNK 64
R++ FLA SRR E+L+ + V++N+ AKL V DR+ K++ K +
Sbjct: 8 RVHVFLAEKGVGSRRFCEELIRKKLVRVNNTIAKLGDKVTLGDRIIYKKQIFVFKDFQIN 67
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFA-PVGRLDFASEGVLLLSDSKAV 123
L +KP+ L S D R++ ++ + +GRLDF S G+LL ++
Sbjct: 68 NRIYLALNKPRNYLCSNFDVDGRKLAISLVQPLFKERVFSIGRLDFKSSGLLLFTNDGKF 127
Query: 124 VSALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIG 181
+ ++H +E+EY+I+ + + + + + G+K++ EF
Sbjct: 128 ANDIIHPRQKVEREYIIESKKDIDENLLISFKSGIKVKK--------------EFFKLKS 173
Query: 182 YEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFL 241
YEI+ ++ R+I++EGKNRE+R+ F N + + R+R G +NL++L G+++ +
Sbjct: 174 YEILNKNSA----RLILDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDSLKEGQVKIV 229
Query: 242 NRQEYNEL 249
+ N L
Sbjct: 230 PLSKINSL 237
>ref|NP_268397.1| (NC_002662) ribosomal small subunit pseudouridine synthase A
[Lactococcus lactis subsp. lactis]
gb|AAK06338.1|AE006453_2 (AE006453) ribosomal small subunit pseudouridine synthase A
[Lactococcus lactis subsp. lactis]
Length = 273
Score = 92.8 bits (229), Expect = 3e-18
Identities = 79/250 (31%), Positives = 129/250 (51%), Gaps = 16/250 (6%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLA--SVVKENDRVFLDKRLIKPLKN 63
+R+++FLA SR E + L+ +GRV + E + V K + +V D + L
Sbjct: 32 MRLDKFLAESGLGSRSEVKILLKKGRVTVAGEVQRDGRFQVDKNSRQVAFDGEI---LDY 88
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAH-FAPVGRLDFASEGVLLLSDSKA 122
+++ + +KP+G + + D L + V+ EK + PVGRLD +EG+L+L++ A
Sbjct: 89 QEYYYYLLNKPQGLVSATKDNLFKTVVQLLSEKDFREDIFPVGRLDKNTEGLLILTNDGA 148
Query: 123 VVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFI 180
+ L +EKEY +I G VT E+ N EGL L+N K + I+++
Sbjct: 149 LGHDLTQPKKHVEKEYFARIDGKVTDEIVNKFAEGLTLKNGEKARPGELFIENI------ 202
Query: 181 GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNA-LPVGKMR 239
YE S++RVII+EGK +++R F VL L+R+R G + L++ L +G R
Sbjct: 203 -YEGESQSGWISEIRVIIHEGKFHQVKRMFEAVEMYVLYLKRIRMGNLALDSDLALGAYR 261
Query: 240 FLNRQEYNEL 249
L +E L
Sbjct: 262 PLTTEEIENL 271
>ref|NP_439355.1| (NC_000907) conserved hypothetical protein [Haemophilus influenzae
Rd]
sp|P45104|YCIL_HAEIN Protein HI1199
pir||A64169 hypothetical protein HI1199 - Haemophilus influenzae (strain Rd
KW20)
gb|AAC22853.1| (U32799) conserved hypothetical protein [Haemophilus influenzae Rd]
Length = 357
Score = 92.8 bits (229), Expect = 3e-18
Identities = 72/262 (27%), Positives = 130/262 (49%), Gaps = 22/262 (8%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKEND--RVFLDKRLIKPLKNK 64
++ + LA + SRRE E ++ GRV + + A L + + +V +D ++I +
Sbjct: 77 KLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQIINLSHTQ 136
Query: 65 K--FSVLVYHKPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLSDSK 121
K VL+Y+KP+GEL +++DP R +++ L + + + VGRLD + G+LL +
Sbjct: 137 KEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGSRWIAVGRLDINTSGLLLFTTDG 196
Query: 122 AVVSALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
+ + LMH ++E+EY +++ G V M +++G++LE+ K ++F
Sbjct: 197 ELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGLAN------FKEIKFTGG 250
Query: 180 IGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL-NALPVGKM 238
+G V + EG+NRE+RR + V L R+RYG + L LP G
Sbjct: 251 VGIN--------QWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGW 302
Query: 239 RFLNRQEYNELHAFMANAANVK 260
++ + N L + A +
Sbjct: 303 EEMDLENVNYLRELVGLPAETE 324
>ref|NP_415785.1| (NC_000913) orf, hypothetical protein [Escherichia coli K12]
sp|P37765|YCIL_ECOLI Hypothetical protein yciL
pir||H64874 probable pseudouridylate synthase yciL - Escherichia coli
dbj|BAA14806.1| (D90764) ORF_ID:o253#9; similar to [SwissProt Accession Number
P37765] [Escherichia coli]
dbj|BAA14821.1| (D90765) ORF_ID:o253#9; similar to [SwissProt Accession Number
P37765] [Escherichia coli]
gb|AAC74351.1| (AE000225) orf, hypothetical protein [Escherichia coli K12]
Length = 291
Score = 92.4 bits (228), Expect = 4e-18
Identities = 77/253 (30%), Positives = 127/253 (49%), Gaps = 22/253 (8%)
Query: 5 SLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKEND--RVFLDKRLIKPLK 62
S ++ + LA SRRE E ++ GRV ++ + AKL V+ ++ +D LI +
Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61
Query: 63 NKK--FSVLVYHKPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLSD 119
+ + VL Y+KP+GEL ++ DP R +++ L K + A + VGRLD + G+LL +
Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121
Query: 120 SKAVVSALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFA 177
+ + LMH ++E+EY +++ G V + G++LE+ K+++F+
Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDG------PAAFKTIKFS 175
Query: 178 PFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL-NALPVG 236
G N V + EG+NRE+RR + V L RVRYG + L LP G
Sbjct: 176 GGEGINQWYN--------VTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRG 227
Query: 237 KMRFLNRQEYNEL 249
L+ + N L
Sbjct: 228 GWTELDLAQTNYL 240
>gb|AAB59990.1| (U18111) ORF4 [Escherichia coli]
Length = 243
Score = 92.4 bits (228), Expect = 4e-18
Identities = 77/253 (30%), Positives = 127/253 (49%), Gaps = 22/253 (8%)
Query: 5 SLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKEND--RVFLDKRLIKPLK 62
S ++ + LA SRRE E ++ GRV ++ + AKL V+ ++ +D LI +
Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61
Query: 63 NKK--FSVLVYHKPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLSD 119
+ + VL Y+KP+GEL ++ DP R +++ L K + A + VGRLD + G+LL +
Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121
Query: 120 SKAVVSALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFA 177
+ + LMH ++E+EY +++ G V + G++LE+ K+++F+
Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDG------PAAFKTIKFS 175
Query: 178 PFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL-NALPVG 236
G N V + EG+NRE+RR + V L RVRYG + L LP G
Sbjct: 176 GGEGINQWYN--------VTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRG 227
Query: 237 KMRFLNRQEYNEL 249
L+ + N L
Sbjct: 228 GWTELDLAQTNYL 240
>ref|NP_287930.1| (NC_002655) orf, hypothetical protein [Escherichia coli O157:H7
EDL933]
ref|NP_309868.1| (NC_002695) hypothetical protein [Escherichia coli O157:H7]
gb|AAG56546.1|AE005380_5 (AE005380) orf, hypothetical protein [Escherichia coli O157:H7
EDL933]
dbj|BAB35264.1| (AP002556) hypothetical protein [Escherichia coli O157:H7]
Length = 290
Score = 92.4 bits (228), Expect = 4e-18
Identities = 77/253 (30%), Positives = 127/253 (49%), Gaps = 22/253 (8%)
Query: 5 SLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKEND--RVFLDKRLIKPLK 62
S ++ + LA SRRE E ++ GRV ++ + AKL V+ ++ +D LI +
Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61
Query: 63 NKK--FSVLVYHKPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLSD 119
+ + VL Y+KP+GEL ++ DP R +++ L K + A + VGRLD + G+LL +
Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121
Query: 120 SKAVVSALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFA 177
+ + LMH ++E+EY +++ G V + G++LE+ K+++F+
Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDG------PAAFKTIKFS 175
Query: 178 PFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL-NALPVG 236
G N V + EG+NRE+RR + V L RVRYG + L LP G
Sbjct: 176 GGEGINQWYN--------VTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRG 227
Query: 237 KMRFLNRQEYNEL 249
L+ + N L
Sbjct: 228 GWTELDLAQTNYL 240
>sp|P42395|Y282_BUCAP HYPOTHETICAL PROTEIN BU282 HOMOLOG
pir||S36431 hypothetical protein - Buchnera aphidicola
emb|CAA79503.1| (Z19055) unknown open reading frame [Buchnera aphidicola]
Length = 258
Score = 92.4 bits (228), Expect = 4e-18
Identities = 72/244 (29%), Positives = 122/244 (49%), Gaps = 20/244 (8%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKEND--RVFLDKRLIKPLKNK 64
+I + L+ SRR E ++ G++ IN E A + + + + + +DK+ I +NK
Sbjct: 4 KIQKILSDLGYGSRRFIECMIKCGKISINGEKAIIGQYLNKKNPGEILIDKKKIIVKRNK 63
Query: 65 KF-SVLVYH-KPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLSDSK 121
VL+Y+ KP GE+ ++ D KR +++ L K + VGRLD ++G+LL ++
Sbjct: 64 NLPKVLIYNNKPIGEVCTRDDFQKRLTVFDKLPKLNLNRWVSVGRLDINTKGLLLFTNDG 123
Query: 122 AVVSALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
+ + LMH + +E+EY I+I G + + N +++G+K+ + + P+
Sbjct: 124 TLANKLMHPRSQIEREYNIRIFGEMNKNKINILRKGVKIIHGYVSFKEIVPLYD------ 177
Query: 180 IGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL-NALPVGKM 238
K K + I+ EGKNRE+R F V L RVRYG + L L G+
Sbjct: 178 ------KKEGKNKWFKGILCEGKNREIRLMFKSIQCQVNQLIRVRYGNIILPKNLKEGQW 231
Query: 239 RFLN 242
LN
Sbjct: 232 MMLN 235
>ref|NP_460678.1| (NC_003197) putative ribosomal large subunit pseudouridine synthase
[Salmonella typhimurium LT2]
gb|AAL20637.1| (AE008776) putative ribosomal large subunit pseudouridine synthase
[Salmonella typhimurium LT2]
Length = 291
Score = 92.0 bits (227), Expect = 6e-18
Identities = 77/257 (29%), Positives = 126/257 (48%), Gaps = 22/257 (8%)
Query: 5 SLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKEND--RVFLDKRLI--KP 60
S ++ + LA SRRE E ++ GRV ++ + A L V+ ++ +D LI K
Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61
Query: 61 LKNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLSD 119
+ VL Y+KP+GEL ++ DP R +++ L K + A + VGRLD + G+LL +
Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121
Query: 120 SKAVVSALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFA 177
+ + LMH ++E+EY +++ G V + G++LE+ K+++F+
Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDESKLRDLSRGVQLEDG------PAAFKTIKFS 175
Query: 178 PFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL-NALPVG 236
G N V + EG+NRE+RR + V L RVRYG + L LP G
Sbjct: 176 GGEGINQWYN--------VTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRG 227
Query: 237 KMRFLNRQEYNELHAFM 253
L+ + N L +
Sbjct: 228 GWTELDLAQTNYLRGLV 244
>ref|NP_455778.1| (NC_003198) putative pseudouridine synthase [Salmonella enterica
subsp. enterica serovar Typhi]
emb|CAD08412.1| (AL627269) putative pseudouridine synthase [Salmonella enterica
subsp. enterica serovar Typhi]
Length = 291
Score = 91.7 bits (226), Expect = 7e-18
Identities = 77/257 (29%), Positives = 126/257 (48%), Gaps = 22/257 (8%)
Query: 5 SLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKEND--RVFLDKRLI--KP 60
S ++ + LA SRRE E ++ GRV ++ + A L V+ ++ +D LI K
Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61
Query: 61 LKNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLSD 119
+ VL Y+KP+GEL ++ DP R +++ L K + A + VGRLD + G+LL +
Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121
Query: 120 SKAVVSALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFA 177
+ + LMH ++E+EY +++ G V + G++LE+ K+++F+
Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVDESKLRDLSRGVQLEDG------PAAFKTIKFS 175
Query: 178 PFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL-NALPVG 236
G N V + EG+NRE+RR + V L RVRYG + L LP G
Sbjct: 176 GGEGINQWYN--------VTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRG 227
Query: 237 KMRFLNRQEYNELHAFM 253
L+ + N L +
Sbjct: 228 GWTELDFAQTNYLRGLV 244
>ref|NP_274379.1| (NC_003112) conserved hypothetical protein [Neisseria meningitidis
MC58]
pir||B81092 conserved hypothetical protein NMB1361 [imported] - Neisseria
meningitidis (group B strain MD58)
gb|AAF41735.1| (AE002484) conserved hypothetical protein [Neisseria meningitidis
MC58]
Length = 350
Score = 90.5 bits (223), Expect = 2e-17
Identities = 78/259 (30%), Positives = 132/259 (50%), Gaps = 30/259 (11%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLK--NK 64
R+ + LA SRRE E+ + G + +N + A+L V +D V + +IK LK ++
Sbjct: 99 RLQKVLAASGVGSRREMEEWITNGWITVNGKTAQLGDKVTPDDHVTVKGSIIK-LKWADR 157
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESL-EKKYAHFAPVGRLDFASEGVLLLSDSKAV 123
+++Y+K +GE+VS+ DP R I++ L + + + +GRLD + G+L+L+ S +
Sbjct: 158 LPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTTSGEL 217
Query: 124 VSALMHA--DLEKEYLIKIQGFVTREMENAM-QEGLKLENATKGAHQKTPIKSMEFAPFI 180
V H ++E+EY +++ G +T E + +EG+ LE+ + +E
Sbjct: 218 VQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDG---------LAKVERIREQ 268
Query: 181 GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRF 240
G E V+I EG+NRE+RR F + G+ R VR GF P+G
Sbjct: 269 GGE-----GANKWYNVVIKEGRNREVRRIFE--SQGLTVSRLVRIGFG-----PIGLPNR 316
Query: 241 LNRQEYNELHAFMANAANV 259
L R ++ EL+ A AN+
Sbjct: 317 LKRGQFYELNP--AEVANI 333
>ref|NP_284288.1| (NC_003116) putative pseudouridine synthase [Neisseria meningitidis
Z2491]
pir||H81849 probable pseudouridine synthase NMA1573 [imported] - Neisseria
meningitidis (group A strain Z2491)
emb|CAB84800.1| (AL162756) putative pseudouridine synthase [Neisseria meningitidis
Z2491]
Length = 256
Score = 90.1 bits (222), Expect = 2e-17
Identities = 79/259 (30%), Positives = 132/259 (50%), Gaps = 30/259 (11%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLK--NK 64
R+ + LA SRRE E+ + G V +N + A+L V +D V + +IK LK ++
Sbjct: 5 RLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQLGDKVTPDDHVTVKGSIIK-LKWADR 63
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESL-EKKYAHFAPVGRLDFASEGVLLLSDSKAV 123
+++Y+K +GE+VS+ DP R I++ L + + + +GRLD + G+L+L+ S +
Sbjct: 64 LPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTTSGEL 123
Query: 124 VSALMHA--DLEKEYLIKIQGFVTREMENAM-QEGLKLENATKGAHQKTPIKSMEFAPFI 180
V H ++E+EY +++ G +T E + +EG+ LE+ + +E
Sbjct: 124 VQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDG---------LAKVERIREQ 174
Query: 181 GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRF 240
G E V+I EG+NRE+RR F + G+ R VR GF P+G
Sbjct: 175 GGE-----GANKWYNVVIKEGRNREVRRIFE--SQGLTVSRLVRVGFG-----PIGLPNR 222
Query: 241 LNRQEYNELHAFMANAANV 259
L R ++ EL+ A AN+
Sbjct: 223 LKRGQFYELNP--AEVANI 239
>ref|NP_384907.1| (NC_003047) HYPOTHETICAL PROTEIN [Sinorhizobium meliloti]
emb|CAC45373.1| (AL591785) HYPOTHETICAL PROTEIN [Sinorhizobium meliloti]
Length = 573
Score = 89.7 bits (221), Expect = 3e-17
Identities = 65/245 (26%), Positives = 119/245 (48%), Gaps = 19/245 (7%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDRVFLDKRLIKPLKNKK 65
RI++ L+ SRR+ E++++EGRV +N V DR+ +D I+ ++ +
Sbjct: 48 RISKILSRAGVASRRDVERMIMEGRVSLNGVVLDTPVVNATLADRIEVDGHPIRGIERTR 107
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSD--SKAV 123
+ +YHKP G + + ADP R ++E+L ++ VGRLD +EG+LLL++ A
Sbjct: 108 --LWLYHKPGGLVTTNADPEGRPTVFENLPEELPRVLSVGRLDINTEGLLLLTNDGGLAR 165
Query: 124 VSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183
V L + Y ++ G + +E + ++EG+ ++ GA + T
Sbjct: 166 VLELPSTGWLRRYRVRAHGEIDQEALDRLKEGIAVDGVLYGAIEAT-------------- 211
Query: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243
+ + + + + EGKNRE++ V L R+ YG L LP+G+++ +
Sbjct: 212 LDRVQGSNVWITMGLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGELPIGQVQEIRG 271
Query: 244 QEYNE 248
+ E
Sbjct: 272 RTLRE 276
>ref|NP_487913.1| (NC_003272) hypothetical protein [Nostoc sp. PCC 7120]
dbj|BAB75572.1| (AP003594) ORF_ID:all3873~hypothetical protein [Nostoc sp. PCC
7120]
Length = 262
Score = 88.2 bits (217), Expect = 8e-17
Identities = 68/260 (26%), Positives = 121/260 (46%), Gaps = 25/260 (9%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVK-ENDRVFLDKRLIKPLKNKK 65
R+ + LA + SRREAE+++ RV+IN A+L V E D + +D + + ++ +
Sbjct: 4 RLQKVLAQWGIASRREAEEMIRRSRVQINGTLAELGQKVNPEKDIITVDGKSVSAQRHPR 63
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLE---KKYAHFAPVGRLDFASEGVLLLSDSKA 122
+ L+ +KP G + + DP R+ + + L +K PVGRLD S G L+L++
Sbjct: 64 LTYLLLNKPTGVVSTCYDPQGRKTVLDLLPEELRKGPGLHPVGRLDADSTGALILTNDGD 123
Query: 123 VVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFI 180
+ L H + K Y + ++G + + +EG+ L+ + + ++S+
Sbjct: 124 LTFRLTHPSHSIPKTYQVLVKGHPPKAVLEMWREGVLLDGRKTRKAKVSLLESL------ 177
Query: 181 GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNA-----LPV 235
A+ S+L +++ EG+NR++RR V+ L R G + L L
Sbjct: 178 --------AEKSRLEIVLQEGRNRQIRRVAEQLGYPVIKLHRTAIGSIQLQTSKQPLLRA 229
Query: 236 GKMRFLNRQEYNELHAFMAN 255
G R L E L + N
Sbjct: 230 GNYRILRDDEIRSLQEQVKN 249
>gb|AAL88719.1|AC114257_4 (AC114257) Putative synthase [Dictyostelium discoideum]
Length = 401
Score = 87.8 bits (216), Expect = 1e-16
Identities = 70/237 (29%), Positives = 117/237 (48%), Gaps = 23/237 (9%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDRVFLDKRLIKPLKNKK 65
RI + LA SRR+AE+L+++GRVK+N + K+ + VK +D + +D KP+K K
Sbjct: 139 RIQKILARAGIASRRKAEELIIDGRVKVNGKIIKMEEILVKPHDIITVDD---KPIKVDK 195
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYA--HFAPVGRLDFASEGVLLLSDSKAV 123
+ ++ K L S+ DP R + + K H VGRLD+ +EG++L ++ +
Sbjct: 196 PKIWMHFKNPQVLTSEYDPDGRDCLLPIIRKVIGIDHLISVGRLDYYTEGLILFTNDGEL 255
Query: 124 VSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIG 181
L + Y ++I G T EM+ ++ +G+ + F +
Sbjct: 256 ARYLTLPQNLFFRVYKVRIFGKFTDEMKFSLAKGMVINEV--------------FYRPVS 301
Query: 182 YEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYG-FVNLNALPVGK 237
++ + LR+ + EGK RE+R +FN VL L RV YG +V N+L G+
Sbjct: 302 VQVESETDSNTWLRITLQEGKKREIRTLLEYFNVKVLRLIRVAYGPYVLPNSLKHGE 358
>ref|NP_419672.1| (NC_002696) RNA pseudouridylate synthase, putative [Caulobacter
crescentus CB15]
gb|AAK22840.1| (AE005762) RNA pseudouridylate synthase, putative [Caulobacter
crescentus CB15]
Length = 255
Score = 87.8 bits (216), Expect = 1e-16
Identities = 75/255 (29%), Positives = 122/255 (47%), Gaps = 36/255 (14%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDRVFLDKRLIKPLKNKK 65
R+N++LA SRREAE+L+ +G V I+ E + + ++ + L R L
Sbjct: 14 RVNKWLAQSGVCSRREAEQLISDGLVSIDGEVVEDVGRKIQPGQTLTLADRATAKLD--A 71
Query: 66 FSVLVYHKPKGELVSKADP--------LKRRVIYE-----SLEKKYAHFAPVGRLDFASE 112
+ HKP+G + S+ DP L R ++ ++ + P+GRLD S
Sbjct: 72 VPTYLVHKPRGVVSSQPDPGQVPAARLLTRANLWGDARGVAIPQSGDLIPPIGRLDKDSR 131
Query: 113 GVLLLSDSKAVVSALM--HADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTP 170
G+LLLS V A++ ++LEKEY + + G +T E ++ GL+L+
Sbjct: 132 GLLLLSQDGVVAKAVIGPQSELEKEYRVAVMGELTEEKLELLRFGLELDGR--------- 182
Query: 171 IKSMEFAPFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL 230
E P E+I + +L ++ EG+NR++RR + V+DL RVR G ++L
Sbjct: 183 ----ELRP-AEVEVISDQ----RLSFVLREGRNRQIRRMCELVDLKVVDLFRVRVGPLDL 233
Query: 231 NALPVGKMRFLNRQE 245
+P G R L E
Sbjct: 234 GDMPEGHWRLLTAAE 248
>ref|NP_108388.1| (NC_002678) hypothetical protein [Mesorhizobium loti]
dbj|BAB53849.1| (AP003013) hypothetical protein [Mesorhizobium loti]
Length = 546
Score = 87.8 bits (216), Expect = 1e-16
Identities = 65/233 (27%), Positives = 107/233 (45%), Gaps = 19/233 (8%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEH-AKLASVVKENDRVFLDKRLIKPLKNKK 65
RI + LA SRR+AE+L+ GRVK+N A V D + LD I P++ +
Sbjct: 99 RIAKRLARAGLASRRDAEELIAAGRVKVNGRALTSPAFNVMPGDIIHLDGMEIPPIERTR 158
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAV-- 123
+ ++HKP G + + DP R+ +++ L + +GRLD +EG+LLL++ +
Sbjct: 159 --LFLFHKPAGVVTTNRDPEGRKTVFDVLPAELPRLMTIGRLDINTEGLLLLTNDGGLSR 216
Query: 124 VSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183
V L + Y +++ G V ++EG+ ++ GA I
Sbjct: 217 VLELPATGWLRRYRVRVHGKVEESALAGLREGIAVDGVFYGA--------------IEAS 262
Query: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVG 236
+ + + L + + EGKNRE++ V L R+ YG L LP G
Sbjct: 263 LDREQGSNAWLTIGLREGKNREVKNILGALGLDVTRLIRISYGPFQLEDLPEG 315
>ref|NP_473106.1| (NC_000910) pseudouridine synthetase (RsuA fam.); 1st euk. member
(OO) [Plasmodium falciparum]
pir||C71603 pseudouridine synthetase (RsuA fam.) PFB0890c - malaria parasite
(Plasmodium falciparum)
gb|AAC71967.1| (AE001423) pseudouridine synthetase (RsuA fam.); 1st euk. member
(OO) [Plasmodium falciparum 3D7]
Length = 338
Score = 87.4 bits (215), Expect = 1e-16
Identities = 78/289 (26%), Positives = 135/289 (45%), Gaps = 46/289 (15%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHE----HAKLASVVKENDRVFLDK------ 55
+R+N+ ++ SRR++++ + +G+VKIN++ + K++ R++ K
Sbjct: 46 IRLNKLISMKRNISRRKSDEFIKDGKVKINNKIITNPGTHVHIGKDSLRIYDKKIKLTNI 105
Query: 56 -RLIKPLKNKKFSVLVYHKPKGELVSKADPLKRRVIY----ESLEKKYAHFAPVGRLDFA 110
+IK +NK +V HKPKG L + D R+ IY E + +KY VGRLD
Sbjct: 106 INMIKQNENKLHKWIVLHKPKGLLCTSNDEKNRKSIYTLFPEEMLQKY-RLVTVGRLDRN 164
Query: 111 SEGVLLLSDSKAVVSALMHADLE--KEYLIKIQGFVTREMENAMQEGLKLENATKGAHQK 168
+ GVLLL++ A V+ L H + + Y + I+G V + G+ LE K +K
Sbjct: 165 TSGVLLLTNDYAWVNKLTHPKYQRIRTYRVHIEGPVKMNALKELARGIYLEEDEKTQPKK 224
Query: 169 ---------------------TPIKSMEFAPFI------GYEIIKNHAKYSKLRVIINEG 201
+ +K FI +I ++ K + L + I EG
Sbjct: 225 IYNYKESREKSNIDDKKKKKMSKMKKKTNPAFIEILREEKIKIKEDTKKITVLNISIKEG 284
Query: 202 KNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKM-RFLNRQEYNEL 249
+NR++R+ F N V+ ++R + + L + K R LN++E N+L
Sbjct: 285 RNRQIRKMFQQINQPVIKIKRTSFENITLKNIYFPKQYRELNQKEVNDL 333
>ref|NP_240106.1| (NC_002528) hypothetical protein [Buchnera sp. APS]
sp|P57369|Y282_BUCAI Hypothetical protein BU282
dbj|BAB12992.1| (AP001118) hypothetical protein [Buchnera sp. APS]
Length = 250
Score = 87.4 bits (215), Expect = 1e-16
Identities = 68/255 (26%), Positives = 125/255 (48%), Gaps = 25/255 (9%)
Query: 5 SLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVK-ENDRVFLDKRLIKPLKN 63
S +I + L+H SRR E ++ G + IN + + + +N V K +K
Sbjct: 2 SEKIQKILSHLGYGSRRNIENMIKFGDISINGKKIVIGQRLNNKNIEVITIKGETVSIKK 61
Query: 64 KKFS--VLVYHKPKGELVSKADPLKRRVIYESLEKKYAH-FAPVGRLDFASEGVLLLSDS 120
F +++Y+KP+GE+ ++ D KR ++++ L H + +GRLD + G+LL +++
Sbjct: 62 TDFKTKIIIYNKPEGEICTRNDYKKRPIVFDKLPLLNIHRWISIGRLDINTRGLLLFTNN 121
Query: 121 KAVVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAP 178
+ + LMH +E+EY I++ G + + N ++ G+K+++ A
Sbjct: 122 GNLANELMHPSNKIEREYYIRVFGKINKNTMNILKNGVKIKDGN--------------AA 167
Query: 179 FIGYEIIKNHA---KYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL-NALP 234
F + I +HA K + ++ EG+NRE+R + V L R+RYG + L L
Sbjct: 168 FKSIQTI-DHACSKKNKWFKGVLCEGRNREIRSMWQAVQCQVSRLIRIRYGNIFLPKNLK 226
Query: 235 VGKMRFLNRQEYNEL 249
+G L+ + N L
Sbjct: 227 LGDWSELSSESVNNL 241
>ref|NP_542017.1| (NC_003318) TRNA PSEUDOURIDINE SYNTHASE A [Brucella melitensis]
gb|AAL54281.1| (AE009736) TRNA PSEUDOURIDINE SYNTHASE A [Brucella melitensis]
Length = 565
Score = 86.3 bits (212), Expect = 3e-16
Identities = 70/242 (28%), Positives = 116/242 (47%), Gaps = 21/242 (8%)
Query: 2 EGFSLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDRVFLDKRLIKP 60
E S RI + LA SRREAE ++ GR+ +N + + +V VK D + +D KP
Sbjct: 54 EETSERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDG---KP 110
Query: 61 LKNKKFSVL-VYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSD 119
L+ K+ + L +YHKP G + + DP R ++E+L + VGRLD +EG+LLL++
Sbjct: 111 LRQKERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPPEMPRVLSVGRLDINTEGLLLLTN 170
Query: 120 SKAV--VSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFA 177
+ V L + Y ++ G VTR+ + ++ G+ ++ G+
Sbjct: 171 DGGLSRVLELPSTGWLRRYRVRAHGKVTRQQLDELKNGIAVDGVFYGS------------ 218
Query: 178 PFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGK 237
+ E+ + + + + EGKNRE++ V L RV +G L L G
Sbjct: 219 --VEAELERVQGANVWISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGA 276
Query: 238 MR 239
+R
Sbjct: 277 VR 278
>ref|NP_419049.1| (NC_002696) S4 domain protein [Caulobacter crescentus CB15]
gb|AAK22217.1| (AE005697) S4 domain protein [Caulobacter crescentus CB15]
Length = 421
Score = 85.9 bits (211), Expect = 4e-16
Identities = 72/246 (29%), Positives = 115/246 (46%), Gaps = 14/246 (5%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDRVFLDKRLIKPLKNKK 65
R+ + LA SRRE E+L+ GRV IN + +V V D + +D +L+ + +
Sbjct: 36 RVAKALARAGVASRREVERLIEAGRVAINGKVLTTPAVKVAPGDFLTVDGQLVA--EREP 93
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125
+ YHKP G + + DP R ++ +L K VGRLD SEG+LLL++ +
Sbjct: 94 TRIFRYHKPTGLMTTHNDPKGRPTVFGALPKDLPRLISVGRLDLNSEGLLLLTNDGELSR 153
Query: 126 ALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183
AL + Y + G T+ + +++G+ +E T GA + K+ E A
Sbjct: 154 ALETPSNAWVRRYRARAFGDTTQAKLDKLKDGVTIEGVTYGAIEAKLDKAHEKA------ 207
Query: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243
K + V ++EGKNRE+R+ V L R+ YG L L G++ +
Sbjct: 208 ---GGGKNVWITVSLSEGKNREVRKVLESIGLKVNRLIRLSYGPFALGTLAAGQIEEVGP 264
Query: 244 QEYNEL 249
+ EL
Sbjct: 265 RVIREL 270
>ref|NP_228077.1| (NC_000853) 16S pseudouridylate synthase [Thermotoga maritima]
pir||G72400 16S pseudouridylate synthase - Thermotoga maritima (strain MSB8)
gb|AAD35352.1|AE001708_20 (AE001708) 16S pseudouridylate synthase [Thermotoga maritima]
Length = 239
Score = 85.5 bits (210), Expect = 5e-16
Identities = 71/248 (28%), Positives = 125/248 (49%), Gaps = 26/248 (10%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHA-KLASVVKENDRVFLDKRLIKPLKNK 64
+R++++L++ +R+E +KL+ +GRV +N V END V LD +++ +K
Sbjct: 1 MRLDRYLSNSGVGTRKEVKKLIKQGRVTVNGRVVLDPGHPVLENDAVALDGEVVR--FHK 58
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 124
K +L Y KP G + S DP I E L F PVGRLD +EG+L++++
Sbjct: 59 KVYILFY-KPSGYVTSTKDP-HSETIMEFLPPLKGIF-PVGRLDKDAEGLLIITNDGDFA 115
Query: 125 SALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 182
++ +EKEY++K++G VT + ++ G+ L + FA
Sbjct: 116 HRVISPKWSVEKEYIVKVEGEVTEDKIEKLKNGVTLRDGF-------------FAKAKRV 162
Query: 183 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL-NALPVGKMRFL 241
E + N L+++I EGK +++R A + L+R R G + L + + G+ RFL
Sbjct: 163 EKLSN----DTLKIVITEGKYHQIKRMTAAVGLKTVHLKRTRIGGLVLPDDMKPGEYRFL 218
Query: 242 NRQEYNEL 249
+ +E ++
Sbjct: 219 SEEEVKKV 226
>ref|NP_357850.1| (NC_003098) Ribosomal small subunit pseudouridine synthase A
[Streptococcus pneumoniae R6]
gb|AAK99060.1| (AE008407) Ribosomal small subunit pseudouridine synthase A
[Streptococcus pneumoniae R6]
Length = 240
Score = 85.5 bits (210), Expect = 5e-16
Identities = 73/255 (28%), Positives = 128/255 (49%), Gaps = 27/255 (10%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLAS--VVKENDRVFLDKRLIKPLKN 63
+R+++FL SR E + L+ GRV +N + K A + ++ D + D ++ L+
Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKFQIDEKIDEIRFDGQV---LEY 57
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVI--YESLEKKYAHFAPVGRLDFASEGVLLLSDSK 121
++F + +KPKG + + DP R V+ + L + F PVGRLD + G+LLL++
Sbjct: 58 EEFVYYMMNKPKGVISATEDPKHRTVLDLLDDLARSKEVF-PVGRLDINTHGLLLLTNDG 116
Query: 122 AVVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
+ L+ ++K YL +++G +T+E EG+ P+K P
Sbjct: 117 QLAHVLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGI-------------PLKDFTCQP- 162
Query: 180 IGYEIIKNHAK--YSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNA-LPVG 236
EI+ A+ S++RV I EGK +++R + V+DL+R+ G + L+ L G
Sbjct: 163 ARLEILSTDAEKNQSQIRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERG 222
Query: 237 KMRFLNRQEYNELHA 251
+ R L ++E L A
Sbjct: 223 EWRRLTKEELEILRA 237
>ref|NP_220917.1| (NC_000963) unknown [Rickettsia prowazekii]
sp|Q9ZD06|Y544_RICPR Hypothetical protein RP544
pir||G71658 hypothetical protein RP544 - Rickettsia prowazekii
emb|CAA14993.1| (AJ235272) unknown [Rickettsia prowazekii]
Length = 235
Score = 85.5 bits (210), Expect = 5e-16
Identities = 69/242 (28%), Positives = 123/242 (50%), Gaps = 26/242 (10%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINH-EHAKLASVVKENDRVFLDKRLIKPLKNKK 65
R+ + +++ SRR AEKL++ G+VKI+ A+ V ++++ + RLI +K
Sbjct: 3 RLAKIISNAGVCSRRNAEKLIVGGKVKIDGITILSPATNVDMSNQIEVSGRLIN--NTQK 60
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125
+ +Y+KP G + + DPL R+ ++E L +GRLD SEG+LLL++S +
Sbjct: 61 PRLWIYYKPVGLITTHKDPLSRKTVFEQLIG-LPRVISIGRLDLNSEGLLLLTNSGDLAH 119
Query: 126 A--LMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183
+ + L++ Y ++ G ++N + LK++ H +
Sbjct: 120 QFEMPASKLKRVYNVRAYGNPNILLKNNYKN-LKIDGIFYNPHS--------------IK 164
Query: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243
+++ + S V++ EGKNRE+RR F +F V L R++YG AL +G ++ N
Sbjct: 165 LLRQNKSNSWFEVVLFEGKNREIRRIFEYFGLQVNKLIRIQYG-----ALKIGNLKPGNY 219
Query: 244 QE 245
QE
Sbjct: 220 QE 221
>ref|NP_103585.1| (NC_002678) hypothetical protein [Mesorhizobium loti]
dbj|BAB49371.1| (AP002999) hypothetical protein [Mesorhizobium loti]
Length = 250
Score = 85.5 bits (210), Expect = 5e-16
Identities = 66/243 (27%), Positives = 122/243 (50%), Gaps = 22/243 (9%)
Query: 8 INQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLAS--VVKENDRVFLDKRLIKPLKNKK 65
+N+ L+ SR +AE L+ EGRV++ + + A+ V DR+ +D +P+ ++
Sbjct: 19 LNRALSKLGLCSRTQAELLIAEGRVRVGGKVVRDAALRVDLNRDRIVVDG---EPVIAER 75
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHF-APVGRLDFASEGVLLLSDSKAVV 124
++ +KP+G + ++ DP +R +Y LE F +PVGRLD ASEG+LL+++
Sbjct: 76 KVYVMLNKPRGLVTTRDDPQQRDTVYACLEGLDLPFVSPVGRLDKASEGLLLMTNDTHFA 135
Query: 125 SALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 182
+ LM + L K Y +++ M ++ G+ ++ T A+
Sbjct: 136 NRLMDPASHLPKTYHVQVGTVPDEAMLETLRAGVSVDGETLTANSIV------------- 182
Query: 183 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 242
++++ + + L ++++EG+NR +RR A V L R+ G + L L G R L
Sbjct: 183 -LLRSGGRTAWLEIVLDEGRNRHIRRLLAAHGIEVKRLIRIAIGRLPLGDLAKGTARHLT 241
Query: 243 RQE 245
+E
Sbjct: 242 PEE 244
>ref|NP_344818.1| (NC_003028) ribosomal small subunit pseudouridine synthase A
[Streptococcus pneumoniae TIGR4]
gb|AAK74458.1| (AE007341) ribosomal small subunit pseudouridine synthase A
[Streptococcus pneumoniae TIGR4]
Length = 240
Score = 85.5 bits (210), Expect = 5e-16
Identities = 72/254 (28%), Positives = 126/254 (49%), Gaps = 25/254 (9%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLAS--VVKENDRVFLDKRLIKPLKN 63
+R+++FL SR E + L+ GRV +N + K A + ++ D + D ++ L+
Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQV---LEY 57
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVI--YESLEKKYAHFAPVGRLDFASEGVLLLSDSK 121
++F + +KPKG + + DP R V+ + L + F PVGRLD + G+LLL++
Sbjct: 58 EEFVYYMMNKPKGVISATEDPKHRTVLDLLDDLARSKEVF-PVGRLDIDTHGLLLLTNDG 116
Query: 122 AVVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
+ L+ ++K YL +++G +T+E EG+ P+K P
Sbjct: 117 QLAHVLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGI-------------PLKDFTCQPA 163
Query: 180 IGYEI-IKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNA-LPVGK 237
I + I S++RV I EGK +++R + V+DL+R+ G + L+ L G+
Sbjct: 164 ILELVSIDTEKNQSQIRVTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGE 223
Query: 238 MRFLNRQEYNELHA 251
R L ++E L A
Sbjct: 224 WRRLTKEELEILRA 237
>ref|NP_600644.1| (NC_003450) COG1187:16S rRNA uridine-516 pseudouridylate synthase
and related pseudouridylate synthases [Corynebacterium
glutamicum]
Length = 320
Score = 85.1 bits (209), Expect = 7e-16
Identities = 76/252 (30%), Positives = 124/252 (49%), Gaps = 23/252 (9%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKE--NDRVFLDKRLIKPLKN 63
+R+ + LA SRR AE L+ +GRV++N V + ND + +D ++ N
Sbjct: 80 VRLQKVLAQAGVASRRHAEILIDQGRVEVNDRIVTTQGVRVDPNNDVIRVDG--VRIHIN 137
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYA---HFAPVGRLDFASEGVLLLSDS 120
+ V +KP+G + +D L R + + + +K A VGRLD +EG+LLL++
Sbjct: 138 EDLEYFVLNKPRGMHSTMSDELGRPCVGDLVSEKTASGQRLFHVGRLDADTEGLLLLTND 197
Query: 121 KAVVSALMHADLE--KEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAP 178
+ + LMH E K YL ++G T ++ +A+++G++LE+ P K+ +FA
Sbjct: 198 GELANRLMHPKYEVSKTYLATVRGEATNKLVSALRDGVELEDG--------PAKA-DFA- 247
Query: 179 FIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKM 238
+II S LR+ I+EG+ +RR F V L R + V L G +
Sbjct: 248 ----QIIDVFQGKSLLRIEIHEGRKHIVRRLFDELGFPVERLVRTKLHTVQLGDQKPGSL 303
Query: 239 RFLNRQEYNELH 250
R LN E L+
Sbjct: 304 RALNSSELTSLY 315
>ref|NP_213389.1| (NC_000918) hypothetical protein [Aquifex aeolicus]
sp|O66829|Y554_AQUAE Hypothetical protein AQ_554
pir||A70350 conserved hypothetical protein aq_554 - Aquifex aeolicus
gb|AAC06794.1| (AE000695) hypothetical protein [Aquifex aeolicus]
Length = 238
Score = 85.1 bits (209), Expect = 7e-16
Identities = 69/250 (27%), Positives = 126/250 (49%), Gaps = 28/250 (11%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDRVFLDKRLIKPLKNK 64
+R++++L+ SR+EA++L+ EGRVK++ + K A VKE + V ++ + +KP KN
Sbjct: 1 MRLDKYLSKSLHISRKEAKELIREGRVKVSGKVVKQAEYRVKEGEEVEVEGKSVKPKKN- 59
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKY--AHFAPVGRLDFASEGVLLLSDSKA 122
L+ +KPKG L + + K E + + + GRLD +EG+LL++D
Sbjct: 60 --VYLMLYKPKGYLSTTEEDKKYPSFLELIREHFPSRKLFSAGRLDVDAEGLLLITDDGE 117
Query: 123 VVSALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFI 180
+ L H +EKEY++++ + E + E +KLE + P++ ++
Sbjct: 118 LAHRLTHPKWKVEKEYIVRLDRDIGDEELKKLYE-VKLE--------EKPVQLVKAEKLS 168
Query: 181 GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNA-LPVGKMR 239
G ++ I+ EG++ ++R F V+ L+R R G + L+ + G+ R
Sbjct: 169 G----------DTVKAILTEGRHHVVKRLFKAVGHNVVYLKRTRVGNLRLDENMEPGEWR 218
Query: 240 FLNRQEYNEL 249
L +E EL
Sbjct: 219 ELTEEEVKEL 228
>dbj|BAB98819.1| (AP005278) 16S rRNA uridine-516 pseudouridylate synthase and
related pseudouridylate synthases [Corynebacterium
glutamicum ATCC 13032]
Length = 252
Score = 85.1 bits (209), Expect = 7e-16
Identities = 76/252 (30%), Positives = 124/252 (49%), Gaps = 23/252 (9%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKE--NDRVFLDKRLIKPLKN 63
+R+ + LA SRR AE L+ +GRV++N V + ND + +D ++ N
Sbjct: 12 VRLQKVLAQAGVASRRHAEILIDQGRVEVNDRIVTTQGVRVDPNNDVIRVDG--VRIHIN 69
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYA---HFAPVGRLDFASEGVLLLSDS 120
+ V +KP+G + +D L R + + + +K A VGRLD +EG+LLL++
Sbjct: 70 EDLEYFVLNKPRGMHSTMSDELGRPCVGDLVSEKTASGQRLFHVGRLDADTEGLLLLTND 129
Query: 121 KAVVSALMHADLE--KEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAP 178
+ + LMH E K YL ++G T ++ +A+++G++LE+ P K+ +FA
Sbjct: 130 GELANRLMHPKYEVSKTYLATVRGEATNKLVSALRDGVELEDG--------PAKA-DFA- 179
Query: 179 FIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKM 238
+II S LR+ I+EG+ +RR F V L R + V L G +
Sbjct: 180 ----QIIDVFQGKSLLRIEIHEGRKHIVRRLFDELGFPVERLVRTKLHTVQLGDQKPGSL 235
Query: 239 RFLNRQEYNELH 250
R LN E L+
Sbjct: 236 RALNSSELTSLY 247
>ref|NP_436567.1| (NC_003078) CONSERVED HYPOTHETICAL PROTEIN [Sinorhizobium meliloti]
emb|CAC48427.1| (AL603642) CONSERVED HYPOTHETICAL PROTEIN [Sinorhizobium meliloti]
Length = 320
Score = 84.0 bits (206), Expect = 2e-15
Identities = 70/232 (30%), Positives = 109/232 (46%), Gaps = 22/232 (9%)
Query: 19 SRREAEKLVLEGRVKINHEHAKLAS--VVKENDRVFLDKRLIKPLKNKKFSVLVYHKPKG 76
SR +AEKL+ EGRV + S V E DR+ +D +I L+ +KP+G
Sbjct: 96 SRTQAEKLIAEGRVSVAGRKITDLSHWVDIEADRIAVDGTVIAAQARV---YLMLNKPRG 152
Query: 77 ELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLSDSKAVVSALMHAD--LE 133
+ ++ DP R ++ L+ +PVGRLD ASEG+LL ++ + L+ + L
Sbjct: 153 LVTTRDDPEGRPTVFSCLDNVDVPSLSPVGRLDKASEGLLLFTNDTVLAQRLLDPETHLG 212
Query: 134 KEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYEIIKNHAKYSK 193
K Y ++++G M M EG+ T+G E + E +K + S
Sbjct: 213 KVYHVQVRGIFGEAMAARMVEGV-----TEGG---------ELLRALRVERLKGGDRNSW 258
Query: 194 LRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNRQE 245
+ + ++EG+NR++RR L L RV G + L LP G R L E
Sbjct: 259 IEIELDEGRNRQIRRMLDVLGFECLRLLRVSIGEIRLGDLPKGASRPLTEAE 310
>ref|NP_326168.1| (NC_002771) RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE B
(PSEUDOURIDYLATE SYNTHASE) (URACIL HYDROLYASE)
[Mycoplasma pulmonis]
emb|CAC13510.1| (AL445564) RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE B
(PSEUDOURIDYLATE SYNTHASE) (URACIL HYDROLYASE)
[Mycoplasma pulmonis]
Length = 232
Score = 83.6 bits (205), Expect = 2e-15
Identities = 64/246 (26%), Positives = 122/246 (49%), Gaps = 18/246 (7%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNKK 65
++I + +AH SRR+AE L+L+ +VK+N A + +V + D + ++ +++ +N+K
Sbjct: 1 MKIQKRIAHLGYCSRRQAEALILQNKVKVNSSFATIGQIVSDQDIIEINGKILVEKENEK 60
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125
L+ HKP + S D R+V+ + L K + PVGRLD+ + GVL+L++ +
Sbjct: 61 EYYLL-HKPPKTISSTKDEKNRQVVTD-LVKSKSRVYPVGRLDYNTTGVLILTNDGDLTQ 118
Query: 126 ALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYEII 185
L+H +Y IK ++ +E + L +K I ++++
Sbjct: 119 KLLH----PKYQIKRLYHCKLDIPLEEKELIYLNEEKIYIDKKLSI----------HKVL 164
Query: 186 KNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNRQE 245
+ K V +++G +++ F N V+ L+R+ +G + ++ LP G R L +E
Sbjct: 165 QVEKK--SYLVELHQGSYHHVKKIFEKVNRKVVKLKRLAFGPITIDNLPEGYFRKLTFKE 222
Query: 246 YNELHA 251
L A
Sbjct: 223 IKTLKA 228
>ref|NP_353713.1| (NC_003062) AGR_C_1238p [Agrobacterium tumefaciens] [Agrobacterium
tumefaciens str. C58 (Cereon)]
ref|NP_531389.1| (NC_003304) ribosomal large subunit pseudouridine synthase B
[Agrobacterium tumefaciens str. C58 (U. Washington)]
gb|AAK86498.1| (AE008003) AGR_C_1238p [Agrobacterium tumefaciens str. C58
(Cereon)]
gb|AAL41705.1| (AE009037) ribosomal large subunit pseudouridine synthase B
[Agrobacterium tumefaciens str. C58 (U. Washington)]
Length = 669
Score = 80.1 bits (196), Expect = 2e-14
Identities = 60/235 (25%), Positives = 114/235 (47%), Gaps = 19/235 (8%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDRVFLDKRLIKPLKNKK 65
RI++ +A SRR+ E++++EGRV +N V +D++ +D I+ + +
Sbjct: 58 RISKIMARAGVASRRDVERMIMEGRVSLNGVLLDTPVVNATLSDKIEVDGMPIRGAERTR 117
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAV-- 123
+ +YHKP G + + +DP R ++++L + +GRLD +EG+LLL++ +
Sbjct: 118 --LWLYHKPAGLVTTNSDPEGRPTVFDNLPGELPRVLSIGRLDINTEGLLLLTNDGGLSR 175
Query: 124 VSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183
V L + Y ++ G V + + +++G+ ++ GA T ++ G+
Sbjct: 176 VLELPTTGWLRRYRVRAHGEVDQAALDKLKDGIAVDGVLYGAIDATLDRTQ------GHN 229
Query: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKM 238
+ + + + EGKNRE++ V L R+ YG L LP GK+
Sbjct: 230 V--------WITMGLREGKNREIKNVLGALGLEVNRLIRISYGPFQLGDLPEGKV 276
>ref|NP_360444.1| (NC_003103) ribosomal large subunit pseudouridine synthase B
[EC:4.2.1.70] [Rickettsia conorii]
gb|AAL03345.1| (AE008636) ribosomal large subunit pseudouridine synthase B
[EC:4.2.1.70] [Rickettsia conorii]
Length = 230
Score = 79.3 bits (194), Expect = 4e-14
Identities = 62/241 (25%), Positives = 119/241 (48%), Gaps = 21/241 (8%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDRVFLDKRLIKPLKNKK 65
R+ + +++ SRR+AEKL++ G+VK++ + V ++++ + LI + +
Sbjct: 3 RLAKIISNAGVCSRRDAEKLIVAGQVKVDGITILSPTTNVDISNQIEVSGTLINNIHKPR 62
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125
+ +Y+KP G + + DPL R+ ++E L +GRLD SEG+LLL++S +
Sbjct: 63 --LWIYYKPVGLITTHKDPLSRKTVFEQLTG-LPRVISIGRLDLNSEGLLLLTNSGDLAR 119
Query: 126 A--LMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183
L + L++ Y ++ G K + K ++ I + + P +
Sbjct: 120 QFELPSSRLKRVYHVRAYG--------------KSDILLKSNYKNLEIDGIFYNPH-SIK 164
Query: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243
++K + V++ EGKNRE+RR F + V L R++YG ++ L G + +N
Sbjct: 165 LLKQNKTNCWFEVVLFEGKNREIRRIFEYCGLKVNKLIRIQYGSFTIDNLKPGDYKEINN 224
Query: 244 Q 244
+
Sbjct: 225 K 225
>ref|NP_349283.1| (NC_003030) Predicted pseudouridylate synthase [Clostridium
acetobutylicum]
gb|AAK80623.1|AE007765_5 (AE007765) Predicted pseudouridylate synthase [Clostridium
acetobutylicum]
Length = 242
Score = 79.3 bits (194), Expect = 4e-14
Identities = 71/252 (28%), Positives = 128/252 (50%), Gaps = 36/252 (14%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKN--- 63
R+++ +++ SR++ +K++ +GRVK++ E VVK+N++ LD + K + N
Sbjct: 3 RLDKIISNMGYGSRKDVKKIIKDGRVKVDGE------VVKDNNKQ-LDPQKSKIIVNGEE 55
Query: 64 ---KKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAP--VGRLDFASEGVLLLS 118
KK+ L+ +KP G + + +D + VI + LE + F P +GRLD + G+L L+
Sbjct: 56 ISYKKYIYLMMNKPDGVISATSDDYDKTVI-DLLEVEDQVFEPFPIGRLDKDTVGLLFLT 114
Query: 119 D----SKAVVSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSM 174
+ + ++S H D K Y KI VT E A +EG+ L++ K K
Sbjct: 115 NDGDFNHRLISPKWHVD--KVYYAKIDKDVTSEDVVAFKEGIVLDDGYKCMSAKL----- 167
Query: 175 EFAPFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNA-L 233
E++ N + S+++V + EGK +++R F V+ L+R+ + + L+ L
Sbjct: 168 --------EVLNNSKEGSEVKVTVREGKYHQVKRMFEAQGKKVVYLKRISFAGIKLDENL 219
Query: 234 PVGKMRFLNRQE 245
G+ R L E
Sbjct: 220 EEGEYRELTEDE 231
>ref|NP_283794.1| (NC_003116) putative RNA-binding protein [Neisseria meningitidis
Z2491]
pir||F81949 probable RNA-binding protein NMA1016 [imported] - Neisseria
meningitidis (group A strain Z2491)
emb|CAB84285.1| (AL162754) putative RNA-binding protein [Neisseria meningitidis
Z2491]
Length = 252
Score = 79.0 bits (193), Expect = 5e-14
Identities = 69/254 (27%), Positives = 119/254 (46%), Gaps = 37/254 (14%)
Query: 5 SLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRL------- 57
++R+++ +A SRREA+ + +G V +N + A L V DR+ L+K+
Sbjct: 13 AVRLSKRMAQLGLCSRREADGYIEQGWVTVNGKTAVLGQKVSPADRIELNKKAHEQQAAR 72
Query: 58 IKPLKNKKFSVLVYHKPKG-----ELVSKADPLKR---RVIYESLEKKYAHFAPVGRLDF 109
I L NK + KG EL++ + + R+ ++ K AP GRLD
Sbjct: 73 ITILLNKPVGYVSAQAEKGYKSAAELITPENRWEGDTGRIRFDPKHK--IGLAPAGRLDI 130
Query: 110 ASEGVLLLSDSKAVVSALM--HADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQ 167
S G+L+L+ + L+ ++ EKEYL++++G + + + GL L+ +
Sbjct: 131 DSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDG------E 184
Query: 168 KTPIKSMEFAPFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGF 227
K +E+ +LR ++ +GK R++RR V+ L+R+R G
Sbjct: 185 KLRPAQVEWQ------------NEDQLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGK 232
Query: 228 VNLNALPVGKMRFL 241
V L LP GK R+L
Sbjct: 233 VKLGRLPPGKWRYL 246
>ref|NP_273848.1| (NC_003112) conserved hypothetical protein [Neisseria meningitidis
MC58]
pir||E81155 conserved hypothetical protein NMB0806 [imported] - Neisseria
meningitidis (group B strain MD58)
gb|AAF41219.1| (AE002434) conserved hypothetical protein [Neisseria meningitidis
MC58]
Length = 252
Score = 79.0 bits (193), Expect = 5e-14
Identities = 69/254 (27%), Positives = 119/254 (46%), Gaps = 37/254 (14%)
Query: 5 SLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRL------- 57
++R+++ +A SRREA+ + +G V +N + A L V DR+ L+K+
Sbjct: 13 AVRLSKRMAQLGLCSRREADGYIEQGWVTVNGKTAVLGQKVSPADRIELNKKAHEQQAAR 72
Query: 58 IKPLKNKKFSVLVYHKPKG-----ELVSKADPLKR---RVIYESLEKKYAHFAPVGRLDF 109
I L NK + KG EL++ + + R+ ++ K AP GRLD
Sbjct: 73 ITILLNKPVGYVSAQAEKGYKSAAELITPENHWEGDTGRIRFDPKHK--IGLAPAGRLDI 130
Query: 110 ASEGVLLLSDSKAVVSALM--HADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQ 167
S G+L+L+ + L+ ++ EKEYL++++G + + + GL L+ +
Sbjct: 131 DSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDG------E 184
Query: 168 KTPIKSMEFAPFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGF 227
K +E+ +LR ++ +GK R++RR V+ L+R+R G
Sbjct: 185 KLRPAQVEWQ------------NEDQLRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGK 232
Query: 228 VNLNALPVGKMRFL 241
V L LP GK R+L
Sbjct: 233 VKLGRLPPGKWRYL 246
>ref|NP_296480.1| (NC_002620) ribosomal large subunit pseudouridine synthase B
[Chlamydia muridarum]
pir||E81741 ribosomal large chain pseudouridine synthase B TC0096 [imported] -
Chlamydia muridarum (strain Nigg)
gb|AAF38976.1| (AE002277) ribosomal large subunit pseudouridine synthase B
[Chlamydia muridarum]
Length = 241
Score = 79.0 bits (193), Expect = 5e-14
Identities = 65/245 (26%), Positives = 113/245 (45%), Gaps = 26/245 (10%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK--LASVVKENDRVFLDKRLIKPLKN 63
+R+N+FLA SRR+ ++++ G V IN + A +V +E D + + + I K
Sbjct: 4 VRLNKFLASAGVASRRKCDEIIFAGSVTINGKVAAGPFVTVDEEFDYIEVGGQRIGAEKK 63
Query: 64 KKFSVLVYHKPKGELVSKADPLKR-RVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKA 122
F V HKP G L S + +++ + L VGRLD + G++L+++
Sbjct: 64 VYFMV---HKPLGYLCSSERKFPQSKLVIDLLSHCPYRLFTVGRLDKETSGLILVTNDGE 120
Query: 123 VVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFI 180
+ ++H + KEYL+K+ VT + ++ G ++ I
Sbjct: 121 FANRVIHPSFGITKEYLLKVSRDVTAKDLESLMSGTMIDGR------------------I 162
Query: 181 GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRF 240
+ + +++I+NEGK E+R F +L+L+R+R G + L LP GK R
Sbjct: 163 VRPVSVKKVRRGTIKIIVNEGKKHEIRLFAEAAGLQLLELKRIRIGSLVLGGLPYGKYRE 222
Query: 241 LNRQE 245
L E
Sbjct: 223 LTDAE 227
>ref|NP_220242.1| (NC_000117) predicted pseudouridine synthase [Chlamydia
trachomatis]
pir||F71478 probable pseudouridine synthase - Chlamydia trachomatis (serotype
D, strain UW3/Cx)
gb|AAC68318.1| (AE001343) predicted pseudouridine synthase [Chlamydia trachomatis]
Length = 241
Score = 77.4 bits (189), Expect = 1e-13
Identities = 69/246 (28%), Positives = 112/246 (45%), Gaps = 28/246 (11%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK--LASVVKENDRVFLDKRLIKPLKN 63
+R+N+FLA SRR+ ++++ G V +N A +V +E D V + + I K
Sbjct: 4 VRLNKFLASAGVASRRKCDEIIFAGSVTVNGRVAAGPFVTVDEEFDSVEVGGQRIGAEKK 63
Query: 64 KKFSVLVYHKPKGELVSKADPLK-RRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKA 122
F V HKP G L S +++ + L VGRLD + G++L+++
Sbjct: 64 VYFMV---HKPLGYLCSSERKFPGSKLVIDLLSHCPYRLFTVGRLDKETSGLILVTNDGE 120
Query: 123 VVSALMHAD--LEKEYLIKIQGFVT-REMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
+ ++H + KEYL+K+ VT R++E M T I P
Sbjct: 121 FANRVIHPSFGITKEYLLKVSRDVTARDLETLMAG--------------TVIDGKVVRP- 165
Query: 180 IGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMR 239
+ + +++I+NEGK E+R F +L+L+R+R G + L LP GK R
Sbjct: 166 ----VSVKKVRRGTIKIIVNEGKKHEIRLFAEAAGLQLLELKRIRIGSLVLGGLPYGKYR 221
Query: 240 FLNRQE 245
L E
Sbjct: 222 ELTDSE 227
>ref|NP_442012.1| (NC_000911) hypothetical protein [Synechocystis sp. PCC 6803]
sp|Q55578|Y361_SYNY3 Hypothetical protein slr0361
pir||S76104 hypothetical protein - Synechocystis sp. (strain PCC 6803)
dbj|BAA10082.1| (D63999) ORF_ID:slr0361~hypothetical protein [Synechocystis sp. PCC
6803]
Length = 249
Score = 77.4 bits (189), Expect = 1e-13
Identities = 71/249 (28%), Positives = 115/249 (45%), Gaps = 24/249 (9%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVV-KENDRVFLDKRLIKPLKNKK 65
RI + L+ + SRR AE+++L GRV +N + A L + D + +D + IK +
Sbjct: 4 RIQKLLSQWGIASRRHAEEMILAGRVSVNGKVANLGDKADPQQDFLSVDGKQIKADNRPR 63
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAH---FAPVGRLDFASEGVLLLSDSKA 122
L+ +KP+ L + DP R+ + + L + PVGRLD S G LLL++
Sbjct: 64 DIYLLVNKPRDVLSTCDDPRGRKTVLDLLPQDLQRGKGLHPVGRLDRNSTGALLLTNDGE 123
Query: 123 VVSALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFI 180
+ L H L K Y + ++G + E + G+ L+ +KT ++
Sbjct: 124 LTLRLTHPRYHLPKTYDVWLEGNPSDEDLEKWRSGMMLDG------KKTLPATL------ 171
Query: 181 GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLN----ALPVG 236
E+I + L V + EG+NR++RR VL L R G + L+ L G
Sbjct: 172 --EVISENKDQIHLLVTLTEGRNRQIRRLAEELGLTVLKLHRRTIGPLQLHTRGKVLGSG 229
Query: 237 KMRFLNRQE 245
+ RFL+ E
Sbjct: 230 QFRFLSPAE 238
>ref|NP_216227.1| (NC_000962) hypothetical protein Rv1711 [Mycobacterium tuberculosis
H37Rv]
ref|NP_336208.1| (NC_002755) RNA pseudouridylate synthase [Mycobacterium
tuberculosis CDC1551]
sp|O33210|YH11_MYCTU Hypothetical protein Rv1711
pir||F70504 hypothetical protein Rv1711 - Mycobacterium tuberculosis (strain
H37RV)
emb|CAB10968.1| (Z98268) hypothetical protein Rv1711 [Mycobacterium tuberculosis
H37Rv]
gb|AAK46022.1| (AE007037) RNA pseudouridylate synthase [Mycobacterium tuberculosis
CDC1551]
Length = 254
Score = 76.6 bits (187), Expect = 2e-13
Identities = 71/259 (27%), Positives = 120/259 (45%), Gaps = 37/259 (14%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHE---------HAKLASVVKENDRVFLDKR 56
+R+ + L+ SRR AEK++++GRV+++ ++A V + RV LD
Sbjct: 14 IRLQKVLSQAGIASRRAAEKMIVDGRVEVDGHVVTELGTRVDPQVAVVRVDGARVVLDDS 73
Query: 57 LIKPLKNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYA---HFAPVGRLDFASEG 113
L+ L +KP+G + +D R I + +E+K VGRLD +EG
Sbjct: 74 LV---------YLALNKPRGMHSTMSDDRGRPCIGDLIERKVRGTKKLFHVGRLDADTEG 124
Query: 114 VLLLSDSKAVVSALMHADLE--KEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPI 171
++LL++ + LMH E K YL + G V R + ++ G++L++ P
Sbjct: 125 LMLLTNDGELAHRLMHPSHEVPKTYLATVTGSVPRGLGRTLRAGIELDDG--------PA 176
Query: 172 KSMEFAPFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLN 231
+FA ++ + +RV ++EG+NR +RR A V L R G V+L
Sbjct: 177 FVDDFA------VVDAIPGKTLVRVTLHEGRNRIVRRLLAAAGFPVEALVRTDIGAVSLG 230
Query: 232 ALPVGKMRFLNRQEYNELH 250
G +R L E +L+
Sbjct: 231 KQRPGSVRALRSNEIGQLY 249
>ref|NP_301978.1| (NC_002677) possible pseudouridine synthase [Mycobacterium leprae]
emb|CAC31751.1| (AL583921) possible pseudouridine synthase [Mycobacterium leprae]
Length = 257
Score = 75.9 bits (185), Expect = 4e-13
Identities = 67/254 (26%), Positives = 120/254 (46%), Gaps = 25/254 (9%)
Query: 5 SLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNK 64
++R+ + L+ SRR AEKL++EGRV+++ + + + D + +K + +
Sbjct: 16 AVRLQKILSRAGIASRRAAEKLIIEGRVEVDGQLVRELGTRVDPDVSVVRVDGVKVVVDD 75
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLE------KKYAHFAPVGRLDFASEGVLLLS 118
L +KP+G + +D R + + +E KK H VGRLD +EG++LL+
Sbjct: 76 SLVYLALNKPRGMYSTMSDDRGRPCVGDLIERRVRGNKKLFH---VGRLDADTEGLILLT 132
Query: 119 DSKAVVSALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEF 176
+ + LMH ++ K YL ++G V R + + GL+L++ P +F
Sbjct: 133 NDGELAHRLMHPSHEVSKTYLATVKGAVPRGLGKKLSVGLELDDG--------PAHVDDF 184
Query: 177 APFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVG 236
A ++ + +R+ ++EG+ R +RR V L R G V+L G
Sbjct: 185 A------VVDAIPGKTLVRLTLHEGRKRIVRRLLTAAGFPVEMLVRTDIGAVSLGDQRPG 238
Query: 237 KMRFLNRQEYNELH 250
+R L R E +L+
Sbjct: 239 CLRALLRDEIRQLY 252
>ref|NP_626039.1| (NC_003888) putative pseudouridine synthase [Streptomyces
coelicolor A3(2)]
pir||T36871 probable pseudouridine synthase - Streptomyces coelicolor
emb|CAB52832.1| (AL109848) putative pseudouridine synthase [Streptomyces coelicolor
A3(2)]
Length = 371
Score = 75.9 bits (185), Expect = 4e-13
Identities = 65/247 (26%), Positives = 115/247 (46%), Gaps = 21/247 (8%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHA--KLASVVKENDRVFLDKRLIKPLKNK 64
R+ + LA SRR E+L+ + RV+IN E + V E D V +D + +
Sbjct: 136 RLQKVLARAGYGSRRACEELIEQARVEINGEIVLEQGRRVDPEKDEVKVDGLTVATQSYQ 195
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 124
FS+ +KP G + + DP R+ + + + + VGRLD +EGV+LL++ +
Sbjct: 196 FFSL---NKPAGVVSTMEDPEGRQCLGDYVTNRETRLFHVGRLDTETEGVILLTNHGELA 252
Query: 125 SALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 182
L H ++K YL I G + R++ +++G++LE+ +A +
Sbjct: 253 HRLTHPRYGVKKTYLAHIVGPIPRDLGKRLKDGIQLEDG--------------YARADHF 298
Query: 183 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 242
+++ K + V ++EG+ +RR A V +L R +G + L G +R L+
Sbjct: 299 RVVEQTGKNYLVEVTLHEGRKHIVRRMLAEAGFPVDNLVRTAFGPITLGDQKSGWLRRLS 358
Query: 243 RQEYNEL 249
E L
Sbjct: 359 NTEVGML 365
>ref|NP_372277.1| (NC_002758) hypothetical protein [Staphylococcus aureus subsp.
aureus Mu50]
ref|NP_374863.1| (NC_002745) hypothetical protein, similar to 16S pseudouridylate
synthase [Staphylococcus aureus subsp. aureus N315]
emb|CAB82472.1| (Y14816) hypothetical protein [Staphylococcus aureus]
dbj|BAB42842.1| (AP003135) ORFID:SA1574~hypothetical protein, similar to 16S
pseudouridylate synthase [Staphylococcus aureus subsp.
aureus N315]
dbj|BAB57915.1| (AP003363) hypothetical protein [Staphylococcus aureus subsp.
aureus Mu50]
Length = 231
Score = 75.9 bits (185), Expect = 4e-13
Identities = 67/250 (26%), Positives = 124/250 (48%), Gaps = 26/250 (10%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLAS--VVKENDRVFLDKRLIKPLKN 63
+RI++FLA+ +R E ++L+ +G V +N + K + END++ + LI+ ++N
Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKITVRGELIEYIEN 60
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAV 123
++ +KPKG + + D + VI E ++ + PVGRLD +EG+LL+++
Sbjct: 61 V---YIMLNKPKGYISATEDHHSKTVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDF 117
Query: 124 VSALM--HADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIG 181
LM + + K+Y + +T + A +EG+ L + + P I
Sbjct: 118 NHELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLTDG-------------KVKPAI- 163
Query: 182 YEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNA-LPVGKMRF 240
I N + V I EGK +++R F VL LRR++ + L++ L G+ R
Sbjct: 164 LTYIDNQTSH----VTIYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYRL 219
Query: 241 LNRQEYNELH 250
L ++++L+
Sbjct: 220 LTENDFDKLN 229
>sp|O05668|YH11_MYCLE Hypothetical protein ML1370
emb|CAB08276.1| (Z95117) MLC1351.03c, unknown, len: 256 aa, similar to eg.
YCIL_ECOLI P37765 hypothetical 32.7 kd protein in trpl-
(291 aa), fasta clones, opt: 481 z-score: 570.9 E():
8.5e-25, (42.4% identity in 229 aa overlap); contains
PS01149 Hypothetical yciL/yejD>
Length = 256
Score = 75.9 bits (185), Expect = 4e-13
Identities = 67/254 (26%), Positives = 120/254 (46%), Gaps = 25/254 (9%)
Query: 5 SLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNK 64
++R+ + L+ SRR AEKL++EGRV+++ + + + D + +K + +
Sbjct: 15 AVRLQKILSRAGIASRRAAEKLIIEGRVEVDGQLVRELGTRVDPDVSVVRVDGVKVVVDD 74
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLE------KKYAHFAPVGRLDFASEGVLLLS 118
L +KP+G + +D R + + +E KK H VGRLD +EG++LL+
Sbjct: 75 SLVYLALNKPRGMYSTMSDDRGRPCVGDLIERRVRGNKKLFH---VGRLDADTEGLILLT 131
Query: 119 DSKAVVSALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEF 176
+ + LMH ++ K YL ++G V R + + GL+L++ P +F
Sbjct: 132 NDGELAHRLMHPSHEVSKTYLATVKGAVPRGLGKKLSVGLELDDG--------PAHVDDF 183
Query: 177 APFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVG 236
A ++ + +R+ ++EG+ R +RR V L R G V+L G
Sbjct: 184 A------VVDAIPGKTLVRLTLHEGRKRIVRRLLTAAGFPVEMLVRTDIGAVSLGDQRPG 237
Query: 237 KMRFLNRQEYNELH 250
+R L R E +L+
Sbjct: 238 CLRALLRDEIRQLY 251
>ref|NP_656240.1| (NC_003995) PseudoU_synth_2, RNA pseudouridylate synthase [Bacillus
anthracis A2012] [Bacillus anthracis str. A2012]
Length = 197
Score = 75.5 bits (184), Expect = 5e-13
Identities = 58/219 (26%), Positives = 105/219 (47%), Gaps = 24/219 (10%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNKK 65
+RIN+F++ K SRR A+KL+ E RV IN + AK+ V D V ++ ++ ++
Sbjct: 1 MRINKFISEAGKASRRGADKLINERRVIINGKVAKIGDQVNPGDDVRVNGEQLRIARDHV 60
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125
+ L +KP G + +K +I L + +GRLD S+G++LL++ +V+
Sbjct: 61 YIAL--NKPVGITCTSEKSVKGNII--DLVNHPLRISHIGRLDKDSDGLILLTNDGDIVN 116
Query: 126 ALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183
++ A+ EKEY++ + +T + M G+K+ + T + EF
Sbjct: 117 EILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQLSKYEF------- 169
Query: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRR 222
++I+ +G NR++RR V L+R
Sbjct: 170 -----------KIILTQGLNRQIRRMCEALGYQVYTLKR 197
>ref|NP_658736.1| (NC_003995) PseudoU_synth_2, RNA pseudouridylate synthase [Bacillus
anthracis A2012] [Bacillus anthracis str. A2012]
Length = 242
Score = 73.6 bits (179), Expect = 2e-12
Identities = 69/257 (26%), Positives = 123/257 (47%), Gaps = 25/257 (9%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLAS--VVKENDRVFLDKRLIKPLKN 63
+R+++ LA+ SR+E +KL+ +G VKI+ K A V E V + ++ +
Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVV---EY 57
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHF--APVGRLDFASEGVLLLSDSK 121
K+F L+ HKP+G ++S + + + LE + A F PVGRLD +EG LL+++
Sbjct: 58 KEFVYLMMHKPQG-VISATEDDNHETVIDLLELEDAIFNPFPVGRLDIDTEGFLLITNDG 116
Query: 122 AVVSALM--HADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
+ L+ + K+Y + G VT E +G+ L++ ++ P
Sbjct: 117 KLSHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDD----GYETKP--------- 163
Query: 180 IGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLN-ALPVGKM 238
G I S++ ++I EGK +++R F V+ L+R G + L+ L +G+
Sbjct: 164 -GALTILKSDDISEIELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQY 222
Query: 239 RFLNRQEYNELHAFMAN 255
R L +E L + +
Sbjct: 223 RELTDEEVEMLKTYQVD 239
>ref|NP_294620.1| (NC_001263) ribosomal large subunit pseudouridine synthase B
[Deinococcus radiodurans]
pir||D75462 ribosomal large subunit pseudouridine synthase B - Deinococcus
radiodurans (strain R1)
gb|AAF10472.1|AE001942_4 (AE001942) ribosomal large subunit pseudouridine synthase B
[Deinococcus radiodurans]
Length = 257
Score = 73.6 bits (179), Expect = 2e-12
Identities = 68/247 (27%), Positives = 113/247 (45%), Gaps = 25/247 (10%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNKKF 66
R+++ LA SRR AE+L+ GRV +N + A L V + D V +D RL++ + +
Sbjct: 5 RLHKRLARAGIASRRAAEELIRAGRVTVNGQTAGLGQGVNDTDDVRVDGRLVELTRPETV 64
Query: 67 SVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVSA 126
+ +Y KP G + + D RR + +++ PVGRLD SEG+LLL++ +
Sbjct: 65 TYALY-KPVGFVTTAHDEYGRRNVLDAM-PDVPGLHPVGRLDKDSEGLLLLTNDGDLTLT 122
Query: 127 LMHADL--EKEYLIKIQGF--VTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 182
L H EK Y +G T+ + + G+ +++ A P + +
Sbjct: 123 LTHPRYGHEKAYRAWTEGREPPTQAELDVLVRGIAMDDGPAQALSAAPAEDGAY------ 176
Query: 183 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 242
V++ EG+NR++RR V L R R G + L L G+ R L
Sbjct: 177 -------------VVLGEGRNRQVRRMLEALGHPVGRLVRYRVGGLWLGDLNPGEYRELG 223
Query: 243 RQEYNEL 249
++ +L
Sbjct: 224 PRDLEQL 230
>ref|NP_519522.1| (NC_003295) PROBABLE ARGININ/PROLIN RICH PROTEIN [Ralstonia
solanacearum]
emb|CAD15103.1| (AL646064) PROBABLE ARGININ/PROLIN RICH PROTEIN [Ralstonia
solanacearum]
Length = 631
Score = 71.2 bits (173), Expect = 1e-11
Identities = 76/268 (28%), Positives = 127/268 (47%), Gaps = 45/268 (16%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHA-KLASVVKENDRVFLDKRLIKPLKNK 64
+R+++ ++ SRREA++ + G V ++ E +L S V+ + + + + + +
Sbjct: 379 VRLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVRPDAEIEI-LPAARSEQGE 437
Query: 65 KFSVLVYHKPKGELVSKA-DPLKRRVIYESLEKKYA------HFA--------PVGRLDF 109
+ +VL+ HKP G + +A D + + E ++ HFA P GRLD
Sbjct: 438 RVTVLL-HKPVGYVSGQAEDGYEPAAALFTAENQWEEDPTRKHFAAWQHKGLAPAGRLDI 496
Query: 110 ASEGVLLLSDSKAVVSALMHAD--LEKEYLIKI-----QGFVTREMENAMQEGLKLENAT 162
S G+L+L+ V L+ D +EKEYL+++ QG V ++ E L
Sbjct: 497 DSTGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWNAPQGPVEHDISKVFPEDL------ 550
Query: 163 KGAHQKTPIKSMEFAPFIGYEIIKNHAKYS-----KLRVIINEGKNRELRRFFAFFNAGV 217
++ + + E +K AK S +LR ++ EGK R++RR V
Sbjct: 551 --------LEMLRHGLSLDGEALKP-AKVSWQNEEQLRFVLREGKKRQIRRMCEQVGLEV 601
Query: 218 LDLRRVRYGFVNLNALPVGKMRFLNRQE 245
+ L+R+R G V L LPVGK RFL R E
Sbjct: 602 VGLKRIRMGSVVLGDLPVGKWRFLGRFE 629
>ref|NP_621756.1| (NC_003869) 16S rRNA uridine-516 pseudouridylate synthase and
related Pseudouridylate synthase [Thermoanaerobacter
tengcongensis]
gb|AAM23360.1| (AE012980) 16S rRNA uridine-516 pseudouridylate synthase and
related Pseudouridylate synthase [Thermoanaerobacter
tengcongensis]
Length = 240
Score = 71.2 bits (173), Expect = 1e-11
Identities = 67/251 (26%), Positives = 126/251 (49%), Gaps = 25/251 (9%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLAS--VVKENDRVFLDKRLIKPLKN 63
+R+++ L++ +R+E +K + +G V++N E S V E D V D ++
Sbjct: 4 MRLDKLLSNMGIGTRKEVKKYIKDGLVEVNGEIVLDPSKTVDTEKDEVLFDGEKVE---Y 60
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYA--HFAPVGRLDFASEGVLLLSDSK 121
K+F ++ +KP+G + + D + VI + L ++ A PVGRLD +EG+L++++
Sbjct: 61 KEFIYVMMNKPQGVISATHDKSEETVI-DLLPEEIALRKVFPVGRLDKDTEGLLIITNDG 119
Query: 122 AVVSALMHADLE--KEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
+ L+ + K+Y ++ G +T + +EG+ LE+ + +
Sbjct: 120 ELAHKLLSPKKKVVKKYYAEVLGKITEKDAEKFKEGVILEDGYRTMPSQL---------- 169
Query: 180 IGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNA-LPVGKM 238
EII++ + SK+ V + EGK +++R F VL L+R+ G + L+ L G+
Sbjct: 170 ---EIIES-SDISKVYVYLTEGKYHQVKRMFEAIGKKVLYLKRLCMGKLQLDENLEPGEW 225
Query: 239 RFLNRQEYNEL 249
R L +E N L
Sbjct: 226 RELTEEEVNLL 236
>ref|NP_636323.1| (NC_003902) pseudouridylate synthase [Xanthomonas campestris pv.
campestris str. ATCC 33913]
gb|AAM40247.1| (AE012192) pseudouridylate synthase [Xanthomonas campestris pv.
campestris str. ATCC 33913]
Length = 285
Score = 70.9 bits (172), Expect = 1e-11
Identities = 61/237 (25%), Positives = 103/237 (42%), Gaps = 18/237 (7%)
Query: 19 SRREAEKLVLEGRVKINHEHAKLASV---VKENDRVFLDKRLIKPLKNKKFSVLVYHKPK 75
SR EA + V +GRV + + ++D + +D + PL L+ +KP+
Sbjct: 48 SRTEAARWVADGRVSVAGRVVRDPEFPLRADQHDGIAIDGQ---PLAGPARLYLMLNKPR 104
Query: 76 GELVSKADPLKRRVIYESLEKK-YAHFAPVGRLDFASEGVLLLSDSKAVVSALMHADL-- 132
G + + D R +Y + APVGRLD ASEG+LL S+ +A+
Sbjct: 105 GVVTTVRDEQGRDTVYRCFDGAGLPWLAPVGRLDKASEGLLLFSNDPQWAAAVTDPATGP 164
Query: 133 EKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYEIIKNHAKYS 192
+K Y +++ + + L+L G P +++ + +
Sbjct: 165 DKTYHVQV---------DCRPDALQLARMHDGVADTDPESDGSLLRAKQVRVLREGERNA 215
Query: 193 KLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNRQEYNEL 249
L ++++EG+NR++RR A GVL L RV G + + L G R L+ E L
Sbjct: 216 WLEIVLDEGRNRQIRRLLAALEIGVLRLVRVAIGPLAMGELGKGSWRLLSAAEVRAL 272
>ref|NP_646513.1| (NC_003923) ORFID:MW1696~hypothetical protein, similar to 16S
pseudouridylate synthase [Staphylococcus aureus subsp.
aureus MW2]
dbj|BAB95561.1| (AP004828) ORFID:MW1696~hypothetical protein, similar to 16S
pseudouridylate synthase [Staphylococcus aureus subsp.
aureus MW2]
Length = 231
Score = 70.5 bits (171), Expect = 2e-11
Identities = 65/250 (26%), Positives = 122/250 (48%), Gaps = 26/250 (10%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLAS--VVKENDRVFLDKRLIKPLKN 63
+RI++FLA+ +R E ++L+ +G V +N + K + END++ + LI+ ++N
Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKITVRGELIEYIEN 60
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAV 123
++ +KPK + + D + VI E ++ + VGRLD +EG+LL+++
Sbjct: 61 V---YIMLNKPKDYISATEDHHSKTVIDLIPEYQHLNIFTVGRLDKDTEGLLLITNDGDF 117
Query: 124 VSALM--HADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIG 181
LM + + K+Y + +T + A +EG+ L + + P I
Sbjct: 118 NHELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLSDG-------------KVKPAI- 163
Query: 182 YEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNA-LPVGKMRF 240
I N + V I EGK +++R F VL LRR++ + L++ L G+ R
Sbjct: 164 LTYIDNQTSH----VTIYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYRL 219
Query: 241 LNRQEYNELH 250
L ++++L+
Sbjct: 220 LTENDFDKLN 229
>ref|NP_244139.1| (NC_002570) 16S pseudouridylate synthase [Bacillus halodurans]
dbj|BAB06992.1| (AP001518) 16S pseudouridylate synthase [Bacillus halodurans]
Length = 238
Score = 70.5 bits (171), Expect = 2e-11
Identities = 68/249 (27%), Positives = 126/249 (50%), Gaps = 29/249 (11%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLAS--VVKENDRVFLDKRLIKPLKN 63
+RI++FLA+ SR++ +KL+ G V++ + K S V E++ + + + ++
Sbjct: 1 MRIDKFLANMGFGSRKDVKKLLKTGAVRVQGQPIKDPSTHVEPESESITVYG---EEVEY 57
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHF--APVGRLDFASEGVLLLSDSK 121
K + L+ +KPKG + + D L+ + + L ++ H+ +PVGRLD + G+LL+++
Sbjct: 58 KPYVYLMMNKPKGVICATED-LEHETVIDLLGEEERHYEPSPVGRLDKDTVGLLLITNDG 116
Query: 122 AVVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENA--TKGAHQKTPIKSMEFA 177
LM + K Y ++G VT E A G+ L++ TK A
Sbjct: 117 KFNHWLMSPKHHVPKTYRALVEGHVTEEDVGAFSHGVVLDDGYVTKPAT----------- 165
Query: 178 PFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLN-ALPVG 236
I++ A+ S + +I+ EGK +++R F VL+L R++ G + L+ L G
Sbjct: 166 ----LHILEAGAR-SHIELILTEGKFHQVKRMFQAVGKRVLELERIKIGNLLLDPELARG 220
Query: 237 KMRFLNRQE 245
+ R L ++E
Sbjct: 221 EYRELTKEE 229
>ref|NP_300921.1| (NC_002491) pseudouridine synthase [Chlamydophila pneumoniae J138]
ref|NP_445542.1| (NC_002179) ribosomal large subunit pseudouridine synthase B
[Chlamydophila pneumoniae AR39]
pir||G81515 ribosomal large chain pseudouridine synthase B CP1005 [imported] -
Chlamydophila pneumoniae (strain AR39)
gb|AAF38783.1| (AE002257) ribosomal large subunit pseudouridine synthase B
[Chlamydophila pneumoniae AR39]
dbj|BAA99072.1| (AP002548) pseudouridine synthase [Chlamydophila pneumoniae J138]
Length = 235
Score = 69.7 bits (169), Expect = 3e-11
Identities = 66/245 (26%), Positives = 115/245 (46%), Gaps = 27/245 (11%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDRVFLDKRLIKPLKNK 64
+R+N+FLA SRR+ ++++ G V +N A+ V V D+V + + K
Sbjct: 4 VRLNKFLASAGVASRRKCDEIIFSGSVTVNGRVAEGPFVLVDPEDKVQVGGTSVHLTKKV 63
Query: 65 KFSVLVYHKPKGELVS--KADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKA 122
F V HK G L S K P + VI Y F VGRLD + G++L+++
Sbjct: 64 YFMV---HKAIGYLCSSEKKFPGTKLVIDLFAHLPYRVFT-VGRLDKETSGLILVTNDGE 119
Query: 123 VVSALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFI 180
+ ++H + + KEYL+K+ V+ + + EG ++ G H + P+ +
Sbjct: 120 FANKIIHPSSGITKEYLLKVSRDVSAKDLGKLMEGTFID----GKHVR-PVSVTKI---- 170
Query: 181 GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRF 240
+ ++++++EGK E+R F +L+L+R+R G + L L G+ R
Sbjct: 171 ---------RRGTVKIVVSEGKKHEIRLFADAAGLPILELKRIRIGSLVLGGLRYGEYRE 221
Query: 241 LNRQE 245
L E
Sbjct: 222 LTDAE 226
>ref|NP_439399.1| (NC_000907) 16s pseudouridylate 516 synthase (rsuA) [Haemophilus
influenzae Rd]
sp|P45124|RSUA_HAEIN Ribosomal small subunit pseudouridine synthase A (16S
pseudouridylate 516 synthase) (16S pseudouridine 516
synthase) (Uracil hydrolyase)
pir||F64169 hypothetical protein HI1243 - Haemophilus influenzae (strain Rd
KW20)
gb|AAC22895.1| (U32804) 16s pseudouridylate 516 synthase (rsuA) [Haemophilus
influenzae Rd]
Length = 232
Score = 69.3 bits (168), Expect = 4e-11
Identities = 68/251 (27%), Positives = 120/251 (47%), Gaps = 28/251 (11%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDRVFLDKRLIKPLKNK 64
+R+++F+A +R +A K + + VKIN E K SV + + D ++ + L+ ++
Sbjct: 1 MRLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWIEEG 60
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYA-HFAPVGRLDFASEGVLLLSD---- 119
++ +L +KP+G + S D IY+ + A GRLD + G++LL+D
Sbjct: 61 QYFML--NKPQGCVCSNDDG-DYPTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQW 117
Query: 120 SKAVVSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
S + S H EK YL+ + V A EG+ L +K P K +
Sbjct: 118 SHRITSPKHHC--EKTYLVTLADPVEENYSAACAEGILLRG------EKEPTKPAKL--- 166
Query: 180 IGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLN-ALPVGKM 238
EI+ ++ + + I+EG+ +++R FA V+ L R + G V L+ +L G+
Sbjct: 167 ---EILDDY----NVNLTISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEY 219
Query: 239 RFLNRQEYNEL 249
R L + E +L
Sbjct: 220 RPLTQSEIEKL 230
>ref|NP_225059.1| (NC_000922) predicted pseudouridine synthase [Chlamydophila
pneumoniae CWL029]
pir||H72025 probable pseudouridine synthase - Chlamydophila pneumoniae (strain
CWL029)
gb|AAD19002.1| (AE001667) predicted pseudouridine synthase [Chlamydophila
pneumoniae CWL029]
Length = 235
Score = 69.3 bits (168), Expect = 4e-11
Identities = 66/245 (26%), Positives = 115/245 (46%), Gaps = 27/245 (11%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDRVFLDKRLIKPLKNK 64
+R+N+FLA SRR+ ++++ G V +N A+ V V D+V + + K
Sbjct: 4 VRLNKFLASAGVASRRKCDEIIFSGSVTVNGRVAEGPFVLVDPEDKVQVGGTSVHLTKKV 63
Query: 65 KFSVLVYHKPKGELVS--KADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKA 122
F V HK G L S K P + VI Y F VGRLD + G++L+++
Sbjct: 64 YFMV---HKAIGYLCSSEKKFPGTKLVIDLFAHLPYRVFT-VGRLDKETSGLILVTNDGE 119
Query: 123 VVSALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFI 180
+ ++H + + KEYL+K+ V+ + + EG ++ G H + P+ +
Sbjct: 120 FANKIIHPSSGITKEYLLKVSRDVSAKDLGKLMEGTFID----GKHVR-PVSVTKI---- 170
Query: 181 GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRF 240
+ ++++++EGK E+R F +L+L+R+R G + L L G+ R
Sbjct: 171 ---------RRGTVKIVVSEGKKHEIRLFADAAGFPILELKRIRIGSLVLGGLRYGEYRE 221
Query: 241 LNRQE 245
L E
Sbjct: 222 LTDAE 226
>ref|NP_471766.1| (NC_003212) similar to 16S pseudouridylate synthase [Listeria
innocua]
emb|CAC97663.1| (AL596172) similar to 16S pseudouridylate synthase [Listeria
innocua]
Length = 233
Score = 69.3 bits (168), Expect = 4e-11
Identities = 70/249 (28%), Positives = 120/249 (48%), Gaps = 32/249 (12%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK--LASVVKENDRVFLDKRLIKPLKN 63
+R+++ L+H SR+E + L+ G V +N K V + D+V + P+
Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGT---PVIY 57
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVIYESLEKK--YAHFAPVGRLDFASEGVLLLSDSK 121
++F + HKP+ + + D L VI + LE++ + PVGRLD +EG+L++++
Sbjct: 58 QEFVYFMLHKPQNVVSATEDNLSETVI-DLLEQEDTLTNPFPVGRLDKDTEGLLIITNDG 116
Query: 122 AVVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENA--TKGAHQKTPIKSMEFA 177
+ L+ ++K Y KI G VT E A G+ L++ K AH
Sbjct: 117 TLAHNLLSPKKHIDKTYYAKIDGDVTAEDVEAFSAGVTLDDGYTCKPAH----------- 165
Query: 178 PFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL-NALPVG 236
EII + +++V I EGK +++R FA V L+R+ G + L ++L +G
Sbjct: 166 ----LEIITPN----EIKVTIQEGKFHQVKRMFAARGKTVSYLKRISMGNLQLDDSLELG 217
Query: 237 KMRFLNRQE 245
+ R L E
Sbjct: 218 EYRPLTENE 226
>ref|NP_218900.1| (NC_000919) conserved hypothetical protein [Treponema pallidum]
pir||E71320 conserved hypothetical protein TP0459 - syphilis spirochete
gb|AAC65447.1| (AE001223) conserved hypothetical protein [Treponema pallidum]
Length = 261
Score = 67.4 bits (163), Expect = 1e-10
Identities = 67/270 (24%), Positives = 120/270 (43%), Gaps = 48/270 (17%)
Query: 4 FSLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLAS-VVKENDRVFLDKRLIKPLK 62
F LR+ +LA SRR E L+ GRV ++ + V + V +D +++ +
Sbjct: 8 FRLRLQVYLARSGCASRRACEALIASGRVTVDGQTVTTQGRTVCAQNVVCVDGTVVQLER 67
Query: 63 NKKFSVLVYHKPKGELVS--------------KADPLKRR------VIYESLEKKYAHFA 102
+++ +L +KP G + S +A P K+ ++ + +++ H
Sbjct: 68 VQRYVLL--YKPVGYICSLAPQFPAGYAHTQVRAGPSKQEYARAIDLVQPAYQERLYH-- 123
Query: 103 PVGRLDFASEGVLLLSDSKAVVSALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLEN 160
+GRLD SEG LL ++ + AL H + +EKEY+++ + V + ++ G+ +E
Sbjct: 124 -IGRLDVRSEGALLFTNDGSFAQALGHPRSGIEKEYIVETREPVPAALLSSFVRGVWVEG 182
Query: 161 ATKGAHQKTPIKSMEFAPFIGYEIIK-NHAKYSKLRVIINEGKNRELRRFFAFFNAGVLD 219
Y ++ H +++++ EGK RE+R F + V+
Sbjct: 183 CR-------------------YRCVRARHLAAQCVQLVLVEGKKREIRVVFEAWGQDVVR 223
Query: 220 LRRVRYGFVNLNALPVGKMRFLNRQEYNEL 249
L RVR G V L L G R + QE +L
Sbjct: 224 LVRVRIGRVRLGPLRPGAFRTMRLQEVAQL 253
>ref|NP_607497.1| (NC_003485) putative 16S pseudouridylate synthetase [Streptococcus
pyogenes MGAS8232]
gb|AAL97996.1| (AE010060) putative 16S pseudouridylate synthetase [Streptococcus
pyogenes MGAS8232]
Length = 254
Score = 67.4 bits (163), Expect = 1e-10
Identities = 59/258 (22%), Positives = 115/258 (43%), Gaps = 29/258 (11%)
Query: 5 SLRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLI------ 58
++R+++ L SR + +KL+ V ++H A+ N R +D L
Sbjct: 16 NMRLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPAR-------NGRQNVDPGLQLIEVTG 68
Query: 59 KPLKNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLL 117
+ + + K S ++ +KP G + +K D +I + E+ K PVGRLD +EG++LL
Sbjct: 69 QRVTHPKHSYIILNKPSGVVSAKKDTNYLTIIDQLAEEDKSPDLYPVGRLDRDTEGLVLL 128
Query: 118 SDSKAVVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSME 175
+D+ + ++H + K YL+ + G + + + G+ Q P +
Sbjct: 129 TDNGPLGFRMLHPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTG----EQCQPAQ--- 181
Query: 176 FAPFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPV 235
I+K S+ + I+EGK ++++ F + V L+R + + L L
Sbjct: 182 ------LTILKADTDQSQASLTISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLAS 235
Query: 236 GKMRFLNRQEYNELHAFM 253
G+ R+L E + ++
Sbjct: 236 GEYRYLTESERQLIKTYL 253
>ref|NP_465865.1| (NC_003210) similar to 16S pseudouridylate synthase [Listeria
monocytogenes EGD-e]
emb|CAD00420.1| (AL591983) similar to 16S pseudouridylate synthase [Listeria
monocytogenes]
Length = 233
Score = 67.4 bits (163), Expect = 1e-10
Identities = 63/246 (25%), Positives = 115/246 (46%), Gaps = 26/246 (10%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK--LASVVKENDRVFLDKRLIKPLKN 63
+R+++ L+H SR+E + L+ G V +N K V + D++ + P+
Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQITVHGT---PVVY 57
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVI-YESLEKKYAHFAPVGRLDFASEGVLLLSDSKA 122
++F + HKP+ + + D + VI + E PVGRLD +EG+L++++
Sbjct: 58 QEFVYFMLHKPQNVVSATEDNVSETVIDLLAQEDTLTDPFPVGRLDKDTEGLLIITNDGT 117
Query: 123 VVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFI 180
+ L+ ++K Y KI G VT E A G++L++ + P + P
Sbjct: 118 LAHNLLSPKKHIDKTYYAKIDGDVTAEDVEAFAAGIELDDG----YTCKPARLEIITP-- 171
Query: 181 GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLN-ALPVGKMR 239
++++V I EGK +++R FA V L+R+ G + L+ +L +G+ R
Sbjct: 172 -----------NEIKVTIQEGKFHQVKRMFAARGKSVSYLKRISMGNLQLDESLALGEYR 220
Query: 240 FLNRQE 245
L E
Sbjct: 221 PLTEAE 226
>ref|NP_563180.1| (NC_003366) 16S pseudouridylate synthase [Clostridium perfringens]
dbj|BAB81970.1| (AP003193) 16S pseudouridylate synthase [Clostridium perfringens]
Length = 239
Score = 66.6 bits (161), Expect = 3e-10
Identities = 63/252 (25%), Positives = 122/252 (48%), Gaps = 26/252 (10%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLAS--VVKENDRVFLDKRLIKPLKNK 64
R+++ L++ +R+E +++V +G V +N E K + + E D + ++ ++ K
Sbjct: 3 RLDKVLSNLGYGTRKEIKQVVKKGFVTVNDEKVKDSGLQIDPEKDTIVINGEKVE---YK 59
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVI-YESLEKKYAHFAPVGRLDFASEGVLLLSD---- 119
K+ L+ +KP G + + D VI +E + PVGRLD + G+LLL++
Sbjct: 60 KYIYLMMNKPAGVISATYDKRDETVIDLLYMEDQVFEPFPVGRLDKDTVGLLLLTNDGDL 119
Query: 120 SKAVVSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
+ ++S H D K Y +I +T + A + G+ L++ K K
Sbjct: 120 NHKLISPKYHVD--KVYYAEINAPITEKDIKAFENGVTLDDGYKCMSAKL---------- 167
Query: 180 IGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLN-ALPVGKM 238
++I+N S++ V + EGK +++R F V+ L+R +G + L+ +L G+
Sbjct: 168 ---KVIENLEDSSRVEVTVQEGKYHQVKRMFEARGKKVVYLKRTSFGNLPLDESLEEGEY 224
Query: 239 RFLNRQEYNELH 250
+ L+ E L+
Sbjct: 225 KELSESELAVLY 236
>ref|NP_244940.1| (NC_002663) RsuA [Pasteurella multocida]
gb|AAK02087.1| (AE006034) RsuA [Pasteurella multocida]
Length = 232
Score = 65.9 bits (159), Expect = 4e-10
Identities = 66/247 (26%), Positives = 116/247 (46%), Gaps = 28/247 (11%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKIN-HEHAKLASVVKENDRVFLDKRLIKPLKNK 64
+R+++FLA T +R +A K++ + V +N H A V + D + L+ + +
Sbjct: 1 MRLDKFLAENTGLTRSQANKVLKQSAVTVNGHVEKNGAQKVSQTDEICLEGEHLPWVSAG 60
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYA-HFAPVGRLDFASEGVLLLSD---- 119
++ L+ +KP+G + S D IY+ + A GRLD + G++LL+D
Sbjct: 61 QY--LMLYKPQGYVCSHEDG-DYPTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGKW 117
Query: 120 SKAVVSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
S + S H EK YL+ + V + A EG+ L +KTP K
Sbjct: 118 SHRITSPKHHC--EKTYLVTLADPVESHYQQACAEGMLLRG------EKTPTKPATL--- 166
Query: 180 IGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL-NALPVGKM 238
EI+ ++ + + I+EG+ +++R FA V+ L R + G + L + L G+
Sbjct: 167 ---EILDDY----NVNLTISEGRYHQVKRMFAALGNKVVGLHRWKIGQIELDDRLAEGEY 219
Query: 239 RFLNRQE 245
R L+ +E
Sbjct: 220 RSLSAEE 226
>ref|NP_643985.1| (NC_003919) ribosomal small subunit pseudouridylate synthase
[Xanthomonas axonopodis pv. citri str. 306]
gb|AAM38521.1| (AE012018) ribosomal small subunit pseudouridylate synthase
[Xanthomonas axonopodis pv. citri str. 306]
Length = 237
Score = 65.9 bits (159), Expect = 4e-10
Identities = 67/251 (26%), Positives = 116/251 (45%), Gaps = 28/251 (11%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNKK 65
+++ + +A+ SR++ +L +G + A E+D + +D +PL
Sbjct: 1 MKLVKHIANLGYGSRKQVTQLFRQGAITDAQGEVLYADDQVEHDAIRIDG---EPLDPPA 57
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAH----FAPVGRLDFASEGVLLLSDSK 121
L+ HKP G S D R+IYE L ++ APVGRLD + G+LL++D
Sbjct: 58 GLSLLLHKPSGYTCSTKDT--GRLIYELLPPRFRLRAPVLAPVGRLDRETSGLLLMTDDG 115
Query: 122 AVVSALMH--ADLEKEYLIKIQGFVTREMENAMQEG-LKLENATKGAHQKTPIKSMEFAP 178
A++ ++ + L+K Y I + + + G L LE TK P+ E
Sbjct: 116 ALLHRIISPKSALDKVYDITLAEDLRGDEAALFASGSLLLEGETK------PLLPAEL-- 167
Query: 179 FIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKM 238
E++ + R+ ++EG+ ++RR FA + V+ L R R G ++L+ LP G+
Sbjct: 168 ----EVLGPR----QARLTLHEGRYHQVRRMFAAAGSHVVALHRSRIGGLSLDGLPSGQW 219
Query: 239 RFLNRQEYNEL 249
R L + L
Sbjct: 220 RALEASDLEVL 230
>gb|AAM66944.1| (AY088622) unknown [Arabidopsis thaliana]
Length = 410
Score = 65.1 bits (157), Expect = 7e-10
Identities = 73/261 (27%), Positives = 120/261 (45%), Gaps = 33/261 (12%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHE--HAKLASVVKENDRVFLD-KRLIKPLKN 63
R+++ LA SRR +E+L+ +G+V +N + V D ++++ R+ K L
Sbjct: 161 RLSKVLAAAGVASRRTSEELIFDGKVTVNGILCNTPQTRVDPSRDIIYVNGNRIPKKLPP 220
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVI-----YESLEKKYAHFAP------VGRLDFASE 112
K + L +KPKG + S + + I Y S K P VGRLD A+
Sbjct: 221 KVYFAL--NKPKGYICSSGEKEIKSAISLFDEYLSSWDKRNPGTPKPRLFTVGRLDVATT 278
Query: 113 GVLLLSDSKAVVSALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTP 170
G++++++ L H + L KEY+ + G + + A+ EG +E G H
Sbjct: 279 GLIVVTNDGDFAQKLSHPSSSLPKEYITTVVGDIHKRHLMAISEGTMVE----GVHCVPD 334
Query: 171 IKSMEFAPFIGYEIIKNH-AKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVN 229
S+E P K H ++LR++++EG+N E+R V L+RVR G
Sbjct: 335 --SVELMP-------KQHDIPRARLRIVVHEGRNHEVRELVKNAGLEVHSLKRVRIGGFR 385
Query: 230 L-NALPVGKMRFLNRQEYNEL 249
L + L +GK L + E L
Sbjct: 386 LPSDLGLGKHVELKQSELKAL 406
>ref|NP_249424.1| (NC_002516) probable pseudouridylate synthase [Pseudomonas
aeruginosa]
pir||E83554 probable pseudouridylate synthase PA0733 [imported] - Pseudomonas
aeruginosa (strain PAO1)
gb|AAG04122.1|AE004508_7 (AE004508) probable pseudouridylate synthase [Pseudomonas
aeruginosa]
Length = 230
Score = 64.7 bits (156), Expect = 1e-09
Identities = 64/246 (26%), Positives = 117/246 (47%), Gaps = 26/246 (10%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLAS-VVKENDRVFLDKRLIKPLKNK 64
+R+++FLA+ + SRR+A+ L+ G ++++ + + + V+ RV LD+RL++ K
Sbjct: 1 MRLDRFLANLPELSRRDAQMLIAGGHLRVDGQVVRDGTHEVRVFSRVELDERLLQAGKPA 60
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 124
++ +L HKP G + + DP V+ E GRLD+ + G++LL++
Sbjct: 61 RYYML--HKPMGCVSATRDPQHPTVLDLFPEDLRDDLHIGGRLDYNTTGLMLLTNDGQWS 118
Query: 125 SALM--HADLEKEYLIKIQGFVTREMENAMQEGL--KLENATKGAHQKTPIKSMEFAPFI 180
L + +K Y ++ + + + +A GL + E+ Q PI
Sbjct: 119 RRLTLPGSRRDKVYYVETEAPIDQRYVDAFAAGLHFRFEDLVTLPAQLEPIGPR------ 172
Query: 181 GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLN-ALPVGKMR 239
R+ ++EG+ +++R F F+ VL L R R G + L+ LP G R
Sbjct: 173 ------------CARLTLHEGRYHQVKRMFGHFDNKVLRLHRERMGDICLDPQLPPGAWR 220
Query: 240 FLNRQE 245
LN +E
Sbjct: 221 PLNAEE 226
>ref|NP_641361.1| (NC_003919) pseudouridylate synthase [Xanthomonas axonopodis pv.
citri str. 306]
gb|AAM35897.1| (AE011731) pseudouridylate synthase [Xanthomonas axonopodis pv.
citri str. 306]
Length = 264
Score = 63.9 bits (154), Expect = 2e-09
Identities = 58/234 (24%), Positives = 99/234 (41%), Gaps = 12/234 (5%)
Query: 19 SRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNKKFSVLVYHKPKGEL 78
SR EA + + GRV ++ + D+ +PL L+ +KP+G +
Sbjct: 28 SRTEAARWIAAGRVSVSARVVRDPEFPIRGDQQSSIAVDGQPLAGLARCYLMLNKPRGVV 87
Query: 79 VSKADPLKRRVIYESLEKK-YAHFAPVGRLDFASEGVLLLSDSKAVVSALMHADL--EKE 135
+ D R +Y + APVGRLD ASEG+LL S+ + + +K
Sbjct: 88 TTVRDEQGRDTVYRCFDDAGLPWIAPVGRLDKASEGLLLFSNDPQWAATVTDPATGPDKT 147
Query: 136 YLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYEIIKNHAKYSKLR 195
Y ++I + +L G P +++ + + L
Sbjct: 148 YHVQI---------DCRPSAAQLVQLHAGVVDPDPQGQGLLLRAKQVSVLREGERNAWLE 198
Query: 196 VIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNRQEYNEL 249
++++EG+NR++RR A + GVL L RV G + + L G R L+ +E + L
Sbjct: 199 IVLDEGRNRQIRRLLAAVDIGVLRLVRVAIGPLAMGELGKGAWRMLSAEEVSAL 252
>ref|NP_358191.1| (NC_003098) Ribosomal small subunit pseudouridine synthase A
[Streptococcus pneumoniae R6]
gb|AAK99401.1| (AE008438) Ribosomal small subunit pseudouridine synthase A
[Streptococcus pneumoniae R6]
Length = 241
Score = 63.5 bits (153), Expect = 2e-09
Identities = 62/250 (24%), Positives = 119/250 (46%), Gaps = 31/250 (12%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKP--LKN 63
+R++ LA K SR+ ++ +L G++ ++ A+ + +N L + L + ++
Sbjct: 1 MRLDNLLAQ-EKISRKAMKQALLRGKILVDGCPARSLA---QNIDTGLQELLFQDRIIQG 56
Query: 64 KKFSVLVYHKPKGELVSKAD---PLKRRVIYESLE--KKYAHFAPVGRLDFASEGVLLLS 118
+ + L+ HKP G + + D P ++ ++ K YA VGRLD + G+LLL+
Sbjct: 57 YEHTYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYA----VGRLDRDTTGLLLLT 112
Query: 119 DSKAVVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEF 176
D+ + L+H ++K Y +++ G +T + A Q+G+ + T K
Sbjct: 113 DNGPLGFQLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPAKL------- 165
Query: 177 APFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNA-LPV 235
EI+ S+ + I+EGK ++++ F V L+R+++G LN L
Sbjct: 166 ------EILSASPSISQASITISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAE 219
Query: 236 GKMRFLNRQE 245
R LN++E
Sbjct: 220 SNYRPLNQKE 229
>ref|NP_345185.1| (NC_003028) ribosomal small subunit pseudouridine synthase A
[Streptococcus pneumoniae TIGR4]
gb|AAK74825.1| (AE007377) ribosomal small subunit pseudouridine synthase A
[Streptococcus pneumoniae TIGR4]
Length = 241
Score = 63.5 bits (153), Expect = 2e-09
Identities = 62/250 (24%), Positives = 119/250 (46%), Gaps = 31/250 (12%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKP--LKN 63
+R++ LA K SR+ ++ +L G + ++ A+ + +N L + L + ++
Sbjct: 1 MRLDNLLAQ-EKISRKAMKQALLRGEILVDGCPARSLA---QNIDTGLQELLFQDRIIQG 56
Query: 64 KKFSVLVYHKPKGELVSKAD---PLKRRVIYESLE--KKYAHFAPVGRLDFASEGVLLLS 118
+ + L+ HKP G + + D P ++ +++ K YA VGRLD + G+LLL+
Sbjct: 57 YEHTYLMLHKPAGAVTANKDKELPTVMDLLPSNIQSDKLYA----VGRLDRDTTGLLLLT 112
Query: 119 DSKAVVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEF 176
D+ + L+H ++K Y +++ G +T + Q+G+ + T K
Sbjct: 113 DNGPLGFQLLHPQYHVDKTYQVEVNGLLTPDHIQTFQKGIVFLDDTVCKPAKL------- 165
Query: 177 APFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNA-LPV 235
EI+ S+ + I+EGK ++++ F V L+R+++G LN L
Sbjct: 166 ------EILSASPSLSQASITISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAE 219
Query: 236 GKMRFLNRQE 245
G R LN++E
Sbjct: 220 GNYRPLNQKE 229
>ref|NP_269450.1| (NC_002737) putative 16S pseudouridylate synthase [Streptococcus
pyogenes] [Streptococcus pyogenes M1 GAS]
gb|AAK34171.1| (AE006572) putative 16S pseudouridylate synthase [Streptococcus
pyogenes M1 GAS]
Length = 244
Score = 62.0 bits (149), Expect = 6e-09
Identities = 65/251 (25%), Positives = 116/251 (45%), Gaps = 23/251 (9%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINH--EHAKLASVVKENDRVFLDKRLIKPLKN 63
+R+++FL +R + + L+ + + +N E + A + + D V PL
Sbjct: 2 MRLDKFLVATGVGTRSQVKLLLKKKAIFVNQKVETSAKAHIDEYKDLVTYQGT---PLVY 58
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFA--PVGRLDFASEGVLLLSDSK 121
+ F + +KP G VS ++ + E L+ A PVGRLD + G+LLL+++
Sbjct: 59 ESFVYYLLNKPSG-YVSATQDRQQATVMELLDDTARQKAVFPVGRLDKDTRGLLLLTNNG 117
Query: 122 AVVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
+ L+ + KEYL K+ G +T ++ G+ L++ HQ P A
Sbjct: 118 QLAHDLLSPKKHVTKEYLAKVAGIMTEADKDYFARGISLKD-----HQCLPAHLEVLASD 172
Query: 180 IGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLN-ALPVGKM 238
+ + S +++ I EGK +++R A VLDL+R+ G + L+ +L G+
Sbjct: 173 LQQQT-------SLVKITIQEGKFHQVKRMVAACGKEVLDLQRLSMGPLKLDPSLAEGEF 225
Query: 239 RFLNRQEYNEL 249
R L +E L
Sbjct: 226 RRLTPEELQSL 236
>ref|NP_607451.1| (NC_003485) putative 16S pseudouridylate synthase [Streptococcus
pyogenes MGAS8232]
gb|AAL97950.1| (AE010056) putative 16S pseudouridylate synthase [Streptococcus
pyogenes MGAS8232]
Length = 243
Score = 61.2 bits (147), Expect = 1e-08
Identities = 64/251 (25%), Positives = 116/251 (45%), Gaps = 23/251 (9%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINH--EHAKLASVVKENDRVFLDKRLIKPLKN 63
+R+++FL +R + + L+ + + +N E + A + + D V PL
Sbjct: 1 MRLDKFLVATGVGTRSQVKLLLKKKAIFVNQKVETSAKAHIDEYKDLVTYQGT---PLVY 57
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVIYESLEK--KYAHFAPVGRLDFASEGVLLLSDSK 121
+ F + +KP G VS ++ + E L+ + PVGRLD + G+LLL+++
Sbjct: 58 ESFVYYLLNKPSG-YVSATQDRQQATVMELLDDTARQKTVFPVGRLDKDTRGLLLLTNNG 116
Query: 122 AVVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
+ L+ + KEYL K+ G +T ++ G+ L++ HQ P A
Sbjct: 117 QLAHDLLSPKKHVTKEYLAKVAGIMTEADKDYFARGISLKD-----HQCLPAHLEVLASD 171
Query: 180 IGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLN-ALPVGKM 238
+ + S +++ I EGK +++R A VLDL+R+ G + L+ +L G+
Sbjct: 172 LQQQT-------SLVKITIQEGKFHQVKRMVAACGKEVLDLQRLSMGPLKLDPSLAEGEF 224
Query: 239 RFLNRQEYNEL 249
R L +E L
Sbjct: 225 RRLTPEELQSL 235
>ref|NP_288766.1| (NC_002655) 16S pseudouridylate 516 synthase [Escherichia coli
O157:H7 EDL933]
ref|NP_311102.1| (NC_002695) 16S pseudouridylate 516 synthase [Escherichia coli
O157:H7]
ref|NP_416688.1| (NC_000913) 16S pseudouridylate 516 synthase [Escherichia coli K12]
sp|P33918|RSUA_ECOLI Ribosomal small subunit pseudouridine synthase A (16S
pseudouridylate 516 synthase) (16S pseudouridine 516
synthase) (Uracil hydrolyase)
pir||F64987 hypothetical 25.9 kD protein in bcr-rplY intergenic region -
Escherichia coli (strain K-12)
gb|AAA16377.1| (U00008) yejD [Escherichia coli]
gb|AAB34905.1| 16S RNA pseudouridine 516 synthase, 16S RNA psi 516 synthase=rsuA
gene product [Escherichia coli, Peptide, 231 aa]
gb|AAC75244.1| (AE000308) 16S pseudouridylate 516 synthase [Escherichia coli K12]
gb|AAG57321.1|AE005451_2 (AE005451) 16S pseudouridylate 516 synthase [Escherichia coli
O157:H7 EDL933]
dbj|BAB36498.1| (AP002560) 16S pseudouridylate 516 synthase [Escherichia coli
O157:H7]
Length = 231
Score = 60.1 bits (144), Expect = 2e-08
Identities = 64/247 (25%), Positives = 116/247 (46%), Gaps = 28/247 (11%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLAS--VVKENDRVFLDKRLIKPLKN 63
+R+++F+A SR A + + RV ++ E + A+ ++ E+D + L +
Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGP 60
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSD---- 119
+ F + +KP+G + S DP V+Y E GRLD + G++L++D
Sbjct: 61 RYFML---NKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQW 117
Query: 120 SKAVVSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
S + S H EK YL+ ++ V + +G++L N +K K
Sbjct: 118 SHRITSPRHHC--EKTYLVTLESPVADDTAEQFAKGVQLHN------EKDLTKPAVL--- 166
Query: 180 IGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNA-LPVGKM 238
E+I +++R+ I+EG+ +++R FA V++L R R G + L+A L G+
Sbjct: 167 ---EVITP----TQVRLTISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEY 219
Query: 239 RFLNRQE 245
R L +E
Sbjct: 220 RPLTEEE 226
>ref|NP_438854.1| (NC_000907) conserved hypothetical protein [Haemophilus influenzae
Rd]
sp|P44827|YMFC_HAEIN Hypothetical protein HI0694
pir||I64156 probable pseudouridylate synthase HI0694 - Haemophilus influenzae
(strain Rd KW20)
gb|AAC22354.1| (U32752) conserved hypothetical protein [Haemophilus influenzae Rd]
Length = 240
Score = 59.3 bits (142), Expect = 4e-08
Identities = 64/237 (27%), Positives = 102/237 (43%), Gaps = 35/237 (14%)
Query: 32 VKINHEHAKLASVVKEN---DRVFLDKRLIKPLKNKKFSVLVYHKPKGELVSKADPLKRR 88
+K N KL S K R F K K L + V++++KP L D R
Sbjct: 14 MKKNFSAGKLPSKGKSAVNFHRTFKPKLKPKTLSLDETKVVLFNKPFDVLTQFTDEQGRA 73
Query: 89 VIYE--SLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVSALMHADL--EKEYLIKIQGFV 144
+ + S+ YA GRLD SEG+L+L+++ + L EK Y ++++G
Sbjct: 74 TLKDFISIPNVYA----AGRLDRDSEGLLILTNNGELQHRLADPKFKTEKTYWVQVEGIP 129
Query: 145 TREMENAMQEGLKLENA-TKGA-----------HQKTPIKSMEFAPFIGYEIIKNHAKYS 192
+++G++L++ TK A + PI+ + P S
Sbjct: 130 EETDLAQLRKGVELKDGVTKSAKVRLISEPNLWERNPPIRERKNIPT------------S 177
Query: 193 KLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNRQEYNEL 249
L + I+EG+NR++RR A L L RV G +++N L G R L+ E L
Sbjct: 178 WLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGLLSINGLENGSFRLLSLDEIKAL 234
>ref|NP_638984.1| (NC_003902) ribosomal small subunit pseudouridylate synthase
[Xanthomonas campestris pv. campestris str. ATCC 33913]
gb|AAM42908.1| (AE012485) ribosomal small subunit pseudouridylate synthase
[Xanthomonas campestris pv. campestris str. ATCC 33913]
Length = 237
Score = 58.9 bits (141), Expect = 5e-08
Identities = 65/248 (26%), Positives = 114/248 (45%), Gaps = 22/248 (8%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNKK 65
+++ + +A+ SR++ +L +G + A ++ + +D + P
Sbjct: 1 MKLVKHIANLGYGSRKQVTQLFRQGAITDAAGEVLYADDQVDHAAIRIDGEPLDPPPG-- 58
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAH----FAPVGRLDFASEGVLLLSDSK 121
FSVL+ HKP G S D R+IYE L ++ APVGRLD + G+LL++D
Sbjct: 59 FSVLL-HKPSGYTCSTKDT--GRLIYELLPPRFRLRAPVLAPVGRLDRETSGMLLMTDD- 114
Query: 122 AVVSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIG 181
AL+H +I + + + + + E L+ + A A T + E P +
Sbjct: 115 ---GALLHR------IISPKSALDKVYDVTLAEDLRGDEAALFA-SGTLLLEGETKPLLP 164
Query: 182 YEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFL 241
E+ A+ ++L ++EG+ ++RR FA V+ L R R G ++L+ L G R L
Sbjct: 165 AELEVLGARQARLT--LHEGRYHQVRRMFAAAGNHVVALHRSRIGGLSLDGLDAGHWRPL 222
Query: 242 NRQEYNEL 249
+ L
Sbjct: 223 GPDDLEVL 230
>ref|NP_603614.1| (NC_003454) Ribosomal small subunit pseudouridine synthase A
[Fusobacterium nucleatum subsp. nucleatum ATCC 25586]
gb|AAL94913.1| (AE010582) Ribosomal small subunit pseudouridine synthase A
[Fusobacterium nucleatum subsp. nucleatum ATCC 25586]
Length = 226
Score = 58.9 bits (141), Expect = 5e-08
Identities = 56/246 (22%), Positives = 118/246 (47%), Gaps = 28/246 (11%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLA--SVVKENDRVFLDKRLIKPLKN 63
+R+++FL SR+E +KL+ G + +N LA ++ + +D + + + L+
Sbjct: 1 MRLDKFLVECGIGSRKEVKKLISNGEIAVNGMSDILAKDNIDENSDTIEYNG---ERLEY 57
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAH--FAPVGRLDFASEGVLLLSDSK 121
K+F + +K G + + D K + + L + APVGRLD +EG+LL ++
Sbjct: 58 KEFRYYIMNKKAGYITATED-FKEDTVMDLLPEWVIKKDLAPVGRLDKDTEGLLLFTNDG 116
Query: 122 AVVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
+ L+ ++K Y ++I+ + E +++G+ + N + P K + +
Sbjct: 117 KLNHKLLSPKNHIDKVYYVEIEKNILDEDILKLEQGVDIGN-----YITQPAKVEKISD- 170
Query: 180 IGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMR 239
+K+ + I EGK ++++ N V LRR +G + LN L +G+++
Sbjct: 171 ------------NKIYLTIKEGKFHQVKKMLEAVNNKVCYLRRESFGKLTLNDLTLGEVK 218
Query: 240 FLNRQE 245
++ ++
Sbjct: 219 EVSLED 224
>ref|NP_404865.1| (NC_003143) ribosomal small subunit pseudouridine synthase A
[Yersinia pestis]
emb|CAC90100.1| (AJ414147) ribosomal small subunit pseudouridine synthase A
[Yersinia pestis]
Length = 235
Score = 58.5 bits (140), Expect = 7e-08
Identities = 63/247 (25%), Positives = 117/247 (46%), Gaps = 28/247 (11%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV--VKENDRVFLDKRLIKPLKN 63
+R+++FL+ SR + + RV I+ E K ++ E D V D ++ +
Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQD-VRFDGNPLQQMVG 59
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSD---- 119
++ +L +KP+G + S DP V+Y E GRLD + G++L++D
Sbjct: 60 PRYFML--NKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQW 117
Query: 120 SKAVVSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
S V S H EK YL+ ++ ++ + +G++L N +K+ K +
Sbjct: 118 SHRVTSPRHHC--EKTYLVTLEHPLSDDTAQQFADGVQLYN------EKSLTKPAQL--- 166
Query: 180 IGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL-NALPVGKM 238
++I+ ++R+ I+EG+ +++R FA V++L R R G + L + L G+
Sbjct: 167 ---DVIEPQ----RVRLTISEGRYHQVKRMFAAVGNRVIELHRERIGDITLDDDLAPGEY 219
Query: 239 RFLNRQE 245
R L +E
Sbjct: 220 RPLTTEE 226
>ref|NP_484589.1| (NC_003272) probable pseudouridine synthase [Nostoc sp. PCC 7120]
dbj|BAB72503.1| (AP003582) ORF_ID:alr0545~probable pseudouridine synthase [Nostoc
sp. PCC 7120]
Length = 204
Score = 57.8 bits (138), Expect = 1e-07
Identities = 51/193 (26%), Positives = 89/193 (45%), Gaps = 20/193 (10%)
Query: 69 LVYHKPKGELVSKADPLKRRVI---YESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125
+++HKP G L + + Y + Y PVGRLD+ SEG+LLL+++ +
Sbjct: 8 IIFHKPYGVLSQFTQESPKHITLKDYIDVPDVY----PVGRLDWDSEGLLLLTNNGRLQH 63
Query: 126 ALMHADL--EKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKS---MEFAPFI 180
L E+ Y ++++ E + +Q G+++ + ++ P K E+ P
Sbjct: 64 RLSDPRFGHERTYWVQVERIPDEEAISKLQTGVEIRD-----YRTRPAKVGLLPEYPPVG 118
Query: 181 GYEI---IKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGK 237
+ + + + L + + EGKNR++RR A L L RV G + L+ L +G+
Sbjct: 119 DRQPPIRFRKNVPTAWLEMTLTEGKNRQVRRMTAAVGFPTLRLVRVSIGHLRLDGLALGE 178
Query: 238 MRFLNRQEYNELH 250
R L E LH
Sbjct: 179 WRDLTSLELKLLH 191
>pir||S72955 hypothetical protein u0247g - Mycobacterium leprae
gb|AAA50926.1| (U00021) u0247g [Mycobacterium leprae]
Length = 186
Score = 56.6 bits (135), Expect = 3e-07
Identities = 52/190 (27%), Positives = 88/190 (45%), Gaps = 25/190 (13%)
Query: 69 LVYHKPKGELVSKADPLKRRVIYESLE------KKYAHFAPVGRLDFASEGVLLLSDSKA 122
L +KP+G + +D R + + +E KK H VGRLD +EG++LL++
Sbjct: 9 LALNKPRGMYSTMSDDRGRPCVGDLIERRVRGNKKLFH---VGRLDADTEGLILLTNDGE 65
Query: 123 VVSALMHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFI 180
+ LMH ++ K YL ++G V R + + GL+L++ P +FA
Sbjct: 66 LAHRLMHPSHEVSKTYLATVKGAVPRGLGKKLSVGLELDDG--------PAHVDDFA--- 114
Query: 181 GYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRF 240
++ + +R+ ++EG+ R +RR V L R G V+L G +R
Sbjct: 115 ---VVDAIPGKTLVRLTLHEGRKRIVRRLLTAAGFPVEMLVRTDIGAVSLGDQRPGCLRA 171
Query: 241 LNRQEYNELH 250
L R E +L+
Sbjct: 172 LLRDEIRQLY 181
>ref|NP_456780.1| (NC_003198) ribosomal small subunit pseudouridine synthase
[Salmonella enterica subsp. enterica serovar Typhi]
ref|NP_461166.1| (NC_003197) 16S rRNA pseudouridylate 516 synthase [Salmonella
typhimurium LT2]
gb|AAL21125.1| (AE008799) 16S rRNA pseudouridylate 516 synthase [Salmonella
typhimurium LT2]
emb|CAD02605.1| (AL627273) ribosomal small subunit pseudouridine synthase
[Salmonella enterica subsp. enterica serovar Typhi]
Length = 231
Score = 55.8 bits (133), Expect = 4e-07
Identities = 63/251 (25%), Positives = 112/251 (44%), Gaps = 36/251 (14%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDRVFLDKRLIKPLKNK 64
+R+++F+A SR A + + RV ++ + K A+ + V D +
Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGP 60
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSD----S 120
++ +L +KP+G + S DP V+Y E GRLD + G++L++D S
Sbjct: 61 RYFML--NKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWS 118
Query: 121 KAVVSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENA---TKGAHQK--TPIKSME 175
+ S H EK YL+ ++ V + +G++L N TK A + TP++
Sbjct: 119 HRITSPRHHC--EKTYLVTLESPVADDTAAQFAKGVQLHNEKDLTKPATLEVITPVQ--- 173
Query: 176 FAPFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNA-LP 234
+R+ I+EG+ +++R FA V++L R R G + L+ L
Sbjct: 174 ------------------VRLTISEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLA 215
Query: 235 VGKMRFLNRQE 245
G+ R L +E
Sbjct: 216 PGEYRPLTEEE 226
>ref|NP_231272.1| (NC_002505) ribosomal small subunit pseudouridine synthase A
[Vibrio cholerae]
pir||A82176 ribosomal small chain pseudouridine synthase A VC1635 [imported] -
Vibrio cholerae (group O1 strain N16961)
gb|AAF94786.1| (AE004241) ribosomal small subunit pseudouridine synthase A [Vibrio
cholerae]
Length = 231
Score = 54.7 bits (130), Expect = 1e-06
Identities = 61/247 (24%), Positives = 112/247 (44%), Gaps = 29/247 (11%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASV-VKENDRVFLDKRLIKPLKNK 64
+R+++FL +R+EA +L+ G V ++ K + +KE V R I L
Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREIT-LHGP 59
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVI--YESLEKKYAHFAPVGRLDFASEGVLLLSDS-- 120
++ ++ HKP G + S D + + + + + HFA GRLD + G+LL++D
Sbjct: 60 RY--IMMHKPDGVVCSHEDGFNQTALTLLDEVNIQDLHFA--GRLDVDTTGLLLITDDGQ 115
Query: 121 -KAVVSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPF 179
V++ H EK Y + + + + G++L +G + T +E
Sbjct: 116 WSHRVTSPKHK-CEKTYRVWLADPIQADYAEQFNRGIEL----RGERELTLPAQLEVI-- 168
Query: 180 IGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLN-ALPVGKM 238
+++ + I+EGK +++R FA V+ L R R G + L+ L G+
Sbjct: 169 ----------SETEVLLTIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEY 218
Query: 239 RFLNRQE 245
R+L +E
Sbjct: 219 RYLTEEE 225
>ref|NP_267508.1| (NC_002662) pseudouridine synthase [Lactococcus lactis subsp.
lactis]
gb|AAK05450.1|AE006367_6 (AE006367) pseudouridine synthase [Lactococcus lactis subsp.
lactis]
Length = 185
Score = 54.7 bits (130), Expect = 1e-06
Identities = 53/186 (28%), Positives = 86/186 (45%), Gaps = 11/186 (5%)
Query: 64 KKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAV 123
KK +++++KP L D R+ + + + K + GRLD SEG+LLL+D +
Sbjct: 5 KKIMIILFNKPYDVLTKFTDGEGRKTLKDYI--KIPNVYAAGRLDKDSEGLLLLTDDGKL 62
Query: 124 VSALMHADLE--KEYLIKIQGFVTREMENAMQEGLKLENA-TKGAHQKT---PIKSMEFA 177
L + K YL++++G + E +Q+GL L++ T A K P E
Sbjct: 63 NHLLTDPKSKSYKTYLVQVEGEFSPEAAQKLQKGLLLKDGKTLPAKVKLIDEPDWLWERT 122
Query: 178 PFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGK 237
P I + S + + I EGKNR++RR A L L R G +L L G+
Sbjct: 123 PPIRE---RKAIPTSWVEISIKEGKNRQIRRMTAAVGFPTLRLIRWSIGQYSLGNLKSGE 179
Query: 238 MRFLNR 243
+ + +
Sbjct: 180 YKIIQK 185
>ref|NP_298490.1| (NC_002488) ribosomal small subunit pseudouridine synthase [Xylella
fastidiosa 9a5c]
pir||G82710 ribosomal small subunit pseudouridine synthase XF1200 [imported] -
Xylella fastidiosa (strain 9a5c)
gb|AAF84010.1|AE003954_7 (AE003954) ribosomal small subunit pseudouridine synthase [Xylella
fastidiosa 9a5c]
Length = 236
Score = 53.5 bits (127), Expect = 2e-06
Identities = 59/244 (24%), Positives = 110/244 (44%), Gaps = 22/244 (9%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIKPLKNKK 65
+++ +++A+ SR+E ++ EGR+ A ++ V D +PL
Sbjct: 1 MKLLKYIANLGYGSRKEVARIFREGRITNGEGEVLYADDQVQHIAVRFDG---EPLDPPP 57
Query: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAP----VGRLDFASEGVLLLSDSK 121
+++ HKP + S D R++Y+ L ++ +P VGRLD + G+LLL+D
Sbjct: 58 GLMVMLHKPSDYICSTKDA--GRLVYDLLPPRFRLRSPLLSTVGRLDGDTSGLLLLTDDG 115
Query: 122 AVVSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIG 181
A++ ++ K +L K+ E + + L+ + AT A T + + P
Sbjct: 116 ALLHRMISP---KTHLPKVY-------EATLVQALRGDEATLFA-SGTLLLDGDTKPL-- 162
Query: 182 YEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFL 241
+ ++R+ + EG+ ++RR F V L R G + L+ LP G+ R L
Sbjct: 163 QPAVLEVLGPCQVRLTLYEGRYHQVRRMFGATGNRVNTLHRSAIGGLVLDGLPEGQWRVL 222
Query: 242 NRQE 245
Q+
Sbjct: 223 EAQD 226
>ref|NP_420645.1| (NC_002696) ribosomal small subunit pseudouridine synthase A
[Caulobacter crescentus CB15]
gb|AAK23813.1| (AE005858) ribosomal small subunit pseudouridine synthase A
[Caulobacter crescentus CB15]
Length = 241
Score = 53.5 bits (127), Expect = 2e-06
Identities = 64/256 (25%), Positives = 113/256 (44%), Gaps = 30/256 (11%)
Query: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLIK--PLKNK 64
R+++ LA+ SR+E + LV G+V ++ K A D ++ I+ P+
Sbjct: 3 RLDRLLANLGYGSRKEVQALVAGGKVVLDGAILKDAGARIAVDATLPERMTIRGAPVDPP 62
Query: 65 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAP----VGRLDFASEGVLLLSDS 120
VL+ HKP G + S + ++ IY+ L +++ P VGRLD + G++L++D
Sbjct: 63 APLVLIMHKPLGVVCSHKEDGEK--IYDLLPRRWRLRDPGLSTVGRLDKDTSGLILITDD 120
Query: 121 ----KAVVSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEF 176
V+S H + K YL + R + + E + +K + +
Sbjct: 121 GDFLHRVISPKRH--VPKTYLATLD----RPLNGSEGEVFAAGTLMLDSEEKPLLPAR-- 172
Query: 177 APFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNL-NALPV 235
+++ HA R+ I EG+ ++RR FA V+ L R R G + L + L
Sbjct: 173 -----LDVVNAHAA----RLTITEGRYHQVRRMFAAVGNHVVALHRERIGGIALPDDLAA 223
Query: 236 GKMRFLNRQEYNELHA 251
G+ R L ++ A
Sbjct: 224 GQHRILTAAAAEQVFA 239
>ref|NP_252657.1| (NC_002516) probable pseudouridine synthase [Pseudomonas
aeruginosa]
pir||A83151 probable pseudouridine synthase PA3968 [imported] - Pseudomonas
aeruginosa (strain PAO1)
gb|AAG07355.1|AE004814_10 (AE004814) probable pseudouridine synthase [Pseudomonas aeruginosa]
Length = 189
Score = 53.1 bits (126), Expect = 3e-06
Identities = 44/174 (25%), Positives = 79/174 (45%), Gaps = 4/174 (2%)
Query: 68 VLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVSAL 127
+L+++KP L D R + + + + P GRLD SEG+LLL++ + + +
Sbjct: 11 LLLFNKPFDVLTQFNDEQGRSTLKDFIPVPGVY--PAGRLDRDSEGLLLLTNDGRLQARI 68
Query: 128 MHA--DLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYEII 185
L K Y ++++G E ++EG+ L + + + +
Sbjct: 69 ADPRHKLPKTYWVQVEGTPDEEQLRRLREGVTLNDGPTLPAEARLLDEPTLWERVPPVRF 128
Query: 186 KNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMR 239
+ L ++I EG+NR++RR A L L RVR G +L+ L +G+ R
Sbjct: 129 RKSVPTHWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGPWSLDGLGLGEWR 182
>ref|NP_249801.1| (NC_002516) hypothetical protein [Pseudomonas aeruginosa]
pir||G83506 hypothetical protein PA1110 [imported] - Pseudomonas aeruginosa
(strain PAO1)
gb|AAG04499.1|AE004541_4 (AE004541) hypothetical protein [Pseudomonas aeruginosa]
Length = 236
Score = 52.8 bits (125), Expect = 4e-06
Identities = 66/258 (25%), Positives = 114/258 (43%), Gaps = 46/258 (17%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRL-IKP---L 61
+R+++ LA T SRREAE + G V ++ E V++E LD+R+ + P
Sbjct: 5 IRLSKRLAELTACSRREAELYIEGGWVSVDGE------VIEEPQFKVLDQRVELLPGARA 58
Query: 62 KNKKFSVLVYHKPKG-------ELVSKA-----DPLKRRVIYESLEKKYAHFAPVGRLDF 109
+ + + L+ HKP G L++ DP R +L+K +A P LD
Sbjct: 59 ETIEPATLLLHKPAGWRHDDFEGLLAAGRRWSDDPSPLR----ALKKHFARQRPTLALDS 114
Query: 110 ASEGVLLLSDSKAVVSALMH--ADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQ 167
+ G+++ S V+ L+ A LE+EYL+++ G + ++ GL + +
Sbjct: 115 EASGLVVFSQQHGVLRKLVDDGARLEQEYLVEVAGDLAAGGLERLRHGLAYQG-----RR 169
Query: 168 KTPIKSMEFAPFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGF 227
+P K + S LR + + +LR V +RR+R G
Sbjct: 170 LSPCKV-------------SWQNESHLRFALKDVLPGQLRFMCEREGLEVRSIRRLRIGA 216
Query: 228 VNLNALPVGKMRFLNRQE 245
++L LP+G+ R+L E
Sbjct: 217 LSLARLPLGEWRYLGLHE 234
>ref|NP_287349.1| (NC_002655) orf, hypothetical protein [Escherichia coli O157:H7
EDL933]
gb|AAG55961.1|AE005329_5 (AE005329) orf, hypothetical protein [Escherichia coli O157:H7
EDL933]
Length = 207
Score = 52.4 bits (124), Expect = 5e-06
Identities = 49/193 (25%), Positives = 89/193 (45%), Gaps = 29/193 (15%)
Query: 62 KNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSK 121
+N+ V++++KP L D R+ + E + + + A GRLD SEG+L+L+++
Sbjct: 25 ENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGVYAA--GRLDRDSEGLLVLTNNG 82
Query: 122 AVVSALMHADLE--KEYLIKIQGFVTREMENAMQEGLKLENATK---GAH---------- 166
A+ + L K Y ++++G T++ A++ G+ L + GA
Sbjct: 83 ALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWP 142
Query: 167 QKTPIKSMEFAPFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYG 226
+ PI+ + P S L++ + EG+NR++RR A L L R G
Sbjct: 143 RNPPIRERKSIPT------------SWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMG 190
Query: 227 FVNLNALPVGKMR 239
+L+ L G+ R
Sbjct: 191 DYSLDNLANGEWR 203
>ref|NP_309634.1| (NC_002695) hypothetical protein [Escherichia coli O157:H7]
dbj|BAB35030.1| (AP002555) hypothetical protein [Escherichia coli O157:H7]
Length = 217
Score = 52.4 bits (124), Expect = 5e-06
Identities = 49/193 (25%), Positives = 89/193 (45%), Gaps = 29/193 (15%)
Query: 62 KNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSK 121
+N+ V++++KP L D R+ + E + + + A GRLD SEG+L+L+++
Sbjct: 35 ENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGVYAA--GRLDRDSEGLLVLTNNG 92
Query: 122 AVVSALMHADLE--KEYLIKIQGFVTREMENAMQEGLKLENATK---GAH---------- 166
A+ + L K Y ++++G T++ A++ G+ L + GA
Sbjct: 93 ALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWP 152
Query: 167 QKTPIKSMEFAPFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYG 226
+ PI+ + P S L++ + EG+NR++RR A L L R G
Sbjct: 153 RNPPIRERKSIPT------------SWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMG 200
Query: 227 FVNLNALPVGKMR 239
+L+ L G+ R
Sbjct: 201 DYSLDNLANGEWR 213
>ref|NP_415653.1| (NC_000913) orf, hypothetical protein [Escherichia coli K12]
pir||D64858 probable pseudouridylate synthase ymfC - Escherichia coli
gb|AAC74219.1| (AE000213) orf, hypothetical protein [Escherichia coli K12]
Length = 207
Score = 52.4 bits (124), Expect = 5e-06
Identities = 49/193 (25%), Positives = 89/193 (45%), Gaps = 29/193 (15%)
Query: 62 KNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSK 121
+N+ V++++KP L D R+ + E + + + A GRLD SEG+L+L+++
Sbjct: 25 ENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGVYAA--GRLDRDSEGLLVLTNNG 82
Query: 122 AVVSALMHADLE--KEYLIKIQGFVTREMENAMQEGLKLENATK---GAH---------- 166
A+ + L K Y ++++G T++ A++ G+ L + GA
Sbjct: 83 ALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWP 142
Query: 167 QKTPIKSMEFAPFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYG 226
+ PI+ + P S L++ + EG+NR++RR A L L R G
Sbjct: 143 RNPPIRERKSIPT------------SWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMG 190
Query: 227 FVNLNALPVGKMR 239
+L+ L G+ R
Sbjct: 191 DYSLDNLANGEWR 203
>sp|P75966|YMFC_ECOLI Hypothetical protein ymfC
dbj|BAA35957.1| (D90748) Hypothetical protein HI0694 [Escherichia coli]
dbj|BAA35966.1| (D90749) Hypothetical protein HI0694 [Escherichia coli]
Length = 217
Score = 52.4 bits (124), Expect = 5e-06
Identities = 49/193 (25%), Positives = 89/193 (45%), Gaps = 29/193 (15%)
Query: 62 KNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSK 121
+N+ V++++KP L D R+ + E + + + A GRLD SEG+L+L+++
Sbjct: 35 ENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGVYAA--GRLDRDSEGLLVLTNNG 92
Query: 122 AVVSALMHADLE--KEYLIKIQGFVTREMENAMQEGLKLENATK---GAH---------- 166
A+ + L K Y ++++G T++ A++ G+ L + GA
Sbjct: 93 ALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWP 152
Query: 167 QKTPIKSMEFAPFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYG 226
+ PI+ + P S L++ + EG+NR++RR A L L R G
Sbjct: 153 RNPPIRERKSIPT------------SWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMG 200
Query: 227 FVNLNALPVGKMR 239
+L+ L G+ R
Sbjct: 201 DYSLDNLANGEWR 213
>sp|P72581|Y612_SYNY3 Hypothetical protein slr0612
Length = 261
Score = 52.0 bits (123), Expect = 6e-06
Identities = 50/169 (29%), Positives = 78/169 (45%), Gaps = 12/169 (7%)
Query: 63 NKKFSVLVYHKPKGELV----SKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLS 118
NK +V++KP G L + A P Y +L Y PVGRLD SEG+LLL+
Sbjct: 36 NKTPQTIVFYKPYGVLCQFTDNSAHPRPTLKDYINLPDLY----PVGRLDQDSEGLLLLT 91
Query: 119 DSKAVVSALMHADL--EKEYLIKIQGFVTREMENAMQEGLKL-ENATKGAHQKTPIKSME 175
+ + L H + ++ Y +++G T E ++ G+ + T+ A K I +
Sbjct: 92 SNGKLQHRLAHREFAHQRTYFAQVEGSPTDEDLEPLRRGITFADYPTRPAIAKI-ITEPD 150
Query: 176 FAPFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVR 224
F P + S L + + EG+NR++RR A L L RV+
Sbjct: 151 FPPRNPPIRYRASIPTSWLSITLTEGRNRQVRRMTAAVGFPTLRLVRVQ 199
>ref|NP_269493.1| (NC_002737) putative 16S pseudouridylate synthetase [Streptococcus
pyogenes] [Streptococcus pyogenes M1 GAS]
gb|AAK34214.1| (AE006577) putative 16S pseudouridylate synthetase [Streptococcus
pyogenes M1 GAS]
Length = 194
Score = 51.6 bits (122), Expect = 8e-06
Identities = 51/214 (23%), Positives = 96/214 (44%), Gaps = 29/214 (13%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFLDKRLI------K 59
+R+++ L SR + +KL+ V ++H A+ N R +D L +
Sbjct: 1 MRLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPAR-------NGRQNVDPGLQLIEVTGQ 53
Query: 60 PLKNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEK-KYAHFAPVGRLDFASEGVLLLS 118
+ + K S ++ +KP G + +K D VI + E+ K PVGRLD +EG++LL+
Sbjct: 54 RVTHPKHSYIILNKPSGVVSAKKDTNYLTVIDQLAEEDKSPDLYPVGRLDRDTEGLVLLT 113
Query: 119 DSKAVVSALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEF 176
D+ + ++H + K YL+ + G + + + G+ Q P +
Sbjct: 114 DNGPLGFRMLHPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPT----GEQCQPAQ---- 165
Query: 177 APFIGYEIIKNHAKYSKLRVIINEGKNRELRRFF 210
I+K S+ + I+EGK ++++ F
Sbjct: 166 -----LTILKADTDQSQASLTISEGKFHQVKKCF 194
>ref|NP_246544.1| (NC_002663) unknown [Pasteurella multocida]
gb|AAK03689.1| (AE006198) unknown [Pasteurella multocida]
Length = 241
Score = 51.2 bits (121), Expect = 1e-05
Identities = 52/207 (25%), Positives = 89/207 (42%), Gaps = 17/207 (8%)
Query: 53 LDKRLIKPLKNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASE 112
L R K + + V++++KP L +D R + + H P GRLD SE
Sbjct: 36 LSFRQKKTVNFAETQVILFNKPYDVLTQFSDEEGRATLKAFIP--IPHVYPAGRLDRDSE 93
Query: 113 GVLLLSDSKAVVS--ALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTP 170
G++LL+++ + A+ + EK Y +++G +++G+ L + KT
Sbjct: 94 GLVLLTNNGEIQHRLAVPKFNTEKTYFAQVEGIPQETDLAQLRQGVVLNDG------KTL 147
Query: 171 IKSMEFAPFIGYEIIKN-------HAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRV 223
+ P + +N S L + I+EG+NR++RR A L L R
Sbjct: 148 PAKVRLVPEPNWLWQRNPPIRERKQIPTSWLEIKIHEGRNRQVRRMTAHIGFPTLRLIRY 207
Query: 224 RYGFVNLNALPVGKMRFLNRQEYNELH 250
+ NL L G+ R L+ E L+
Sbjct: 208 QMALFNLANLEQGQYRQLSEVELTALY 234
>ref|NP_640646.1| (NC_003919) pseudouridylate synthase [Xanthomonas axonopodis pv.
citri str. 306]
gb|AAM35182.1| (AE011654) pseudouridylate synthase [Xanthomonas axonopodis pv.
citri str. 306]
Length = 192
Score = 51.2 bits (121), Expect = 1e-05
Identities = 52/182 (28%), Positives = 87/182 (47%), Gaps = 17/182 (9%)
Query: 68 VLVYHKPKGELVSKAD---PLKRRVIYESLEKK-YAHFAPVGRLDFASEGVLLLSDSKAV 123
+++ +KP G L +D P KR + L YA GRLD SEG+L+L+D A+
Sbjct: 4 LVLLNKPYGVLSQFSDRSQPPKRTLAEFGLPPDVYA----AGRLDHDSEGLLVLTDDGAL 59
Query: 124 VSALMHADLE--KEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIG 181
L + K Y ++++G E A+++G+ L + G + ++ ++ AP +
Sbjct: 60 AHRLTDPRHKQPKTYWVQVEGAPQAEHLQALRDGVALND---GPTRPAQVRMLDPAPQLW 116
Query: 182 YEI----IKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGK 237
++ + L + I EG+NR++RR A L L RV G L+AL G+
Sbjct: 117 PRDPPVRVRKTVPDAWLELQITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDALAPGQ 176
Query: 238 MR 239
R
Sbjct: 177 WR 178
>ref|NP_460207.1| (NC_003197) putative ribosomal large subunit pseudouridine synthase
[Salmonella typhimurium LT2]
gb|AAL20166.1| (AE008754) putative ribosomal large subunit pseudouridine synthase
[Salmonella typhimurium LT2]
Length = 221
Score = 49.7 bits (117), Expect = 3e-05
Identities = 48/187 (25%), Positives = 87/187 (45%), Gaps = 5/187 (2%)
Query: 62 KNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSK 121
+N+ V++++KP L D RR + + + + + A GRLD SEG+L+L++
Sbjct: 35 ENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGVYAA--GRLDRDSEGLLVLTNDG 92
Query: 122 AVVSALMHADLE--KEYLIKIQGFVTREMENAMQEGLKLENA-TKGAHQKTPIKSMEFAP 178
A+ + L K Y ++++G A++ G+ L + T A + + P
Sbjct: 93 ALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLWP 152
Query: 179 FIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKM 238
+ + S L+V + EG+NR++RR A L L R G LN L G+
Sbjct: 153 RTPPIRERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQW 212
Query: 239 RFLNRQE 245
R + +++
Sbjct: 213 REIAQEK 219
>ref|NP_635668.1| (NC_003902) pseudouridylate synthase [Xanthomonas campestris pv.
campestris str. ATCC 33913]
gb|AAM39592.1| (AE012123) pseudouridylate synthase [Xanthomonas campestris pv.
campestris str. ATCC 33913]
Length = 187
Score = 49.3 bits (116), Expect = 4e-05
Identities = 52/182 (28%), Positives = 85/182 (46%), Gaps = 17/182 (9%)
Query: 68 VLVYHKPKGELVSKAD---PLKRRVIYESLEKK-YAHFAPVGRLDFASEGVLLLSDSKAV 123
+++ +KP G L +D P KR + L + YA GRLD SEG+LLL+D +
Sbjct: 2 LVLLNKPYGVLSQFSDRSTPPKRTLAEFGLPPQVYA----AGRLDHDSEGLLLLTDDGPL 57
Query: 124 VSALMHADLE--KEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIG 181
L + K Y ++++G A+ +G+ L + G + ++ +E AP +
Sbjct: 58 AHRLTDPRHKQPKTYWVQVEGDPDTSQLQALCDGVLLND---GPTRPANVRRLECAPTLW 114
Query: 182 YEI----IKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGK 237
++ + L V I EG+NR++RR A L L RV G +L +L G+
Sbjct: 115 PRDPPVRVRKTVPDAWLEVQITEGRNRQVRRMTASVGLPTLRLVRVAIGAWSLASLQPGQ 174
Query: 238 MR 239
R
Sbjct: 175 WR 176
>ref|NP_390881.1| (NC_000964) similar to hypothetical proteins [Bacillus subtilis]
sp|O32068|YTZF_BACSU Hypothetical protein ytzF
pir||H70004 conserved hypothetical protein ytzF - Bacillus subtilis
emb|CAB14981.1| (Z99119) similar to hypothetical proteins [Bacillus subtilis]
Length = 157
Score = 46.6 bits (109), Expect = 3e-04
Identities = 40/151 (26%), Positives = 76/151 (49%), Gaps = 16/151 (10%)
Query: 103 PVGRLDFASEGVLLLSDSKAVVSALM--HADLEKEYLIKIQGFVTREMENAMQEGLKLEN 160
P GRLD +EG LLL++ + L+ + K Y + ++ ++RE + ++ G+ +E
Sbjct: 16 PAGRLDKDTEGFLLLTNDGQLAHRLLSPKKHVPKTYEVHLKSQISREDISDLETGVYIE- 74
Query: 161 ATKGAHQKTPIKSMEFAPFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDL 220
G ++ P K+ EI N + + + + I EGK ++++ V+ L
Sbjct: 75 ---GGYKTKPAKA---------EIKTNDSGNTVIYLTITEGKYHQVKQMAKAVGNEVVYL 122
Query: 221 RRVRYGFVNLN-ALPVGKMRFLNRQEYNELH 250
+R+ G V+L+ AL G+ R L +E + L+
Sbjct: 123 KRLSMGRVSLDPALAPGEYRELTEEELHLLN 153
>ref|NP_230785.1| (NC_002505) pseudouridine synthase family 1 protein [Vibrio
cholerae]
pir||A82236 pseudouridine synthase family 1 protein VC1140 [imported] - Vibrio
cholerae (group O1 strain N16961)
gb|AAF94299.1| (AE004194) pseudouridine synthase family 1 protein [Vibrio
cholerae]
Length = 290
Score = 46.6 bits (109), Expect = 3e-04
Identities = 44/183 (24%), Positives = 81/183 (44%), Gaps = 4/183 (2%)
Query: 59 KPLKNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLS 118
+PL + V++++KP L D R+ + + + K + A GRLD SEG+L+L+
Sbjct: 106 RPLSPAERKVILFNKPYDTLSQFTDGDGRKTLADYIPIKDVYAA--GRLDRDSEGLLILT 163
Query: 119 DSKAVVSALMHADLE--KEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEF 176
+ + + L + K Y ++++G A++ G+ L++ + +
Sbjct: 164 NDGILQARLTQPQSKAPKTYWVQVEGSPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTL 223
Query: 177 APFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVG 236
P + + L + + EG+NR++RR A L L R G NL L G
Sbjct: 224 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 283
Query: 237 KMR 239
+ R
Sbjct: 284 EWR 286
>gb|AAG16128.1|AF261151_1 (AF261151) pseudouridylate synthase-like protein [Vibrio cholerae]
Length = 241
Score = 46.6 bits (109), Expect = 3e-04
Identities = 44/183 (24%), Positives = 81/183 (44%), Gaps = 4/183 (2%)
Query: 59 KPLKNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLS 118
+PL + V++++KP L D R+ + + + K + A GRLD SEG+L+L+
Sbjct: 57 RPLSPAERKVILFNKPYDTLSQFTDGDGRKTLADYIPIKDGYAA--GRLDRDSEGLLILT 114
Query: 119 DSKAVVSALMHADLE--KEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEF 176
+ + + L + K Y ++++G A++ G+ L++ + +
Sbjct: 115 NDGILQARLTQPQSKAPKTYWVQVEGSPQESDLEALRHGVTLKDGPTLPAKVDIMPEPTL 174
Query: 177 APFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVG 236
P + + L + + EG+NR++RR A L L R G NL L G
Sbjct: 175 WPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQPG 234
Query: 237 KMR 239
+ R
Sbjct: 235 EWR 237
>emb|CAC19451.1| (AJ277766) hypothetical pseudouridine synthase [Streptococcus
pneumoniae]
Length = 75
Score = 45.8 bits (107), Expect = 5e-04
Identities = 25/76 (32%), Positives = 49/76 (63%), Gaps = 4/76 (5%)
Query: 6 LRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDRVFLDKRLIKPLKNK 64
+RIN+++AH SRR+AE+L+ +G V +N + + LA+ +K D+V ++ +P+ N+
Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEG---QPIYNE 57
Query: 65 KFSVLVYHKPKGELVS 80
+ + +KP+G + S
Sbjct: 58 EKVYYLLNKPRGVISS 73
>ref|NP_455729.1| (NC_003198) putative ribosomal large subunit pseudouridine synthase
B [Salmonella enterica subsp. enterica serovar Typhi]
emb|CAD08361.1| (AL627269) putative ribosomal large subunit pseudouridine synthase
B [Salmonella enterica subsp. enterica serovar Typhi]
Length = 221
Score = 45.8 bits (107), Expect = 5e-04
Identities = 46/179 (25%), Positives = 81/179 (44%), Gaps = 5/179 (2%)
Query: 62 KNKKFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSK 121
+N+ V++++KP L D RR + + + + + A GRLD SEG+L+L++
Sbjct: 35 ENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGVYAA--GRLDRDSEGLLVLTNDG 92
Query: 122 AVVSALMHADLE--KEYLIKIQGFVTREMENAMQEGLKLENA-TKGAHQKTPIKSMEFAP 178
A+ + L K Y ++++G A++ G+ L + T A + + P
Sbjct: 93 ALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLWP 152
Query: 179 FIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGK 237
+ + S L+V + EG+N ++RR A L L R G LN L G+
Sbjct: 153 RTPPIRERKNIPTSWLKVTLYEGRNHQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQ 211
>emb|CAB65436.1| (AJ250721) hypothetical protein [Synechococcus leopoliensis]
Length = 199
Score = 43.1 bits (100), Expect = 0.003
Identities = 43/198 (21%), Positives = 87/198 (43%), Gaps = 12/198 (6%)
Query: 66 FSVLVYHKPKGELV--SKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAV 123
+ L++HKP + S +D ++ + + ++ + PVGRLD SEG+LLL+++ A+
Sbjct: 3 YRYLLFHKPYDAVCQFSPSDRPDQQTLKDYIDVPEVY--PVGRLDRDSEGLLLLTNNGAL 60
Query: 124 VSALMHADL--EKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIG 181
L H ++ Y ++++ T A+++G+++++ + + +
Sbjct: 61 QHRLCHPRFGHDRTYWVQVEREPTEAALQALRQGVQIQDYRTRPAKVQRLDDPQIPERDP 120
Query: 182 YEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGF------VNLNALPV 235
+ + L + + EG+NR++RR A L L R + L L
Sbjct: 121 PIRFRKTVPTAWLALTLQEGRNRQVRRMTAAVGHPTLRLIRAAIATHPDQPPLQLQGLAP 180
Query: 236 GKMRFLNRQEYNELHAFM 253
G R L E L + +
Sbjct: 181 GTWRDLTAIECRRLESLL 198
>ref|NP_439900.1| (NC_000911) hypothetical protein [Synechocystis sp. PCC 6803]
pir||S74428 probable pseudouridylate synthase slr0612 - Synechocystis sp.
(strain PCC 6803)
dbj|BAA16580.1| (D90899) ORF_ID:slr0612~hypothetical protein [Synechocystis sp. PCC
6803]
Length = 185
Score = 42.0 bits (97), Expect = 0.007
Identities = 36/124 (29%), Positives = 60/124 (48%), Gaps = 4/124 (3%)
Query: 104 VGRLDFASEGVLLLSDSKAVVSALMHADL--EKEYLIKIQGFVTREMENAMQEGLKL-EN 160
+GRLD SEG+LLL+ + + L H + ++ Y +++G T E ++ G+ +
Sbjct: 1 MGRLDQDSEGLLLLTSNGKLQHRLAHREFAHQRTYFAQVEGSPTDEDLEPLRRGITFADY 60
Query: 161 ATKGAHQKTPIKSMEFAPFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDL 220
T+ A K I +F P + S L + + EG+NR++RR A L L
Sbjct: 61 PTRPAIAKI-ITEPDFPPRNPPIRYRASIPTSWLSITLTEGRNRQVRRMTAAVGFPTLRL 119
Query: 221 RRVR 224
RV+
Sbjct: 120 VRVQ 123
>ref|NP_405221.1| (NC_003143) putative pseudouridine synthase [Yersinia pestis]
emb|CAC90462.1| (AJ414149) putative pseudouridine synthase [Yersinia pestis]
Length = 208
Score = 41.6 bits (96), Expect = 0.009
Identities = 44/179 (24%), Positives = 80/179 (44%), Gaps = 31/179 (17%)
Query: 68 VLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVSAL 127
VL+++KP L D R + + K + A GRLD SEG+L+L++ + + L
Sbjct: 31 VLLFNKPFDVLPQFTDESGRTTLQGFIPFKDVYAA--GRLDRDSEGLLVLTNDGKLQARL 88
Query: 128 MHADLE--KEYLIKIQGFVTREMENAMQEGLKLENATK---GAH----------QKTPIK 172
+ K Y ++++G + ++ G+ L++ GA + PI+
Sbjct: 89 TQPAQKTGKVYFVQVEGVPDNDALTQLKRGVTLKDGLTLPAGAELVAEPEWLWPRHPPIR 148
Query: 173 SMEFAPFIGYEIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLN 231
+ P S L++ + EG+NR++RR A + G LR +R+ NL+
Sbjct: 149 ERKTIPT------------SWLKITLYEGRNRQVRRMTA--HVGFPTLRLIRFSMGNLS 193
>gb|AAG10501.1|AF279106_63 (AF279106) predicted ribosomal large subunit pseudouridine synthase
D [uncultured proteobacterium EBAC31A08]
Length = 310
Score = 41.6 bits (96), Expect = 0.009
Identities = 48/225 (21%), Positives = 99/225 (43%), Gaps = 27/225 (12%)
Query: 5 SLRINQFLAH-YTKHSRREAEKLVLEGRVKINHEHAKLASVVKENDRVFL----DKRLIK 59
S+R+++ A +T +SR + +K + EGRV IN E ++ V END++ L ++++
Sbjct: 12 SMRLDKATAEMFTDYSRTQIKKWIEEGRVLINGEVSQPRDKVYENDQIELSPKEEQKVSW 71
Query: 60 PLKNKKFSV-------LVYHKPKGELVSKADPLKRRVIYESLEKKYAHF------APVGR 106
++ F + ++ +KP G ++ + L K+ V R
Sbjct: 72 EAQDIDFEIHFENEDFIIINKPAGLIMHPGSGCYDGTLANGLIYKFPELINIPRSGIVHR 131
Query: 107 LDFASEGVLLLSDSKA----VVSALMHADLEKEYLIKIQGFVTREMENAMQEGLKLENAT 162
LD + G+LL++ +++ ++ + + K+Y + G G N T
Sbjct: 132 LDKDTSGILLVARNESFRNFFINEMQERRVVKKYTSIVIGSTLGSFSIEEPIGRDKNNRT 191
Query: 163 KGAHQKTPIKSMEFAPFIGYEIIKNHAKYSKLRVIINEGKNRELR 207
K A ++ ++ F ++ +N YS L + I G+ ++R
Sbjct: 192 KMAIREDGKDALTFV-----KLKENIGNYSVLDIRIETGRTHQIR 231
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
0.321 0.137 0.382
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 148,793,446
Number of Sequences: 1026957
Number of extensions: 5909885
Number of successful extensions: 13405
Number of sequences better than 1.0e-02: 139
Number of HSP's better than 0.0 without gapping: 38
Number of HSP's successfully gapped in prelim test: 101
Number of HSP's that attempted gapping in prelim test: 13068
Number of HSP's gapped (non-prelim): 142
length of query: 262
length of database: 324,149,939
effective HSP length: 119
effective length of query: 143
effective length of database: 201,942,056
effective search space: 28877714008
effective search space used: 28877714008
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: 96 (41.6 bits)