BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 037167
(353 letters)
Database: nr
23,463,169 sequences; 8,064,228,071 total letters
Searching..................................................done
>gi|224100817|ref|XP_002312025.1| predicted protein [Populus trichocarpa]
gi|222851845|gb|EEE89392.1| predicted protein [Populus trichocarpa]
Length = 377
Score = 536 bits (1380), Expect = e-150, Method: Compositional matrix adjust.
Identities = 262/338 (77%), Positives = 295/338 (87%), Gaps = 3/338 (0%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LTLI FYS+K+KNSAPLQGWLQRI NGQIT+DG VV +P IL G ELVYHRLPW+EPD
Sbjct: 39 LTLIHFYSSKYKNSAPLQGWLQRIHNGQITIDGEVVKEPKAILRDGMELVYHRLPWREPD 98
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
PYLL+VLYEDDD++ALNKP GLQVLPGGLFQQRTVL QLQWRASK SSSL+ Q SHPVP
Sbjct: 99 APYLLQVLYEDDDMVALNKPPGLQVLPGGLFQQRTVLMQLQWRASKGSSSLAIQGSHPVP 158
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVI-DADSTVMELSQ-RKITKIYRALVH 178
VHRLGRGTSGILLCAKTK+AKT +A YFAD TS+I D+ + ME S+ RKI+KIYRALV+
Sbjct: 159 VHRLGRGTSGILLCAKTKVAKTSLAAYFADGTSLIGDSSNANMEQSKRRKISKIYRALVN 218
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
GI+++DK+IIKQPIG +RYPGVAKGLYVASPSGKPALSKV+VLERD Q N TLVQVEI+S
Sbjct: 219 GILNQDKIIIKQPIGTMRYPGVAKGLYVASPSGKPALSKVEVLERDSQLNQTLVQVEIES 278
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GRPHQIRIHL+F+GHPLLGDPLY GGQP FDSE D +FA+DGGYERP PVPGDCGY
Sbjct: 279 GRPHQIRIHLSFIGHPLLGDPLYDVGGQPMCFDSEHEDESFAEDGGYERPAKPVPGDCGY 338
Query: 299 YLHAYQLFLSHPTTNE-VIKITAPLPSVLKTREEGREV 335
YLHA+QL LSHPT NE VIKITAPLPS+L+T+ E E+
Sbjct: 339 YLHAHQLVLSHPTKNEQVIKITAPLPSILRTQAETEEL 376
>gi|296086047|emb|CBI31488.3| unnamed protein product [Vitis vinifera]
Length = 347
Score = 503 bits (1294), Expect = e-140, Method: Compositional matrix adjust.
Identities = 240/316 (75%), Positives = 279/316 (88%), Gaps = 2/316 (0%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LTLI++YS+KHKNSAPLQGWLQRI GQITVDG VV +P IL AGS+LVYHRLPW+EPD
Sbjct: 29 LTLIDYYSSKHKNSAPLQGWLQRINKGQITVDGTVVTEPKTILRAGSKLVYHRLPWQEPD 88
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
PYLLE+LYEDDD+IALNKPSGLQVLPGGLFQQRTVL QLQWRA+KQ+S + Q SH VP
Sbjct: 89 APYLLEILYEDDDVIALNKPSGLQVLPGGLFQQRTVLTQLQWRANKQNSLPACQESHSVP 148
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVI--DADSTVMELSQRKITKIYRALVH 178
VHRLGRGTSGILLCAKTKLAKT +A YFAD TSV+ + D+ + + RKI+KIYRALV+
Sbjct: 149 VHRLGRGTSGILLCAKTKLAKTRLAAYFADGTSVVGGNRDADMKSRTMRKISKIYRALVN 208
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
GI+D+D+++I+QPIG+V+YPGVAKGLYVASPSGKPALSKV +LERDVQ + +VQVEIQS
Sbjct: 209 GILDKDEIVIEQPIGMVQYPGVAKGLYVASPSGKPALSKVSILERDVQGDHMIVQVEIQS 268
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GRPHQIRIHL+F+GHPLLGDPLYV GGQPK D+EF + ++A DGGY+RPV PVPGDCGY
Sbjct: 269 GRPHQIRIHLSFIGHPLLGDPLYVPGGQPKCCDAEFTNESYALDGGYQRPVKPVPGDCGY 328
Query: 299 YLHAYQLFLSHPTTNE 314
+LHA+QL LSHPTTNE
Sbjct: 329 HLHAHQLVLSHPTTNE 344
>gi|225449104|ref|XP_002276664.1| PREDICTED: RNA pseudourine synthase 5-like [Vitis vinifera]
Length = 348
Score = 502 bits (1292), Expect = e-139, Method: Compositional matrix adjust.
Identities = 240/317 (75%), Positives = 278/317 (87%), Gaps = 3/317 (0%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LTLI++YS+KHKNSAPLQGWLQRI GQITVDG VV +P IL AGS+LVYHRLPW+EPD
Sbjct: 29 LTLIDYYSSKHKNSAPLQGWLQRINKGQITVDGTVVTEPKTILRAGSKLVYHRLPWQEPD 88
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
PYLLE+LYEDDD+IALNKPSGLQVLPGGLFQQRTVL QLQWRA+KQ+S + Q SH VP
Sbjct: 89 APYLLEILYEDDDVIALNKPSGLQVLPGGLFQQRTVLTQLQWRANKQNSLPACQESHSVP 148
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDA---DSTVMELSQRKITKIYRALV 177
VHRLGRGTSGILLCAKTKLAKT +A YFAD TSV+ D+ + + RKI+KIYRALV
Sbjct: 149 VHRLGRGTSGILLCAKTKLAKTRLAAYFADGTSVVGGNRLDADMKSRTMRKISKIYRALV 208
Query: 178 HGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQ 237
+GI+D+D+++I+QPIG+V+YPGVAKGLYVASPSGKPALSKV +LERDVQ + +VQVEIQ
Sbjct: 209 NGILDKDEIVIEQPIGMVQYPGVAKGLYVASPSGKPALSKVSILERDVQGDHMIVQVEIQ 268
Query: 238 SGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCG 297
SGRPHQIRIHL+F+GHPLLGDPLYV GGQPK D+EF + ++A DGGY+RPV PVPGDCG
Sbjct: 269 SGRPHQIRIHLSFIGHPLLGDPLYVPGGQPKCCDAEFTNESYALDGGYQRPVKPVPGDCG 328
Query: 298 YYLHAYQLFLSHPTTNE 314
Y+LHA+QL LSHPTTNE
Sbjct: 329 YHLHAHQLVLSHPTTNE 345
>gi|356576201|ref|XP_003556222.1| PREDICTED: RNA pseudourine synthase 5-like [Glycine max]
Length = 371
Score = 497 bits (1279), Expect = e-138, Method: Compositional matrix adjust.
Identities = 238/335 (71%), Positives = 278/335 (82%), Gaps = 3/335 (0%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
TLIEFYSTK+K+SAPLQGWLQRI++GQITVDG VV D N +L GS+L+YHRLPWKEPD
Sbjct: 32 TLIEFYSTKYKSSAPLQGWLQRIKSGQITVDGGVVTDSNTVLRVGSKLIYHRLPWKEPDA 91
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P++++VLYEDDD+IALNKPSGLQVLPGGL+QQRT+L QLQW A+ Q + + HPVPV
Sbjct: 92 PHMIDVLYEDDDMIALNKPSGLQVLPGGLYQQRTILTQLQWEANNQGTCEMHKRLHPVPV 151
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDAD-STVMELSQRKITKIYRALVHGI 180
HRLGRGTSGILLCAKTKLA+ +A +FAD TS + T EL KI K+YRALV GI
Sbjct: 152 HRLGRGTSGILLCAKTKLARARLASHFADGTSHVGGKRDTKQELG--KIAKMYRALVSGI 209
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
V+ DKV I QPIGIV+YPGVAKGLYVAS SGKPALS VD+LE ++Q N TLVQV+IQSGR
Sbjct: 210 VENDKVTINQPIGIVKYPGVAKGLYVASESGKPALSVVDILETNIQENSTLVQVKIQSGR 269
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHL+F+GHPLLGDPLY GGQPK D +F D +FA+DGGY+RP PVPGDCGYYL
Sbjct: 270 PHQIRIHLSFIGHPLLGDPLYGVGGQPKCLDCDFVDESFAEDGGYQRPTKPVPGDCGYYL 329
Query: 301 HAYQLFLSHPTTNEVIKITAPLPSVLKTREEGREV 335
HA++L LSHPTTNE+I+I APLPS L T EE +E+
Sbjct: 330 HAHKLVLSHPTTNELIEIIAPLPSALHTAEEAKEI 364
>gi|357443349|ref|XP_003591952.1| RNA pseudourine synthase [Medicago truncatula]
gi|358349060|ref|XP_003638558.1| RNA pseudourine synthase [Medicago truncatula]
gi|355481000|gb|AES62203.1| RNA pseudourine synthase [Medicago truncatula]
gi|355504493|gb|AES85696.1| RNA pseudourine synthase [Medicago truncatula]
Length = 371
Score = 493 bits (1269), Expect = e-137, Method: Compositional matrix adjust.
Identities = 240/334 (71%), Positives = 278/334 (83%), Gaps = 4/334 (1%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LTLIEFYSTK+K+SAPLQGWLQRI++ QIT+D RVV DPN IL GS+LVYHR+PWKEPD
Sbjct: 31 LTLIEFYSTKYKSSAPLQGWLQRIKSDQITLDARVVTDPNTILRVGSKLVYHRIPWKEPD 90
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
P+ +EVLYEDDD+IALNKPSGLQVLPGGLFQQRTVL QLQW + +S+ + Q HPVP
Sbjct: 91 APHTIEVLYEDDDIIALNKPSGLQVLPGGLFQQRTVLTQLQWETNNKSTIEAHQKPHPVP 150
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADS-TVMELSQRKITKIYRALVHG 179
VHRLGRGTSGILLCAKTKLA+ +A YFAD TS I+ T EL KI KIYRALV G
Sbjct: 151 VHRLGRGTSGILLCAKTKLARARLASYFADGTSRIEGKGHTNQELG--KIAKIYRALVSG 208
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ-VEIQS 238
I++ D+V I QPIG+V+YPGVAKGLYVAS SGKPALS V VLER+V+ N TLVQ V+IQS
Sbjct: 209 IINNDQVTINQPIGMVKYPGVAKGLYVASQSGKPALSVVHVLERNVKENSTLVQVVKIQS 268
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GRPHQIRIHL+F+GHPLLGDPLY GGQPK D +F D +FA+DGGY RP PVPGDCGY
Sbjct: 269 GRPHQIRIHLSFIGHPLLGDPLYAVGGQPKCLDCDFLDESFAEDGGYTRPSKPVPGDCGY 328
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKTREEG 332
+LHA++LFLSHP TNE+I++ APLPS+L+T EE
Sbjct: 329 HLHAHRLFLSHPITNEIIEMIAPLPSILQTHEEA 362
>gi|449485927|ref|XP_004157313.1| PREDICTED: RNA pseudourine synthase 5-like [Cucumis sativus]
Length = 371
Score = 489 bits (1259), Expect = e-136, Method: Compositional matrix adjust.
Identities = 237/338 (70%), Positives = 282/338 (83%), Gaps = 3/338 (0%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
+LI FYS K+K+SAPL+GWLQRI+N QIT+DG V+ DP IL GS+LVY RLPWKEPD
Sbjct: 35 SLIHFYSWKYKSSAPLEGWLQRIKNEQITIDGEVITDPETILRIGSDLVYRRLPWKEPDT 94
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
PYLLE+LYED+++IALNKPSGLQVLPGG+FQQRTVL QLQW +SKQS S+S + HPVPV
Sbjct: 95 PYLLEILYEDNEMIALNKPSGLQVLPGGVFQQRTVLTQLQWWSSKQSFSVSEEL-HPVPV 153
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVI--DADSTVMELSQRKITKIYRALVHG 179
HRLGRGTSGILLCAKTKLA+T A YFA+ TS + + +ST+ E ++RKI+KIYRALV G
Sbjct: 154 HRLGRGTSGILLCAKTKLARTQFAAYFAEGTSSVRRNRNSTMEEGTKRKISKIYRALVTG 213
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
I+ +D+V + QPIG ++YPGVA+GLYVA+PSGKPA SKV+VLERD Q TLVQVEIQSG
Sbjct: 214 IIHDDEVSVDQPIGRMQYPGVAQGLYVATPSGKPACSKVNVLERDEQSKHTLVQVEIQSG 273
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
RPHQIRIHL+ +GHPLLGDPLYVAGGQP SE + +FA+DGGYERP PVPGDCGYY
Sbjct: 274 RPHQIRIHLSSIGHPLLGDPLYVAGGQPNCLHSEVVNQSFAEDGGYERPTKPVPGDCGYY 333
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLKTREEGREVDK 337
LHA+QL L HP TNEV+KI APLP +L+TR E +V +
Sbjct: 334 LHAHQLILYHPKTNEVVKIIAPLPPILRTRIEAEDVHE 371
>gi|449452164|ref|XP_004143830.1| PREDICTED: RNA pseudourine synthase 5-like [Cucumis sativus]
Length = 371
Score = 488 bits (1255), Expect = e-135, Method: Compositional matrix adjust.
Identities = 236/338 (69%), Positives = 282/338 (83%), Gaps = 3/338 (0%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
+LI FYS K+K+SAPL+GWLQRI+N QIT+DG V+ DP IL GS+LVY RLPWKEPD
Sbjct: 35 SLIHFYSWKYKSSAPLEGWLQRIKNEQITIDGEVITDPETILRIGSDLVYRRLPWKEPDT 94
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
PYLLE+LYED+++IALNKPSGLQVLPGG+FQQRTVL QLQW +SKQS S+S + HPVPV
Sbjct: 95 PYLLEILYEDNEMIALNKPSGLQVLPGGVFQQRTVLTQLQWWSSKQSFSVSEEL-HPVPV 153
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVI--DADSTVMELSQRKITKIYRALVHG 179
HRLGRGTSGILLCAKTKLA+T A YFA+ TS + + +ST+ E ++RKI+KIYRALV G
Sbjct: 154 HRLGRGTSGILLCAKTKLARTQFAAYFAEGTSSVRRNRNSTMEEGTKRKISKIYRALVTG 213
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
I+ +D+V + QPIG ++YPGVA+GLYVA+PSGKPA SKV+VLERD Q TLVQVEIQSG
Sbjct: 214 IIHDDEVSVDQPIGRMQYPGVAQGLYVATPSGKPACSKVNVLERDEQSKHTLVQVEIQSG 273
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
RPHQIRIHL+ +GHPL+GDPLYVAGGQP SE + +FA+DGGYERP PVPGDCGYY
Sbjct: 274 RPHQIRIHLSSIGHPLVGDPLYVAGGQPNCLHSEVVNQSFAEDGGYERPTKPVPGDCGYY 333
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLKTREEGREVDK 337
LHA+QL L HP TNEV+KI APLP +L+TR E +V +
Sbjct: 334 LHAHQLILYHPKTNEVVKIIAPLPPILRTRIEAEDVHE 371
>gi|42572641|ref|NP_974416.1| RNA pseudourine synthase 5 [Arabidopsis thaliana]
gi|229891781|sp|Q5M721.2|PUS5_ARATH RecName: Full=RNA pseudourine synthase 5; AltName: Full=RNA
pseudouridylate synthase 5; AltName: Full=RNA-uridine
isomerase 5
gi|332645400|gb|AEE78921.1| RNA pseudourine synthase 5 [Arabidopsis thaliana]
Length = 369
Score = 474 bits (1221), Expect = e-131, Method: Compositional matrix adjust.
Identities = 235/335 (70%), Positives = 277/335 (82%), Gaps = 5/335 (1%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
T+ EFY TK+K+SAPL GW+QRIQNGQI +DG VV DPN +L +GS+LVY RLPWKEPD
Sbjct: 34 TVSEFYFTKYKSSAPLLGWIQRIQNGQIQIDGEVVKDPNTLLRSGSKLVYSRLPWKEPDT 93
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS-HPVP 120
PY LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVL QLQW K S + S+ S HPVP
Sbjct: 94 PYSLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLTQLQWCFGKNDSYIGSRESPHPVP 153
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMEL-SQRKITKIYRALVHG 179
VHRLGRGTSGILLCAKTKLAKT +A YFA+ TS++ + + E + RK++KIYRAL G
Sbjct: 154 VHRLGRGTSGILLCAKTKLAKTKLAAYFAEGTSLVGSGNLDQECGTGRKLSKIYRALADG 213
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
IV+ED+V+IKQPIG+VRYPGVA+GLYVASP GKPA SKV VLERD ++NC+LV+VEIQSG
Sbjct: 214 IVEEDEVVIKQPIGVVRYPGVAQGLYVASPEGKPAFSKVFVLERDREKNCSLVKVEIQSG 273
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFAD--GTFAQDGGYERPVNPVPGDCG 297
RPHQIRIHLA++GHPL+GDPLYVAGGQPK FD + D FA+DGGY RP VPGDCG
Sbjct: 274 RPHQIRIHLAYMGHPLVGDPLYVAGGQPKCFDPDLVDDAAAFAEDGGYRRPNQAVPGDCG 333
Query: 298 YYLHAYQLFLSH-PTTNEVIKITAPLPSVLKTREE 331
Y+LHA+Q+ L + T++V+KI APLP +L+TR E
Sbjct: 334 YHLHAHQVELPNLLNTHKVVKIVAPLPPILQTRCE 368
>gi|297819936|ref|XP_002877851.1| pseudouridine synthase family protein [Arabidopsis lyrata subsp.
lyrata]
gi|297323689|gb|EFH54110.1| pseudouridine synthase family protein [Arabidopsis lyrata subsp.
lyrata]
Length = 387
Score = 472 bits (1214), Expect = e-130, Method: Compositional matrix adjust.
Identities = 236/344 (68%), Positives = 276/344 (80%), Gaps = 11/344 (3%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
T+ +FY TK+K+SAPL GW+QRIQNGQI +DG VV DPN +L +GS+LVYHRLPWKEPD
Sbjct: 37 TVSDFYFTKYKSSAPLLGWIQRIQNGQIQIDGEVVKDPNTLLRSGSKLVYHRLPWKEPDT 96
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS-HPVP 120
PY L+VLYEDDDLIALNKPSGLQVLPGGLFQQRTVL QLQW K S S+ S HPVP
Sbjct: 97 PYSLQVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLTQLQWCFRKNDSYTGSRESPHPVP 156
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQ-RKITKIYRALVHG 179
VHRLGRGTSGILLCAKTKLAKT +A YFA+ TS++ + + E + RK++KIYRAL G
Sbjct: 157 VHRLGRGTSGILLCAKTKLAKTKLAAYFAEGTSLVGSGNLEQECGKGRKLSKIYRALADG 216
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
IV+ED+V+IKQP+G+VRYPGVAKGLYVASP GKPA SKV VLERD Q+NCTLV+VEIQSG
Sbjct: 217 IVEEDEVVIKQPLGVVRYPGVAKGLYVASPEGKPAFSKVAVLERDKQKNCTLVKVEIQSG 276
Query: 240 RPHQIRIHLAFLGHPLLG------DPLYVAGGQPKSFDSEFA--DGTFAQDGGYERPVNP 291
RPHQIRIHLA++GHPLL DPLYVAGGQPK FD + D FA+DGGY RP
Sbjct: 277 RPHQIRIHLAYMGHPLLASYNCMRDPLYVAGGQPKCFDPDLVDDDAAFAEDGGYRRPNQA 336
Query: 292 VPGDCGYYLHAYQLFLSH-PTTNEVIKITAPLPSVLKTREEGRE 334
VPGDCGY+LHA+Q+ L + T++V+KI APLP +L+T E E
Sbjct: 337 VPGDCGYHLHAHQVELPNLLNTHKVVKIVAPLPPILQTSSETEE 380
>gi|10045559|emb|CAC07917.1| putative protein [Arabidopsis thaliana]
Length = 376
Score = 467 bits (1202), Expect = e-129, Method: Compositional matrix adjust.
Identities = 235/342 (68%), Positives = 277/342 (80%), Gaps = 12/342 (3%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
T+ EFY TK+K+SAPL GW+QRIQNGQI +DG VV DPN +L +GS+LVY RLPWKEPD
Sbjct: 34 TVSEFYFTKYKSSAPLLGWIQRIQNGQIQIDGEVVKDPNTLLRSGSKLVYSRLPWKEPDT 93
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS-HPVP 120
PY LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVL QLQW K S + S+ S HPVP
Sbjct: 94 PYSLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLTQLQWCFGKNDSYIGSRESPHPVP 153
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMEL-SQRKITKIYRALVHG 179
VHRLGRGTSGILLCAKTKLAKT +A YFA+ TS++ + + E + RK++KIYRAL G
Sbjct: 154 VHRLGRGTSGILLCAKTKLAKTKLAAYFAEGTSLVGSGNLDQECGTGRKLSKIYRALADG 213
Query: 180 IVDEDK-------VIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLV 232
IV+ED+ V+IKQPIG+VRYPGVA+GLYVASP GKPA SKV VLERD ++NC+LV
Sbjct: 214 IVEEDEARPFLLFVVIKQPIGVVRYPGVAQGLYVASPEGKPAFSKVFVLERDREKNCSLV 273
Query: 233 QVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFAD--GTFAQDGGYERPVN 290
+VEIQSGRPHQIRIHLA++GHPL+GDPLYVAGGQPK FD + D FA+DGGY RP
Sbjct: 274 KVEIQSGRPHQIRIHLAYMGHPLVGDPLYVAGGQPKCFDPDLVDDAAAFAEDGGYRRPNQ 333
Query: 291 PVPGDCGYYLHAYQLFLSH-PTTNEVIKITAPLPSVLKTREE 331
VPGDCGY+LHA+Q+ L + T++V+KI APLP +L+TR E
Sbjct: 334 AVPGDCGYHLHAHQVELPNLLNTHKVVKIVAPLPPILQTRCE 375
>gi|226724701|sp|Q0DST9.2|PUS5_ORYSJ RecName: Full=RNA pseudourine synthase 5; AltName: Full=RNA
pseudouridylate synthase 5; AltName: Full=RNA-uridine
isomerase 5
Length = 397
Score = 449 bits (1156), Expect = e-124, Method: Compositional matrix adjust.
Identities = 229/348 (65%), Positives = 274/348 (78%), Gaps = 11/348 (3%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
TLIEFYST +K+SAPL GW++RI++GQITVDG V DP++IL GS+LVYHRLPW+EP
Sbjct: 51 TLIEFYSTSYKSSAPLPGWIKRIRDGQITVDGEVATDPDMILREGSKLVYHRLPWQEPFA 110
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQ----ASH 117
P+LL+VLYEDDD+IALNKPSGLQVLP GLFQQRTVL QLQ + K SS S+ SH
Sbjct: 111 PHLLDVLYEDDDMIALNKPSGLQVLPKGLFQQRTVLAQLQLKDWKMPSSFCSKRKDAQSH 170
Query: 118 PVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQ-RKITKIYRAL 176
PVPVHRLGRGTSG+LLCAKTKLAK +A YFA+ + ++ + RKI+K YRAL
Sbjct: 171 PVPVHRLGRGTSGLLLCAKTKLAKAQLAAYFAEGATNAGKSRDETDICKARKISKFYRAL 230
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
V GI++ D+V+I QPIG+VRYPGVA+GLY A SGKPA+SKV VLER N TL+QVEI
Sbjct: 231 VTGILENDEVMITQPIGLVRYPGVAEGLYAACSSGKPAMSKVRVLERLKIHNHTLIQVEI 290
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFD----SEFADGTFAQDGGYERPVNPV 292
SGRPHQIRIHLA++GHPL+ DPLY GGQPK FD + AD +FA DGGYERP+ PV
Sbjct: 291 HSGRPHQIRIHLAYIGHPLVDDPLYGIGGQPK-FDEPEPTSTAD-SFAYDGGYERPLQPV 348
Query: 293 PGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLKTREEGREVDKSVG 340
PGDCGY+LHA+ L L HPTTNE+IKITAPLP +L+TREE ++ K +G
Sbjct: 349 PGDCGYHLHAHWLVLCHPTTNEMIKITAPLPHILQTREEQQDTAKLLG 396
>gi|326499976|dbj|BAJ90823.1| predicted protein [Hordeum vulgare subsp. vulgare]
gi|326504092|dbj|BAK02832.1| predicted protein [Hordeum vulgare subsp. vulgare]
Length = 389
Score = 443 bits (1139), Expect = e-122, Method: Compositional matrix adjust.
Identities = 223/337 (66%), Positives = 265/337 (78%), Gaps = 7/337 (2%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
TLI+FYS +K+SAPL GW+ RI+NGQITVDG+VV DP+IILS GS+LVYHRL WKEP
Sbjct: 45 TLIDFYSENYKSSAPLPGWIHRIRNGQITVDGQVVTDPDIILSEGSKLVYHRLSWKEPFA 104
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS----H 117
PYLL+VLYEDDD++ALNKPSGLQVLP GLFQQRTVL QLQW+ K S S+ H
Sbjct: 105 PYLLQVLYEDDDMLALNKPSGLQVLPKGLFQQRTVLAQLQWKEWKMPPSSCSKKKNVQLH 164
Query: 118 PVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQR-KITKIYRAL 176
PVPVHRLGRGTSG+LLCAKTKLAK +A YFA+ + + E+ + KI+K YRAL
Sbjct: 165 PVPVHRLGRGTSGLLLCAKTKLAKVQLASYFAEGAANAEKKRDGTEVGKEWKISKFYRAL 224
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
V GI++ D+ +I QPIG+V YPGVA+GLYVA SGKPA+SKV VLER +N TLVQVEI
Sbjct: 225 VTGILEHDEDVITQPIGLVHYPGVAEGLYVACSSGKPAMSKVCVLERLAHQNQTLVQVEI 284
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSE--FADGTFAQDGGYERPVNPVPG 294
SGRPHQIRIHLA++GHPL+ DPLY GGQPK D E D +FA DGGYERP+ PVPG
Sbjct: 285 HSGRPHQIRIHLAYIGHPLVDDPLYGIGGQPKFHDLEPTSTDISFAYDGGYERPLQPVPG 344
Query: 295 DCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLKTREE 331
DCGY+LHA+ L L HPTTN+++KITA LP +L+T+EE
Sbjct: 345 DCGYHLHAHWLVLCHPTTNKMLKITAHLPRILQTQEE 381
>gi|357120041|ref|XP_003561739.1| PREDICTED: RNA pseudourine synthase 5-like [Brachypodium
distachyon]
Length = 390
Score = 434 bits (1116), Expect = e-119, Method: Compositional matrix adjust.
Identities = 221/346 (63%), Positives = 269/346 (77%), Gaps = 13/346 (3%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
TLIEFYS +K+SAPL GW+ RI+NGQITVDG+VV DP +IL GS+LVYHRL W+EP
Sbjct: 46 TLIEFYSDNYKSSAPLPGWIHRIRNGQITVDGQVVIDPEMILREGSKLVYHRLAWQEPLA 105
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQ----ASH 117
P++L+VLYEDDD++ALNKPSGLQVLP GLFQQRTVL QLQW+ K S S+ SH
Sbjct: 106 PHMLQVLYEDDDIVALNKPSGLQVLPKGLFQQRTVLAQLQWKEWKMPLSSCSKRKNVQSH 165
Query: 118 PVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELS---QRKITKIYR 174
PVPVHRLGRGTSG+LLCAKTKLAK +A YFA+ T I+A + E +RK++K YR
Sbjct: 166 PVPVHRLGRGTSGLLLCAKTKLAKVRLASYFAEGT--INAGNKRDETEDSRERKVSKFYR 223
Query: 175 ALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQV 234
ALV GI++ D+ ++ QPIG+V YPGV++GLYVA SGK A+SKV VLER N TLVQV
Sbjct: 224 ALVTGILENDEDVVTQPIGLVHYPGVSEGLYVACSSGKQAVSKVCVLERLAHENQTLVQV 283
Query: 235 EIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFA--DGTFAQDGGYERPVNPV 292
EI SGRPHQIRIHL ++GHPL+ DPLY GGQPK D E + D +FA DGGYERP+ PV
Sbjct: 284 EIHSGRPHQIRIHLGYIGHPLVDDPLYGIGGQPKFADLEHSCPDVSFAYDGGYERPLQPV 343
Query: 293 PGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLKTREE--GREVD 336
PGDCGY+LHA+ L L HP+T +++KITAPLP +L+TREE ++VD
Sbjct: 344 PGDCGYHLHAHWLVLCHPSTEKMVKITAPLPRILQTREERCAKQVD 389
>gi|334185927|ref|NP_001190071.1| RNA pseudourine synthase 5 [Arabidopsis thaliana]
gi|332645402|gb|AEE78923.1| RNA pseudourine synthase 5 [Arabidopsis thaliana]
Length = 416
Score = 427 bits (1099), Expect = e-117, Method: Compositional matrix adjust.
Identities = 227/382 (59%), Positives = 271/382 (70%), Gaps = 52/382 (13%)
Query: 2 TLIEFYSTKHKNSAP------------------------------LQGWLQRIQNGQITV 31
T+ EFY TK+K+SAP L G+ + + I +
Sbjct: 34 TVSEFYFTKYKSSAPLLGFLLFFFLYSSSTIISFLLSILFNHLSFLGGFNESKTDRFIQI 93
Query: 32 DGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLF 91
DG VV DPN +L +GS+LVY RLPWKEPD PY LEVLYEDDDLIALNKPSGLQVLPGGLF
Sbjct: 94 DGEVVKDPNTLLRSGSKLVYSRLPWKEPDTPYSLEVLYEDDDLIALNKPSGLQVLPGGLF 153
Query: 92 QQRTVLNQLQWRASKQSSSLSSQAS-HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFAD 150
QQRTVL QLQW K S + S+ S HPVPVHRLGRGTSGILLCAKTKLAKT +A YFA+
Sbjct: 154 QQRTVLTQLQWCFGKNDSYIGSRESPHPVPVHRLGRGTSGILLCAKTKLAKTKLAAYFAE 213
Query: 151 KTSVIDADSTVMEL-SQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASP 209
TS++ + + E + RK++KIYRAL GIV+ED+V+IKQPIG+VRYPGVA+GLYVASP
Sbjct: 214 GTSLVGSGNLDQECGTGRKLSKIYRALADGIVEEDEVVIKQPIGVVRYPGVAQGLYVASP 273
Query: 210 SGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL------------- 256
GKPA SKV VLERD ++NC+LV+VEIQSGRPHQIRIHLA++GHPL+
Sbjct: 274 EGKPAFSKVFVLERDREKNCSLVKVEIQSGRPHQIRIHLAYMGHPLVEMTMFTGSECLRA 333
Query: 257 ----GDPLYVAGGQPKSFDSEFAD--GTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH- 309
GDPLYVAGGQPK FD + D FA+DGGY RP VPGDCGY+LHA+Q+ L +
Sbjct: 334 DQSAGDPLYVAGGQPKCFDPDLVDDAAAFAEDGGYRRPNQAVPGDCGYHLHAHQVELPNL 393
Query: 310 PTTNEVIKITAPLPSVLKTREE 331
T++V+KI APLP +L+TR E
Sbjct: 394 LNTHKVVKIVAPLPPILQTRCE 415
>gi|294461273|gb|ADE76199.1| unknown [Picea sitchensis]
Length = 386
Score = 427 bits (1098), Expect = e-117, Method: Compositional matrix adjust.
Identities = 211/352 (59%), Positives = 265/352 (75%), Gaps = 18/352 (5%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
TLI+FYS+++++SAP +GWLQRI NGQITVDG+ VN+P+ +L G +LVYHRL W+EP
Sbjct: 28 TLIDFYSSRYESSAPRKGWLQRIHNGQITVDGKTVNEPDTVLRIGPKLVYHRLSWREPIA 87
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS-------- 113
P L VL+EDD L+A+NKPSGLQVLPGGLFQQRTVL QL+W+AS+ S S
Sbjct: 88 PCKLYVLFEDDHLLAVNKPSGLQVLPGGLFQQRTVLTQLKWKASQSSKYRSVAGKAVADF 147
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADST----VMELSQRKI 169
Q S PVPVHRLGRGTSGILLCAK+++AK+ +A FAD TS I +S+ E+ +R+I
Sbjct: 148 QESQPVPVHRLGRGTSGILLCAKSEIAKSQLAADFADGTSFISRNSSSDIDAGEI-KRRI 206
Query: 170 TKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNC 229
K YRAL GI++++K+ IKQPIG +RYPGV GLYVASP+GK A S++ VL RD RNC
Sbjct: 207 YKTYRALADGIIEQNKIAIKQPIGKMRYPGVRSGLYVASPTGKQAESRITVLSRDKNRNC 266
Query: 230 TLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPK-----SFDSEFADGTFAQDGG 284
TLV+VEI SGRPHQIRIHL+F+GHPLLGDPLYVAGG+P S+ FA+DGG
Sbjct: 267 TLVEVEIYSGRPHQIRIHLSFIGHPLLGDPLYVAGGRPSITVSDSYSESREGDNFAEDGG 326
Query: 285 YERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLKTREEGREVD 336
Y++P+NPVPGDCGYYLHAY+L HP ++EV++I AP P +L E +D
Sbjct: 327 YQKPLNPVPGDCGYYLHAYRLAFHHPVSDEVVEIVAPPPPMLSACNEDAGLD 378
>gi|195621906|gb|ACG32783.1| RNA binding protein [Zea mays]
Length = 379
Score = 426 bits (1094), Expect = e-116, Method: Compositional matrix adjust.
Identities = 213/328 (64%), Positives = 252/328 (76%), Gaps = 7/328 (2%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
TLIEFYST HK+SAPL GW++RI+NGQITVDG VV DP++ L GS+LVYHR PW+EP
Sbjct: 41 TLIEFYSTNHKSSAPLPGWIKRIRNGQITVDGEVVTDPDMTLVDGSKLVYHRFPWQEPFA 100
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQ----ASH 117
PYLLEVLYEDDD++ALNKPSGLQVLP GLFQQRTVL QLQ + K +SS + SH
Sbjct: 101 PYLLEVLYEDDDMVALNKPSGLQVLPKGLFQQRTVLAQLQLKDWKMASSCRFKRKDVQSH 160
Query: 118 PVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELS-QRKITKIYRAL 176
PVPVHRLGRGTSG+LLCAKTK+AK +A YFA+ E S +RKI+K YRAL
Sbjct: 161 PVPVHRLGRGTSGLLLCAKTKVAKVRLASYFAEGAINAAKKRDKSEFSEERKISKFYRAL 220
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
V GI+D+D+V++ QPIG+V YPGVA+GLY A SGKPA+SKV VLER +N TLVQVEI
Sbjct: 221 VTGILDDDEVVVTQPIGLVHYPGVAEGLYAACSSGKPAMSKVCVLERLAHQNHTLVQVEI 280
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEF--ADGTFAQDGGYERPVNPVPG 294
SGRPHQIRIHLA++GHPL+ DPLY GG P + E D +FA DGGYERP+ PVPG
Sbjct: 281 HSGRPHQIRIHLAYIGHPLVDDPLYGIGGHPNFVEPESTGTDSSFASDGGYERPLQPVPG 340
Query: 295 DCGYYLHAYQLFLSHPTTNEVIKITAPL 322
DCGY+LHA+ L L HPTTN+ ++ PL
Sbjct: 341 DCGYHLHAHCLVLCHPTTNKDERLLTPL 368
>gi|222624713|gb|EEE58845.1| hypothetical protein OsJ_10432 [Oryza sativa Japonica Group]
Length = 458
Score = 421 bits (1081), Expect = e-115, Method: Compositional matrix adjust.
Identities = 214/324 (66%), Positives = 255/324 (78%), Gaps = 11/324 (3%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
TLIEFYST +K+SAPL GW++RI++GQITVDG V DP++IL GS+LVYHRLPW+EP
Sbjct: 51 TLIEFYSTSYKSSAPLPGWIKRIRDGQITVDGEVATDPDMILREGSKLVYHRLPWQEPFA 110
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQ----ASH 117
P+LL+VLYEDDD+IALNKPSGLQVLP GLFQQRTVL QLQ + K SS S+ SH
Sbjct: 111 PHLLDVLYEDDDMIALNKPSGLQVLPKGLFQQRTVLAQLQLKDWKMPSSFCSKRKDAQSH 170
Query: 118 PVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQ-RKITKIYRAL 176
PVPVHRLGRGTSG+LLCAKTKLAK +A YFA+ + ++ + RKI+K YRAL
Sbjct: 171 PVPVHRLGRGTSGLLLCAKTKLAKAQLAAYFAEGATNAGKSRDETDICKARKISKFYRAL 230
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
V GI++ D+V+I QPIG+VRYPGVA+GLY A SGKPA+SKV VLER N TL+QVEI
Sbjct: 231 VTGILENDEVMITQPIGLVRYPGVAEGLYAACSSGKPAMSKVRVLERLKIHNHTLIQVEI 290
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFD----SEFADGTFAQDGGYERPVNPV 292
SGRPHQIRIHLA++GHPL+ DPLY GGQPK FD + AD +FA DGGYERP+ PV
Sbjct: 291 HSGRPHQIRIHLAYIGHPLVDDPLYGIGGQPK-FDEPEPTSTAD-SFAYDGGYERPLQPV 348
Query: 293 PGDCGYYLHAYQLFLSHPTTNEVI 316
PGDCGY+LHA+ L L HPTTNE++
Sbjct: 349 PGDCGYHLHAHWLVLCHPTTNELL 372
>gi|218192587|gb|EEC75014.1| hypothetical protein OsI_11092 [Oryza sativa Indica Group]
Length = 461
Score = 418 bits (1075), Expect = e-114, Method: Compositional matrix adjust.
Identities = 214/324 (66%), Positives = 254/324 (78%), Gaps = 11/324 (3%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
TLIEFYST +K+SAPL GW++RI++GQITV G V DP+IIL GS+LVYHRLPW+EP
Sbjct: 54 TLIEFYSTSYKSSAPLPGWIKRIRDGQITVCGEVATDPDIILREGSKLVYHRLPWQEPCA 113
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQ----ASH 117
P+LL+VLYEDDD+IALNKPSGLQVLP GLFQQRTVL QLQ + K SS S+ SH
Sbjct: 114 PHLLDVLYEDDDMIALNKPSGLQVLPKGLFQQRTVLAQLQLKDWKMPSSFCSKRKDAQSH 173
Query: 118 PVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQ-RKITKIYRAL 176
PVPVHRLGRGTSG+LLCAKTKLAK +A YFA+ + ++ + RKI+K YRAL
Sbjct: 174 PVPVHRLGRGTSGLLLCAKTKLAKAQLAAYFAEGATNAGKSRDETDICKARKISKFYRAL 233
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
V GI++ D+V+I QPIG+VRYPGVA+GLY A SGKPA+SKV VLER N TL+QVEI
Sbjct: 234 VTGILENDEVMITQPIGLVRYPGVAEGLYAACSSGKPAMSKVRVLERLKIHNHTLIQVEI 293
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFD----SEFADGTFAQDGGYERPVNPV 292
SGRPHQIRIHLA++GHPL+ DPLY GGQPK FD + AD +FA DGGYERP+ PV
Sbjct: 294 HSGRPHQIRIHLAYIGHPLVDDPLYGIGGQPK-FDEPEPTSTAD-SFAYDGGYERPLQPV 351
Query: 293 PGDCGYYLHAYQLFLSHPTTNEVI 316
PGDCGY+LHA+ L L HPTTNE++
Sbjct: 352 PGDCGYHLHAHWLVLCHPTTNELL 375
>gi|22331748|ref|NP_190794.2| RNA pseudourine synthase 5 [Arabidopsis thaliana]
gi|56744228|gb|AAW28554.1| At3g52260 [Arabidopsis thaliana]
gi|332645401|gb|AEE78922.1| RNA pseudourine synthase 5 [Arabidopsis thaliana]
Length = 294
Score = 384 bits (987), Expect = e-104, Method: Compositional matrix adjust.
Identities = 188/256 (73%), Positives = 218/256 (85%), Gaps = 2/256 (0%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
T+ EFY TK+K+SAPL GW+QRIQNGQI +DG VV DPN +L +GS+LVY RLPWKEPD
Sbjct: 34 TVSEFYFTKYKSSAPLLGWIQRIQNGQIQIDGEVVKDPNTLLRSGSKLVYSRLPWKEPDT 93
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS-HPVP 120
PY LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVL QLQW K S + S+ S HPVP
Sbjct: 94 PYSLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLTQLQWCFGKNDSYIGSRESPHPVP 153
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMEL-SQRKITKIYRALVHG 179
VHRLGRGTSGILLCAKTKLAKT +A YFA+ TS++ + + E + RK++KIYRAL G
Sbjct: 154 VHRLGRGTSGILLCAKTKLAKTKLAAYFAEGTSLVGSGNLDQECGTGRKLSKIYRALADG 213
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
IV+ED+V+IKQPIG+VRYPGVA+GLYVASP GKPA SKV VLERD ++NC+LV+VEIQSG
Sbjct: 214 IVEEDEVVIKQPIGVVRYPGVAQGLYVASPEGKPAFSKVFVLERDREKNCSLVKVEIQSG 273
Query: 240 RPHQIRIHLAFLGHPL 255
RPHQIRIHLA++GHPL
Sbjct: 274 RPHQIRIHLAYMGHPL 289
>gi|17978940|gb|AAL47436.1| AT3g52260/T25B15_30 [Arabidopsis thaliana]
Length = 294
Score = 381 bits (979), Expect = e-103, Method: Compositional matrix adjust.
Identities = 187/256 (73%), Positives = 217/256 (84%), Gaps = 2/256 (0%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
T+ EFY TK+K+SAPL GW+QRIQNGQI +DG VV DPN +L +GS+LVY RLPWKEPD
Sbjct: 34 TVSEFYFTKYKSSAPLLGWIQRIQNGQIQIDGEVVKDPNTLLRSGSKLVYSRLPWKEPDT 93
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS-HPVP 120
PY LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVL QLQW K S + S+ S HPVP
Sbjct: 94 PYSLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLTQLQWCFGKNDSYIGSRESPHPVP 153
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMEL-SQRKITKIYRALVHG 179
VHRLGRGTSGILLCAKTKLAKT +A YFA+ TS++ + + E + RK++KIYRAL G
Sbjct: 154 VHRLGRGTSGILLCAKTKLAKTKLAAYFAEGTSLVGSGNLDQECGTGRKLSKIYRALADG 213
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
IV+ED+V+IKQPIG+VRYPGVA+GLYVASP KPA SKV VLERD ++NC+LV+VEIQSG
Sbjct: 214 IVEEDEVVIKQPIGVVRYPGVAQGLYVASPEWKPAFSKVFVLERDREKNCSLVKVEIQSG 273
Query: 240 RPHQIRIHLAFLGHPL 255
RPHQIRIHLA++GHPL
Sbjct: 274 RPHQIRIHLAYMGHPL 289
>gi|302765707|ref|XP_002966274.1| hypothetical protein SELMODRAFT_168290 [Selaginella moellendorffii]
gi|300165694|gb|EFJ32301.1| hypothetical protein SELMODRAFT_168290 [Selaginella moellendorffii]
Length = 359
Score = 357 bits (916), Expect = 5e-96, Method: Compositional matrix adjust.
Identities = 177/330 (53%), Positives = 234/330 (70%), Gaps = 10/330 (3%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP 62
++E+Y++++++SA +GWL+RI GQI ++G VV P+ ++ + LVYHR PW+EP P
Sbjct: 32 VLEYYASRYQSSASREGWLRRILKGQIEINGEVVTSPDALIRNNASLVYHRFPWEEPSAP 91
Query: 63 YLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVH 122
++LE+LYED+ L+A+NKPSGLQVLPGGLFQQRTVL+QLQWR + Q + +HP PVH
Sbjct: 92 FMLEILYEDEHLLAINKPSGLQVLPGGLFQQRTVLSQLQWRVTDQ-----VERNHPTPVH 146
Query: 123 RLGRGTSGILLCAKTKLAKTCIAGYFADKTSV-IDADSTVMELSQRKITKIYRALVHGIV 181
RLGRGTSG+ +C T L KT + + + V + A S ++K+YRALV GIV
Sbjct: 147 RLGRGTSGVYVCG-TSLTKTFVYFKYLHFSGVLLCAKSDQARYRFEMLSKVYRALVCGIV 205
Query: 182 DEDKVIIK--QPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
+DKVII Q IG YPGV GLY+A GKP+ SKV L+R+ + N T+V+VEI SG
Sbjct: 206 QDDKVIISIDQAIGRAHYPGVRGGLYMAVAKGKPSHSKVTTLKRNTEENSTVVEVEIFSG 265
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPK-SFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
R HQIRIHLA +GHPL+GDPLYV GGQP S + A+DGGYERP NP+PGDCGY
Sbjct: 266 RAHQIRIHLASIGHPLVGDPLYVRGGQPSMQVVSTLERASVAEDGGYERPENPLPGDCGY 325
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKT 328
+LHA++L HP TN+ ++I APLP L+T
Sbjct: 326 HLHAHRLTFHHPVTNQRLEIVAPLPPELET 355
>gi|168061155|ref|XP_001782556.1| predicted protein [Physcomitrella patens subsp. patens]
gi|162665963|gb|EDQ52631.1| predicted protein [Physcomitrella patens subsp. patens]
Length = 365
Score = 350 bits (898), Expect = 5e-94, Method: Compositional matrix adjust.
Identities = 188/334 (56%), Positives = 235/334 (70%), Gaps = 23/334 (6%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQ-ITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
+L+++YS K+K SA +GWLQRIQNGQ I VDG V+ DP +L G LVY RLPW+EP+
Sbjct: 34 SLLDYYSAKYKESASEKGWLQRIQNGQQIRVDGNVITDPGFLLRDGVTLVYQRLPWREPE 93
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQ-----------SS 109
VPY L VLYEDD L+A+NKPSGLQVLPGGLFQQRTVL QL+W ++ SS
Sbjct: 94 VPYRLGVLYEDDHLVAINKPSGLQVLPGGLFQQRTVLKQLEWDNEEKEKHLQACLASVSS 153
Query: 110 SLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKI 169
S ++ P PVHRLGRGTSGILLCAK+ AK+ +A A TSV S +++ RKI
Sbjct: 154 SDETRLWKPAPVHRLGRGTSGILLCAKSPAAKSKLAADLAAGTSVSIDRSALID---RKI 210
Query: 170 TKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASP-SGKPALSKVDVLERDVQRN 228
TK YRAL GI+ ED+V PIG V+Y GVA GL +A+ GKP+ SKV VL RD+ N
Sbjct: 211 TKTYRALASGIIMEDEVFADIPIGKVKYSGVAGGLNMATEIGGKPSQSKVTVLWRDIVEN 270
Query: 229 CTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPK----SFDSEFADGTF---AQ 281
TLV+V+I +GRPHQIRIHLA LGHPL+GDPLYVAGG+P+ + ++E + A
Sbjct: 271 QTLVEVQIYTGRPHQIRIHLAALGHPLVGDPLYVAGGRPREDLNTVNAENCEDKSMDPAD 330
Query: 282 DGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
DGGY+RP + +PGDCGY LHA++L HP T++V
Sbjct: 331 DGGYQRPKSVLPGDCGYLLHAWRLSFFHPVTSQV 364
>gi|194696406|gb|ACF82287.1| unknown [Zea mays]
Length = 242
Score = 292 bits (747), Expect = 2e-76, Method: Compositional matrix adjust.
Identities = 144/228 (63%), Positives = 173/228 (75%), Gaps = 3/228 (1%)
Query: 116 SHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQ-RKITKIYR 174
SHPVPVHRLGRGTSG+LLCAKTK+AK +A YFA+ E S+ RKI+K YR
Sbjct: 14 SHPVPVHRLGRGTSGLLLCAKTKVAKVRLASYFAEGAINAAKKRDKSEFSEERKISKFYR 73
Query: 175 ALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQV 234
ALV GI+D+D+V++ QPIG+V YPGVA+GLY A SGKPA+SKV VLER +N TLVQV
Sbjct: 74 ALVTGILDDDEVVVTQPIGLVHYPGVAEGLYAACSSGKPAMSKVCVLERLAHQNHTLVQV 133
Query: 235 EIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEF--ADGTFAQDGGYERPVNPV 292
EI SGRPHQIRIHLA++GHPL+ DPLY GG P + E D +FA DGGYERP+ PV
Sbjct: 134 EIHSGRPHQIRIHLAYIGHPLVDDPLYGIGGHPNFVEPESTGTDSSFASDGGYERPLQPV 193
Query: 293 PGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLKTREEGREVDKSVG 340
PGDCGY+LHA+ L L HPTTN+++KITAPLP +L+TREE R + G
Sbjct: 194 PGDCGYHLHAHWLVLCHPTTNKMVKITAPLPQILQTREERRAAAEQTG 241
>gi|158334165|ref|YP_001515337.1| RluA family pseudouridine synthase [Acaryochloris marina MBIC11017]
gi|158304406|gb|ABW26023.1| pseudouridine synthase, RluA family [Acaryochloris marina
MBIC11017]
Length = 306
Score = 262 bits (669), Expect = 2e-67, Method: Compositional matrix adjust.
Identities = 147/333 (44%), Positives = 207/333 (62%), Gaps = 51/333 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LTL+EFY+ ++++S+ + W RI+ GQ+T+DGR P+ +L G L YHR PW+EP
Sbjct: 18 LTLLEFYAQRYRHSSGTE-WQVRIETGQVTIDGRQAT-PDTVLKQGQNLAYHRPPWQEPT 75
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP +VLYED D++A++KPSGLQVLPGG F + T+L+Q+Q R + + P P
Sbjct: 76 VPLTFDVLYEDADVLAIHKPSGLQVLPGGGFLEHTLLHQVQQRFPQGT---------PFP 126
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALV--- 177
+HRLGRGTSG++L A+++ A+ ++ ++ R+I K+YRAL+
Sbjct: 127 IHRLGRGTSGVVLMARSQQARAALS----------------QQMRNRQIQKVYRALIGPE 170
Query: 178 ---HGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQV 234
H + E++ I Q IG V YP + +Y A+P G+PA S +L+R + TL+ V
Sbjct: 171 QTTHPL--EEQFEITQAIGKVPYPELGY-IYAATPKGRPAHSACTILQR--RPEATLLAV 225
Query: 235 EIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPG 294
I +GRPHQIRIHLA +G+PLLGDPLYVAGGQP+S SE ER PVPG
Sbjct: 226 TITTGRPHQIRIHLATIGYPLLGDPLYVAGGQPQSISSE------------ER-SQPVPG 272
Query: 295 DCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
DCGY+LHA+ L HPT+ E +K+ + P LK
Sbjct: 273 DCGYWLHAFSLQFIHPTSQERVKVVSEPPQPLK 305
>gi|359463161|ref|ZP_09251724.1| pseudouridine synthase [Acaryochloris sp. CCMEE 5410]
Length = 306
Score = 252 bits (644), Expect = 2e-64, Method: Compositional matrix adjust.
Identities = 145/333 (43%), Positives = 204/333 (61%), Gaps = 51/333 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LTL+EFY+ ++++S+ + W RI+ GQ+T+DGR P+ +L G L YHR PW+EP
Sbjct: 18 LTLLEFYAQRYRHSSGTE-WQARIETGQVTIDGRQAT-PDTVLKQGQNLAYHRPPWQEPT 75
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP +VLYED D++A++KPSGL VLPGG F + T+L+Q+Q + Q + P P
Sbjct: 76 VPLTFDVLYEDADVLAIHKPSGLPVLPGGGFLEHTLLHQVQ-QCFPQGT--------PFP 126
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALV--- 177
+HRLGRGTSG++L A+++ A+ ++ ++ R+I K+YRAL+
Sbjct: 127 IHRLGRGTSGVVLMARSQQARAALS----------------QQMRTRQIQKVYRALIGPE 170
Query: 178 ---HGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQV 234
H + E + I Q IG V YP + +Y A+ G+PA S +L+R + TL+ V
Sbjct: 171 QTTHPL--EKQFEITQAIGKVPYPELGY-IYAATQKGRPAHSACTILQR--RPEATLLAV 225
Query: 235 EIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPG 294
I +GRPHQIRIHLA +G+PLLGDPLYVAGGQP+S SE ER PVPG
Sbjct: 226 TITTGRPHQIRIHLATIGYPLLGDPLYVAGGQPQSISSE------------ER-SQPVPG 272
Query: 295 DCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
DCGY+LHA+ L HPT+ E +K+ + P LK
Sbjct: 273 DCGYWLHAFSLQFIHPTSQERVKVVSEPPQPLK 305
>gi|414866264|tpg|DAA44821.1| TPA: RNA binding protein [Zea mays]
Length = 243
Score = 249 bits (637), Expect = 1e-63, Method: Compositional matrix adjust.
Identities = 125/191 (65%), Positives = 148/191 (77%), Gaps = 5/191 (2%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
TLIEFYST HK+SAPL GW++RI+NGQITVDG VV DP++ L GS+LVYHR PW+EP
Sbjct: 50 TLIEFYSTNHKSSAPLPGWIKRIRNGQITVDGEVVTDPDMTLVDGSKLVYHRFPWQEPFA 109
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQ----ASH 117
PYLLEVLYEDDD++ALNKPSGLQVLP GLFQQRTVL QLQ + K +SS + SH
Sbjct: 110 PYLLEVLYEDDDMVALNKPSGLQVLPKGLFQQRTVLAQLQLKDWKMASSCRFKRKDVQSH 169
Query: 118 PVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELS-QRKITKIYRAL 176
PVPVHRLGRGTSG+LLCAKTK+AK +A YFA+ E S +RKI+K YRAL
Sbjct: 170 PVPVHRLGRGTSGLLLCAKTKVAKVRLASYFAEGAINAAKKRDKSEFSEERKISKFYRAL 229
Query: 177 VHGIVDEDKVI 187
V GI+D+D+V+
Sbjct: 230 VTGILDDDEVL 240
>gi|416401986|ref|ZP_11687314.1| putative pseudouridine synthase [Crocosphaera watsonii WH 0003]
gi|357261969|gb|EHJ11175.1| putative pseudouridine synthase [Crocosphaera watsonii WH 0003]
Length = 302
Score = 245 bits (626), Expect = 2e-62, Method: Compositional matrix adjust.
Identities = 144/323 (44%), Positives = 194/323 (60%), Gaps = 42/323 (13%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LTLIE+Y TKH + + Q WL+RI +GQ+ VD + V DP +L G L YHR PW+EP+
Sbjct: 18 LTLIEYY-TKHYHHSNYQQWLERIISGQVLVDEQTV-DPQTVLKTGQRLSYHRPPWQEPE 75
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP E++YEDD+L+ +NKPSGL VLPGG F + T+L W+ KQ + P+P
Sbjct: 76 VPLSFEIIYEDDNLLIVNKPSGLPVLPGGGFLEHTLL----WQLKKQYPQ-----NEPIP 126
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG++L K+ +A++ + ++ ++KI+K+Y+ L+
Sbjct: 127 IHRLGRGTSGLMLMGKSAIARSHLT----------------QQMREQKISKVYQGLIGKN 170
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
DK I PIG + P V +Y A GK A S+ VLER + TL++V I +GR
Sbjct: 171 NLPDKFSIDHPIGKIPDP-VLGYIYGAKVDGKYAYSECRVLERYADK--TLLEVTILTGR 227
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLA +G+PLLGDPLYV GG PK+ E D +N VPGDCGY+L
Sbjct: 228 PHQIRIHLATIGYPLLGDPLYVVGGIPKTGFKEDNDT-----------IN-VPGDCGYFL 275
Query: 301 HAYQLFLSHPTTNEVIKITAPLP 323
HAYQL HP TN+ + T P
Sbjct: 276 HAYQLSFVHPVTNQCLTFTCERP 298
>gi|67924151|ref|ZP_00517595.1| Pseudouridine synthase, RluD [Crocosphaera watsonii WH 8501]
gi|67854003|gb|EAM49318.1| Pseudouridine synthase, RluD [Crocosphaera watsonii WH 8501]
Length = 302
Score = 244 bits (623), Expect = 4e-62, Method: Compositional matrix adjust.
Identities = 144/323 (44%), Positives = 194/323 (60%), Gaps = 42/323 (13%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LTLIE+Y TKH + + Q WL+RI +GQ+ VD + V DP +L G L YHR PW+EP+
Sbjct: 18 LTLIEYY-TKHYHHSNYQQWLERIISGQVLVDEQTV-DPQTVLKTGQRLSYHRPPWQEPE 75
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP E++YEDD+L+ +NKPSGL VLPGG F + T+L W+ KQ + P+P
Sbjct: 76 VPLSFEIIYEDDNLLIVNKPSGLPVLPGGGFLEHTLL----WQLKKQYPQ-----NEPIP 126
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG++L K+ +A++ + ++ ++KI+K+Y+ L+
Sbjct: 127 IHRLGRGTSGLMLMGKSAIARSHLT----------------QQMREQKISKVYQGLIGKN 170
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
DK I PIG + P V +Y A GK A S+ VL R V + TL++V I +GR
Sbjct: 171 NLPDKFSIDHPIGKIPDP-VLGYIYGAKVDGKYAYSECRVLGRYVDK--TLLEVTILTGR 227
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLA +G+PLLGDPLYV GG PK+ E D +N VPGDCGY+L
Sbjct: 228 PHQIRIHLATIGYPLLGDPLYVVGGIPKTGFKEDND-----------TIN-VPGDCGYFL 275
Query: 301 HAYQLFLSHPTTNEVIKITAPLP 323
HAYQL HP TN+ + T P
Sbjct: 276 HAYQLSFVHPVTNQCLTFTCERP 298
>gi|443329468|ref|ZP_21058053.1| pseudouridine synthase, RluA family [Xenococcus sp. PCC 7305]
gi|442790806|gb|ELS00308.1| pseudouridine synthase, RluA family [Xenococcus sp. PCC 7305]
Length = 311
Score = 241 bits (614), Expect = 5e-61, Method: Compositional matrix adjust.
Identities = 139/325 (42%), Positives = 199/325 (61%), Gaps = 35/325 (10%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
T++++YS ++++S + W ++I +GQI++DGR V D IL G +L YHRLPW EP V
Sbjct: 21 TVLQYYSARYRHSNE-ESWRKKIISGQISLDGRRV-DAETILQLGQKLAYHRLPWLEPTV 78
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P EV+YED DL+A+ KP+GL VLPGG F Q T+L Q++ + Q++ PVP+
Sbjct: 79 PLDFEVIYEDPDLLAIAKPAGLPVLPGGGFLQNTLLWQIK-KIYPQNT--------PVPI 129
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRLGRGTSG+LL AK+ L K+ ++ ++ S + +I KIY A V +V
Sbjct: 130 HRLGRGTSGLLLLAKSALGKSSLSRQMRSNSTHQTTQS-----ANPRIQKIYLAKVDRVV 184
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D+ I PIG + +P + +Y A+P+GK A S+ V++R+ + T++QV I +GRP
Sbjct: 185 PRDRFTITNPIGKIPHPHIGY-VYGATPTGKFAHSECQVIKRNP--DSTIIQVAILTGRP 241
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIRIHLA G PL+GDPLY GG P+ E A VPGDCGY+LH
Sbjct: 242 HQIRIHLAAAGFPLMGDPLYGVGGIPQMKQDEVA----------------VPGDCGYHLH 285
Query: 302 AYQLFLSHPTTNEVIKITAPLPSVL 326
A++L +HPT+NE + + P P L
Sbjct: 286 AHRLAFTHPTSNERVNLICPPPVSL 310
>gi|218442079|ref|YP_002380408.1| pseudouridine synthase [Cyanothece sp. PCC 7424]
gi|218174807|gb|ACK73540.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 7424]
Length = 308
Score = 234 bits (597), Expect = 5e-59, Method: Compositional matrix adjust.
Identities = 135/331 (40%), Positives = 195/331 (58%), Gaps = 50/331 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LT++++YS K+ +S P Q W +RI +GQ+ +DG N P+ L G +L YHR PW+EP
Sbjct: 23 LTVLDYYSQKYPHSTPCQ-WFERITSGQVLLDGHSCN-PHTRLITGQKLAYHRPPWEEPS 80
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
P ++LY D D++ + KP+GL +LPGG F + T+L QL+ + + P P
Sbjct: 81 APLNFDLLYSDSDVLVVAKPAGLPILPGGGFVEHTLLGQLKQHYPEDT---------PFP 131
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG++L A++ A+ G+ ++ ++ R+I+KIYRAL+
Sbjct: 132 IHRLGRGTSGLVLLARSSFAR----GFLSE------------QMRSRQISKIYRALIPKS 175
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I QPIG + +P V ++ A+P+GK ALS+ VL+R + TLV+V+I +GR
Sbjct: 176 DLTDHFTINQPIGKIPHP-VLGYIFGATPNGKDALSECRVLKRTSE--TTLVEVKILTGR 232
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVN----PVPGDC 296
PHQIRIHLA +G+PL+GDPLY GG PK + P+ PVPGDC
Sbjct: 233 PHQIRIHLAAIGYPLIGDPLYTMGGIPK----------------IQTPITPEKLPVPGDC 276
Query: 297 GYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
GYYLHAYQL + P + +T P P L+
Sbjct: 277 GYYLHAYQLTFNLPHRESPLTVTCPPPRELE 307
>gi|126657910|ref|ZP_01729063.1| probable pseudouridine synthase [Cyanothece sp. CCY0110]
gi|126620850|gb|EAZ91566.1| probable pseudouridine synthase [Cyanothece sp. CCY0110]
Length = 299
Score = 233 bits (595), Expect = 7e-59, Method: Compositional matrix adjust.
Identities = 137/314 (43%), Positives = 186/314 (59%), Gaps = 42/314 (13%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LT++E+Y+ + +S+ Q WL+RI +GQ+ ++ +VV P IL G L YHR PWKEPD
Sbjct: 18 LTVLEYYTQNYHHSSS-QQWLERIISGQVLLNKKVVT-PETILQIGQWLSYHRTPWKEPD 75
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP +++YEDDDL+ +NKPSGL VLPGG F + T+L QL+ + K P
Sbjct: 76 VPLNFDIIYEDDDLLVINKPSGLPVLPGGGFLEHTLLWQLKKQYPKDKV---------FP 126
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG+++ K+ +A++ + ++ + KITK+YR L+
Sbjct: 127 IHRLGRGTSGLMVMGKSAIARSQLT----------------QQMREHKITKVYRTLIGNN 170
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I PIG + P V +Y A GK A S+ +LER + TLV+V I +GR
Sbjct: 171 NLPDHFNIDHPIGKISDP-VLGYIYGAKADGKYAYSECHILERYSDK--TLVEVTILTGR 227
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLA +G+PLLGDPLY GG PK+ E D +N VPGDCGY+L
Sbjct: 228 PHQIRIHLATIGYPLLGDPLYTIGGIPKTGFEEQND-----------TIN-VPGDCGYFL 275
Query: 301 HAYQLFLSHPTTNE 314
HAYQL HP TN+
Sbjct: 276 HAYQLSFVHPITNQ 289
>gi|220908619|ref|YP_002483930.1| RluA family pseudouridine synthase [Cyanothece sp. PCC 7425]
gi|219865230|gb|ACL45569.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 7425]
Length = 303
Score = 231 bits (590), Expect = 3e-58, Method: Compositional matrix adjust.
Identities = 134/326 (41%), Positives = 194/326 (59%), Gaps = 42/326 (12%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LTL+++YS ++++++ + W RI+ GQI ++G+ P L AG +L YHR PW EP+
Sbjct: 19 LTLLDYYSQRYRHTSSAE-WQTRIELGQIHLNGQPA-PPTTRLQAGQQLTYHRPPWPEPE 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP E +Y D DL+ ++KP+GL VLPGG F + T+L QLQ + +++ PVP
Sbjct: 77 VPLKFETIYSDADLLIISKPAGLPVLPGGGFLEHTLLWQLQQQYPQET---------PVP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG+++ A + LAK+ ++ ++ + I K YRALV G
Sbjct: 128 IHRLGRGTSGLMILAISGLAKSALS----------------QQMRDQHIRKTYRALVGGG 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D+ I PIG + +P + +Y A+P+G+ A S+ VL+R R TL+ V I +GR
Sbjct: 172 EMPDRFTIDYPIGKIPHPELGY-VYGATPTGRFAHSECQVLKRTPDR--TLLAVTILTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLA G+PLLGDPLY+ GG P+SF + D VPGDCGY+L
Sbjct: 229 PHQIRIHLAAAGYPLLGDPLYINGGIPRSFGATPTDKVA------------VPGDCGYHL 276
Query: 301 HAYQLFLSHPTTNEVIKITAPLPSVL 326
HA+ L +HP T E ++ +P P L
Sbjct: 277 HAHHLAFAHPRTGEPLEFISPPPREL 302
>gi|302840927|ref|XP_002952009.1| pseudouridine synthase [Volvox carteri f. nagariensis]
gi|300262595|gb|EFJ46800.1| pseudouridine synthase [Volvox carteri f. nagariensis]
Length = 367
Score = 229 bits (584), Expect = 1e-57, Method: Compositional matrix adjust.
Identities = 125/268 (46%), Positives = 163/268 (60%), Gaps = 2/268 (0%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L L++FY T H S + W RI GQ+ ++G V +P+ +L G + Y R PW+EP
Sbjct: 32 LALLQFYITLHPASGNCEEWTSRIVGGQVAINGSTVLEPDHVLRVGDVVSYTRRPWREPP 91
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
P ++VLYEDDD++AL KP+GLQVLP + QRTVL LQ + + A P
Sbjct: 92 SPSYVDVLYEDDDVVALCKPAGLQVLPAAMLHQRTVLTLLQHHYGNPPGTRACVAV--AP 149
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
VHRLGRGTSG+LLCA+T A+ + + KT+ A + IYR+LV GI
Sbjct: 150 VHRLGRGTSGLLLCARTTHARQRLTELMSGKTAAAAAAAAAATAGTEARGLIYRSLVQGI 209
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
V ED+ + PIG V+YPGV GL+ A+P GKPA S VLER + VEI +GR
Sbjct: 210 VAEDEGRVDVPIGPVQYPGVDGGLFAATPGGKPAASIWRVLERRPGGGRSRQAVEILTGR 269
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPK 268
PHQIRIH+A +GHPL+GDPLY GG P+
Sbjct: 270 PHQIRIHMAAMGHPLVGDPLYGIGGLPR 297
>gi|159482266|ref|XP_001699192.1| pseudouridine synthase [Chlamydomonas reinhardtii]
gi|158273039|gb|EDO98832.1| pseudouridine synthase [Chlamydomonas reinhardtii]
Length = 303
Score = 229 bits (584), Expect = 1e-57, Method: Compositional matrix adjust.
Identities = 138/315 (43%), Positives = 178/315 (56%), Gaps = 48/315 (15%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
TLIEFY++ H SA L W RI+NGQ+ V+ +P +L G + Y RLPW EP
Sbjct: 33 TLIEFYTSVHPASANLSQWEVRIRNGQVAVNDVEAVEPTRVLRVGDVVSYRRLPWVEPPS 92
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P ++V+YED D++AL+KPSGLQVLP +F QRTVL+ L+ R P PV
Sbjct: 93 PCHVDVVYEDADMVALSKPSGLQVLPAAMFHQRTVLSLLRRRQYLDV---------PAPV 143
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRLGRGTSG C A A S A + +L R K YRALV G V
Sbjct: 144 HRLGRGTSG------------CGAAALAALISSAPASGSGCQLPLR---KFYRALVQGRV 188
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALS--KVDVLERDVQRNCTLVQVEIQSG 239
D+ + PIG + +PGV +GL+ A+P GKPA S + +E + CTL++VEI +G
Sbjct: 189 KADQGRVDVPIGPIPHPGVDRGLFAATPDGKPAASVWRAGCMEAE----CTLMEVEILTG 244
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
RPHQIRIH+A +GHPL+GDPLY AGG+PK + DCGYY
Sbjct: 245 RPHQIRIHMAAMGHPLVGDPLYGAGGRPKVRYRLYGS------------------DCGYY 286
Query: 300 LHAYQLFLSHPTTNE 314
LH+ +L L HP T +
Sbjct: 287 LHSLELHLPHPITGQ 301
>gi|307154171|ref|YP_003889555.1| RluA family pseudouridine synthase [Cyanothece sp. PCC 7822]
gi|306984399|gb|ADN16280.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 7822]
Length = 302
Score = 228 bits (582), Expect = 2e-57, Method: Compositional matrix adjust.
Identities = 135/326 (41%), Positives = 192/326 (58%), Gaps = 42/326 (12%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LTLIE+Y+ K+ +S P + WL+RIQ+GQI +DG DP +L G +L YHR PW+EP+
Sbjct: 18 LTLIEYYTQKYSHSGPSE-WLERIQSGQILIDG-CSQDPQTLLQPGQKLTYHRPPWEEPE 75
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP EV YEDD+++ + KPS L VLPGG F + T+L+ LQ + +++ P+P
Sbjct: 76 VPLSFEVFYEDDEVLVVAKPSLLPVLPGGGFLEHTLLSLLQQQYPQRT---------PIP 126
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
VHRLGRGTSG++L A++ A+ + ++ ++ KIYRALV
Sbjct: 127 VHRLGRGTSGLVLLARSPHARANLT----------------EQMRSHQVGKIYRALVGSG 170
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D +I PIG + +P V ++ A+ G A S+ VL+R+ TLV+V+I +GR
Sbjct: 171 NIPDHFVITHPIGKIPHP-VLGYVFGATADGMKAYSECHVLKRN--PTTTLVEVKILTGR 227
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLA G+PL+GDPLY GG P+ + + PVPGD GY+L
Sbjct: 228 PHQIRIHLAVAGYPLIGDPLYQIGGVPRIPEPIAGEKL------------PVPGDGGYHL 275
Query: 301 HAYQLFLSHPTTNEVIKITAPLPSVL 326
HAY L HP T ++I++ P P+ L
Sbjct: 276 HAYGLSFFHPVTGKLIELICPPPTPL 301
>gi|443668743|ref|ZP_21134235.1| pseudouridine synthase, RluA family protein [Microcystis aeruginosa
DIANCHI905]
gi|159029331|emb|CAO90197.1| unnamed protein product [Microcystis aeruginosa PCC 7806]
gi|443330705|gb|ELS45400.1| pseudouridine synthase, RluA family protein [Microcystis aeruginosa
DIANCHI905]
Length = 302
Score = 226 bits (577), Expect = 9e-57, Method: Compositional matrix adjust.
Identities = 136/331 (41%), Positives = 188/331 (56%), Gaps = 50/331 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L+L+ +Y+ K+ +S+P + WL RI + I V+GR P+ +L G +L Y R PW EPD
Sbjct: 19 LSLLAYYTGKYPHSSP-EEWLDRILSAAILVNGRPAY-PDTVLEIGQQLTYQRPPWTEPD 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP EVLYED +++ + KPSGL VL GG F + T+++ + + + P P
Sbjct: 77 VPLFFEVLYEDTEVLVVAKPSGLPVLAGGGFLEHTLIHLVHQHYADVT---------PYP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSGI+L AK+K A++ ++ ++ + KITKIYRALV
Sbjct: 128 IHRLGRGTSGIVLMAKSKPARSKLS----------------QQMREGKITKIYRALVGQG 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I Q IG + +P + +Y A G A S+ VL++ + + TL++VEI +GR
Sbjct: 172 DIPDNFTINQAIGKIAHP-ILGYVYGALTDGLSARSEGRVLKKHL--DSTLLEVEIFTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLAF GHPL+GDPLY GG P+ + VPGDCGYYL
Sbjct: 229 PHQIRIHLAFFGHPLIGDPLYSVGGLPRP--------------------DAVPGDCGYYL 268
Query: 301 HAYQLFLSHPTTNEVIKITAPLPSVLKTREE 331
HA Q+ +HP+T E I I P P L RE
Sbjct: 269 HANQILFNHPSTGERISICCPAPPELVDREN 299
>gi|409991924|ref|ZP_11275147.1| pseudouridine synthase [Arthrospira platensis str. Paraca]
gi|291570540|dbj|BAI92812.1| probable pseudouridine synthase [Arthrospira platensis NIES-39]
gi|409937215|gb|EKN78656.1| pseudouridine synthase [Arthrospira platensis str. Paraca]
Length = 309
Score = 225 bits (573), Expect = 3e-56, Method: Compositional matrix adjust.
Identities = 132/329 (40%), Positives = 185/329 (56%), Gaps = 44/329 (13%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LT++++YS ++ +S+ W RI N QI +DG+ +I L AG +L YHR PW EPD
Sbjct: 19 LTVLDYYSKRYTHSS-RNEWCDRINNQQIWLDGKPATA-DIELQAGQQLAYHRPPWNEPD 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP +V+YED D++ + KPSGL V+PGG F + T+L QLQ + + + P+P
Sbjct: 77 VPLSFQVIYEDADILVVAKPSGLPVIPGGGFLEHTLLRQLQRKYPQDT---------PIP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG++L A++ + ++ + ++ QR+ITK+Y AL G
Sbjct: 128 IHRLGRGTSGLVLLARSTVGRSYL----------------TKQMRQRQITKVYLALAEGC 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I IG + +P + +Y A+ +G A S V+ RD + +VQV I +GR
Sbjct: 172 SPRDYFSINCAIGKIPHPIIGY-IYGATETGLSAESNCQVIRRDSDK--MIVQVTILTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFD-SEFADGTFAQDGGYERPVNPVPGDCGYY 299
PHQIRIHLA G PL+GDPLY GG+P+ D + TF PGDCGYY
Sbjct: 229 PHQIRIHLAAAGFPLVGDPLYTIGGKPRITDPTSNHHSTF-------------PGDCGYY 275
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLKT 328
LHAY L HP T + +TA P L T
Sbjct: 276 LHAYSLSFQHPQTGANLHLTATPPQELST 304
>gi|354554091|ref|ZP_08973396.1| pseudouridine synthase, RluA family [Cyanothece sp. ATCC 51472]
gi|353553770|gb|EHC23161.1| pseudouridine synthase, RluA family [Cyanothece sp. ATCC 51472]
Length = 301
Score = 224 bits (570), Expect = 6e-56, Method: Compositional matrix adjust.
Identities = 131/320 (40%), Positives = 184/320 (57%), Gaps = 42/320 (13%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LT++E+Y+ + +S+ Q WL+RI Q+ +D +VV P IL G L YHR PWKE D
Sbjct: 18 LTVLEYYTQNYHHSSS-QQWLERILWAQVLLDNQVVT-PETILQTGQWLSYHRPPWKEAD 75
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP +++YED ++ +NKPSGL VLPGG F + T+L QL+ + K+ P
Sbjct: 76 VPLDFDLIYEDHHILVINKPSGLPVLPGGGFLEHTLLGQLKKQYPKEKV---------FP 126
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG++L KT +A++ + ++ + K+ K+YR L+
Sbjct: 127 IHRLGRGTSGLMLMGKTAIARSHLT----------------RQMREHKMRKVYRTLIGEN 170
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I+ PIG + P V +Y A GK A S+ ++ER + TLV+V I +GR
Sbjct: 171 NLPDYFNIEHPIGKISDP-VLGYIYGAKADGKDAYSQCQIIERYSDK--TLVEVTILTGR 227
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLA +G+PLLGDPLYV GG PK+ E ++ VPGDCGY+L
Sbjct: 228 PHQIRIHLATIGYPLLGDPLYVVGGIPKTGFKE------------QKETVNVPGDCGYFL 275
Query: 301 HAYQLFLSHPTTNEVIKITA 320
HAYQL HP T++ + T
Sbjct: 276 HAYQLSFVHPATHQCLTFTC 295
>gi|172038568|ref|YP_001805069.1| pseudouridine synthase [Cyanothece sp. ATCC 51142]
gi|171700022|gb|ACB53003.1| probable pseudouridine synthase [Cyanothece sp. ATCC 51142]
Length = 304
Score = 224 bits (570), Expect = 6e-56, Method: Compositional matrix adjust.
Identities = 131/320 (40%), Positives = 184/320 (57%), Gaps = 42/320 (13%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LT++E+Y+ + +S+ Q WL+RI Q+ +D +VV P IL G L YHR PWKE D
Sbjct: 21 LTVLEYYTQNYHHSSS-QQWLERILWAQVLLDNQVVT-PETILQTGQWLSYHRPPWKEAD 78
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP +++YED ++ +NKPSGL VLPGG F + T+L QL+ + K+ P
Sbjct: 79 VPLDFDLIYEDHHILVINKPSGLPVLPGGGFLEHTLLGQLKKQYPKEKV---------FP 129
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG++L KT +A++ + ++ + K+ K+YR L+
Sbjct: 130 IHRLGRGTSGLMLMGKTAIARSHLT----------------RQMREHKMRKVYRTLIGEN 173
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I+ PIG + P V +Y A GK A S+ ++ER + TLV+V I +GR
Sbjct: 174 NLPDYFNIEHPIGKISDP-VLGYIYGAKADGKDAYSQCQIIERYSDK--TLVEVTILTGR 230
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLA +G+PLLGDPLYV GG PK+ E ++ VPGDCGY+L
Sbjct: 231 PHQIRIHLATIGYPLLGDPLYVVGGIPKTGFKE------------QKETVNVPGDCGYFL 278
Query: 301 HAYQLFLSHPTTNEVIKITA 320
HAYQL HP T++ + T
Sbjct: 279 HAYQLSFVHPATHQCLTFTC 298
>gi|428225214|ref|YP_007109311.1| RluA family pseudouridine synthase [Geitlerinema sp. PCC 7407]
gi|427985115|gb|AFY66259.1| pseudouridine synthase, RluA family [Geitlerinema sp. PCC 7407]
Length = 318
Score = 223 bits (567), Expect = 2e-55, Method: Compositional matrix adjust.
Identities = 136/325 (41%), Positives = 187/325 (57%), Gaps = 42/325 (12%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
TL+++Y+ ++++S+ + W RI++GQI +D R P +L G L YHR PW EP V
Sbjct: 34 TLLQYYTQRYRHSSEPE-WRDRIESGQIRLDDRPAA-PETLLQRGQRLAYHRPPWVEPPV 91
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P VL+ED+DL ++KPSGL VLPGG F + T+L QLQ R + + PVP+
Sbjct: 92 PLDFAVLHEDEDLWVVSKPSGLPVLPGGGFLEHTLLWQLQVRCPRPT---------PVPI 142
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRLGRGTSG++L A++ LAK ++ ++ R+I K+YRALV V
Sbjct: 143 HRLGRGTSGLMLLARSPLAKAHLS----------------QQMRDRQIHKVYRALVGPNV 186
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D++ ++ IG + +P V +Y A+P G A S+ VL R TLV+V I +GRP
Sbjct: 187 AGDRLSLRYAIGKLPHP-VLGYVYGATPDGLDAHSECKVLRRSP--TSTLVEVTIFTGRP 243
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIRIH+A G+PLLGDPLY GG P + A G PVPGDCGY LH
Sbjct: 244 HQIRIHMAAAGYPLLGDPLYGVGGVPH-LSAAIAPGKL-----------PVPGDCGYLLH 291
Query: 302 AYQLFLSHPTTNEVIKITAPLPSVL 326
A++L +HP T E + A P L
Sbjct: 292 AHRLTFTHPRTQEPLAFVAEPPPPL 316
>gi|376004347|ref|ZP_09782061.1| pseudouridine synthase, RluA family [Arthrospira sp. PCC 8005]
gi|376004460|ref|ZP_09782157.1| pseudouridine synthase, RluA family [Arthrospira sp. PCC 8005]
gi|375327160|emb|CCE17910.1| pseudouridine synthase, RluA family [Arthrospira sp. PCC 8005]
gi|375327239|emb|CCE17814.1| pseudouridine synthase, RluA family [Arthrospira sp. PCC 8005]
Length = 309
Score = 221 bits (563), Expect = 4e-55, Method: Compositional matrix adjust.
Identities = 133/329 (40%), Positives = 184/329 (55%), Gaps = 44/329 (13%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LT++++YS ++ +S+ W RI QI ++G+ I L AG +L YHR PW EPD
Sbjct: 19 LTILDYYSKRYTHSS-RNEWCDRINKQQIWLNGKPATA-EIELQAGQQLAYHRPPWSEPD 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP +V+YED D++ + KPSGL V+PGG F + T+L QLQ R Q + P+P
Sbjct: 77 VPLSFQVIYEDADILVIAKPSGLPVIPGGGFLEHTLLRQLQ-REYPQDT--------PIP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG++L A++ LA++ + ++ R+ITK+Y AL G
Sbjct: 128 IHRLGRGTSGLVLLARSTLARSHL----------------TQQMRHRQITKVYLALAEGC 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I IG + +P + +Y A+ +G A S V++RD + +VQV I +GR
Sbjct: 172 SPRDYFSINCAIGKIPHPIIGY-IYGATETGLSAESHCQVIKRDTDK--MIVQVTILTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFD-SEFADGTFAQDGGYERPVNPVPGDCGYY 299
PHQIRIHLA G PL+GDPLY GG+P+ D + TF PGDCGYY
Sbjct: 229 PHQIRIHLAAAGFPLVGDPLYTIGGKPRIPDPTSNHHSTF-------------PGDCGYY 275
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLKT 328
LHAY L HP T + +TA P L T
Sbjct: 276 LHAYSLSFQHPQTGANLHLTATPPQELST 304
>gi|209523615|ref|ZP_03272169.1| pseudouridine synthase, RluA family [Arthrospira maxima CS-328]
gi|423065904|ref|ZP_17054694.1| pseudouridine synthase RluA family [Arthrospira platensis C1]
gi|209496020|gb|EDZ96321.1| pseudouridine synthase, RluA family [Arthrospira maxima CS-328]
gi|406712662|gb|EKD07846.1| pseudouridine synthase RluA family [Arthrospira platensis C1]
Length = 309
Score = 221 bits (562), Expect = 5e-55, Method: Compositional matrix adjust.
Identities = 133/329 (40%), Positives = 183/329 (55%), Gaps = 44/329 (13%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LT++++YS ++ +S+ W RI QI +DG+ I L AG +L YHR PW EPD
Sbjct: 19 LTVLDYYSKRYTHSS-RNEWCDRINKQQIWLDGKPATA-EIELQAGQQLAYHRPPWSEPD 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP +V+YED D++ + KPSGL V+PGG F + T+L QLQ R Q + P+P
Sbjct: 77 VPLSFQVIYEDADILVVAKPSGLPVIPGGGFLEHTLLRQLQ-REYPQDT--------PIP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG++L A++ L ++ + ++ R+ITK+Y AL G
Sbjct: 128 IHRLGRGTSGLVLLARSTLGRSHL----------------TQQMRHRQITKVYLALAEGC 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I IG + +P + +Y A+ +G A S V++RD + +VQV I +GR
Sbjct: 172 SPRDYFSINCAIGKIPHPIIGY-IYGATETGLSAESHCQVIKRDTDK--MIVQVTILTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFD-SEFADGTFAQDGGYERPVNPVPGDCGYY 299
PHQIRIHLA G PL+GDPLY GG+P+ D + TF PGDCGYY
Sbjct: 229 PHQIRIHLAAAGFPLVGDPLYTIGGKPRIPDPTSNHHSTF-------------PGDCGYY 275
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLKT 328
LHAY L HP T + +TA P L T
Sbjct: 276 LHAYSLSFQHPQTGANLHLTATPPQELST 304
>gi|425454272|ref|ZP_18834018.1| putative enzyme [Microcystis aeruginosa PCC 9807]
gi|389805109|emb|CCI15333.1| putative enzyme [Microcystis aeruginosa PCC 9807]
Length = 302
Score = 219 bits (559), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 134/331 (40%), Positives = 185/331 (55%), Gaps = 50/331 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L+L+ +Y+ K+ +S+P + WL RI + I V+GR P+ +L G +L Y R PW EPD
Sbjct: 19 LSLLAYYAGKYPHSSP-EEWLDRILSAAILVNGRPAY-PDTVLEIGQQLTYQRPPWIEPD 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP EVLYED +++ + KPSGL VL GG F + T+++ + + + P P
Sbjct: 77 VPLFFEVLYEDAEVLVVAKPSGLPVLAGGGFLEHTLIHLVHQHYPEVT---------PYP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG++L AK+K A+ ++ ++ + KITKIYRALV
Sbjct: 128 IHRLGRGTSGLVLMAKSKPARAKLS----------------QQMREGKITKIYRALVGQG 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I Q IG + +P + +Y A G A S VL++ + TL++VEI +GR
Sbjct: 172 DIPDNFTINQAIGKIAHP-ILGYVYGALTDGLSARSDGRVLKK--HSDSTLLEVEIFTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLAF G+PL+GDPLY GG P+ + VPGDCGYYL
Sbjct: 229 PHQIRIHLAFFGYPLIGDPLYGVGGLPRP--------------------DAVPGDCGYYL 268
Query: 301 HAYQLFLSHPTTNEVIKITAPLPSVLKTREE 331
HA Q+ +HP+T E I I P P L RE
Sbjct: 269 HANQILFNHPSTGERISIGCPAPPELVDREN 299
>gi|425434930|ref|ZP_18815394.1| putative enzyme [Microcystis aeruginosa PCC 9432]
gi|389675407|emb|CCH95464.1| putative enzyme [Microcystis aeruginosa PCC 9432]
Length = 308
Score = 219 bits (558), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 134/329 (40%), Positives = 185/329 (56%), Gaps = 50/329 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L+L+ +Y+ K+ +S+P + WL RI + I V+GR P+ +L G +L Y R PW EPD
Sbjct: 19 LSLLAYYTGKYPHSSP-EEWLDRILSAAILVNGRPAY-PDTVLEIGQQLTYQRPPWTEPD 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP EVLYED +++ + KPSGL VL GG F + T+++ + ++ + P P
Sbjct: 77 VPLFFEVLYEDTEVLVVAKPSGLPVLAGGGFLEHTLIHLVHQHYAEVT---------PYP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSGI+L AK+K A+ ++ ++ + KITKIYRALV
Sbjct: 128 IHRLGRGTSGIVLMAKSKPARAKLS----------------QQMREGKITKIYRALVGQG 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I Q IG + +P + +Y A G A S VL++ + TL++VEI +GR
Sbjct: 172 DIPDNFSINQAIGKIAHP-ILGYVYGALTDGLSARSDGRVLKK--HPDSTLLEVEIFTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLAF G+PL+GDPLY GG P+ + VPGDCGYYL
Sbjct: 229 PHQIRIHLAFFGYPLIGDPLYGVGGLPRP--------------------DAVPGDCGYYL 268
Query: 301 HAYQLFLSHPTTNEVIKITAPLPSVLKTR 329
HA Q+ +HP+T E I I P P L R
Sbjct: 269 HANQILFNHPSTGERISICCPAPPELVDR 297
>gi|422302269|ref|ZP_16389632.1| putative enzyme [Microcystis aeruginosa PCC 9806]
gi|389788563|emb|CCI15712.1| putative enzyme [Microcystis aeruginosa PCC 9806]
Length = 303
Score = 218 bits (555), Expect = 4e-54, Method: Compositional matrix adjust.
Identities = 131/323 (40%), Positives = 184/323 (56%), Gaps = 50/323 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L+L+ +Y+ K+ +S+P + WL RI + I V+GR + P+ +L G +L Y R PW EPD
Sbjct: 19 LSLLAYYAGKYPHSSP-EEWLDRILSAAILVNGRPAS-PDTVLEIGQQLTYQRPPWTEPD 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP EVLYED +++ + KPSGL VL GG F + T+++ + ++ + P P
Sbjct: 77 VPLFFEVLYEDAEVLVVAKPSGLPVLAGGGFLEHTLIHLVHQHYAEVT---------PYP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG++L AK+K A+ ++ ++ + KITKIYRALV
Sbjct: 128 IHRLGRGTSGLVLMAKSKPARAKLS----------------QQMREGKITKIYRALVGRG 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I Q IG + +P + +Y A G A S VL++ + TL++VEI +GR
Sbjct: 172 DIPDNFTINQAIGKIAHP-ILGYVYGALTDGLSARSDGRVLKK--HPDSTLLEVEIFTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLAF G+PL+GDPLY GG P+ + VPGDCGYYL
Sbjct: 229 PHQIRIHLAFFGYPLIGDPLYGLGGLPRP--------------------DTVPGDCGYYL 268
Query: 301 HAYQLFLSHPTTNEVIKITAPLP 323
HA Q+ +HP+T E I I P P
Sbjct: 269 HANQILFNHPSTGERISICCPAP 291
>gi|425458962|ref|ZP_18838448.1| putative enzyme [Microcystis aeruginosa PCC 9808]
gi|389823449|emb|CCI28349.1| putative enzyme [Microcystis aeruginosa PCC 9808]
Length = 329
Score = 217 bits (553), Expect = 5e-54, Method: Compositional matrix adjust.
Identities = 132/323 (40%), Positives = 182/323 (56%), Gaps = 50/323 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L+L+ +Y+ K+ +S+P + WL RI + I V+GR P+ +L G +L Y R PW EPD
Sbjct: 45 LSLLAYYTGKYPHSSP-EEWLDRILSAAILVNGRPAY-PDTVLEIGQQLTYQRPPWTEPD 102
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP EVLYED +++ + KPSGL VL GG F + T+++ + + + P P
Sbjct: 103 VPLFFEVLYEDTEVLVVAKPSGLPVLAGGGFLEHTLIHLVHQHYADVT---------PYP 153
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSGI+L AK+K A+ ++ ++ + KITKIYRALV
Sbjct: 154 IHRLGRGTSGIVLMAKSKPARAKLS----------------QQMREGKITKIYRALVGQG 197
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I Q IG + +P + +Y A G A S VL++ + TL++VEI +GR
Sbjct: 198 DIPDNFTINQAIGKIAHP-ILGYVYGALTDGLSARSDGRVLKK--HPDSTLLEVEIFTGR 254
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLAF G+PL+GDPLY GG P+ + VPGDCGYYL
Sbjct: 255 PHQIRIHLAFFGYPLIGDPLYGLGGLPRP--------------------DAVPGDCGYYL 294
Query: 301 HAYQLFLSHPTTNEVIKITAPLP 323
HA Q+ +HP+T E I I P P
Sbjct: 295 HANQIVFNHPSTGERISICCPAP 317
>gi|425452940|ref|ZP_18832755.1| putative enzyme [Microcystis aeruginosa PCC 7941]
gi|389765089|emb|CCI08978.1| putative enzyme [Microcystis aeruginosa PCC 7941]
Length = 302
Score = 216 bits (550), Expect = 1e-53, Method: Compositional matrix adjust.
Identities = 133/331 (40%), Positives = 185/331 (55%), Gaps = 50/331 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L+L+ +Y+ K+ +S+P + WL RI + I V+GR P+ +L G +L Y R PW EPD
Sbjct: 19 LSLLAYYAGKYPHSSP-EEWLDRILSAAILVNGRPAC-PDTVLEIGQQLTYQRPPWTEPD 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP EVLYED +++ + KPSGL VL GG F + T+++ + ++ + P P
Sbjct: 77 VPLFFEVLYEDTEVLVVAKPSGLPVLAGGGFLEHTLIHLVHQHYAEVT---------PYP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSGI+L AK+K A+ ++ ++ + KITKIYRALV
Sbjct: 128 IHRLGRGTSGIVLMAKSKPARAKLS----------------QQMREGKITKIYRALVGQG 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I Q IG + +P + +Y A G A S VL++ + TL++VEI +GR
Sbjct: 172 DIPDNFTINQAIGKIAHP-ILGYVYGALTDGLSARSDGRVLKK--HPDSTLLEVEIFTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLAF G+PL+GDPLY GG P+ + VPGDCGYYL
Sbjct: 229 PHQIRIHLAFFGYPLIGDPLYGLGGLPRP--------------------DAVPGDCGYYL 268
Query: 301 HAYQLFLSHPTTNEVIKITAPLPSVLKTREE 331
HA Q+ +HP+T I I+ P L RE
Sbjct: 269 HANQIVFNHPSTGRTISISCQPPPELVDREN 299
>gi|116750307|ref|YP_846994.1| RluA family pseudouridine synthase [Syntrophobacter fumaroxidans
MPOB]
gi|116699371|gb|ABK18559.1| pseudouridine synthase, RluA family [Syntrophobacter fumaroxidans
MPOB]
Length = 300
Score = 216 bits (549), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 128/331 (38%), Positives = 187/331 (56%), Gaps = 50/331 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LT+ E+ + +++S+ + W+ R++NG++ +DGR +++L G L + R PW+EPD
Sbjct: 20 LTVREYLAAAYRHSSEAE-WMARLENGEVCLDGRRARG-SVVLKPGQWLAWRRPPWEEPD 77
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP VL+ D+DL+A+ KP GL +P G F T+L ++ RA +++ P
Sbjct: 78 VPLAYAVLHADEDLLAVAKPRGLPTVPAGGFLDNTLLALVR-RACPEAT----------P 126
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
VHRLGRGTSGI+L A+T A++ +A L + ++T+ YRAL G+
Sbjct: 127 VHRLGRGTSGIVLLARTARARSVLAA----------------ALRRNEVTRTYRALAGGV 170
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D + PIG V +P + ++ A+PSG+PALS V+VLER + C++V V I++GR
Sbjct: 171 PGRDAFTVGSPIGPVPHP-LLGSVHAANPSGRPALSLVEVLER--RTGCSVVGVRIKTGR 227
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLA GHPL+GDPLY GG +G A +PGD GY L
Sbjct: 228 PHQIRIHLACAGHPLVGDPLYAPGGM-------IVEGGCA-----------LPGDPGYLL 269
Query: 301 HAYQLFLSHPTTNEVIKITAPLPSVLKTREE 331
HA L L HP T E ++ P L+ R E
Sbjct: 270 HAESLRLLHPATGEPFELWCRPPPELRLRSE 300
>gi|390440701|ref|ZP_10228912.1| putative enzyme [Microcystis sp. T1-4]
gi|389835989|emb|CCI33038.1| putative enzyme [Microcystis sp. T1-4]
Length = 303
Score = 215 bits (547), Expect = 3e-53, Method: Compositional matrix adjust.
Identities = 133/328 (40%), Positives = 188/328 (57%), Gaps = 52/328 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L+L+ +Y+ K+ +S+P + WL RI + I V+GR + P+ +L G +L Y R PW EPD
Sbjct: 19 LSLLAYYAGKYPHSSP-EEWLDRILSAAILVNGRPAS-PDTVLEIGQQLSYQRPPWTEPD 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP EVLYED +++ + KPSGL VL GG F + T+++ + ++ + P P
Sbjct: 77 VPLFFEVLYEDAEVLVVAKPSGLPVLAGGGFLEHTLIHLVHQHYAEVT---------PYP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSGI+L AK+K A+ ++ ++ + KITKIYRALV
Sbjct: 128 IHRLGRGTSGIVLMAKSKPARAKLS----------------QQMREGKITKIYRALVGRG 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I Q IG + +P + +Y A G A S VL++ + TL++V+I +GR
Sbjct: 172 DIPDNFSINQAIGQIAHP-ILGYVYGALTDGLSARSDGRVLKK--HPDSTLLEVQIFTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLAF G+PL+GDPLY GG P+ + VPGDCGYYL
Sbjct: 229 PHQIRIHLAFFGYPLIGDPLYGPGGLPRP--------------------DAVPGDCGYYL 268
Query: 301 HAYQLFLSHPTTNEVIKITA--PLPSVL 326
HA Q+ +HP+T E I I+ PL SV+
Sbjct: 269 HANQILFNHPSTGERISISCQPPLESVI 296
>gi|425469485|ref|ZP_18848418.1| putative enzyme [Microcystis aeruginosa PCC 9701]
gi|389880753|emb|CCI38571.1| putative enzyme [Microcystis aeruginosa PCC 9701]
Length = 308
Score = 214 bits (545), Expect = 5e-53, Method: Compositional matrix adjust.
Identities = 133/329 (40%), Positives = 183/329 (55%), Gaps = 50/329 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L+L+ +Y+ K+ +S+P + WL RI + I V+GR P+ IL G +L Y R PW EPD
Sbjct: 19 LSLLAYYAGKYPHSSP-EEWLDRILSAAILVNGRPAC-PDTILEIGQQLTYQRPPWTEPD 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP EVLYED +++ + KPSGL VL GG F + T+++ + + + P P
Sbjct: 77 VPLFFEVLYEDAEVLVVAKPSGLPVLAGGGFLEHTLIHLVHQHYVEVT---------PYP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSGI+L AK+K A+ ++ ++ + KITKIYRALV
Sbjct: 128 IHRLGRGTSGIVLMAKSKPARAKLS----------------QQMREGKITKIYRALVGQG 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I Q IG + +P + +Y A G A S VL++ + TL++V+I +GR
Sbjct: 172 DIPDNFTINQAIGKIAHP-ILGYVYGALADGLSARSDGRVLKK--HPDSTLLEVQIFTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLAF G+PL+GDPLY GG P+ + VPGDCGYYL
Sbjct: 229 PHQIRIHLAFFGYPLIGDPLYGVGGLPRP--------------------DAVPGDCGYYL 268
Query: 301 HAYQLFLSHPTTNEVIKITAPLPSVLKTR 329
HA Q+ +HP+T E I I P L R
Sbjct: 269 HANQILFNHPSTGERISICCQAPPELVDR 297
>gi|440756180|ref|ZP_20935381.1| pseudouridine synthase, RluA family protein [Microcystis aeruginosa
TAIHU98]
gi|440173402|gb|ELP52860.1| pseudouridine synthase, RluA family protein [Microcystis aeruginosa
TAIHU98]
Length = 303
Score = 214 bits (545), Expect = 5e-53, Method: Compositional matrix adjust.
Identities = 132/326 (40%), Positives = 183/326 (56%), Gaps = 50/326 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L+L+ +Y+ K+ +S+ + WL RI + I V+GR P+ +L G +L Y R PW EPD
Sbjct: 19 LSLLAYYAGKYPHSS-REEWLDRILSAAILVNGRPAY-PDTVLEIGQQLTYQRPPWTEPD 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP EVLYED +++ + KPSGL VL GG F + T+++ + ++ + P P
Sbjct: 77 VPLFFEVLYEDTEVLVVAKPSGLPVLAGGGFLEHTLIHLVHQHYAEVT---------PYP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSGI+L AK+K A+ ++ ++ + KITKIYRALV
Sbjct: 128 IHRLGRGTSGIVLMAKSKPARAKLS----------------QQMREGKITKIYRALVGQG 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I Q IG + +P + +Y A G A S VL++ + TL++VEI +GR
Sbjct: 172 DIPDNFSINQAIGKIAHP-ILGYVYGALTDGLSARSDGRVLKK--HPDSTLLEVEIFTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLAF G+PL+GDPLY GG P+ + VPGDCGYYL
Sbjct: 229 PHQIRIHLAFFGYPLIGDPLYGLGGLPRP--------------------DAVPGDCGYYL 268
Query: 301 HAYQLFLSHPTTNEVIKITAPLPSVL 326
HA Q+ +HP+T E I I P P L
Sbjct: 269 HANQIVFNHPSTGERISICCPAPPEL 294
>gi|425440281|ref|ZP_18820586.1| Pseudouridine synthase [Microcystis aeruginosa PCC 9717]
gi|389719310|emb|CCH96824.1| Pseudouridine synthase [Microcystis aeruginosa PCC 9717]
Length = 352
Score = 213 bits (543), Expect = 9e-53, Method: Compositional matrix adjust.
Identities = 131/323 (40%), Positives = 180/323 (55%), Gaps = 50/323 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L+L+ +Y+ K+ +S+P + WL RI + I V+GR P+ +L G +L Y R PW EPD
Sbjct: 19 LSLLAYYAGKYPHSSP-EEWLDRILSAAILVNGRPAC-PDTVLEIGQQLTYQRPPWTEPD 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP EVLYED +++ + KPSGL VL GG F + T+++ + + P P
Sbjct: 77 VPLFFEVLYEDAEVLVVAKPSGLPVLAGGGFLEHTLIHLVHQHYPDVT---------PYP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSGI+L AK+K A+ ++ ++ + KITKIYRALV
Sbjct: 128 IHRLGRGTSGIVLMAKSKPARAKLS----------------QQMREGKITKIYRALVGRG 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I Q IG + +P + +Y A G A S VL++ + TL++V I +GR
Sbjct: 172 DIPDNFTINQAIGKIAHP-ILGYVYGALTDGLSARSDGRVLKK--HPDSTLLEVRIFTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLAF G+PL+GDPLY GG P+ + VPGDCGYYL
Sbjct: 229 PHQIRIHLAFFGYPLIGDPLYGLGGLPRP--------------------DAVPGDCGYYL 268
Query: 301 HAYQLFLSHPTTNEVIKITAPLP 323
HA Q+ +HP+T E I I P P
Sbjct: 269 HANQIVFNHPSTGERISICCPAP 291
>gi|218248702|ref|YP_002374073.1| RluA family pseudouridine synthase [Cyanothece sp. PCC 8801]
gi|218169180|gb|ACK67917.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 8801]
Length = 306
Score = 212 bits (540), Expect = 2e-52, Method: Compositional matrix adjust.
Identities = 133/318 (41%), Positives = 187/318 (58%), Gaps = 42/318 (13%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LT++ +Y+ ++ +S+ Q W +RI +GQI ++G+ P+ L G L YHR PW+EPD
Sbjct: 19 LTILAYYTQRYPHSSQGQ-WQERIISGQILLNGQPTT-PDTPLQPGQCLSYHRPPWQEPD 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP EVLYED D++ + KPSGL VLPGG F + T+L QL+ R Q + P P
Sbjct: 77 VPLAFEVLYEDVDVLVVAKPSGLPVLPGGGFLEHTLLGQLK-RLYPQET--------PTP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG++L A++ LA + ++ ++ Q ++TK+Y ALV
Sbjct: 128 IHRLGRGTSGLMLLARSPLAASHLS----------------HQMRQGQMTKVYHALVGAG 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
+ I QPIG + +P V +Y A+P G A S VL+R Q TLV+V I +GR
Sbjct: 172 DLPHQFSIHQPIGKIPHP-VLGYVYGATPDGLFAHSHCRVLQRSTQ--GTLVEVRIFTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLA +G+PLLGDPLY GG P++ + E PVPGDCGY L
Sbjct: 229 PHQIRIHLASVGYPLLGDPLYEVGGIPRT-EPEIEVNKL-----------PVPGDCGYLL 276
Query: 301 HAYQLFLSHPTTNEVIKI 318
H++ L +HP T+E ++
Sbjct: 277 HSHLLGFTHPRTHEPLQF 294
>gi|427417782|ref|ZP_18907965.1| pseudouridine synthase, RluA family [Leptolyngbya sp. PCC 7375]
gi|425760495|gb|EKV01348.1| pseudouridine synthase, RluA family [Leptolyngbya sp. PCC 7375]
Length = 347
Score = 211 bits (538), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 132/327 (40%), Positives = 184/327 (56%), Gaps = 53/327 (16%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
T++++Y+ H++S W RI++GQI ++G+ P+ L AG L YHR PW+EP V
Sbjct: 71 TILDYYTHHHRHSD-RATWQTRIESGQILLNGQPTT-PDTPLVAGQRLSYHRPPWQEPPV 128
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P + +YEDD L+ +NKPSGL VLPGG F Q T+L QL +Q + ++ P+
Sbjct: 129 PLDIATIYEDDLLLVINKPSGLPVLPGGNFLQHTLLWQL-----RQHNPTAA------PI 177
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRLGRGTSGILL AKTK A+ ++ ++ QR++ K YR L+ G
Sbjct: 178 HRLGRGTSGILLIAKTKAARAHLS----------------QQMRQRQLGKTYRTLI-GPA 220
Query: 182 DE--DKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
D D+ I PIG + YP + +Y A+P+G A S V+ + + TL+ V I +G
Sbjct: 221 DNLPDQFTITHPIGKIPYPQLGY-IYGANPNGLDAHSDCTVVHH--RPDATLLDVSILTG 277
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
RPHQIRIHLA +G+PLLGDPLY+ GG P +GT +P DCGY+
Sbjct: 278 RPHQIRIHLATMGYPLLGDPLYIPGGHPH------PEGTA------------IPSDCGYW 319
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVL 326
LHA+ L HP + AP P +L
Sbjct: 320 LHAHTLSFVHPEGESMTLTCAPPPQLL 346
>gi|166364334|ref|YP_001656607.1| pseudouridine synthase [Microcystis aeruginosa NIES-843]
gi|166086707|dbj|BAG01415.1| pseudouridine synthase [Microcystis aeruginosa NIES-843]
Length = 299
Score = 211 bits (538), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 131/329 (39%), Positives = 183/329 (55%), Gaps = 50/329 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L+L+ +Y+ K+ +S+P + WL RI + I V+GR P+ +L G +L Y R PW EP+
Sbjct: 19 LSLLAYYTGKYCHSSP-EEWLDRILSAAILVNGRPAC-PDTVLEIGQQLTYQRPPWTEPE 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP EVLYED +++ + KPSGL VL GG F + T+++ + ++ + P P
Sbjct: 77 VPLFFEVLYEDAEVLVVAKPSGLPVLAGGGFLEHTLIHLVHQHYAEVT---------PYP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSGI+L AK+K A+ ++ ++ + KITKIYRALV
Sbjct: 128 IHRLGRGTSGIVLMAKSKPARAKLS----------------QQMREGKITKIYRALVGQG 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I Q IG + +P + +Y A G A S VL++ + TL++V I +GR
Sbjct: 172 DIPDNFTINQAIGKIAHP-ILGHVYGALTDGLSARSDGRVLKK--HPDSTLLEVRIFTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLAF G+PL+GDPLY GG P+ + VPGDCGYYL
Sbjct: 229 PHQIRIHLAFFGYPLIGDPLYGLGGLPRP--------------------DAVPGDCGYYL 268
Query: 301 HAYQLFLSHPTTNEVIKITAPLPSVLKTR 329
HA Q+ +HP+T E I I P L R
Sbjct: 269 HANQIVFNHPSTGERISICCQAPPELVDR 297
>gi|257061765|ref|YP_003139653.1| RluA family pseudouridine synthase [Cyanothece sp. PCC 8802]
gi|256591931|gb|ACV02818.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 8802]
Length = 306
Score = 211 bits (537), Expect = 4e-52, Method: Compositional matrix adjust.
Identities = 130/318 (40%), Positives = 186/318 (58%), Gaps = 42/318 (13%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LT++ +Y+ ++ +S+ Q W +RI +GQI ++G+ P+ L G L YHR PW+EPD
Sbjct: 19 LTILAYYTQRYPHSSQGQ-WQERIISGQILLNGQPTT-PDTPLQPGQCLSYHRPPWQEPD 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP EVLYED D++ + KPSGL VLPGG F + T+L QL+ +++ P P
Sbjct: 77 VPLAFEVLYEDVDVLVVAKPSGLPVLPGGGFLEHTLLGQLKRLYPQET---------PTP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG++L A++ LA + ++ ++ Q ++TK+Y ALV
Sbjct: 128 IHRLGRGTSGLMLLARSPLAASHLS----------------KQMRQGQMTKVYHALVGAG 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
+ I QPIG + +P V +Y A+P G A S VL+R Q TLV+V I +GR
Sbjct: 172 DLPHQFSIHQPIGKIPHP-VLGYVYGATPDGLFAHSDCRVLQRSTQ--GTLVEVRIFTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLA +G+PLLGDPLY GG P++ + PVPGDCGY L
Sbjct: 229 PHQIRIHLASVGYPLLGDPLYEVGGIPRTAPKIEVNKL------------PVPGDCGYLL 276
Query: 301 HAYQLFLSHPTTNEVIKI 318
H++ L +HP T+E ++
Sbjct: 277 HSHLLGFTHPRTHEPLQF 294
>gi|226357282|ref|YP_002787022.1| RNA pseudouridine synthase [Deinococcus deserti VCD115]
gi|226319272|gb|ACO47268.1| putative RNA pseudouridine synthase [Deinococcus deserti VCD115]
Length = 298
Score = 211 bits (536), Expect = 5e-52, Method: Compositional matrix adjust.
Identities = 129/327 (39%), Positives = 187/327 (57%), Gaps = 50/327 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
+++++F ST++++SAP + W R+ G++ VDG V + L AG LV+HR PW+E
Sbjct: 18 VSVLDFLSTRYRHSAP-EVWAARLAQGEVQVDGLTVQG-HERLRAGQTLVWHRPPWQEES 75
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP EVL+ED L+A++KPSGL LPGG F + T+L + RA +S P
Sbjct: 76 VPLHFEVLHEDASLLAVHKPSGLPTLPGGGFLEHTLLTVV--RAQFPGAS---------P 124
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG++L A+T A + +A + ++ + K+YRAL G+
Sbjct: 125 LHRLGRGTSGVVLFARTGAAGSALARAWREQ----------------DVRKMYRALASGV 168
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
+D+ I IG V +P + + ++ A P+GKP+ S V+ER TL V+I +GR
Sbjct: 169 ATQDETEITVSIGPVPHPRLGE-VFAACPTGKPSRSVARVVERC--SGTTLFDVQIFTGR 225
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLA +G PL+GDPLY GG P D + +PGD GY L
Sbjct: 226 PHQIRIHLASIGQPLVGDPLYGPGGHP------LPD------------LPGLPGDLGYLL 267
Query: 301 HAYQLFLSHPTTNEVIKITAPLPSVLK 327
HA+ L +HP + +VI +TAP PS L+
Sbjct: 268 HAHTLSFTHPVSGQVITVTAPAPSALE 294
>gi|254423098|ref|ZP_05036816.1| pseudouridine synthase, RluA family [Synechococcus sp. PCC 7335]
gi|196190587|gb|EDX85551.1| pseudouridine synthase, RluA family [Synechococcus sp. PCC 7335]
Length = 328
Score = 211 bits (536), Expect = 6e-52, Method: Compositional matrix adjust.
Identities = 133/337 (39%), Positives = 188/337 (55%), Gaps = 41/337 (12%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
T+++FY+ ++++S W RI+ QI +DG + N +L G L Y R PW+EP V
Sbjct: 20 TVLDFYTQRYRHSK-RAVWKARIETEQILLDGDRTQE-NTLLKLGQILSYARSPWEEPAV 77
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P +VLYED+DL +NKP+GL VLP G F + T+L QL+ R S+ PV
Sbjct: 78 PLDFDVLYEDEDLWVINKPAGLPVLPSGGFLEHTLLYQLRVRYRDCQSA---------PV 128
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRLGRGTSG +L AK+ +AK ++ F +++ + +++T S + K YRAL+
Sbjct: 129 HRLGRGTSGAMLIAKSHIAKVQLSEQFRKRSANLSSNTTPNTASTCTLGKTYRALIAPTT 188
Query: 182 DE---DKVIIKQPIGIVRYP------GVAKGLYVASPSGKPALSKVDVLERDVQR---NC 229
+ D+ I PIG + + G + + + P S V E V R +
Sbjct: 189 PDQLRDRFICTYPIGKLPHTRLGYIYGHLRDAHSHEKTIGPINSMVSRSEGSVLRRRAHS 248
Query: 230 TLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPV 289
TLV++ IQ+GRPHQIRIHLA G+PLLGDPLY AGG P GY
Sbjct: 249 TLVEITIQTGRPHQIRIHLAAAGYPLLGDPLYSAGGVPDPH-------------GYA--- 292
Query: 290 NPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVL 326
+PGDCGY+LHA++L +HP T + I ITAP P++L
Sbjct: 293 --LPGDCGYHLHAHRLQFAHPRTGQSIAITAPPPAIL 327
>gi|425448439|ref|ZP_18828397.1| putative enzyme [Microcystis aeruginosa PCC 9443]
gi|389730767|emb|CCI05077.1| putative enzyme [Microcystis aeruginosa PCC 9443]
Length = 299
Score = 211 bits (536), Expect = 6e-52, Method: Compositional matrix adjust.
Identities = 128/323 (39%), Positives = 180/323 (55%), Gaps = 50/323 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L+L+ +Y+ K+ +S+P + WL RI + I V+G P+ +L G +L Y R PW EPD
Sbjct: 19 LSLLAYYAGKYPHSSP-EEWLDRILSAAILVNGSPAG-PDTVLEIGQQLTYQRPPWTEPD 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP E LYED +++ + KPSGL VL GG F + T+++ + + + P P
Sbjct: 77 VPLFFERLYEDAEVLVVAKPSGLPVLAGGGFLEHTLIHLVHQHYPEVT---------PYP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG++L AK+K A+ ++ ++ + KITKIYRALV
Sbjct: 128 IHRLGRGTSGLVLMAKSKPARAKLS----------------QQMREGKITKIYRALVGRG 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I Q IG + +P + +Y A G A S VL++ + TL++V+I +GR
Sbjct: 172 DIPDNFTINQAIGKIAHP-ILGYVYGALADGLSARSDGRVLKK--HPDSTLLEVQIFTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLAF G+PL+GDPLY GG P+ + VPGDCGYYL
Sbjct: 229 PHQIRIHLAFFGYPLIGDPLYGLGGLPRP--------------------DAVPGDCGYYL 268
Query: 301 HAYQLFLSHPTTNEVIKITAPLP 323
HA Q+ +HP+T E I I P P
Sbjct: 269 HANQILFNHPSTGERISICCPAP 291
>gi|425467198|ref|ZP_18846482.1| putative enzyme [Microcystis aeruginosa PCC 9809]
gi|389830079|emb|CCI28148.1| putative enzyme [Microcystis aeruginosa PCC 9809]
Length = 299
Score = 210 bits (534), Expect = 9e-52, Method: Compositional matrix adjust.
Identities = 131/329 (39%), Positives = 181/329 (55%), Gaps = 50/329 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L+L+ +Y+ K+ +S+P + WL RI + I V+GR P+ +L G +L Y R PW EPD
Sbjct: 19 LSLLAYYTGKYCHSSP-EEWLDRILSAAILVNGRPAC-PDTVLEIGQQLTYQRPPWTEPD 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP EVLYED +++ + KPSGL VL GG F + T+++ + + P P
Sbjct: 77 VPLFFEVLYEDAEVLVVAKPSGLPVLAGGGFLEHTLIHLVHQHYPDVT---------PYP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSGI+L AK+K A+ ++ ++ + KITKIYRALV
Sbjct: 128 IHRLGRGTSGIVLMAKSKPARAKLS----------------QQMREGKITKIYRALVGQG 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D I Q IG + +P + +Y A G A S VL++ + TL++V I +GR
Sbjct: 172 DIPDNFTINQAIGKIAHP-ILGHVYGALTDGLSARSDGRVLKK--HPDSTLLEVRIFTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLAF G+PL+GDPLY GG P+ + VPGDCGYYL
Sbjct: 229 PHQIRIHLAFFGYPLIGDPLYGLGGLPRP--------------------DAVPGDCGYYL 268
Query: 301 HAYQLFLSHPTTNEVIKITAPLPSVLKTR 329
HA Q+ +HP+T I I+ P L R
Sbjct: 269 HANQIVFNHPSTGRTIPISCQPPPELVDR 297
>gi|443318893|ref|ZP_21048135.1| pseudouridine synthase, RluA family [Leptolyngbya sp. PCC 6406]
gi|442781531|gb|ELR91629.1| pseudouridine synthase, RluA family [Leptolyngbya sp. PCC 6406]
Length = 309
Score = 209 bits (531), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 137/326 (42%), Positives = 194/326 (59%), Gaps = 36/326 (11%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LTL+++YS ++ +S+ + W RIQ+GQ+ VDGR ++ IL L YHR PW+EP
Sbjct: 18 LTLLDYYSQRYPHSSRGE-WCDRIQSGQVEVDGRQGSE-EAILKPRQRLAYHRPPWEEPP 75
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
P VLYED DL+ ++KP+GL VLPGG F T+L+QL+ +++ PVP
Sbjct: 76 APLNFGVLYEDGDLLVVDKPAGLPVLPGGGFLNHTLLHQLRQHYPQET---------PVP 126
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG+LL ++ LAK+ ++ + S +T +E K YRAL+
Sbjct: 127 IHRLGRGTSGLLLLGRSSLAKSVLSQQM--RASTEGHSTTGLE-------KCYRALIGPS 177
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D + + PIG + +P + +Y AS GK A S+V V++R + TL++V I++GR
Sbjct: 178 TLPDTLTLTTPIGKLPHPTLGY-VYGASAMGKTAHSQVRVVQRTTTQ--TLIEVIIRTGR 234
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLA G+PLLGDPLY GG P+S D + VPGDCGY+L
Sbjct: 235 PHQIRIHLAAAGYPLLGDPLYQVGGIPRSLDVMGK-------------MEAVPGDCGYHL 281
Query: 301 HAYQLFLSHPTTNEVIKITAPLPSVL 326
HA++L HP T ++ +TAPLP L
Sbjct: 282 HAHRLTFRHPRTQALVTLTAPLPPTL 307
>gi|407957461|dbj|BAM50701.1| hypothetical protein BEST7613_1770 [Synechocystis sp. PCC 6803]
Length = 317
Score = 207 bits (526), Expect = 8e-51, Method: Compositional matrix adjust.
Identities = 135/329 (41%), Positives = 180/329 (54%), Gaps = 48/329 (14%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
T+++FYS ++ +S Q W +RI+ GQI VDG+ V DP L AG L Y R PW EP+V
Sbjct: 26 TVLDFYSQRYLHSE-RQAWQERIEQGQIEVDGKTV-DPTYPLQAGQTLTYWRSPWVEPEV 83
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L VL+ D+DL A++KPSGL VLPGG F TVL QL+ + ++S P+
Sbjct: 84 PLQLSVLHRDEDLWAIDKPSGLPVLPGGDFVYHTVLEQLKIQYPQESL---------FPL 134
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRLG GTSG+LL ++ L + ++ F + KIYR ++
Sbjct: 135 HRLGTGTSGLLLLGRSTLGRRELSRQFREHIC----------------RKIYRTVIGPCD 178
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
+K Q IG + YP + +Y AS GKPA S +L R ++ T ++VEI++GRP
Sbjct: 179 LPEKFECHQAIGKIPYPQLGY-IYAASSHGKPAQSYGRILARSPEK--TWLEVEIRTGRP 235
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIRIHLA LG+PLLGD LY GG P + + P D GY LH
Sbjct: 236 HQIRIHLASLGYPLLGDRLYGPGGVPINCRTA------------------RPSDGGYTLH 277
Query: 302 AYQLFLSHPTTNEVIKITAPLPSVLKTRE 330
+YQL H T + IK+TAPLP L T E
Sbjct: 278 SYQLGFLHLHTQQAIKLTAPLPPELITPE 306
>gi|16329580|ref|NP_440308.1| hypothetical protein slr1592 [Synechocystis sp. PCC 6803]
gi|383321321|ref|YP_005382174.1| hypothetical protein SYNGTI_0412 [Synechocystis sp. PCC 6803
substr. GT-I]
gi|383324491|ref|YP_005385344.1| hypothetical protein SYNPCCP_0412 [Synechocystis sp. PCC 6803
substr. PCC-P]
gi|383490375|ref|YP_005408051.1| hypothetical protein SYNPCCN_0412 [Synechocystis sp. PCC 6803
substr. PCC-N]
gi|384435641|ref|YP_005650365.1| hypothetical protein SYNGTS_0412 [Synechocystis sp. PCC 6803]
gi|451813739|ref|YP_007450191.1| hypothetical protein MYO_14170 [Synechocystis sp. PCC 6803]
gi|3915463|sp|P72970.1|Y1592_SYNY3 RecName: Full=Uncharacterized RNA pseudouridine synthase slr1592;
AltName: Full=RNA pseudouridylate synthase; AltName:
Full=RNA-uridine isomerase
gi|1652063|dbj|BAA16988.1| slr1592 [Synechocystis sp. PCC 6803]
gi|339272673|dbj|BAK49160.1| hypothetical protein SYNGTS_0412 [Synechocystis sp. PCC 6803]
gi|359270640|dbj|BAL28159.1| hypothetical protein SYNGTI_0412 [Synechocystis sp. PCC 6803
substr. GT-I]
gi|359273811|dbj|BAL31329.1| hypothetical protein SYNPCCN_0412 [Synechocystis sp. PCC 6803
substr. PCC-N]
gi|359276981|dbj|BAL34498.1| hypothetical protein SYNPCCP_0412 [Synechocystis sp. PCC 6803
substr. PCC-P]
gi|451779708|gb|AGF50677.1| hypothetical protein MYO_14170 [Synechocystis sp. PCC 6803]
Length = 291
Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 134/328 (40%), Positives = 179/328 (54%), Gaps = 48/328 (14%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP 62
+++FYS ++ +S Q W +RI+ GQI VDG+ V DP L AG L Y R PW EP+VP
Sbjct: 1 MLDFYSQRYLHSE-RQAWQERIEQGQIEVDGKTV-DPTYPLQAGQTLTYWRSPWVEPEVP 58
Query: 63 YLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVH 122
L VL+ D+DL A++KPSGL VLPGG F TVL QL+ + ++S P+H
Sbjct: 59 LQLSVLHRDEDLWAIDKPSGLPVLPGGDFVYHTVLEQLKIQYPQESL---------FPLH 109
Query: 123 RLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVD 182
RLG GTSG+LL ++ L + ++ F + KIYR ++
Sbjct: 110 RLGTGTSGLLLLGRSTLGRRELSRQFREHIC----------------RKIYRTVIGPCDL 153
Query: 183 EDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPH 242
+K Q IG + YP + +Y AS GKPA S +L R ++ T ++VEI++GRPH
Sbjct: 154 PEKFECHQAIGKIPYPQLGY-IYAASSHGKPAQSYGRILARSPEK--TWLEVEIRTGRPH 210
Query: 243 QIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHA 302
QIRIHLA LG+PLLGD LY GG P + + P D GY LH+
Sbjct: 211 QIRIHLASLGYPLLGDRLYGPGGVPINCRTA------------------RPSDGGYTLHS 252
Query: 303 YQLFLSHPTTNEVIKITAPLPSVLKTRE 330
YQL H T + IK+TAPLP L T E
Sbjct: 253 YQLGFLHLHTQQAIKLTAPLPPELITPE 280
>gi|429218354|ref|YP_007179998.1| RluA family pseudouridine synthase [Deinococcus peraridilitoris DSM
19664]
gi|429129217|gb|AFZ66232.1| pseudouridine synthase, RluA family [Deinococcus peraridilitoris
DSM 19664]
Length = 302
Score = 205 bits (521), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 128/330 (38%), Positives = 176/330 (53%), Gaps = 50/330 (15%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
+ + + S ++ +S+P Q W +R+ G++ +DGR + L AG LV+HR PW+E
Sbjct: 21 STLHYLSARYPHSSPSQ-WQERLDRGEVLLDGRPARA-HETLRAGQILVWHRPPWQEHKA 78
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P EVL+EDD L+A+NKP GL LPG + + T+L ++ R H P+
Sbjct: 79 PRHYEVLFEDDVLLAVNKPGGLPTLPGAGYLENTLLQLVRARTP-----------HAAPL 127
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRLGR TSG++L A+T A ++ + D R I KIYRAL G+
Sbjct: 128 HRLGRATSGLVLFARTPQAAAQLSRAWRD----------------RAIQKIYRALASGVA 171
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
+ + I PIG V +P + ++ ASP GK A S LER + TL +V+I +GRP
Sbjct: 172 EHECYDIHAPIGPVPHPRLGT-VHAASPDGKAARSVARPLERRA--DTTLFEVDIHTGRP 228
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIRIHLA +GHPL GDPLY GG P S Q G +PGD GY LH
Sbjct: 229 HQIRIHLACVGHPLQGDPLYGTGGLPGS-----------QHPG-------LPGDAGYLLH 270
Query: 302 AYQLFLSHPTTNEVIKITAPLPSVLKTREE 331
A QL L HP + + + AP P+ L+ E
Sbjct: 271 AEQLILRHPMSGATLHLRAPAPAGLRLTSE 300
>gi|285808641|gb|ADC36159.1| RluA family pseudouridine synthase [uncultured bacterium 162]
Length = 326
Score = 204 bits (520), Expect = 4e-50, Method: Compositional matrix adjust.
Identities = 129/322 (40%), Positives = 174/322 (54%), Gaps = 50/322 (15%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
TL+ ++ + +S Q W Q + NG++TVDG N L++G LV++R PW EPD
Sbjct: 48 TLLSHLASLYTHST-AQAWQQNLDNGEVTVDGVTANGSES-LASGQTLVWNRPPWVEPDA 105
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P E+L++D L+A+NKPSGL LPGG F + T+L +Q +Q PV
Sbjct: 106 PQHFEMLFDDPYLLAVNKPSGLPTLPGGGFMENTLLRLVQ-----------NQCPSANPV 154
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRLGRGTSGI+L AKT A A + +I K+YRA+ G+
Sbjct: 155 HRLGRGTSGIVLFAKTPKA----------------AAELCANWNTPRIQKVYRAVAQGVA 198
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
+ D I PIG+V +P + ++ ASP GKP+ S V+ R + T +V +QSGRP
Sbjct: 199 EHDAYEILTPIGLVPHPLIGS-VWGASPDGKPSKSVAKVISR--AESTTTFEVSLQSGRP 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIRIHLA +G+PL+GDPLY GGQP E G +PGD GY LH
Sbjct: 256 HQIRIHLASIGYPLVGDPLYGLGGQPL----ENLPG--------------LPGDGGYLLH 297
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
A L HP + E I++ A LP
Sbjct: 298 AQLLKFQHPISGERIELEAALP 319
>gi|116624899|ref|YP_827055.1| RluA family pseudouridine synthase [Candidatus Solibacter usitatus
Ellin6076]
gi|116228061|gb|ABJ86770.1| pseudouridine synthase, RluA family [Candidatus Solibacter usitatus
Ellin6076]
Length = 304
Score = 203 bits (516), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 126/314 (40%), Positives = 168/314 (53%), Gaps = 49/314 (15%)
Query: 18 QGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIAL 77
+ W Q + NG++T++G + S G L+++R PW EPDVP EVL+ED L+A+
Sbjct: 35 EAWQQNLNNGEVTLNGVAATGSESVRS-GQILIWNRPPWIEPDVPKHFEVLFEDPHLLAV 93
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKPSGL LPGG F + T+L +Q + PVHRLGR TSGI+L A+T
Sbjct: 94 NKPSGLPTLPGGGFLENTLLRLVQKHTPNAN-----------PVHRLGRATSGIVLFART 142
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A + + FA+ + KI KIYRAL I D I PIG+V +
Sbjct: 143 PQAASNL---FANWNT-------------PKIRKIYRALAQNIAQHDAYEILTPIGLVPH 186
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P + ++ A+PSGKP+ S V+ R + T +V + SGRPHQIRIHLA +GHPL+G
Sbjct: 187 PRIGS-VWAANPSGKPSKSLAKVISRST--STTTFEVSLNSGRPHQIRIHLASIGHPLVG 243
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DPLY GQP E G +PGD GY+LHA L HP T E I
Sbjct: 244 DPLYGLTGQPL----ENLPG--------------LPGDGGYFLHAQFLQFQHPITGEQIN 285
Query: 318 ITAPLPSVLKTREE 331
+ A LPS + ++
Sbjct: 286 LEAALPSGFSSHQQ 299
>gi|374312271|ref|YP_005058701.1| RluA family pseudouridine synthase [Granulicella mallensis
MP5ACTX8]
gi|358754281|gb|AEU37671.1| pseudouridine synthase, RluA family [Granulicella mallensis
MP5ACTX8]
Length = 298
Score = 202 bits (514), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 127/323 (39%), Positives = 177/323 (54%), Gaps = 50/323 (15%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
TL+ ++ + +S LQ W Q + +G++T++G + + + G LV+ R PW EPD
Sbjct: 20 TLLSHLASLYPHST-LQAWQQNLDSGEVTLNGIIATGSESV-TLGQTLVWERPPWIEPDS 77
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P EVL +D L+A+NKPSGL LPGG F + T+L +Q KQ+ + + PV
Sbjct: 78 PQHFEVLLDDSHLLAVNKPSGLPTLPGGGFMENTLLRLVQ----KQNPNAN-------PV 126
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRLGR T+GI+L AKT A + ++ + + +I KIYRAL G+
Sbjct: 127 HRLGRATTGIVLFAKTPQAASQLSANW----------------NTSRIQKIYRALAQGVA 170
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
+D I PIG+V +P + ++ ASPSGKP+ S V+ R + T +V + SGRP
Sbjct: 171 QQDAYEILTPIGLVPHPLIGS-VWAASPSGKPSKSLAKVISRTT--STTTFEVSLHSGRP 227
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
QIRIHLA +GHPL+GDPLY GQP +RP +PGD GY+LH
Sbjct: 228 QQIRIHLASIGHPLVGDPLYGLNGQPLE----------------DRPG--LPGDGGYFLH 269
Query: 302 AYQLFLSHPTTNEVIKITAPLPS 324
A L HP T E I + A LPS
Sbjct: 270 AQFLRFHHPITGEQITLEAALPS 292
>gi|15806687|ref|NP_295407.1| pseudouridine synthase [Deinococcus radiodurans R1]
gi|6459452|gb|AAF11241.1|AE002010_4 pseudouridine synthase, putative [Deinococcus radiodurans R1]
Length = 321
Score = 201 bits (512), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 119/308 (38%), Positives = 169/308 (54%), Gaps = 51/308 (16%)
Query: 20 WLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIALNK 79
W R+ G++TVDG V + L G LV+ R PW EPD P +V+YED DL+A++K
Sbjct: 59 WAARLAAGEVTVDGLTVRG-DETLRPGQMLVWQRPPWAEPDAPLHFDVIYEDADLLAVSK 117
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
PSGL +PGG F + T+L+Q++ R S P+HRLGRGTSG++L + T
Sbjct: 118 PSGLPTMPGGGFLEHTLLHQVRGRWPDAS-----------PLHRLGRGTSGLVLFSLTSQ 166
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPG 199
A + + + ++ K+YRAL G+ ++D+ I PIG V +P
Sbjct: 167 AGAAL----------------LKDWRAGRVQKVYRALSAGVAEQDEYDITVPIGPVAHPR 210
Query: 200 VAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDP 259
+ + ++ AS +GK A S+ VLER + + TL +VEI +GRPHQIRIHLA LG PL DP
Sbjct: 211 LGQ-VFAASTAGKTAHSRARVLER--REDTTLFEVEIFTGRPHQIRIHLASLGLPLAVDP 267
Query: 260 LYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKIT 319
LYV+GG P+ + +PGD GY LHA L HP + ++
Sbjct: 268 LYVSGGLPRP--------------------DALPGDLGYALHASTLTFQHPAHGAALTLS 307
Query: 320 APLPSVLK 327
AP P++L
Sbjct: 308 APAPTLLS 315
>gi|325282268|ref|YP_004254809.1| pseudouridine synthase, RluA family [Deinococcus proteolyticus MRP]
gi|324314077|gb|ADY25192.1| pseudouridine synthase, RluA family [Deinococcus proteolyticus MRP]
Length = 305
Score = 200 bits (509), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 124/330 (37%), Positives = 180/330 (54%), Gaps = 56/330 (16%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L+++++Y+ + +S Q W R+ G++ ++G + L G L +HR PW E
Sbjct: 24 LSVLDYYARFYPHSD-RQTWGARLAAGEVELNGHPAAG-SESLRPGDRLAWHRPPWAEEA 81
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQL--QWRASKQSSSLSSQASHP 118
VP VLYED ++A++KPSGL LP G F T+L L QW A+
Sbjct: 82 VPLHFSVLYEDAHILAVHKPSGLPTLPAGGFLDHTLLALLRRQWPAA------------- 128
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
P+HRLGRGTSG++LC+ T A + + + + +I K YRAL
Sbjct: 129 TPLHRLGRGTSGLVLCSLTPAAGSRL----------------TADWREGRIHKRYRALSA 172
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G+ ++K I PIG+V +P + + +Y A+P+GKP+ S+ VLER + TL QV+I++
Sbjct: 173 GVAAQEKYDITAPIGLVDHPRLGQ-IYAATPAGKPSRSRAQVLER--RDGSTLFQVDIET 229
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GRPHQIRIHLA G PLLGDPLY+ GGQ RP + +PGD GY
Sbjct: 230 GRPHQIRIHLASAGLPLLGDPLYLPGGQ-------------------ARP-DALPGDLGY 269
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKT 328
LHA +L HP E + ++AP+P L++
Sbjct: 270 LLHAERLEFRHPAGGEHLSLSAPVPPELRS 299
>gi|320332730|ref|YP_004169441.1| RluA family pseudouridine synthase [Deinococcus maricopensis DSM
21211]
gi|319754019|gb|ADV65776.1| pseudouridine synthase, RluA family [Deinococcus maricopensis DSM
21211]
Length = 318
Score = 196 bits (498), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 126/331 (38%), Positives = 184/331 (55%), Gaps = 56/331 (16%)
Query: 4 IEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPY 63
+ + +K+++S+ Q W +R+ G++T+DG + D + IL AG LV++R PW E P
Sbjct: 41 LWYLVSKYRHSS-AQDWRERVARGEVTLDGAPI-DGHEILQAGQVLVWNRPPWDEEATPR 98
Query: 64 LLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP--VPV 121
++ Y DD L+A+ KPSGL + GG F + T+L+ ++ A HP P+
Sbjct: 99 TFDIAYLDDALLAVIKPSGLPTMHGGGFLENTLLSLVR-------------AQHPEATPL 145
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRLGR TSG++L A+T A + ++ + + K YRAL G++
Sbjct: 146 HRLGRATSGLVLFARTHAAASRLSEAW----------------RMHHVEKRYRALASGVL 189
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
+D+V I+ PIG V +P + ++ S +GK + S VLER + + TL+QV+I +GRP
Sbjct: 190 AQDRVTIEAPIGPVPHPRLGT-VHGVSATGKASRSVACVLER--REDATLLQVDIFTGRP 246
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNP-VPGDCGYYL 300
HQIRIH AFLGHPL+GDPLY GGQPK AD NP +PGD GY L
Sbjct: 247 HQIRIHTAFLGHPLVGDPLYGPGGQPK------AD-------------NPGLPGDGGYLL 287
Query: 301 HAYQLFLSHPTTNEVIKITAPLPSVLKTREE 331
HA +L +HP T + + AP P L+ E
Sbjct: 288 HAERLAFTHPVTGAPLDVYAPAPPALRCAGE 318
>gi|427723487|ref|YP_007070764.1| RluA family pseudouridine synthase [Leptolyngbya sp. PCC 7376]
gi|427355207|gb|AFY37930.1| pseudouridine synthase, RluA family [Leptolyngbya sp. PCC 7376]
Length = 303
Score = 196 bits (497), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 120/319 (37%), Positives = 176/319 (55%), Gaps = 52/319 (16%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L +++FY+ +++S + W R+ QI VDG PN IL L YHR PW EPD
Sbjct: 19 LKVLDFYTQNYRHST-REEWGDRLLAQQIFVDGEPAQ-PNQILKKNQRLEYHRAPWDEPD 76
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
P E+L+E+ D + ++KPSGL VLPGG F + T+L+QL+ ++ P+P
Sbjct: 77 APLDYEILHEEADFLIIDKPSGLPVLPGGFFLENTLLHQLRKNFPDET---------PIP 127
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG+++ A++ +AK ++ +L +I KIY AL+
Sbjct: 128 IHRLGRGTSGLMILARSPVAKKNLS----------------QQLRLHQIKKIYHALILAG 171
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
D V I PIG V +P + ++ A P GK + S++ VL R+ + +LV ++I++GR
Sbjct: 172 DYPDHVTITTPIGKVPHP-ILGSIHAAHPEGKYSHSEMTVLRREPK--TSLVAMDIKTGR 228
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNP----VPGDC 296
PHQIRIH+A +G PL+GDPLY GG PK P +P +PGD
Sbjct: 229 PHQIRIHVAAIGFPLVGDPLYDVGGIPKI------------------PADPTQTALPGDL 270
Query: 297 GYYLHAYQLFLSHPTTNEV 315
GY L A +L HP T+E+
Sbjct: 271 GYSLRAMELKFRHPQTSEI 289
>gi|320109289|ref|YP_004184879.1| RluA family pseudouridine synthase [Terriglobus saanensis SP1PR4]
gi|319927810|gb|ADV84885.1| pseudouridine synthase, RluA family [Terriglobus saanensis SP1PR4]
Length = 298
Score = 191 bits (484), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 133/323 (41%), Positives = 178/323 (55%), Gaps = 50/323 (15%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
TL+ ++ + +S+P Q W Q + NG++TV+G V+ + L++G LV++R PW EPD
Sbjct: 20 TLLSHLASLYPHSSP-QAWQQNLNNGEVTVNG-VIATGSEALTSGQMLVWNRPPWIEPDA 77
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P EVL +D L+A+NKP GL LPGG F + T+L +Q KQS + PV
Sbjct: 78 PQHFEVLLDDPHLLAVNKPGGLPTLPGGGFMENTLLRLVQ----KQSPDAN-------PV 126
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRLGR T+GI+L AKT A A + + + +I KIYRAL GI
Sbjct: 127 HRLGRATTGIVLFAKTPQA----------------ASNLTADWNTSRIEKIYRALAQGIA 170
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D D I PIG+V +P + ++ A+P GKP+ S V+ R + T +V + SGRP
Sbjct: 171 DRDAYEILTPIGLVPHPRIGS-VWAANPDGKPSKSLAKVISRTT--DATTFEVSLGSGRP 227
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIRIHLA +GHPL+GDPLY GQP E G +PGD GY+LH
Sbjct: 228 HQIRIHLASIGHPLVGDPLYGPTGQPL----EDLPG--------------LPGDGGYFLH 269
Query: 302 AYQLFLSHPTTNEVIKITAPLPS 324
A L HP T E I + A LPS
Sbjct: 270 AQFLKFHHPITGERIHLEAALPS 292
>gi|170078760|ref|YP_001735398.1| putative pseudouridine synthase [Synechococcus sp. PCC 7002]
gi|169886429|gb|ACB00143.1| putative pseudouridine synthase [Synechococcus sp. PCC 7002]
Length = 282
Score = 191 bits (484), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 114/319 (35%), Positives = 179/319 (56%), Gaps = 44/319 (13%)
Query: 4 IEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPY 63
++FY+ +++S Q W +R++N QI VDG+ L+ L YHR PW+EPDVP
Sbjct: 1 MDFYAEFYRHST-RQEWAKRLENQQIFVDGKPATATQR-LAKNQRLEYHRPPWEEPDVPL 58
Query: 64 LLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHR 123
++L++D ++KP+GL VLP G F + T+L QL+ + ++ PVP+HR
Sbjct: 59 NFQILHQDPHFWIIDKPAGLPVLPAGNFLENTLLAQLKRQFPDET---------PVPIHR 109
Query: 124 LGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDE 183
LGRGTSG+++ ++ L + S +L + +ITKIYRA++
Sbjct: 110 LGRGTSGLMILGRSPLGR----------------QSLTRQLREHQITKIYRAVIPAGDYP 153
Query: 184 DKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQ 243
D++ I PIG + +P + ++ A+ G A S++ VLER + + V+V+I +GRPHQ
Sbjct: 154 DQITITTPIGKIFHPSLGT-IFAATADGLSAHSEMRVLERLAK--VSRVEVQIFTGRPHQ 210
Query: 244 IRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAY 303
IRIH+A +G PL+GD LY+ GG P ++ D + +P+PGDCGY L+AY
Sbjct: 211 IRIHMAAMGFPLVGDRLYLPGGLPAIYE----------DANH----SPLPGDCGYSLNAY 256
Query: 304 QLFLSHPTTNEVIKITAPL 322
L HP ++ I + L
Sbjct: 257 YLKFQHPHQDKPIDFFSQL 275
>gi|338536438|ref|YP_004669772.1| pseudouridine synthase [Myxococcus fulvus HW-1]
gi|337262534|gb|AEI68694.1| pseudouridine synthase [Myxococcus fulvus HW-1]
Length = 301
Score = 189 bits (481), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 116/314 (36%), Positives = 169/314 (53%), Gaps = 49/314 (15%)
Query: 20 WLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIALNK 79
W R G++ +DG VV D + L G L +HR PW+E D P E++YED +L+ + K
Sbjct: 37 WRARFARGEVRLDG-VVADGSEPLRPGQWLCWHRPPWEEEDTPRSFELVYEDAELVVVVK 95
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
PSGL LP G F + T+L+ +Q R + VP HRLGR TSG++L +T+
Sbjct: 96 PSGLPTLPSGGFLKNTLLSFVQARWPEA-----------VPRHRLGRATSGLVLFTRTRE 144
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPG 199
A +A + + ++ K YRAL G+ ++ I+ PIG+V +P
Sbjct: 145 AAARLA----------------RDWREGRVHKRYRALAQGLAAQESYDIRAPIGLVPHPR 188
Query: 200 VAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDP 259
+ + ++ AS GKP+ S VLER + TL +V+I +GR QIRIHLA++GHPL+GDP
Sbjct: 189 LGE-VHGASARGKPSHSTARVLERRTEH--TLFEVDIHTGRSEQIRIHLAYIGHPLVGDP 245
Query: 260 LYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKIT 319
L+ GG P A+D G +PGD GY LHA L HP + E +++
Sbjct: 246 LFAVGGLP-----------LAKDPG-------LPGDGGYLLHAESLTFRHPRSGEQVQLQ 287
Query: 320 APLPSVLKTREEGR 333
AP P L+ ++ R
Sbjct: 288 APPPPELRVQDASR 301
>gi|383457934|ref|YP_005371923.1| RluA family pseudouridine synthase [Corallococcus coralloides DSM
2259]
gi|380734159|gb|AFE10161.1| RluA family pseudouridine synthase [Corallococcus coralloides DSM
2259]
Length = 308
Score = 189 bits (479), Expect = 3e-45, Method: Compositional matrix adjust.
Identities = 115/330 (34%), Positives = 177/330 (53%), Gaps = 50/330 (15%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
T + + K+++S Q W R G++ +DG V+ + +L A EL +HR PW+E +
Sbjct: 28 TALAHLTDKYRHSTEEQ-WRARFVRGEVRLDG-VIATGDEVLQAHQELCWHRPPWRERET 85
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P E++YED L+A+ KPSGL LP G F + T+L+ ++ R + S+ +
Sbjct: 86 PDSFELVYEDASLLAVIKPSGLPTLPSGGFLKNTLLSFVRLRWPEASA-----------L 134
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRLGR TSG++L ++T+ A ++G + + + K YRAL G+
Sbjct: 135 HRLGRATSGLVLFSRTQEAAAKLSGNWREG----------------DVEKRYRALSDGVA 178
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
+ I PIG+V +P V ++ A+ GKP+ S+ +VLER + TL +V I +GRP
Sbjct: 179 AQASYDIHTPIGLVPHP-VLGSVHGATAKGKPSHSRAEVLER--RDGQTLFEVRIHTGRP 235
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
QIRIHLA +GHPL GDP++ +GG P+ + +PGD GY LH
Sbjct: 236 EQIRIHLASIGHPLTGDPMFASGGLPREHEPG------------------LPGDGGYLLH 277
Query: 302 AYQLFLSHPTTNEVIKITAPLPSVLKTREE 331
A L +HP T E +++ AP P+ L+ E
Sbjct: 278 AETLAFTHPLTGERLRLHAPPPAALRMASE 307
>gi|225872530|ref|YP_002753985.1| RluA family pseudouridine synthase [Acidobacterium capsulatum ATCC
51196]
gi|225792126|gb|ACO32216.1| pseudouridine synthase, RluA family [Acidobacterium capsulatum ATCC
51196]
Length = 301
Score = 187 bits (476), Expect = 5e-45, Method: Compositional matrix adjust.
Identities = 123/314 (39%), Positives = 168/314 (53%), Gaps = 51/314 (16%)
Query: 20 WLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIALNK 79
W QR+ +G+IT++G + +AG LV++ PW EPD P +VL+EDD+LIA+NK
Sbjct: 37 WQQRLSHGEITLNGITAQGSESV-AAGQVLVWNCPPWTEPDAPLHFDVLFEDDELIAVNK 95
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
PSGL LPG F + T+L ++ A H PVHRLGR TSGI+L +KT
Sbjct: 96 PSGLPTLPGSGFLENTLLRLVR-----------RYAPHASPVHRLGRATSGIVLFSKT-- 142
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPG 199
A ++++A + K+ K+YRA+ + + ++ I PIG V +P
Sbjct: 143 ---------AQGAALLEAI-----WNTSKVQKVYRAVAVNVAEHEEYEIHTPIGRVPHPR 188
Query: 200 VAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDP 259
+ ++ AS +GKP+ S VL R T +V + SGRPHQIRIHLA +GHPL+GD
Sbjct: 189 LGS-VWAASSTGKPSWSSAKVLARGTT--TTTFEVTLHSGRPHQIRIHLASVGHPLVGDG 245
Query: 260 LYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKIT 319
LY GG P A G +PGD GY LHA L HPT+ I +
Sbjct: 246 LYGPGGLP-----------LADHPG-------LPGDGGYLLHAQFLAFLHPTSGSQISLE 287
Query: 320 APLPS--VLKTREE 331
APLPS L R+E
Sbjct: 288 APLPSEFSLYARQE 301
>gi|373485937|ref|ZP_09576617.1| pseudouridine synthase, RluA family [Holophaga foetida DSM 6591]
gi|372012775|gb|EHP13337.1| pseudouridine synthase, RluA family [Holophaga foetida DSM 6591]
Length = 293
Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 118/301 (39%), Positives = 167/301 (55%), Gaps = 52/301 (17%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
L+++ S ++ ++ P W +RIQ G + +DGR + DP L G L + R PW+EP+V
Sbjct: 20 ALLDYLSGRYLHT-PEGEWRERIQAGLVRIDGRSM-DPGTPLKQGQILTWSRPPWEEPEV 77
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P V+YED DL+A+ KPSGL LPG F + T+L+Q++ R P+
Sbjct: 78 PLDYGVIYEDADLVAVAKPSGLPTLPGAGFLEHTLLHQVRLRFPGAD-----------PI 126
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRLGR TSGI++ A++ A+ ++ L + K+ K+YRALV G
Sbjct: 127 HRLGRTTSGIVVFARSPGARKSLS----------------QALREHKLVKVYRALVTGWP 170
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
+ D + PIG + +P + L+ SP+GKPA+S V VLER + + +LV+V I++GRP
Sbjct: 171 ELDAFTVDAPIGPLPHPLLGT-LHGPSPAGKPAVSHVRVLER--REDASLVEVHIETGRP 227
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIRIH+A GHPL+GDPLY GG F G VPGD GY LH
Sbjct: 228 HQIRIHMAVCGHPLVGDPLYGPGGV-------FLPGA-------------VPGDGGYLLH 267
Query: 302 A 302
A
Sbjct: 268 A 268
>gi|108762448|ref|YP_633384.1| RluA family pseudouridine synthase [Myxococcus xanthus DK 1622]
gi|108466328|gb|ABF91513.1| pseudouridine synthase, RluA family [Myxococcus xanthus DK 1622]
Length = 303
Score = 186 bits (473), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 116/332 (34%), Positives = 178/332 (53%), Gaps = 50/332 (15%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
+ + + K+++S+ + W R G++ +D V D + L G L +HR PW+E D
Sbjct: 22 SALAHMTDKYRHSSE-EEWRARFARGEVRLDD-VTADGSEPLRPGQWLCWHRPPWEEADT 79
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P E++YED +L+ + KPSGL LP G F + T+L+ +Q R + VP+
Sbjct: 80 PQSFELVYEDAELVVVVKPSGLPTLPSGGFLKNTLLSFVQARWPEA-----------VPM 128
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRLGR TSG++L +T+ A +A + + ++ K YRAL G+
Sbjct: 129 HRLGRATSGLVLFTRTRDAAARLAS----------------DWREGRVHKRYRALSQGLA 172
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
++ I+ PIG+V +P + + ++ AS GKP+ S VLER + TL +V+I +GR
Sbjct: 173 AQESYDIRAPIGLVPHPRLGE-VHGASARGKPSHSTARVLERRTEH--TLFEVDIHTGRS 229
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
QIRIHLAF+GHPL+GDPL+ GG P A++ G +PGD GY LH
Sbjct: 230 EQIRIHLAFIGHPLVGDPLFAVGGLP-----------LAENPG-------LPGDGGYLLH 271
Query: 302 AYQLFLSHPTTNEVIKITAPLPSVLKTREEGR 333
A L HP + E +++ AP P L+ ++ R
Sbjct: 272 AESLTFQHPRSGEHVQLQAPAPLELRVQDSWR 303
>gi|108707582|gb|ABF95377.1| pseudouridine synthase family protein, putative, expressed [Oryza
sativa Japonica Group]
Length = 208
Score = 186 bits (471), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 96/156 (61%), Positives = 116/156 (74%), Gaps = 5/156 (3%)
Query: 41 IILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQL 100
+IL GS+LVYHRLPW+EP P+LL+VLYEDDD+IALNKPSGLQVLP GLFQQRTVL QL
Sbjct: 1 MILREGSKLVYHRLPWQEPFAPHLLDVLYEDDDMIALNKPSGLQVLPKGLFQQRTVLAQL 60
Query: 101 QWRASKQSSSLSSQ----ASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVID 156
Q + K SS S+ SHPVPVHRLGRGTSG+LLCAKTKLAK +A YFA+ +
Sbjct: 61 QLKDWKMPSSFCSKRKDAQSHPVPVHRLGRGTSGLLLCAKTKLAKAQLAAYFAEGATNAG 120
Query: 157 ADSTVMELSQ-RKITKIYRALVHGIVDEDKVIIKQP 191
++ + RKI+K YRALV GI++ D+V+ P
Sbjct: 121 KSRDETDICKARKISKFYRALVTGILENDEVLTFPP 156
>gi|322435857|ref|YP_004218069.1| pseudouridine synthase [Granulicella tundricola MP5ACTX9]
gi|321163584|gb|ADW69289.1| pseudouridine synthase, RluA family [Granulicella tundricola
MP5ACTX9]
Length = 297
Score = 185 bits (469), Expect = 4e-44, Method: Compositional matrix adjust.
Identities = 120/307 (39%), Positives = 165/307 (53%), Gaps = 49/307 (15%)
Query: 18 QGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIAL 77
+ W + + NG++T+DG + + +LS+G LV+ R W EPD P EVL++D L+A+
Sbjct: 35 EAWQENLDNGEVTLDG-ITAAGSELLSSGQILVWKRPAWIEPDAPQHFEVLFDDLHLLAV 93
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKPSGL LPGG F + T+L + + S S + PVHRLGR T+GI++ AKT
Sbjct: 94 NKPSGLPTLPGGGFLENTLLRLVH----RHSPSAN-------PVHRLGRATTGIVMFAKT 142
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A AG AD + ++ KIYRAL G+ ++ I PIG+V +
Sbjct: 143 AQAA---AGLTADWNT-------------PRVQKIYRALAQGVARQEAYEILTPIGLVPH 186
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P + ++ AS GK + S V+ R T +V + SGRPHQIRIHLA +GHPL+G
Sbjct: 187 PRLGS-VWAASAGGKASKSSAKVISRTAA--TTTFEVRLGSGRPHQIRIHLASIGHPLVG 243
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DPLY + G P D + +PGD GY LHA L HP T E I+
Sbjct: 244 DPLYGSTGLP--LDD----------------LPGLPGDGGYLLHAQFLKFHHPVTGEQIE 285
Query: 318 ITAPLPS 324
+ A LPS
Sbjct: 286 LEAALPS 292
>gi|405368746|ref|ZP_11026567.1| ribosomal large subunit pseudouridine synthase D [Chondromyces
apiculatus DSM 436]
gi|397089459|gb|EJJ20376.1| ribosomal large subunit pseudouridine synthase D [Myxococcus sp.
(contaminant ex DSM 436)]
Length = 301
Score = 184 bits (467), Expect = 6e-44, Method: Compositional matrix adjust.
Identities = 116/332 (34%), Positives = 178/332 (53%), Gaps = 50/332 (15%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
+ + + K+++S+ + W R G++ +D V D + L G L +HR PW+E D
Sbjct: 20 SALAHMTDKYRHSSE-EEWRVRFARGEVRLDD-VTADGSEPLRPGQWLCWHRPPWEEADT 77
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P E +YED +L+ + KPSGL LP G F + T+L+ +Q R + VP+
Sbjct: 78 PQSFERVYEDAELVVVVKPSGLPTLPSGGFLKNTLLSFVQERWPEA-----------VPM 126
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRLGR TSG++L +T+ A +A + + ++ K YRAL G+
Sbjct: 127 HRLGRATSGLVLFTRTRDAAARLAS----------------DWREGRVHKRYRALSQGLA 170
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
++ I+ PIG+V +P + + ++ A+ GKP+ S VLER + TL +V+I +GR
Sbjct: 171 AQETYDIRAPIGLVPHPRLGE-VHGATARGKPSHSTARVLER--RSEHTLFEVDIHTGRS 227
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
QIRIHLAF+GHPL+GDPL+ GG P A+D G +PGD GY LH
Sbjct: 228 EQIRIHLAFIGHPLVGDPLFAVGGLP-----------LAEDPG-------LPGDGGYLLH 269
Query: 302 AYQLFLSHPTTNEVIKITAPLPSVLKTREEGR 333
A L HP + E +++ AP P L++++ R
Sbjct: 270 AESLTFVHPRSGEQVQLQAPPPLELRSQDSRR 301
>gi|33864307|ref|NP_895867.1| pseudouridine synthase [Prochlorococcus marinus str. MIT 9313]
gi|33641087|emb|CAE22216.1| Pseudouridine synthase [Prochlorococcus marinus str. MIT 9313]
Length = 338
Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 122/344 (35%), Positives = 182/344 (52%), Gaps = 57/344 (16%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP 62
L+E + + +S+ W QR+Q GQI ++G +V + +L++G ++ + R PW E VP
Sbjct: 36 LVELLAVHYTHSSR-DVWQQRLQAGQIRLNGELVR-LDQLLASGDQVCWQRPPWLEAAVP 93
Query: 63 YLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVH 122
EV+++D DL+ +NKPSGL V+PGG F T+ LQ R L ++ P PVH
Sbjct: 94 ASWEVIFDDGDLLVVNKPSGLPVIPGGGFLDHTLTGLLQRRC-----QLDGESRLPRPVH 148
Query: 123 RLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVD 182
RLGR TSG+L+CA+ + + ++ F T+ + KIYRAL H ++
Sbjct: 149 RLGRFTSGLLICARQRETRAKLSAMFRRATA-----------GDQGCKKIYRALAHRNLN 197
Query: 183 ---EDKVIIKQPIGIVRYPGVAKGLYVASPSGK------------PALSKVDVLERDVQR 227
++ I+ PI +P V K ++VA+ S + ALS V +LER ++
Sbjct: 198 VHCDEVATIRVPIVQTAHPMVGK-VWVAADSSRQHDSKQSESRVLTALSTVRLLER--RQ 254
Query: 228 NCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYER 287
+ L++V IQ+GRPHQIRIHLA +G PL+GDPLY FD + +
Sbjct: 255 DADLLEVAIQTGRPHQIRIHLAAIGSPLIGDPLY-------GFDGQISSAA--------- 298
Query: 288 PVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLKTREE 331
PGD GY LHA++L L P N + TA P L+ + E
Sbjct: 299 ----TPGDGGYCLHAHRL-LDVPYRNRLHGFTACSPRCLQMKTE 337
>gi|124024405|ref|YP_001018712.1| pseudouridine synthase [Prochlorococcus marinus str. MIT 9303]
gi|123964691|gb|ABM79447.1| Pseudouridine synthase [Prochlorococcus marinus str. MIT 9303]
Length = 338
Score = 177 bits (448), Expect = 9e-42, Method: Compositional matrix adjust.
Identities = 121/344 (35%), Positives = 182/344 (52%), Gaps = 57/344 (16%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP 62
L+E + + +S+ W QR+Q GQI ++G +V + +L++G ++ + R PW E VP
Sbjct: 36 LVELLAVHYTHSSR-DVWQQRLQAGQIRLNGELVR-LDQLLASGDQVCWQRPPWLEAAVP 93
Query: 63 YLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVH 122
EV+++D DL+ +NKPSGL V+PGG F T+ LQ R L ++ P PVH
Sbjct: 94 ASWEVIFDDGDLLVVNKPSGLPVIPGGGFLDHTLTGLLQRRC-----QLDGESRLPRPVH 148
Query: 123 RLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVD 182
RLGR TSG+L+CA+ + + ++ F T+ + KIYRAL H ++
Sbjct: 149 RLGRFTSGLLICARQRETRAKLSAMFRRATA-----------GDQGCKKIYRALAHRNLN 197
Query: 183 ---EDKVIIKQPIGIVRYPGVAKGLYVASPSGK------------PALSKVDVLERDVQR 227
++ I+ PI +P V K ++VA+ S + ALS V +LER ++
Sbjct: 198 VHCDEVATIRVPIVQTAHPMVGK-VWVAADSSRQHDSKQSESRVLTALSTVRLLER--RQ 254
Query: 228 NCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYER 287
+ L++V IQ+GRPHQIRIHLA +G PL+GDPLY FD + +
Sbjct: 255 DADLLEVAIQTGRPHQIRIHLAAIGSPLIGDPLY-------GFDGQISSAA--------- 298
Query: 288 PVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLKTREE 331
PGD GY LHA++L + P N + TA P L+ + E
Sbjct: 299 ----TPGDGGYCLHAHRL-VDVPYRNRLHGFTACSPRRLQMKTE 337
>gi|37519752|ref|NP_923129.1| pseudouridine synthase [Gloeobacter violaceus PCC 7421]
gi|35210743|dbj|BAC88124.1| gll0183 [Gloeobacter violaceus PCC 7421]
Length = 314
Score = 174 bits (441), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 120/328 (36%), Positives = 184/328 (56%), Gaps = 50/328 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LT++E+Y ++++S + W RI+ GQ+ +D R + ++ SA L Y R PW+EP
Sbjct: 34 LTVLEYYLLRYRHSGDHE-WQARIETGQVLLDHRSTSSTELLRSA-QVLTYCRPPWQEPS 91
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP + ++Y D+ ++ + KP GL VLPGG F + T+L Q++ R + + PVP
Sbjct: 92 VPLDIVIIYADEQVLVVAKPGGLPVLPGGGFLEHTLLWQVRRRFAGEEP--------PVP 143
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG++L A+T ++ ++ ++ +++I K+YRAL G
Sbjct: 144 IHRLGRGTSGLVLLARTHSSRAALS----------------EQMRRQRIGKLYRALASGT 187
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCT--LVQVEIQS 238
D+ I+QPIG V +P + L+ A+ G PA S VL +R CT L+ V I +
Sbjct: 188 GMRDRFTIRQPIGKVPHPLLGT-LWAAAADGLPARSDCVVL----RRQCTDSLLAVAIST 242
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GRPHQIRIHLA G+PL+GDPL+ GG + D++ + VPGD GY
Sbjct: 243 GRPHQIRIHLAAAGYPLVGDPLFGPGGVAR-LDNDAS----------------VPGDGGY 285
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVL 326
+LHA++L HPT+ + + P P L
Sbjct: 286 FLHAHRLSFLHPTSGRRLVLECPPPPEL 313
>gi|115452369|ref|NP_001049785.1| Os03g0288500 [Oryza sativa Japonica Group]
gi|113548256|dbj|BAF11699.1| Os03g0288500, partial [Oryza sativa Japonica Group]
Length = 162
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 84/122 (68%), Positives = 98/122 (80%), Gaps = 4/122 (3%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIA 76
L W++RI++GQITVDG V DP++IL GS+LVYHRLPW+EP P+LL+VLYEDDD+IA
Sbjct: 6 LCRWIKRIRDGQITVDGEVATDPDMILREGSKLVYHRLPWQEPFAPHLLDVLYEDDDMIA 65
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQ----ASHPVPVHRLGRGTSGIL 132
LNKPSGLQVLP GLFQQRTVL QLQ + K SS S+ SHPVPVHRLGRGTSG+
Sbjct: 66 LNKPSGLQVLPKGLFQQRTVLAQLQLKDWKMPSSFCSKRKDAQSHPVPVHRLGRGTSGLF 125
Query: 133 LC 134
LC
Sbjct: 126 LC 127
>gi|94986325|ref|YP_605689.1| pseudouridine synthase [Deinococcus geothermalis DSM 11300]
gi|94556606|gb|ABF46520.1| Pseudouridine synthase, RluD [Deinococcus geothermalis DSM 11300]
Length = 301
Score = 172 bits (437), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 124/331 (37%), Positives = 171/331 (51%), Gaps = 50/331 (15%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
LTL+ Y T+H + W R++ G++ +DG P L G L +HR PW+E D
Sbjct: 20 LTLLA-YLTRHYLHSSESDWQARLERGEVCLDGLPAYGPET-LRPGQVLEWHRPPWEEED 77
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
P V+Y D L+A+ KPSGL LPGG F + T+L Q++ + P
Sbjct: 78 APLDFAVVYRDAALLAVAKPSGLPTLPGGGFLKHTLLAQVR-----------TDFPEARP 126
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+HRLGRGTSG++L A+T A +A + R + K YRAL G
Sbjct: 127 LHRLGRGTSGLVLFARTHEAGAILARAW----------------RVRAVQKRYRALAVGT 170
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
+++ I PIG V +P + ++ AS +GK A S VLER + L V+I +GR
Sbjct: 171 PLQEEYAITTPIGPVPHPRLGS-VFAASAAGKAASSLAHVLER--RAATALFAVDIHTGR 227
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
PHQIRIHLA +GHPL+GDPLY +GG P+ AD + +PGD GY L
Sbjct: 228 PHQIRIHLAAIGHPLVGDPLYASGGLPR------AD------------LPGLPGDLGYLL 269
Query: 301 HAYQLFLSHPTTNEVIKITAPLPSVLKTREE 331
HA +L HP T E + + AP P L+ +E
Sbjct: 270 HAERLTFLHPLTGERLSLKAPPPPELRRADE 300
>gi|87300869|ref|ZP_01083711.1| Pseudouridine synthase [Synechococcus sp. WH 5701]
gi|87284740|gb|EAQ76692.1| Pseudouridine synthase [Synechococcus sp. WH 5701]
Length = 328
Score = 171 bits (433), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 120/334 (35%), Positives = 179/334 (53%), Gaps = 48/334 (14%)
Query: 6 FYSTKHKNSA-PLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL 64
F + ++++SA PL W QR+Q G+I ++GR + D + L AG L + R PW+E VP
Sbjct: 29 FLAERYRHSAAPL--WRQRLQEGEILLNGRRL-DGDGPLHAGDRLQWQRPPWREEAVPAR 85
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
V+++D DL ++KPSGL VLP G F + T+L L+ S ++QA P PVHRL
Sbjct: 86 WRVIHDDGDLYVIDKPSGLPVLPAGGFLEHTLLRLLE-------RSCAAQAL-PRPVHRL 137
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVI----DADSTVMELSQRKITKIYRALV--- 177
GR TSG+L+CA+ ++ ++ + T+ + +++ K+YRAL
Sbjct: 138 GRHTSGLLVCARRPQSRAWLSARLRESTAQLLNQPGSEARSAATRAGACRKVYRALTVPA 197
Query: 178 -HGIVDEDKVIIKQPIGIVRYPGVAKGLYVAS----PSGKPALSKVDVLERDVQRNCTLV 232
+ + + I PIG + G+ + ++ A P PA S++ +LER Q + LV
Sbjct: 198 PLQLAPGESLAITTPIGRRPHAGLGQ-IWAADGPDDPGALPAWSEMRLLERRPQGH--LV 254
Query: 233 QVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPV 292
+V I +GRPHQIRIHLA G PLLGDPLY GG+P+ +
Sbjct: 255 EVSIHTGRPHQIRIHLASAGVPLLGDPLYRPGGEPRP--------------------GAL 294
Query: 293 PGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVL 326
PGD GY LHA++L L P + + AP+P L
Sbjct: 295 PGDGGYLLHAHRLRLPLPAGG-WLDLEAPVPPEL 327
>gi|444915168|ref|ZP_21235304.1| Ribosomal large subunit pseudouridine synthase D [Cystobacter
fuscus DSM 2262]
gi|444713750|gb|ELW54642.1| Ribosomal large subunit pseudouridine synthase D [Cystobacter
fuscus DSM 2262]
Length = 298
Score = 171 bits (432), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 112/323 (34%), Positives = 169/323 (52%), Gaps = 49/323 (15%)
Query: 7 YSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLE 66
Y +PL+ W +R+ G++ +D + L AG LV++R PW+E + P
Sbjct: 25 YLVAAYRHSPLEVWRERLSRGEVLLDD-IPATGEERLKAGQWLVWNRPPWEEKETPRDYS 83
Query: 67 VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGR 126
+++ED+ L+A+ KP GL +PGG F T+L ++ R + S P+HRLGR
Sbjct: 84 LVHEDEALLAVIKPGGLPTVPGGGFLVNTLLFLVRERFPEAS-----------PLHRLGR 132
Query: 127 GTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKV 186
GTSG++L A+T A ++ + + ++ K YRAL G+ +++
Sbjct: 133 GTSGLVLFARTHDAAAKLSRAW----------------REHEVEKRYRALSGGVATQERY 176
Query: 187 IIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRI 246
I PIG +PG+ + +A P GK + S VL+R TL +V+IQ+GR QIRI
Sbjct: 177 DITAPIGEAVHPGMGM-VPMAMPGGKASRSLARVLQRRAA--STLFEVDIQTGRSQQIRI 233
Query: 247 HLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLF 306
HLAF+GHPL GDP+Y GG P++ E P + GD GY LHA +L
Sbjct: 234 HLAFIGHPLEGDPVYAVGGVPRA----------------EHP--GLLGDVGYLLHAERLC 275
Query: 307 LSHPTTNEVIKITAPLPSVLKTR 329
HP T E +++ A +PS L+ R
Sbjct: 276 FVHPLTGERLELHASIPSELEVR 298
>gi|317968138|ref|ZP_07969528.1| pseudouridine synthase [Synechococcus sp. CB0205]
Length = 318
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 120/334 (35%), Positives = 174/334 (52%), Gaps = 56/334 (16%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
+ + +Y+ ++ +S P W +R+ G+I +G+ + + L+AG +L++HR PW+E V
Sbjct: 26 STVGYYAERYGHSDP-SVWRERLAAGEIWCNGQQLRA-DAALAAGDQLIWHRPPWEEAAV 83
Query: 62 PYLLE--VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
P L + V+++D DL+ LNKPSGL VLP G F + T+L QLQ + A
Sbjct: 84 PVLSQRAVVFDDGDLLVLNKPSGLPVLPAGGFLEHTLLTQLQ-----------TWAPEAR 132
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
PVHRLGR TSG+L+CA+ + + + S +ST + R K+YRAL
Sbjct: 133 PVHRLGRFTSGLLVCARQRETR--------GQLSAQLRESTAASAASRGCLKVYRALTEP 184
Query: 180 IVDEDKV----IIKQPIGIVRYPGVAKGLYVASPSGKPAL---SKVDVLERDVQRNCTLV 232
+ + + I PIG + + + A P AL S + +LER +R LV
Sbjct: 185 LAADWRCGESRAITVPIGRRPHALLGQLWCAALPGDSSALESRSALTLLERRPER--CLV 242
Query: 233 QVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPV 292
++EI +GRPHQIRIH A LG PLLGDPLY+ GG RP +
Sbjct: 243 EMEIATGRPHQIRIHTAALGSPLLGDPLYL-------------------PGGVARP-EVL 282
Query: 293 PGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVL 326
PG GY LHA++L L + + APLPS L
Sbjct: 283 PGAGGYQLHAHRLRLE----PRGLALEAPLPSGL 312
>gi|115375687|ref|ZP_01462942.1| ribosomal large subunit pseudouridine synthase D [Stigmatella
aurantiaca DW4/3-1]
gi|310821153|ref|YP_003953511.1| pseudouridine synthase [Stigmatella aurantiaca DW4/3-1]
gi|115367335|gb|EAU66315.1| ribosomal large subunit pseudouridine synthase D [Stigmatella
aurantiaca DW4/3-1]
gi|309394225|gb|ADO71684.1| Pseudouridine synthase, RluA family [Stigmatella aurantiaca
DW4/3-1]
Length = 298
Score = 167 bits (422), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 110/308 (35%), Positives = 164/308 (53%), Gaps = 51/308 (16%)
Query: 20 WLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIALNK 79
W +R+ G++ +D + L G LV++R PW+E + P ++Y D+ ++A++K
Sbjct: 38 WRERLARGEVLLDDLPATGEEL-LKPGQRLVWNRPPWEEKETPRDYTLVYADEAILAVDK 96
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
P GL +PGG F T+L+ ++ R + S P+HRLGRGTSG++L A+T
Sbjct: 97 PGGLPTMPGGGFLVNTLLHVVRERFPEVS-----------PLHRLGRGTSGLVLFARTHD 145
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPG 199
A ++ + + ++ K YRAL + +D I PIG +PG
Sbjct: 146 AAAKLSRAW----------------REHEVEKRYRALSSHVASQDAYDITAPIGEAVHPG 189
Query: 200 VAKGLY-VASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+GL +A PSGK + S VL+R + TL +V+IQ+GR QIRIHLAF+GHPL GD
Sbjct: 190 --RGLLSMALPSGKASRSLARVLQR--RAASTLFEVDIQTGRSQQIRIHLAFIGHPLEGD 245
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P+Y GG P++ E+P + GD GY LHA +L HP T E +++
Sbjct: 246 PVYTVGGVPRA----------------EQP--GLLGDTGYLLHAERLCFVHPLTGERLEL 287
Query: 319 TAPLPSVL 326
A LPS L
Sbjct: 288 HATLPSEL 295
>gi|390957635|ref|YP_006421392.1| RluA family pseudouridine synthase [Terriglobus roseus DSM 18391]
gi|390412553|gb|AFL88057.1| pseudouridine synthase, RluA family [Terriglobus roseus DSM 18391]
Length = 298
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 126/313 (40%), Positives = 164/313 (52%), Gaps = 51/313 (16%)
Query: 15 APLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDL 74
A Q W Q++ + ++T+DG VV + L G LV+ R W E + P EVL+ED L
Sbjct: 32 ATAQEWQQKLNDREVTLDG-VVATGSEWLKLGQTLVWDRPTWIEAETPQHFEVLFEDPYL 90
Query: 75 IALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLC 134
+A+NKP GL LPGG F + T+L +Q KQ S + PVHRLGR T+GI+L
Sbjct: 91 LAVNKPGGLPTLPGGGFMENTLLRLVQ----KQRPSAN-------PVHRLGRATTGIVLF 139
Query: 135 AKT-KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AKT K+A A + + I KIYRAL GI D I PIG
Sbjct: 140 AKTSKVAAHLSANW-----------------NTPSIQKIYRALAQGIAQHDVYEILTPIG 182
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
V +P + ++ A P GKP+ S V+ R + T QV + SGRPHQIRIHLA +GH
Sbjct: 183 PVPHPRIGS-VWAAHPGGKPSKSLAKVIARGA--DTTTFQVSLYSGRPHQIRIHLASIGH 239
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL+GDPLY G P +D + +PGD GY LHA L L HP T
Sbjct: 240 PLVGDPLYGPTGMP------------LED------LPGLPGDGGYLLHAGLLTLDHPVTG 281
Query: 314 EVIKITAPLPSVL 326
E +++ AP+PS
Sbjct: 282 ERLELAAPVPSAF 294
>gi|254431229|ref|ZP_05044932.1| ribosomal large subunit pseudouridine synthase D [Cyanobium sp. PCC
7001]
gi|197625682|gb|EDY38241.1| ribosomal large subunit pseudouridine synthase D [Cyanobium sp. PCC
7001]
Length = 350
Score = 164 bits (416), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 117/323 (36%), Positives = 171/323 (52%), Gaps = 47/323 (14%)
Query: 5 EFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL 64
FY+ ++ +S P WL+RI G+I +G+ + + L G +LV+HR PW EP VP L
Sbjct: 26 RFYAGRYPHS-PASVWLERIAAGEIVRNGQQLRA-DGELQPGDQLVWHRPPWLEPAVPDL 83
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L++D DL+ L KP+GL VLP G + + TVL L+ ++ L + P PVHRL
Sbjct: 84 PGPLFDDGDLLVLAKPAGLPVLPAGGYLEHTVLRLLE--RQVRAGRLDGRFGLPRPVHRL 141
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTV-MELSQR------KITKIYRALV 177
GR TSG+L+CA+ + ++ ++ D T+ +A V +EL + K+YRAL
Sbjct: 142 GRFTSGLLVCARRRASRAWLSALLRDGTA--EASRAVPLELQEMVGEAPAACRKLYRALA 199
Query: 178 H-------GIVDEDKVI-IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNC 229
G ++ + + I PIG + + + + PAL+ + +LER + +
Sbjct: 200 GPLPVSGPGALELGETLRITTPIGRRPHQRLGEVWSAGGRNALPALTTITLLER--RGHG 257
Query: 230 TLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPV 289
LV+ I +GRPHQIRIHLA +G PLLGDPLY GG V
Sbjct: 258 CLVEAAIGTGRPHQIRIHLAAVGAPLLGDPLYRPGGG----------------------V 295
Query: 290 NP--VPGDCGYYLHAYQLFLSHP 310
NP +PGD GY LHA++L L P
Sbjct: 296 NPGALPGDPGYRLHAHRLTLPWP 318
>gi|87123579|ref|ZP_01079430.1| probable pseudouridine synthase [Synechococcus sp. RS9917]
gi|86169299|gb|EAQ70555.1| probable pseudouridine synthase [Synechococcus sp. RS9917]
Length = 314
Score = 164 bits (414), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 112/332 (33%), Positives = 180/332 (54%), Gaps = 46/332 (13%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP 62
L + + ++++S+ W QR+Q+G++ ++GR++ +++++AG + + R PW EP +P
Sbjct: 10 LSAWLADRYRHSSAAT-WRQRLQSGELGLNGRLLQG-DVVVAAGDRIRWQRPPWVEPAIP 67
Query: 63 YLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVH 122
+ L++D D++ +NKPSGL V+P G F T+ +QL + +Q L+ P PVH
Sbjct: 68 EHWQTLHDDGDVLVINKPSGLPVMPAGGFLVHTLSHQLVLWSREQGEPLA-----PKPVH 122
Query: 123 RLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVD 182
RLGR TSG+L+CA+ ++ ++ D T+ A + K+YRAL +
Sbjct: 123 RLGRFTSGLLVCARRPESRAWLSRLLRDSTADGAASAC---------RKVYRALTEPLPP 173
Query: 183 E----DKVIIKQPIGIVRYPGVAKGLYVASPS---GKPALSKVDVLERDVQRNCTLVQVE 235
+ + + IG +P + + A PS P+ S +LER + +C LV+V
Sbjct: 174 DWPLGESREVTVAIGRHPHPLLGEIWCAADPSVATALPSRSSFTLLERRPE-SC-LVEVV 231
Query: 236 IQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGD 295
I SGRPHQIRIH A G PLLGDPLY+ GG G Q +PG+
Sbjct: 232 IASGRPHQIRIHAATAGAPLLGDPLYLPGG-----------GASDQS---------LPGE 271
Query: 296 CGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
GY+LHA++L L+ P ++ + APLP L+
Sbjct: 272 GGYHLHAHRLQLASPDGG-LLDLEAPLPEPLR 302
>gi|386857499|ref|YP_006261676.1| Pseudouridine synthase, RluA family [Deinococcus gobiensis I-0]
gi|380001028|gb|AFD26218.1| Pseudouridine synthase, RluA family [Deinococcus gobiensis I-0]
Length = 300
Score = 161 bits (408), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 113/311 (36%), Positives = 159/311 (51%), Gaps = 50/311 (16%)
Query: 20 WLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIALNK 79
W R+ G++ VDG V + L G E+V+HR PW+EPD P VL+ED L+A+ K
Sbjct: 36 WALRLAAGEVEVDG-VRATGSERLRPGQEVVWHRPPWEEPDAPLEFGVLFEDASLLAVTK 94
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
P+GL LPGG F + T+L ++ RA +S P+HRLGRGTSG++L A+
Sbjct: 95 PAGLPTLPGGGFYEHTLLRRV--RAQFPGAS---------PLHRLGRGTSGLVLFAREGA 143
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPG 199
A ++ + +R++ K Y AL G+ D + I PIG V +P
Sbjct: 144 AGAALSAAW----------------REREVRKTYLALAAGVPGWDTLEITAPIGPVAHPR 187
Query: 200 VAKGLYVASPSGKPALSKVDVLERDVQRNC---TLVQVEIQSGRPHQIRIHLAFLGHPLL 256
+ + +Y A P+GK + S VLER Q TL+ V+I++GRPHQIRIH A+ G PL+
Sbjct: 188 LGE-VYAAHPAGKASHSAARVLERRTQAGPAGETLLAVDIRTGRPHQIRIHTAWAGFPLV 246
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDPLY GG P D GY LHA++L HP +
Sbjct: 247 GDPLYAPGGAPLPGLPGLPG------------------DGGYLLHAWRLGFRHPASGAWT 288
Query: 317 KITAPLPSVLK 327
++ A P L+
Sbjct: 289 QLEAAPPPQLQ 299
>gi|318040646|ref|ZP_07972602.1| pseudouridine synthase [Synechococcus sp. CB0101]
Length = 349
Score = 156 bits (395), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 120/340 (35%), Positives = 172/340 (50%), Gaps = 50/340 (14%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
+++ FY+ ++ +S W +R+ G++ +G+ + + LSAG LV+HR PW EP V
Sbjct: 32 SVVAFYAGRYTHSD-RALWSERLAAGEVWRNGQPLLA-DAPLSAGDRLVWHRPPWLEPAV 89
Query: 62 PYLLE--VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
P L E V+++D DL+ LNKPSGL VLP G F + T+L QLQ A
Sbjct: 90 PVLNEASVVFDDGDLLVLNKPSGLPVLPAGGFLEHTLLAQLQ-----------GWAPEAR 138
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADST-----VMELSQRKITKIYR 174
PVHRLGR TSG+L+CA+ ++ ++ + T+ E KIYR
Sbjct: 139 PVHRLGRFTSGLLVCARRAESRAWLSAQLRESTAAAQPHGDQEYFGAEEHPHSGCLKIYR 198
Query: 175 ALVHGIVDEDKV----IIKQPIGIVRYPGVAKGLYVASPSGKPAL---SKVDVLERDVQR 227
AL + + +V + IG +P + + A S + AL S +LER +
Sbjct: 199 ALTQPLPADWQVGESRDVTTAIGRRPHPLLGEIWCAADVSPRAALPSRSCFTLLERRPE- 257
Query: 228 NCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYER 287
+C LV+V I +GRPHQIRIH A +G PL GDPLY AGG+ AD
Sbjct: 258 SC-LVEVAIATGRPHQIRIHAAAIGAPLEGDPLYRAGGR--------ADPQV-------- 300
Query: 288 PVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
+PGD GY LHA + F+ P + + AP P L+
Sbjct: 301 ----LPGDGGYLLHACR-FVLRPPARAPLHLEAPPPLPLR 335
>gi|116073981|ref|ZP_01471243.1| probable pseudouridine synthase [Synechococcus sp. RS9916]
gi|116069286|gb|EAU75038.1| probable pseudouridine synthase [Synechococcus sp. RS9916]
Length = 333
Score = 155 bits (391), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 104/329 (31%), Positives = 170/329 (51%), Gaps = 55/329 (16%)
Query: 13 NSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDD 72
N + + W QR+++G++ DG ++ ++++ G + +HR PW E VP + +++D
Sbjct: 45 NHSSAEQWKQRLESGELRRDGHLLQV-DVMVERGERISWHRPPWLEAAVPDQWQTIHDDG 103
Query: 73 DLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGIL 132
DL+ +NKPSGL V+PGG F T+ L+ R+ ++ SL+ P PVHRLGR TSG+
Sbjct: 104 DLLVINKPSGLPVMPGGGFLLHTLTALLEQRSRERGESLA-----PKPVHRLGRFTSGLQ 158
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKV-----I 187
+CA+ + ++ +F + RK+ + + V G+ E V +
Sbjct: 159 VCARRPETRAALSAHFRPQGGC------------RKLYQAWSQRVEGLDLEASVEVCTDV 206
Query: 188 IKQPIGIVRY------PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
+++P ++ + P A+G + A S++ +L+R Q + +QV I +GRP
Sbjct: 207 VERPHPLLGWVWGPEPPDDARGDATPVRRRRNAHSELTLLQRGEQGD--RLQVAITTGRP 264
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNP--VPGDCGYY 299
HQIRIHLA LG PLLGDPLY+ G R + P PGD GY+
Sbjct: 265 HQIRIHLAQLGSPLLGDPLYLRG----------------------RRLAPSATPGDGGYW 302
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLKT 328
LHA++L ++ + + APLP+ T
Sbjct: 303 LHAWRLEKLPSRGSDGLALEAPLPAAFLT 331
>gi|427704069|ref|YP_007047291.1| 23S RNA-specific pseudouridylate synthase [Cyanobium gracile PCC
6307]
gi|427347237|gb|AFY29950.1| 23S RNA-specific pseudouridylate synthase [Cyanobium gracile PCC
6307]
Length = 352
Score = 152 bits (383), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 110/338 (32%), Positives = 171/338 (50%), Gaps = 49/338 (14%)
Query: 1 LTLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L ++ FY+ ++ +++ W +R+ G+I+ +G V + IL+ LV+ R PW EP
Sbjct: 41 LGVVAFYAGRYGHTSATV-WERRLAAGEISRNG-VPLRADAILAGADRLVWQRPPWPEPA 98
Query: 61 VPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
VP V+++D DL+ ++KPSGL VLP G F + TVL L+ R + P P
Sbjct: 99 VPAHWGVIHDDGDLLVIDKPSGLPVLPAGGFLEHTVLRLLERRHGGDPGGV------PRP 152
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRK---------ITK 171
VHRLGR TSG+L+CA+ ++ ++ + T + ++ K
Sbjct: 153 VHRLGRFTSGLLVCARRPASRAWLSAQLRESTGSLANGASGGVGGGVGGGVGGGAPPCRK 212
Query: 172 IYRALV----HGIVDEDKVIIKQPIGIVRYPGVAKGLYVAS----PSGKPALSKVDVLER 223
+YRAL+ + D + I IG +P + + ++ A+ P PA S++ +L +
Sbjct: 213 LYRALLVPGRLALATGDSLAITTAIGRRPHPPLGE-IWCAAEAGDPGALPARSQLTLLAK 271
Query: 224 DVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDG 283
+ + LV+V I SGRPHQIRIH A +G PL GDPLYV GG+ A+ G
Sbjct: 272 GSEAD--LVEVAIVSGRPHQIRIHCAAIGAPLRGDPLYVPGGR-------------ARPG 316
Query: 284 GYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
G +PG+ GY L A L L P +++ AP
Sbjct: 317 G-------LPGEGGYRLQARWLRL-QPPEGLALELEAP 346
>gi|113955599|ref|YP_731829.1| pseudouridine synthase [Synechococcus sp. CC9311]
gi|113882950|gb|ABI47908.1| Pseudouridine synthase [Synechococcus sp. CC9311]
Length = 327
Score = 146 bits (369), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 112/334 (33%), Positives = 175/334 (52%), Gaps = 47/334 (14%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP 62
L + +H++S P W QR+ +G+IT++G +D ++ + AG + + R PW E VP
Sbjct: 31 LSAVLALRHRHSCPAT-WQQRLASGEITLNGLACSD-DVEVKAGDWIRWARPPWVEAAVP 88
Query: 63 YLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVH 122
LEV+++D D++ +NKPSGL V+PGG F T+ + L+ +SS + P P+H
Sbjct: 89 DQLEVIHDDGDVLVVNKPSGLPVMPGGGFLVHTLTSLLE-----RSSRSVGEVLVPKPIH 143
Query: 123 RLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG--- 179
RLGR TSG+ +CA+ + ++ F + D T + L+ R +L G
Sbjct: 144 RLGRFTSGLQVCARRPETRAALSKQFRPEG---DCRKTYLGLTHR-----LESLQQGQTL 195
Query: 180 IVDEDKVIIKQP-IGIVRYPGVAKGLYVASPSGK--PALSKVDVLERDVQRNCTLVQVEI 236
++ D V + P +G V P + P + A S+V + ER + + L++V+I
Sbjct: 196 VIQTDVVERQHPLLGWVWGPEPS----TPEPLRRRLSAHSEVQLRERGERED--LLEVQI 249
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDC 296
+GRPHQIRIHLA LG PLLGDPLY +S A T PGD
Sbjct: 250 HTGRPHQIRIHLAQLGFPLLGDPLY------QSDQGLCATAT--------------PGDG 289
Query: 297 GYYLHAYQLFLSHPTTNEVIKITAPLPSVLKTRE 330
GY+LHA++L T++ + + A P +L+ R+
Sbjct: 290 GYHLHAWRLEGLCWPTSKWLSLKAQPPKLLRDRD 323
>gi|291533845|emb|CBL06958.1| ribosomal large subunit pseudouridine synthase D [Megamonas
hypermegale ART12/1]
Length = 304
Score = 145 bits (367), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 104/317 (32%), Positives = 154/317 (48%), Gaps = 51/317 (16%)
Query: 16 PLQGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP---YLLEVLYED 71
P + +Q+ I +G ITV+ +V N L A ++ P E +V L++LYED
Sbjct: 26 PSRASIQKMITDGAITVNNQV-KRANYKLKANDQITMVFEPPTEIEVKPENIPLDILYED 84
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
+D+I +NK G+ V P T++N L + + S ++ + P VHRL + TSG+
Sbjct: 85 NDIIVINKARGMVVHPAAGVYSGTLVNALLYHCHDELSGINGKIR-PGIVHRLDKDTSGV 143
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AK A +A KT++ K Y ALVHG + E+K II
Sbjct: 144 MVVAKNDFAHNDLALQIGSKTAI----------------KEYVALVHGNITEEKGIINGN 187
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+P K + V + GKPA + VLER +NCT VQ + +GR HQIR+H+A++
Sbjct: 188 IG--RHPIDRKKMAVVTNGGKPATTVFHVLER--YKNCTFVQCRLLTGRTHQIRVHMAYI 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPL+GDP Y F+ E G LH+ L + HP
Sbjct: 244 GHPLIGDPKYC--NSKNKFNIE-----------------------GQALHSLNLKIIHPR 278
Query: 312 TNEVIKITAPLPSVLKT 328
T E + TAP+P ++
Sbjct: 279 TKEEMTFTAPIPEDMEN 295
>gi|239623975|ref|ZP_04667006.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA]
gi|239522006|gb|EEQ61872.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA]
Length = 314
Score = 144 bits (362), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 98/314 (31%), Positives = 158/314 (50%), Gaps = 50/314 (15%)
Query: 18 QGWLQRI-QNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+ ++Q++ ++GQ+ V+GR++ + +++A + EP++ P L++LYED D
Sbjct: 40 RSYIQKLLKSGQVLVNGRLIK-ASYVVTADDHIEVDVPEAVEPEIEAEPMDLDILYEDQD 98
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
+I +NKP G+ V P T++N L + Q S ++ P VHR+ T+G+L+
Sbjct: 99 IILVNKPKGMVVHPAAGHYSHTLVNGLMYHCKNQLSGING-VMRPGIVHRIDMDTTGVLI 157
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
K +A IA +L + IT+ Y+A+VHG++ ED+ + PIG
Sbjct: 158 VCKNDMAHNSIAA----------------QLKEHSITRRYQAIVHGVIKEDEGTVDAPIG 201
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+ K + + +G+ A++ VL R Q T V+ +++GR HQIR+H+A L H
Sbjct: 202 --RHQTERKKMCINYNNGRNAVTHYQVLRRFEQY--TYVECRLETGRTHQIRVHMASLHH 257
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PLLGD +Y G K PVPG G LHA L + HP T
Sbjct: 258 PLLGDKVY---GPAKC---------------------PVPGLTGQTLHAGVLGIVHPRTG 293
Query: 314 EVIKITAPLPSVLK 327
E ++ TAPLP +
Sbjct: 294 EYMEFTAPLPEYFE 307
>gi|357055398|ref|ZP_09116466.1| hypothetical protein HMPREF9467_03438 [Clostridium clostridioforme
2_1_49FAA]
gi|355382517|gb|EHG29614.1| hypothetical protein HMPREF9467_03438 [Clostridium clostridioforme
2_1_49FAA]
Length = 303
Score = 142 bits (359), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 102/337 (30%), Positives = 162/337 (48%), Gaps = 64/337 (18%)
Query: 5 EFYSTKHKNSAPLQGWLQR-------------IQNGQITVDGRVVNDPNIILSAGSELVY 51
EFY T ++ + +L +++GQ+ V+G+ V I++ + +
Sbjct: 4 EFYPTDMEDHVRIDKYLAEACPDLSRSYIQKLLKSGQVLVNGQGVKASYIVVE--EDRIE 61
Query: 52 HRLPWK-EPDV---PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQ 107
+P EP++ P L++LYED D+I +NKP G+ V P T++N L + Q
Sbjct: 62 LEVPEAVEPEIDAEPMDLDILYEDQDVILINKPKGMVVHPAAGHYSHTLVNGLMYHCRDQ 121
Query: 108 SSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQR 167
S +S P VHR+ T+G+++ K +A + IA +L +
Sbjct: 122 LSGISG-VIRPGIVHRIDMDTTGVIIACKNDMAHSSIAA----------------QLKEH 164
Query: 168 KITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQR 227
IT+ Y+A+VHG++ ED+ + PIG R+P K + + +GK A++ VL R R
Sbjct: 165 SITRRYQAIVHGVIAEDEGTVDAPIG--RHPVERKKMSINYQNGKDAVTHYRVLNR--FR 220
Query: 228 NCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYER 287
T V+ +++GR HQIR+H+A + HPLLGD +Y G +
Sbjct: 221 QYTHVECRLETGRTHQIRVHMASIRHPLLGDAVY---GPARC------------------ 259
Query: 288 PVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
P+ G CG LHA L HP T E ++ TAPLP
Sbjct: 260 ---PISGLCGQTLHAGVLGFIHPRTGEYMEFTAPLPE 293
>gi|344205220|ref|YP_004790362.1| RluA family pseudouridine synthase protein [Mycoplasma putrefaciens
KS1]
gi|343957143|gb|AEM68858.1| pseudouridine synthase, RluA family protein [Mycoplasma
putrefaciens KS1]
Length = 308
Score = 142 bits (359), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 96/310 (30%), Positives = 157/310 (50%), Gaps = 51/310 (16%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+ ++Q+ I+ + VD ++V+ N I+ S+++ + + D+ L+++Y+DDD
Sbjct: 30 RSYIQKLIKEKNVIVDDQIVDANNFIVKTNSKIIINIADAQVTDIIAQKIDLDIVYQDDD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
L+ +NK + + V PG +T++N L K SS + P VHR+ + T+G+L+
Sbjct: 90 LLVINKQNNIVVHPGAGNFDKTIVNALLGNNIKLSSI--NGTLRPGIVHRIDKQTTGLLI 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AKT LA + A+ +I K Y ALV G++ E+K +I PIG
Sbjct: 148 VAKTDLAHKRLTEMLAN----------------HQIYKEYYALVWGVIAENKAVINAPIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
+Y K + V S + K A + +V+ER +N TLV+ +I++GR HQIR+H F+ H
Sbjct: 192 RDQYD--RKKMAVTSKNSKIAKTNFEVIER--FKNATLVKCDIETGRTHQIRVHFNFIKH 247
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
P+L DP+Y G+ + F G YLHA +L HP TN
Sbjct: 248 PILNDPVY---GRLSESQTAF----------------------GQYLHASKLKFQHPITN 282
Query: 314 EVIKITAPLP 323
+ I++ A LP
Sbjct: 283 QTIELIADLP 292
>gi|296133340|ref|YP_003640587.1| RluA family pseudouridine synthase [Thermincola potens JR]
gi|296031918|gb|ADG82686.1| pseudouridine synthase, RluA family [Thermincola potens JR]
Length = 321
Score = 142 bits (358), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 107/316 (33%), Positives = 155/316 (49%), Gaps = 54/316 (17%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE----PDVPYLLEVLYEDD 72
+ ++Q+ I +G ITV+G V N L AG ELV +P+ E P LE+LYED
Sbjct: 48 RSFIQKLIGDGYITVNGTRVK-ANYKLKAG-ELVRVEIPYTEELEVSAEPIPLEILYEDR 105
Query: 73 DLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGIL 132
D+I +NKP G+ V P T++N L W S + P VHRL + TSG++
Sbjct: 106 DVIVINKPQGMVVHPAPGNYSGTLVNALLWHCKDLSGI--NGVMRPGIVHRLDKDTSGVI 163
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPI 192
+ AK +A D+T +T+ Y AL+HG++ E II+ PI
Sbjct: 164 MAAKNDETHASLAKQIKDRT----------------VTRRYLALIHGVIPEPAGIIEAPI 207
Query: 193 GIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
G R P K + V + + KPA++ VLER T V+ ++++GR HQIR+H+A+L
Sbjct: 208 G--RDPKDRKKMAVTTKNSKPAVTHYKVLER--FNKYTFVECKLETGRTHQIRVHMAYLK 263
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
+P++GDP+Y G K +EF G G LHA+ L HP T
Sbjct: 264 YPVVGDPVY---GPAK---NEF-------------------GQTGQLLHAHILGFHHPRT 298
Query: 313 NEVIKITAPLPSVLKT 328
E ++ APLP
Sbjct: 299 GEYLEFKAPLPEYFNN 314
>gi|375084575|ref|ZP_09731438.1| RluA family pseudouridine synthase [Megamonas funiformis YIT 11815]
gi|374568023|gb|EHR39218.1| RluA family pseudouridine synthase [Megamonas funiformis YIT 11815]
Length = 304
Score = 142 bits (358), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 102/312 (32%), Positives = 150/312 (48%), Gaps = 51/312 (16%)
Query: 16 PLQGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP---YLLEVLYED 71
P + +Q+ I +G ITV+ V N L A ++ P E +V L++LYED
Sbjct: 26 PSRASIQKMITDGAITVNNEV-KRANYKLKANDQITMVFEPPTEIEVKPENIPLDILYED 84
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
+D+I +NK G+ V P T++N L + + S ++ + P VHRL + TSG+
Sbjct: 85 NDIIVINKARGMVVHPAAGVYSGTLVNALLYHCHDELSGINGKIR-PGIVHRLDKDTSGV 143
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AK A +A KT++ K Y ALVHG + E+K II
Sbjct: 144 MVVAKNDFAHNDLALQIGSKTAI----------------KEYVALVHGNITEEKGIINGN 187
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+P K + V + GKPA + VLER +NCT +Q + +GR HQIR+H+A++
Sbjct: 188 IG--RHPIDRKKMAVVTNGGKPATTVFHVLER--YKNCTFIQCRLLTGRTHQIRVHMAYI 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPL+GD Y F+ E G LH+ L + HP
Sbjct: 244 GHPLIGDSKYC--NSKNKFNIE-----------------------GQALHSLNLKIIHPR 278
Query: 312 TNEVIKITAPLP 323
T E + TAP+P
Sbjct: 279 TKEEMTFTAPIP 290
>gi|108707581|gb|ABF95376.1| pseudouridine synthase family protein, putative, expressed [Oryza
sativa Japonica Group]
gi|215694528|dbj|BAG89521.1| unnamed protein product [Oryza sativa Japonica Group]
Length = 133
Score = 142 bits (357), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 76/129 (58%), Positives = 88/129 (68%), Gaps = 15/129 (11%)
Query: 41 IILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQL 100
+IL GS+LVYHRLPW+EP P+LL+VLYEDDD+IALNKPSGLQVLP GLFQQRTVL QL
Sbjct: 1 MILREGSKLVYHRLPWQEPFAPHLLDVLYEDDDMIALNKPSGLQVLPKGLFQQRTVLAQL 60
Query: 101 QWRASKQSSSLSSQ----ASHPVPVHRLGRGTSGILLC-----------AKTKLAKTCIA 145
Q + K SS S+ SHPVPVHRLGRGTSG+ LC T+L+ +
Sbjct: 61 QLKDWKMPSSFCSKRKDAQSHPVPVHRLGRGTSGLFLCFCSVHAQKPWSIDTQLSSSGCK 120
Query: 146 GYFADKTSV 154
F D SV
Sbjct: 121 FLFTDHQSV 129
>gi|387783586|ref|YP_006069669.1| pseudouridine synthase [Streptococcus salivarius JIM8777]
gi|338744468|emb|CCB94834.1| pseudouridine synthase [Streptococcus salivarius JIM8777]
Length = 296
Score = 141 bits (355), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 100/283 (35%), Positives = 148/283 (52%), Gaps = 52/283 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L +K D+P L+++YED D+ +NKP G+ V P T++N L + K SS++
Sbjct: 65 LEYKAEDIP--LDIIYEDADVAVVNKPQGMVVHPSAGHTSGTLVNALMYHV-KDLSSING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AK A +A DK S+ RK Y
Sbjct: 122 -VVRPGIVHRIDKDTSGLLMIAKNDKAHNALAAELKDKKSL------------RK----Y 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ +I+ PIG R K V + GKPA+++ VLER N TLV+
Sbjct: 165 VAIVHGNLPNDRGVIEAPIG--RSDKDRKKQAVTA-KGKPAVTRFTVLER--FGNYTLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+++++GR HQIR+H+A++GHP+ GDPLY G K+
Sbjct: 220 LQLETGRTHQIRVHMAYIGHPVAGDPLY---GPRKTLKGH-------------------- 256
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK-TREEGREV 335
G +LHA L +HPTT E+++ TA P++ K T E+ REV
Sbjct: 257 ---GQFLHAKTLGFTHPTTGELVEFTAEEPAIFKETLEKLREV 296
>gi|387761789|ref|YP_006068766.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
salivarius 57.I]
gi|339292556|gb|AEJ53903.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
salivarius 57.I]
Length = 296
Score = 141 bits (355), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 103/319 (32%), Positives = 158/319 (49%), Gaps = 58/319 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
+ I+ G + V+G+ + G + Y L +K D+P L+++YED D+
Sbjct: 29 EAIKAGTVLVNGKSAK-AKYAVKEGDVITYELPEEEVLEYKAEDIP--LDIIYEDADVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHV-KDLSSING-VVRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG
Sbjct: 144 NDKAHNALAAELKDKKSL------------RK----YVAIVHGNLPNDRGVIEAPIG--- 184
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
+ + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSAKDRKKQAVTAKGKPAVTRFTVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDPLY G K+ G +LHA L +HPTT E++
Sbjct: 243 GDPLY---GPRKTLKG-----------------------PGQFLHAKTLGFTHPTTGELV 276
Query: 317 KITAPLPSVLK-TREEGRE 334
K TA P++ K T E+ RE
Sbjct: 277 KFTAEEPAIFKETLEKLRE 295
>gi|160938833|ref|ZP_02086184.1| hypothetical protein CLOBOL_03727 [Clostridium bolteae ATCC
BAA-613]
gi|158437796|gb|EDP15556.1| hypothetical protein CLOBOL_03727 [Clostridium bolteae ATCC
BAA-613]
Length = 294
Score = 141 bits (355), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 96/315 (30%), Positives = 159/315 (50%), Gaps = 52/315 (16%)
Query: 18 QGWLQRI-QNGQITVDGRVVNDPNIILSAGSELVYHRLPWK-EPDV---PYLLEVLYEDD 72
+ ++Q++ ++GQ+ V+G+ + I++ + + +P EP++ P L++LYED
Sbjct: 20 RSYIQKLLKSGQVLVNGQGIKASYIVVE--DDRIELEVPEAVEPEIDAEPMDLDILYEDQ 77
Query: 73 DLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGIL 132
DLI +NKP G+ V P T++N L + Q S ++ P VHR+ T+G++
Sbjct: 78 DLILINKPKGMVVHPAAGHYSHTLVNGLMYHCKDQLSGING-VMRPGIVHRIDMDTTGVI 136
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPI 192
+ K +A + IA +L + IT+ Y+A+VHG++ ED+ + PI
Sbjct: 137 IACKNDMAHSSIAA----------------QLKEHSITRRYQAIVHGVIAEDEGTVDAPI 180
Query: 193 GIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
G R+P K + + +GK A++ VL R R T V+ +++GR HQIR+H+A +
Sbjct: 181 G--RHPVERKKMSINYQNGKNAVTHYRVLNR--FRQYTHVECRLETGRTHQIRVHMASIR 236
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
HPLLGD +Y G + P+ G CG LHA L HP T
Sbjct: 237 HPLLGDAVY---GPARC---------------------PISGLCGQTLHAGILGFIHPRT 272
Query: 313 NEVIKITAPLPSVLK 327
E ++ +APLP +
Sbjct: 273 GEYMEFSAPLPDYFE 287
>gi|291536189|emb|CBL09301.1| ribosomal large subunit pseudouridine synthase D [Roseburia
intestinalis M50/1]
Length = 310
Score = 140 bits (354), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 99/328 (30%), Positives = 163/328 (49%), Gaps = 57/328 (17%)
Query: 6 FYSTKHKNSAPLQGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLP--WKEP--- 59
F +K ++AP + + Q+ I++G + V+ + N L +LV +P + P
Sbjct: 25 FEQSKTSSNAPSRSFFQKLIRDGHVKVNDSIAK-ANYRLRM-DDLVCVEIPDAVETPILP 82
Query: 60 -DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
D+P L++LYEDDDL+ +NKP G+ V P T++N + + S ++ + P
Sbjct: 83 EDIP--LDILYEDDDLLVVNKPKGMVVHPSAGHYSGTLVNAIMFHCKDSLSGINGEIR-P 139
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHR+ T+G L+ K + IA ++ + + + YR +V+
Sbjct: 140 GIVHRIDMDTTGSLIVCKNDESHVKIAE----------------QIKEHSVNRRYRGIVY 183
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G+V +D+ I PIG R+P K + + +GKPA++ VLER N T ++ ++++
Sbjct: 184 GVVKDDEGTINAPIG--RHPTNRKKMAINKKNGKPAITHYKVLER--FSNYTYMEFKLET 239
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+A +GHPLLGD +Y +G P F ++ G
Sbjct: 240 GRTHQIRVHMASIGHPLLGDTVYSSGKSP--FKTQ-----------------------GQ 274
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVL 326
LHA + HP TNE ++I+APLP
Sbjct: 275 TLHAMTIGFIHPHTNEYMEISAPLPEYF 302
>gi|240146315|ref|ZP_04744916.1| ribosomal large subunit pseudouridine synthase D [Roseburia
intestinalis L1-82]
gi|257201556|gb|EEU99840.1| ribosomal large subunit pseudouridine synthase D [Roseburia
intestinalis L1-82]
Length = 310
Score = 140 bits (354), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 99/328 (30%), Positives = 163/328 (49%), Gaps = 57/328 (17%)
Query: 6 FYSTKHKNSAPLQGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLP--WKEP--- 59
F +K ++AP + + Q+ I++G + V+ + N L +LV +P + P
Sbjct: 25 FEQSKTSSNAPSRSFFQKLIRDGHVKVNDSIAK-ANYRLRM-DDLVCVEIPDAVETPILP 82
Query: 60 -DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
D+P L++LYEDDDL+ +NKP G+ V P T++N + + S ++ + P
Sbjct: 83 EDIP--LDILYEDDDLLVVNKPKGMVVHPSAGHYSGTLVNAIMFHCKDSLSGINGEIR-P 139
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHR+ T+G L+ K + IA ++ + + + YR +V+
Sbjct: 140 GIVHRIDMDTTGSLIVCKNDESHIKIAE----------------QIKEHSVNRRYRGIVY 183
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G+V +D+ I PIG R+P K + + +GKPA++ VLER N T ++ ++++
Sbjct: 184 GVVKDDEGTINAPIG--RHPTNRKKMAINEKNGKPAITHYKVLER--FSNYTYMEFKLET 239
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+A +GHPLLGD +Y +G P F ++ G
Sbjct: 240 GRTHQIRVHMASIGHPLLGDTVYSSGKSP--FKTQ-----------------------GQ 274
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVL 326
LHA + HP TNE ++I+APLP
Sbjct: 275 TLHAMTIGFIHPHTNEYMEISAPLPEYF 302
>gi|414866266|tpg|DAA44823.1| TPA: hypothetical protein ZEAMMB73_153874, partial [Zea mays]
Length = 115
Score = 140 bits (354), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 66/95 (69%), Positives = 80/95 (84%)
Query: 166 QRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDV 225
+RKI+K YRALV GI+D+D+V++ QPIG+V YPGVA+GLY A SGKPA+SKV VLER
Sbjct: 20 ERKISKFYRALVTGILDDDEVVVTQPIGLVHYPGVAEGLYAACSSGKPAMSKVCVLERLA 79
Query: 226 QRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPL 260
+N TLVQVEI SGRPHQIRIHLA++GHPL+G L
Sbjct: 80 HQNHTLVQVEIHSGRPHQIRIHLAYIGHPLVGKSL 114
>gi|418018315|ref|ZP_12657871.1| pseudouridine synthase [Streptococcus salivarius M18]
gi|345527164|gb|EGX30475.1| pseudouridine synthase [Streptococcus salivarius M18]
Length = 296
Score = 140 bits (352), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 99/282 (35%), Positives = 147/282 (52%), Gaps = 52/282 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L +K D+P L+++YED D+ +NKP G+ V P T++N L + K SS++
Sbjct: 65 LEYKAEDIP--LDIIYEDADVAVVNKPQGMVVHPSAGHTSGTLVNALMYHV-KDLSSING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AK A +A DK S+ RK Y
Sbjct: 122 -VVRPGIVHRIDKDTSGLLMIAKNDKAHNALAAELKDKKSL------------RK----Y 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ +I+ PIG R K V + GKPA+++ VLER N TLV+
Sbjct: 165 VAIVHGNLPNDRGVIEAPIG--RSDKDRKKQAVTA-KGKPAVTRFTVLER--FGNYTLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+++++GR HQIR+H+A++GHP+ GDPLY G K+
Sbjct: 220 LQLETGRTHQIRVHMAYIGHPVAGDPLY---GPRKTLKGH-------------------- 256
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK-TREEGRE 334
G +LHA L +HPTT E+++ TA P++ K T E+ RE
Sbjct: 257 ---GQFLHAKTLGFTHPTTGELVEFTAEEPTIFKETLEKLRE 295
>gi|228478264|ref|ZP_04062872.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
salivarius SK126]
gi|340399333|ref|YP_004728358.1| pseudouridine synthase [Streptococcus salivarius CCHSS3]
gi|421451886|ref|ZP_15901247.1| Ribosomal large subunit pseudouridine synthase D [Streptococcus
salivarius K12]
gi|228249943|gb|EEK09213.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
salivarius SK126]
gi|338743326|emb|CCB93834.1| pseudouridine synthase [Streptococcus salivarius CCHSS3]
gi|400182317|gb|EJO16579.1| Ribosomal large subunit pseudouridine synthase D [Streptococcus
salivarius K12]
Length = 296
Score = 140 bits (352), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 105/319 (32%), Positives = 160/319 (50%), Gaps = 58/319 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
+ I+ G + V+G+ + G + Y L +K D+P L+++YED D+
Sbjct: 29 EAIKAGTVLVNGKSAK-AKYAVKEGDVITYELPEEEVLEYKAEDIP--LDIIYEDADVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHV-KDLSSING-VVRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDKAHNALAAELKDKKSL------------RK----YVAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SDKDRKKQAVTA-KGKPAVTRFTVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDPLY G K+ G +LHA L +HPTT E++
Sbjct: 243 GDPLY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPTTGELV 276
Query: 317 KITAPLPSVLK-TREEGRE 334
+ TA P++ K T E+ RE
Sbjct: 277 EFTAEEPAIFKETLEKLRE 295
>gi|312864274|ref|ZP_07724508.1| pseudouridine synthase, RluA family [Streptococcus vestibularis
F0396]
gi|322517241|ref|ZP_08070120.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
vestibularis ATCC 49124]
gi|311100275|gb|EFQ58484.1| pseudouridine synthase, RluA family [Streptococcus vestibularis
F0396]
gi|322124147|gb|EFX95681.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
vestibularis ATCC 49124]
Length = 296
Score = 140 bits (352), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 99/282 (35%), Positives = 147/282 (52%), Gaps = 52/282 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L +K D+P L+++YED D+ +NKP G+ V P T++N L + K SS++
Sbjct: 65 LEYKAEDIP--LDIIYEDADVAVVNKPQGMVVHPSAGHTSGTLVNALMYHV-KDLSSING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AK A +A DK S+ RK Y
Sbjct: 122 -VVRPGIVHRIDKDTSGLLMIAKNDKAHNALAAELKDKKSL------------RK----Y 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ +I+ PIG R K V + GKPA+++ VLER N TLV+
Sbjct: 165 VAIVHGNLPNDRGVIEAPIG--RSDKDRKKQAVTA-KGKPAVTRFTVLER--FGNYTLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+++++GR HQIR+H+A++GHP+ GDPLY G K+
Sbjct: 220 LQLETGRTHQIRVHMAYIGHPVAGDPLY---GPRKTLKGH-------------------- 256
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVL-KTREEGRE 334
G +LHA L +HPTT E+++ TA P++ KT E+ RE
Sbjct: 257 ---GQFLHAKTLGFTHPTTGELVEFTAEEPAIFKKTLEKLRE 295
>gi|255659722|ref|ZP_05405131.1| ribosomal large subunit pseudouridine synthase D [Mitsuokella
multacida DSM 20544]
gi|260848296|gb|EEX68303.1| ribosomal large subunit pseudouridine synthase D [Mitsuokella
multacida DSM 20544]
Length = 308
Score = 139 bits (351), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 108/307 (35%), Positives = 152/307 (49%), Gaps = 56/307 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I GQ V GRV N L AG ++ +H LP +P D+P L++LYED D+I +
Sbjct: 37 IAEGQALVSGRV-RKANYKLQAGEKVTFH-LPEAKPVEILPEDIP--LDILYEDSDIIVI 92
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK G+ V P T++N L + K S ++ + P VHRL + TSG+++ AK
Sbjct: 93 NKARGMVVHPATGIYTGTLVNALLYHC-KDLSGINGEIR-PGIVHRLDKDTSGVMVAAKN 150
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A K + +IYRA+V G + E+ +IK IG R+
Sbjct: 151 DAAHLDLAEQIRTKAA----------------HRIYRAIVCGNIREEAGVIKGDIG--RH 192
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P K + + GKPA++ VLER TLV+ +++GR HQIR+H+A +GHP+LG
Sbjct: 193 PTDRKKMAIVHEHGKPAVTHFRVLER--FGAYTLVECRLETGRTHQIRVHMASIGHPVLG 250
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP Y G K+ FA G LH+ QL L+HP T EV+
Sbjct: 251 DPKY---GPRKAC-------PFAIK--------------GQALHSLQLTLTHPRTREVMT 286
Query: 318 ITAPLPS 324
TAPLP
Sbjct: 287 FTAPLPE 293
>gi|302389579|ref|YP_003825400.1| ribosomal large subunit pseudouridine synthase D
[Thermosediminibacter oceani DSM 16646]
gi|302200207|gb|ADL07777.1| ribosomal large subunit pseudouridine synthase D
[Thermosediminibacter oceani DSM 16646]
Length = 307
Score = 139 bits (350), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 96/313 (30%), Positives = 161/313 (51%), Gaps = 58/313 (18%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+ ++Q+ I+ G + V+ R+V P+ L G +++ +P +P ++P L++++E
Sbjct: 31 RSYIQKGIEEGWVKVNERIVK-PHYKLKKG-DVIVADIPSPKPLSLEPENIP--LDIIHE 86
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+I +NKP G+ V P T++N L + +K S ++ P VHRL + TSG
Sbjct: 87 DRDIIVVNKPRGMVVYPAPGNYSGTLVNALLYH-TKDLSGING-VMRPGIVHRLDKDTSG 144
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+++ AK +A +A M+ + + K Y A+V G + ED+ I+
Sbjct: 145 VIVVAKNDMAHRELA----------------MQFKNKLVKKTYLAVVWGNIPEDRATIEA 188
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R+P + V + +GK A++ VLER + T ++V I++GR HQIR+H++F
Sbjct: 189 PIG--RHPAKRVEMAVTAKNGKEAITHFKVLER--FEDFTFIEVNIETGRTHQIRVHMSF 244
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHP++GDPLY P + + G LHAY+L L+HP
Sbjct: 245 IGHPVVGDPLYSRKKSPFNIN-------------------------GQALHAYRLGLNHP 279
Query: 311 TTNEVIKITAPLP 323
T E + AP+P
Sbjct: 280 RTGEFMTFEAPIP 292
>gi|116627406|ref|YP_820025.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
thermophilus LMD-9]
gi|116100683|gb|ABJ65829.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
thermophilus LMD-9]
Length = 296
Score = 139 bits (350), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 101/311 (32%), Positives = 156/311 (50%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIA 76
+ I+ G + V+G++ ++ G + Y L +K D+P L+++YED D+
Sbjct: 29 EAIKAGTVLVNGKLAK-AKYVVKEGDVITYVLPEEEVLEYKAEDIP--LDIIYEDADVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGIVVHPSAGHTSGTLVNALMYHV-KDLSSING-VVRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDKAHNALAAELKDKKSL------------RK----YVAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SDKDRKKQAVTA-KGKPAVTRFTVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDPLY G K+ G +LHA L +HPTT E++
Sbjct: 243 GDPLY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPTTGELV 276
Query: 317 KITAPLPSVLK 327
+ TA P + K
Sbjct: 277 EFTAEEPIIFK 287
>gi|322372447|ref|ZP_08046983.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp.
C150]
gi|321277489|gb|EFX54558.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp.
C150]
Length = 297
Score = 139 bits (350), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 95/274 (34%), Positives = 142/274 (51%), Gaps = 51/274 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L +K D+P L+++YED D+ +NKP G+ V P T++N L + K SS++
Sbjct: 65 LEYKAEDIP--LDIIYEDADVAVVNKPQGMVVHPSAGHTSGTLVNALMYHV-KDLSSING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AK A +A DK S+ RK Y
Sbjct: 122 -VVRPGIVHRIDKDTSGLLMVAKNDKAHNALAAELKDKKSL------------RK----Y 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ +I+ PIG R K V + GKPA+++ VLER N TLV+
Sbjct: 165 VAIVHGNLPNDRGVIEAPIG--RSDKDRKKQAVTA-KGKPAVTRFTVLER--FGNYTLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+++++GR HQIR+H+A++GHP+ GDPLY G K+
Sbjct: 220 LQLETGRTHQIRVHMAYIGHPVAGDPLY---GPRKTLKGH-------------------- 256
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G +LHA L +HPTT E+++ TA P++ K
Sbjct: 257 ---GQFLHAKTLGFTHPTTGELVEFTAEEPAIFK 287
>gi|253577879|ref|ZP_04855151.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
gi|251850197|gb|EES78155.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
Length = 304
Score = 139 bits (350), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 100/316 (31%), Positives = 151/316 (47%), Gaps = 51/316 (16%)
Query: 13 NSAPLQGWLQRIQNGQ-ITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVL 68
N + ++Q++ Q ITV+G V N + G E+ KEPD+ L++L
Sbjct: 25 NEELSRSYIQKLLKEQKITVNGSAVK-ANYKVQEGDEISVAVPDIKEPDILPEDIPLDIL 83
Query: 69 YEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGT 128
YEDDD++ +NKP G+ V P T++N + + S ++ P VHR+ + T
Sbjct: 84 YEDDDVLIVNKPKGMVVHPSAGHTSGTLVNAIMFHCKDNLSGING-VLRPGIVHRIDKDT 142
Query: 129 SGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVII 188
+G LL K A +A +L + I + YRA+V G++ ED+ I
Sbjct: 143 TGALLVCKNDNAHRNLA----------------EQLKEHSIRRRYRAIVAGVLKEDEGTI 186
Query: 189 KQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHL 248
+ PIG R+P K + V +GK A++ VLER +N T V+ +++GR HQIR+H+
Sbjct: 187 EGPIG--RHPIDRKKMAVNYKNGKDAVTHYKVLER--FKNATYVECRLETGRTHQIRVHM 242
Query: 249 AFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
+GHPLLGD +Y +G P G LHA L
Sbjct: 243 TSIGHPLLGDEVYGSGKNPYHLQ-------------------------GQTLHAMILGFV 277
Query: 309 HPTTNEVIKITAPLPS 324
HP+T E ++ TAPLP
Sbjct: 278 HPSTGEYMEFTAPLPE 293
>gi|229545666|ref|ZP_04434391.1| pseudouridylate synthase [Enterococcus faecalis TX1322]
gi|307275817|ref|ZP_07556956.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX2134]
gi|307291840|ref|ZP_07571711.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0411]
gi|422685833|ref|ZP_16744046.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX4000]
gi|422720764|ref|ZP_16777373.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0017]
gi|422734158|ref|ZP_16790452.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1341]
gi|422739157|ref|ZP_16794340.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX2141]
gi|229309234|gb|EEN75221.1| pseudouridylate synthase [Enterococcus faecalis TX1322]
gi|306497106|gb|EFM66652.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0411]
gi|306507509|gb|EFM76640.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX2134]
gi|315029545|gb|EFT41477.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX4000]
gi|315032018|gb|EFT43950.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0017]
gi|315144961|gb|EFT88977.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX2141]
gi|315168880|gb|EFU12897.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1341]
Length = 310
Score = 139 bits (350), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 157/317 (49%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+Q WL+ +TV+G V N ++AG E+V +P E D+P L ++YE
Sbjct: 40 IQQWLKE---KHVTVNGETVR-ANYKVTAGDEIVV-TIPEPEALDMVAEDIP--LTIVYE 92
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+I +NKP G+ V P + T++N L A S+ + P VHR+ + TSG
Sbjct: 93 DNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHADHLSAI--NDVVRPGIVHRIDKDTSG 150
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A +KTS+ RK Y ALVHG++ DK I
Sbjct: 151 LLMVAKNDQAHESLAKQLKEKTSL------------RK----YVALVHGVIPHDKGEINA 194
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 195 PIGRSK---VDRKMQAVIEGGKEAVTHFTVLERF--DAFTLVELQLETGRTHQIRVHMKY 249
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDPLY P +PG+ G +LHA L +HP
Sbjct: 250 IGYPLAGDPLY-------------------------GPKKTLPGN-GQFLHAKLLGFTHP 283
Query: 311 TTNEVIKITAPLPSVLK 327
TT E + APLP V +
Sbjct: 284 TTGEQLVFEAPLPEVFE 300
>gi|419707197|ref|ZP_14234692.1| Pseudouridine synthase [Streptococcus salivarius PS4]
gi|383283078|gb|EIC81047.1| Pseudouridine synthase [Streptococcus salivarius PS4]
Length = 297
Score = 139 bits (349), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 95/274 (34%), Positives = 142/274 (51%), Gaps = 51/274 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L +K D+P L+++YED D+ +NKP G+ V P T++N L + K SS++
Sbjct: 65 LDYKAEDIP--LDIIYEDADVAVVNKPQGMVVHPSAGHTSGTLVNALMYHV-KDLSSING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AK A +A DK S+ RK Y
Sbjct: 122 -VVRPGIVHRIDKDTSGLLMVAKNDKAHNALAAELKDKKSL------------RK----Y 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ +I+ PIG R K V + GKPA+++ VLER N TLV+
Sbjct: 165 VAIVHGNLPNDRGVIEAPIG--RSDKDRKKQAVTA-KGKPAVTRFTVLER--FGNYTLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+++++GR HQIR+H+A++GHP+ GDPLY G K+
Sbjct: 220 LQLETGRTHQIRVHMAYIGHPVAGDPLY---GPRKTLKGH-------------------- 256
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G +LHA L +HPTT E+++ TA P++ K
Sbjct: 257 ---GQFLHAKTLGFTHPTTGELVEFTAEEPAIFK 287
>gi|257082401|ref|ZP_05576762.1| pseudouridylate synthase [Enterococcus faecalis E1Sol]
gi|256990431|gb|EEU77733.1| pseudouridylate synthase [Enterococcus faecalis E1Sol]
Length = 301
Score = 139 bits (349), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 157/317 (49%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYE 70
+Q WL+ +TV+G V N ++AG E+V +P E D+P L ++YE
Sbjct: 31 IQQWLKE---KHVTVNGETVR-ANYKVTAGDEIVV-TIPEPEVLDMVAEDIP--LTIVYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+I +NKP G+ V P + T++N L A S+ + P VHR+ + TSG
Sbjct: 84 DNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHADHLSAI--NDVVRPGIVHRIDKDTSG 141
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A +KTS+ RK Y ALVHG++ DK I
Sbjct: 142 LLMVAKNDQAHESLAKQLKEKTSL------------RK----YVALVHGVIPHDKGEINT 185
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 186 PIGRSK---VDRKMQAVIEGGKEAVTHFTVLER--FDAFTLVELQLETGRTHQIRVHMKY 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDPLY P +PG+ G +LHA L +HP
Sbjct: 241 IGYPLAGDPLY-------------------------GPKKTLPGN-GQFLHAKLLGFTHP 274
Query: 311 TTNEVIKITAPLPSVLK 327
TT E + APLP V +
Sbjct: 275 TTGEQLVFEAPLPEVFE 291
>gi|323702053|ref|ZP_08113721.1| pseudouridine synthase, RluA family [Desulfotomaculum nigrificans
DSM 574]
gi|333923444|ref|YP_004497024.1| RluA family pseudouridine synthase [Desulfotomaculum
carboxydivorans CO-1-SRB]
gi|323532935|gb|EGB22806.1| pseudouridine synthase, RluA family [Desulfotomaculum nigrificans
DSM 574]
gi|333749005|gb|AEF94112.1| pseudouridine synthase, RluA family [Desulfotomaculum
carboxydivorans CO-1-SRB]
Length = 307
Score = 139 bits (349), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 102/314 (32%), Positives = 153/314 (48%), Gaps = 52/314 (16%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+ ++QR I+ GQ+TV+ + N L G + P +E V P L++ YED+D
Sbjct: 30 RSYIQRLIEEGQVTVND-LPTKANYKLRVGDRVAVEVPPAEELQVVPEPIPLDIYYEDND 88
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
+I +NKP G+ V P T++N L + S + P VHRL + TSG+++
Sbjct: 89 VIVVNKPRGMVVHPAEGNTSGTLVNALLYHCRDLSGI--NGVLRPGIVHRLDKDTSGLIM 146
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK LA +A D+T +T+ YRALVH + E+ + PIG
Sbjct: 147 VAKNDLAHNSLAQQLKDRT----------------VTRRYRALVHNNIREEVGTVNAPIG 190
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R P + + V + KPA++ VLER Q TLV+ +++GR HQIR+H+A++GH
Sbjct: 191 --RDPRDRQRMAVVERNSKPAVTHYRVLERFGQ--YTLVECRLETGRTHQIRVHMAYIGH 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
P++GDP Y G FD + G LHA L HPTT
Sbjct: 247 PVVGDPKY--GPTKPHFDLD-----------------------GQLLHAGVLGFKHPTTG 281
Query: 314 EVIKITAPLPSVLK 327
+ ++ TAPLP + +
Sbjct: 282 QYLEFTAPLPDIFE 295
>gi|384128784|ref|YP_005511397.1| RluA family pseudouridine synthase [Hydrogenobacter thermophilus
TK-6]
gi|308751621|gb|ADO45104.1| pseudouridine synthase, RluA family [Hydrogenobacter thermophilus
TK-6]
Length = 326
Score = 139 bits (349), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 101/315 (32%), Positives = 167/315 (53%), Gaps = 51/315 (16%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+ ++Q+ I++G + VD + + P+ L AG ++ ++ +P EP D+P+ +V+YE
Sbjct: 38 RSYVQKLIEDGFVLVDDKEIKKPSRRLKAGQKITFY-IPQVEPLEVLPEDIPF--DVVYE 94
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D++ L KP GL V P + T++N L +R K+ S + + P VHRL + T+G
Sbjct: 95 DEDILVLIKPCGLVVHPSPGYSSGTLVNALLFRI-KELSGIGGK-ERPGIVHRLDKNTAG 152
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+++ AK+ A S V E QR++ K Y ALV G++ ED +++
Sbjct: 153 LMVVAKSDKAHR----------------SLVEEFMQRRVLKRYHALVSGLLREDSGTVEK 196
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
IG R+P V + + GKPA ++ +V++R + T + V I +GR HQIR+HL+F
Sbjct: 197 SIG--RHP-VDRKKFSVVEDGKPAKTEYEVIKRFEKHRITFLDVRIHTGRTHQIRVHLSF 253
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHP+LGD Y G + S D R + + G+C + L +YQL HP
Sbjct: 254 IGHPVLGDKTY--GFKTSSVD---------------RKILNLMGEC-HMLVSYQLGFYHP 295
Query: 311 TTNEVI--KITAPLP 323
T + + +I P P
Sbjct: 296 ITKKWMDFQIEDPKP 310
>gi|90961803|ref|YP_535719.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
salivarius UCC118]
gi|385840423|ref|YP_005863747.1| Pseudouridine synthase [Lactobacillus salivarius CECT 5713]
gi|90820997|gb|ABD99636.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
salivarius UCC118]
gi|300214544|gb|ADJ78960.1| Pseudouridine synthase [Lactobacillus salivarius CECT 5713]
Length = 298
Score = 139 bits (349), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 98/311 (31%), Positives = 154/311 (49%), Gaps = 58/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIA 76
+ I +G I V+G V N ++ G E+ + +L + ++P L+++YEDDD+I
Sbjct: 32 KMIDDGNIKVNGDV-KKANYKVNLGDEITFDKPEVKKLSLEPENIP--LDIVYEDDDVIV 88
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P + T++N L + + S + P VHR+ + TSG+L+ AK
Sbjct: 89 VNKPQGMVVHPSPGHFEHTLVNALLYHSP---LSTINGTYRPGIVHRIDKDTSGLLMVAK 145
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
+A +A DKT+ T+ Y ALVHG + ED I P+G +
Sbjct: 146 NDMAHQSLAKQLKDKTN----------------TREYVALVHGNIKEDSGTIDAPLGRSK 189
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
V + G+ A++ +VL+R + TLV+ +++GR HQIR+H+ ++GHPL+
Sbjct: 190 ---VDRKKQAVVKDGRNAVTHFEVLKR--YGDYTLVKCVLETGRTHQIRVHMKYIGHPLV 244
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD LY G K+ G+ G +LHA +L HP TNE +
Sbjct: 245 GDQLY---GPRKTL-----------------------GNSGQFLHAEKLGFVHPRTNEYL 278
Query: 317 KITAPLPSVLK 327
+ TAPLP K
Sbjct: 279 EFTAPLPENFK 289
>gi|227518911|ref|ZP_03948960.1| pseudouridylate synthase [Enterococcus faecalis TX0104]
gi|229549858|ref|ZP_04438583.1| pseudouridylate synthase [Enterococcus faecalis ATCC 29200]
gi|293383481|ref|ZP_06629394.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecalis R712]
gi|293388864|ref|ZP_06633350.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecalis S613]
gi|307269533|ref|ZP_07550872.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX4248]
gi|307277912|ref|ZP_07558996.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0860]
gi|307289260|ref|ZP_07569216.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0109]
gi|312901873|ref|ZP_07761138.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0470]
gi|312907690|ref|ZP_07766681.1| pseudouridine synthase, RluA family [Enterococcus faecalis DAPTO
512]
gi|312910308|ref|ZP_07769155.1| pseudouridine synthase, RluA family [Enterococcus faecalis DAPTO
516]
gi|312951652|ref|ZP_07770547.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0102]
gi|384513397|ref|YP_005708490.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecalis OG1RF]
gi|422692868|ref|ZP_16750883.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0031]
gi|422699060|ref|ZP_16756933.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1346]
gi|422701912|ref|ZP_16759752.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1342]
gi|422704628|ref|ZP_16762438.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1302]
gi|422706513|ref|ZP_16764211.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0043]
gi|422714465|ref|ZP_16771191.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0309A]
gi|422715722|ref|ZP_16772438.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0309B]
gi|422727205|ref|ZP_16783648.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0312]
gi|422731593|ref|ZP_16787951.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0645]
gi|422869198|ref|ZP_16915718.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1467]
gi|424676609|ref|ZP_18113480.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV103]
gi|424681575|ref|ZP_18118362.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV116]
gi|424683765|ref|ZP_18120515.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV129]
gi|424686331|ref|ZP_18122999.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV25]
gi|424690397|ref|ZP_18126932.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV31]
gi|424695490|ref|ZP_18131873.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV37]
gi|424696771|ref|ZP_18133112.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV41]
gi|424699843|ref|ZP_18136054.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV62]
gi|424703143|ref|ZP_18139277.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV63]
gi|424707360|ref|ZP_18143344.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV65]
gi|424716980|ref|ZP_18146278.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV68]
gi|424720558|ref|ZP_18149659.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV72]
gi|424724107|ref|ZP_18153056.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV73]
gi|424733698|ref|ZP_18162253.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV81]
gi|424744003|ref|ZP_18172308.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV85]
gi|424750489|ref|ZP_18178553.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV93]
gi|227073600|gb|EEI11563.1| pseudouridylate synthase [Enterococcus faecalis TX0104]
gi|229305127|gb|EEN71123.1| pseudouridylate synthase [Enterococcus faecalis ATCC 29200]
gi|291079272|gb|EFE16636.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecalis R712]
gi|291081789|gb|EFE18752.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecalis S613]
gi|306499969|gb|EFM69330.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0109]
gi|306505309|gb|EFM74495.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0860]
gi|306514153|gb|EFM82729.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX4248]
gi|310626718|gb|EFQ10001.1| pseudouridine synthase, RluA family [Enterococcus faecalis DAPTO
512]
gi|310630369|gb|EFQ13652.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0102]
gi|311289581|gb|EFQ68137.1| pseudouridine synthase, RluA family [Enterococcus faecalis DAPTO
516]
gi|311291066|gb|EFQ69622.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0470]
gi|315152327|gb|EFT96343.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0031]
gi|315156128|gb|EFU00145.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0043]
gi|315158230|gb|EFU02247.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0312]
gi|315162361|gb|EFU06378.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0645]
gi|315163874|gb|EFU07891.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1302]
gi|315169613|gb|EFU13630.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1342]
gi|315172438|gb|EFU16455.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1346]
gi|315576067|gb|EFU88258.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0309B]
gi|315580642|gb|EFU92833.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0309A]
gi|327535286|gb|AEA94120.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecalis OG1RF]
gi|329571882|gb|EGG53560.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1467]
gi|402350674|gb|EJU85572.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV116]
gi|402356621|gb|EJU91352.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV103]
gi|402364130|gb|EJU98573.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV129]
gi|402364240|gb|EJU98682.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV31]
gi|402367865|gb|EJV02202.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV25]
gi|402368185|gb|EJV02505.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV37]
gi|402375342|gb|EJV09329.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV62]
gi|402377100|gb|EJV11011.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV41]
gi|402384958|gb|EJV18499.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV65]
gi|402385148|gb|EJV18688.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV63]
gi|402386328|gb|EJV19834.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV68]
gi|402391311|gb|EJV24622.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV81]
gi|402393029|gb|EJV26259.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV72]
gi|402395918|gb|EJV28995.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV73]
gi|402399426|gb|EJV32298.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV85]
gi|402406788|gb|EJV39334.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV93]
Length = 310
Score = 139 bits (349), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 157/317 (49%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYE 70
+Q WL+ +TV+G V N ++AG E+V +P E D+P L ++YE
Sbjct: 40 IQQWLKE---KHVTVNGETVR-ANYKVTAGDEIVV-TIPEPEVLDMVAEDIP--LTIVYE 92
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+I +NKP G+ V P + T++N L A S+ + P VHR+ + TSG
Sbjct: 93 DNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHADHLSAI--NDVVRPGIVHRIDKDTSG 150
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A +KTS+ RK Y ALVHG++ DK I
Sbjct: 151 LLMVAKNDQAHESLAKQLKEKTSL------------RK----YVALVHGVIPHDKGEINA 194
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 195 PIGRSK---VDRKMQAVIEGGKEAVTHFTVLERF--DAFTLVELQLETGRTHQIRVHMKY 249
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDPLY P +PG+ G +LHA L +HP
Sbjct: 250 IGYPLAGDPLY-------------------------GPKKTLPGN-GQFLHAKLLGFTHP 283
Query: 311 TTNEVIKITAPLPSVLK 327
TT E + APLP V +
Sbjct: 284 TTGEQLVFEAPLPEVFE 300
>gi|256619215|ref|ZP_05476061.1| pseudouridylate synthase [Enterococcus faecalis ATCC 4200]
gi|256853277|ref|ZP_05558647.1| pseudouridylate synthase [Enterococcus faecalis T8]
gi|300860210|ref|ZP_07106297.1| pseudouridine synthase, RluA family [Enterococcus faecalis TUSoD
Ef11]
gi|428767158|ref|YP_007153269.1| pseudouridylate synthase, 23S rRNA-specific [Enterococcus faecalis
str. Symbioflor 1]
gi|256598742|gb|EEU17918.1| pseudouridylate synthase [Enterococcus faecalis ATCC 4200]
gi|256711736|gb|EEU26774.1| pseudouridylate synthase [Enterococcus faecalis T8]
gi|300849249|gb|EFK76999.1| pseudouridine synthase, RluA family [Enterococcus faecalis TUSoD
Ef11]
gi|427185331|emb|CCO72555.1| pseudouridylate synthase, 23S rRNA-specific [Enterococcus faecalis
str. Symbioflor 1]
Length = 301
Score = 139 bits (349), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 157/317 (49%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+Q WL+ +TV+G V N ++AG E+V +P E D+P L ++YE
Sbjct: 31 IQQWLKE---KHVTVNGETVR-ANYKVTAGDEIVV-TIPEPEALDMVAEDIP--LTIVYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+I +NKP G+ V P + T++N L A S+ + P VHR+ + TSG
Sbjct: 84 DNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHADHLSAI--NDVVRPGIVHRIDKDTSG 141
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A +KTS+ RK Y ALVHG++ DK I
Sbjct: 142 LLMVAKNDQAHESLAKQLKEKTSL------------RK----YVALVHGVIPHDKGEINA 185
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 186 PIGRSK---VDRKMQAVIEGGKEAVTHFTVLER--FDAFTLVELQLETGRTHQIRVHMKY 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDPLY P +PG+ G +LHA L +HP
Sbjct: 241 IGYPLAGDPLY-------------------------GPKKTLPGN-GQFLHAKLLGFTHP 274
Query: 311 TTNEVIKITAPLPSVLK 327
TT E + APLP V +
Sbjct: 275 TTGEQLVFEAPLPEVFE 291
>gi|312903470|ref|ZP_07762650.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0635]
gi|422689213|ref|ZP_16747325.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0630]
gi|310633346|gb|EFQ16629.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0635]
gi|315577834|gb|EFU90025.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0630]
Length = 310
Score = 139 bits (349), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 157/317 (49%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYE 70
+Q WL+ +TV+G V N ++AG E+V +P E D+P L ++YE
Sbjct: 40 IQQWLKE---KHVTVNGETVR-ANYKVTAGDEIVV-TIPEPEVLDMIAEDIP--LTIVYE 92
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+I +NKP G+ V P + T++N L A S+ + P VHR+ + TSG
Sbjct: 93 DNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHADHLSAI--NDVVRPGIVHRIDKDTSG 150
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A +KTS+ RK Y ALVHG++ DK I
Sbjct: 151 LLMVAKNDQAHESLAKQLKEKTSL------------RK----YVALVHGVIPHDKGEINA 194
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 195 PIGRSK---VDRKMQAVIEGGKEAVTHFTVLERF--DAFTLVELQLETGRTHQIRVHMKY 249
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDPLY P +PG+ G +LHA L +HP
Sbjct: 250 IGYPLAGDPLY-------------------------GPKKTLPGN-GQFLHAKLLGFTHP 283
Query: 311 TTNEVIKITAPLPSVLK 327
TT E + APLP V +
Sbjct: 284 TTGEQLVFEAPLPEVFE 300
>gi|210612741|ref|ZP_03289456.1| hypothetical protein CLONEX_01658 [Clostridium nexile DSM 1787]
gi|210151434|gb|EEA82442.1| hypothetical protein CLONEX_01658 [Clostridium nexile DSM 1787]
Length = 305
Score = 139 bits (349), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 95/310 (30%), Positives = 152/310 (49%), Gaps = 51/310 (16%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+ ++Q+ I++G +T +G++V N L+A L + +EPD+ +++LYED+D
Sbjct: 29 RSYIQKLIKDGHVTANGKIVK-ANYKLNALDTLALDKPELQEPDIVPENIPIDILYEDED 87
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + Q S ++ P VHR+ T+G LL
Sbjct: 88 ILIVNKPKGMVVHPSAGHYSGTLVNALMYHCKDQLSGING-IMRPGIVHRIDMDTTGSLL 146
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
K +A +L + I +IY A+VHG++ ED+ I PIG
Sbjct: 147 VCKNDFVHQDLAE----------------QLKEHSIQRIYHAIVHGVIKEDEGTIDAPIG 190
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P K + V +GK A++ V+ER +N T ++ +++GR HQIR+H+A + H
Sbjct: 191 --RHPIERKKMSVNYKNGKHAVTHYKVIER--FKNYTYIKCRLETGRTHQIRVHMAHIRH 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PLLGD +Y P G LHA L + HP T+
Sbjct: 247 PLLGDAVYGPAKCPFKLQ-------------------------GQTLHAKTLGIVHPRTH 281
Query: 314 EVIKITAPLP 323
E I++ APLP
Sbjct: 282 EYIEVDAPLP 291
>gi|227553528|ref|ZP_03983577.1| pseudouridylate synthase [Enterococcus faecalis HH22]
gi|255972642|ref|ZP_05423228.1| pseudouridylate synthase [Enterococcus faecalis T1]
gi|255975694|ref|ZP_05426280.1| pseudouridylate synthase [Enterococcus faecalis T2]
gi|256762651|ref|ZP_05503231.1| pseudouridylate synthase [Enterococcus faecalis T3]
gi|256961775|ref|ZP_05565946.1| pseudouridylate synthase [Enterococcus faecalis Merz96]
gi|257079163|ref|ZP_05573524.1| pseudouridylate synthase [Enterococcus faecalis JH1]
gi|257085033|ref|ZP_05579394.1| pseudouridylate synthase [Enterococcus faecalis Fly1]
gi|257419447|ref|ZP_05596441.1| pseudouridylate synthase [Enterococcus faecalis T11]
gi|257422461|ref|ZP_05599451.1| pseudouridylate synthase [Enterococcus faecalis X98]
gi|294779380|ref|ZP_06744781.1| pseudouridine synthase, RluA family [Enterococcus faecalis PC1.1]
gi|384518748|ref|YP_005706053.1| RluA family pseudouridine synthase [Enterococcus faecalis 62]
gi|397700031|ref|YP_006537819.1| pseudouridine synthase, RluA family protein [Enterococcus faecalis
D32]
gi|430361833|ref|ZP_19426910.1| pseudouridylate synthase [Enterococcus faecalis OG1X]
gi|430368433|ref|ZP_19428174.1| pseudouridylate synthase [Enterococcus faecalis M7]
gi|227177333|gb|EEI58305.1| pseudouridylate synthase [Enterococcus faecalis HH22]
gi|255963660|gb|EET96136.1| pseudouridylate synthase [Enterococcus faecalis T1]
gi|255968566|gb|EET99188.1| pseudouridylate synthase [Enterococcus faecalis T2]
gi|256683902|gb|EEU23597.1| pseudouridylate synthase [Enterococcus faecalis T3]
gi|256952271|gb|EEU68903.1| pseudouridylate synthase [Enterococcus faecalis Merz96]
gi|256987193|gb|EEU74495.1| pseudouridylate synthase [Enterococcus faecalis JH1]
gi|256993063|gb|EEU80365.1| pseudouridylate synthase [Enterococcus faecalis Fly1]
gi|257161275|gb|EEU91235.1| pseudouridylate synthase [Enterococcus faecalis T11]
gi|257164285|gb|EEU94245.1| pseudouridylate synthase [Enterococcus faecalis X98]
gi|294453509|gb|EFG21910.1| pseudouridine synthase, RluA family [Enterococcus faecalis PC1.1]
gi|323480881|gb|ADX80320.1| pseudouridine synthase, RluA family protein [Enterococcus faecalis
62]
gi|397336670|gb|AFO44342.1| pseudouridine synthase, RluA family protein [Enterococcus faecalis
D32]
gi|429512386|gb|ELA01994.1| pseudouridylate synthase [Enterococcus faecalis OG1X]
gi|429516189|gb|ELA05683.1| pseudouridylate synthase [Enterococcus faecalis M7]
Length = 301
Score = 139 bits (349), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 157/317 (49%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYE 70
+Q WL+ +TV+G V N ++AG E+V +P E D+P L ++YE
Sbjct: 31 IQQWLKE---KHVTVNGETVR-ANYKVTAGDEIVV-TIPEPEVLDMVAEDIP--LTIVYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+I +NKP G+ V P + T++N L A S+ + P VHR+ + TSG
Sbjct: 84 DNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHADHLSAI--NDVVRPGIVHRIDKDTSG 141
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A +KTS+ RK Y ALVHG++ DK I
Sbjct: 142 LLMVAKNDQAHESLAKQLKEKTSL------------RK----YVALVHGVIPHDKGEINA 185
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 186 PIGRSK---VDRKMQAVIEGGKEAVTHFTVLER--FDAFTLVELQLETGRTHQIRVHMKY 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDPLY P +PG+ G +LHA L +HP
Sbjct: 241 IGYPLAGDPLY-------------------------GPKKTLPGN-GQFLHAKLLGFTHP 274
Query: 311 TTNEVIKITAPLPSVLK 327
TT E + APLP V +
Sbjct: 275 TTGEQLVFEAPLPEVFE 291
>gi|440802470|gb|ELR23399.1| pseudouridine synthase, RluD, putative [Acanthamoeba castellanii
str. Neff]
Length = 256
Score = 139 bits (349), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 86/238 (36%), Positives = 122/238 (51%), Gaps = 45/238 (18%)
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
P+HRLGRGTSG +L AKT A+ + + +R K+Y A+V
Sbjct: 19 TPIHRLGRGTSGAILWAKTAPARKVL----------------CRAMMERSFKKVYLAIVQ 62
Query: 179 GIVD-EDKVIIKQPIGIVRYPGVA--KGLYVASPSGKPALSKVDVLERDVQRNCTLVQVE 235
G++ + I Q IG V Y +A + ++ AS GK A S L + + N +LV+V
Sbjct: 63 GLLPLHETFTITQRIGPVPYAALAHTQSIFAASDDGKEATSHATTLAVNTELNLSLVKVR 122
Query: 236 IQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPK-----------SFDSEF---------A 275
I++GR HQIRIH+A+ GHPLLGDPLY+AGG P+ + E
Sbjct: 123 IETGRAHQIRIHMAYAGHPLLGDPLYIAGGLPRPRAITEEDHEERYRRELQQGEKNEGDG 182
Query: 276 DGTFAQDGG--YERPVNPVPGDCGYYLHAYQLFLSHPTTN----EVIKITAPLPSVLK 327
D ++DG E N VPGD GY+LH+++L +HPT + E I+I P P +
Sbjct: 183 DSHKSEDGAQEVEDDTNGVPGDLGYFLHSWKLVFAHPTASNGAAERIRIVCPPPPAFR 240
>gi|257090036|ref|ZP_05584397.1| pseudouridylate synthase [Enterococcus faecalis CH188]
gi|256998848|gb|EEU85368.1| pseudouridylate synthase [Enterococcus faecalis CH188]
Length = 301
Score = 139 bits (349), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 157/317 (49%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYE 70
+Q WL+ +TV+G V N ++AG E+V +P E D+P L ++YE
Sbjct: 31 IQQWLKE---KHVTVNGETVR-ANYKVTAGDEIVV-TIPEPEVLDMIAEDIP--LTIVYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+I +NKP G+ V P + T++N L A S+ + P VHR+ + TSG
Sbjct: 84 DNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHADHLSAI--NDVVRPGIVHRIDKDTSG 141
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A +KTS+ RK Y ALVHG++ DK I
Sbjct: 142 LLMVAKNDQAHESLAKQLKEKTSL------------RK----YVALVHGVIPHDKGEINA 185
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 186 PIGRSK---VDRKMQAVIEGGKEAVTHFTVLER--FDAFTLVELQLETGRTHQIRVHMKY 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDPLY P +PG+ G +LHA L +HP
Sbjct: 241 IGYPLAGDPLY-------------------------GPKKTLPGN-GQFLHAKLLGFTHP 274
Query: 311 TTNEVIKITAPLPSVLK 327
TT E + APLP V +
Sbjct: 275 TTGEQLVFEAPLPEVFE 291
>gi|288818020|ref|YP_003432367.1| pseudouridine synthase [Hydrogenobacter thermophilus TK-6]
gi|288787419|dbj|BAI69166.1| pseudouridine synthase [Hydrogenobacter thermophilus TK-6]
Length = 318
Score = 139 bits (349), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 101/315 (32%), Positives = 167/315 (53%), Gaps = 51/315 (16%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+ ++Q+ I++G + VD + + P+ L AG ++ ++ +P EP D+P+ +V+YE
Sbjct: 30 RSYVQKLIEDGFVLVDDKEIKKPSRRLKAGQKITFY-IPQVEPLEVLPEDIPF--DVVYE 86
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D++ L KP GL V P + T++N L +R K+ S + + P VHRL + T+G
Sbjct: 87 DEDILVLIKPCGLVVHPSPGYSSGTLVNALLFRI-KELSGIGGK-ERPGIVHRLDKNTAG 144
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+++ AK+ A S V E QR++ K Y ALV G++ ED +++
Sbjct: 145 LMVVAKSDKAHR----------------SLVEEFMQRRVLKRYHALVSGLLREDSGTVEK 188
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
IG R+P V + + GKPA ++ +V++R + T + V I +GR HQIR+HL+F
Sbjct: 189 SIG--RHP-VDRKKFSVVEDGKPAKTEYEVIKRFEKHRITFLDVRIHTGRTHQIRVHLSF 245
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHP+LGD Y G + S D R + + G+C + L +YQL HP
Sbjct: 246 IGHPVLGDKTY--GFKTSSVD---------------RKILNLMGEC-HMLVSYQLGFYHP 287
Query: 311 TTNEVI--KITAPLP 323
T + + +I P P
Sbjct: 288 ITKKWMDFQIEDPKP 302
>gi|301301197|ref|ZP_07207353.1| pseudouridine synthase, RluA family [Lactobacillus salivarius
ACS-116-V-Col5a]
gi|300851196|gb|EFK78924.1| pseudouridine synthase, RluA family [Lactobacillus salivarius
ACS-116-V-Col5a]
Length = 298
Score = 139 bits (349), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 98/311 (31%), Positives = 154/311 (49%), Gaps = 58/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIA 76
+ I +G I V+G V N ++ G E+ + +L + ++P L+++YEDDD+I
Sbjct: 32 KMIDDGNIKVNGDV-KKANYKVNLGDEITFDKPEVKKLSLEPENIP--LDIVYEDDDVIV 88
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P + T++N L + + S + P VHR+ + TSG+L+ AK
Sbjct: 89 VNKPQGMVVHPSPGHFEHTLVNALLYHSP---LSTINGTYRPGIVHRIDKDTSGLLMVAK 145
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
+A +A DKT+ T+ Y ALVHG + ED I P+G +
Sbjct: 146 NDMAHQSLAKQLKDKTN----------------TREYIALVHGNIKEDSGTIDAPLGRSK 189
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
V + G+ A++ +VL+R + TLV+ +++GR HQIR+H+ ++GHPL+
Sbjct: 190 ---VDRKKQAVVKDGRNAVTHFEVLKR--YGDYTLVKCVLETGRTHQIRVHMKYIGHPLV 244
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD LY G K+ G+ G +LHA +L HP TNE +
Sbjct: 245 GDQLY---GPRKTL-----------------------GNSGQFLHAEKLGFVHPRTNEYL 278
Query: 317 KITAPLPSVLK 327
+ TAPLP K
Sbjct: 279 EFTAPLPENFK 289
>gi|227890823|ref|ZP_04008628.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
salivarius ATCC 11741]
gi|227867232|gb|EEJ74653.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
salivarius ATCC 11741]
Length = 301
Score = 139 bits (349), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 98/311 (31%), Positives = 154/311 (49%), Gaps = 58/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIA 76
+ I +G I V+G V N ++ G E+ + +L + ++P L+++YEDDD+I
Sbjct: 35 KMIDDGNIKVNGDV-KKANYKVNLGDEITFDKPEVKKLSLEPENIP--LDIVYEDDDVIV 91
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P + T++N L + + S + P VHR+ + TSG+L+ AK
Sbjct: 92 VNKPQGMVVHPSPGHFEHTLVNALLYHSP---LSTINGTYRPGIVHRIDKDTSGLLMVAK 148
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
+A +A DKT+ T+ Y ALVHG + ED I P+G +
Sbjct: 149 NDMAHQSLAKQLKDKTN----------------TREYVALVHGNIKEDSGTIDAPLGRSK 192
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
V + G+ A++ +VL+R + TLV+ +++GR HQIR+H+ ++GHPL+
Sbjct: 193 ---VDRKKQAVVKDGRNAVTHFEVLKR--YGDYTLVKCVLETGRTHQIRVHMKYIGHPLV 247
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD LY G K+ G+ G +LHA +L HP TNE +
Sbjct: 248 GDQLY---GPRKTL-----------------------GNSGQFLHAEKLGFIHPRTNEYL 281
Query: 317 KITAPLPSVLK 327
+ TAPLP K
Sbjct: 282 EFTAPLPENFK 292
>gi|307273068|ref|ZP_07554314.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0855]
gi|422695134|ref|ZP_16753122.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX4244]
gi|422728751|ref|ZP_16785157.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0012]
gi|424761167|ref|ZP_18188749.1| pseudouridine synthase, RluA family [Enterococcus faecalis R508]
gi|306510053|gb|EFM79077.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0855]
gi|315147417|gb|EFT91433.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX4244]
gi|315150758|gb|EFT94774.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0012]
gi|402402430|gb|EJV35146.1| pseudouridine synthase, RluA family [Enterococcus faecalis R508]
Length = 310
Score = 138 bits (348), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 156/317 (49%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYE 70
+Q WL+ +TV+G V N ++AG E+V +P E D+P L ++YE
Sbjct: 40 IQQWLKE---KHVTVNGETVR-ANYKVTAGDEIVV-TIPEPEVLDMVAEDIP--LTIVYE 92
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+I +NKP G+ V P T++N L A S+ + P VHR+ + TSG
Sbjct: 93 DNDVIVVNKPQGMVVHPSAGHPNGTLVNALLHHADHLSAI--NDVVRPGIVHRIDKDTSG 150
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A +KTS+ RK Y ALVHG++ DK I
Sbjct: 151 LLMVAKNDQAHESLAKQLKEKTSL------------RK----YVALVHGVIPHDKGEINA 194
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 195 PIGRSK---VDRKMQAVIEGGKEAVTHFTVLERF--DAFTLVELQLETGRTHQIRVHMKY 249
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDPLY P +PG+ G +LHA L +HP
Sbjct: 250 IGYPLAGDPLY-------------------------GPKKTLPGN-GQFLHAKLLGFTHP 283
Query: 311 TTNEVIKITAPLPSVLK 327
TT E + APLP V +
Sbjct: 284 TTGEQLVFEAPLPEVFE 300
>gi|256964973|ref|ZP_05569144.1| pseudouridylate synthase [Enterococcus faecalis HIP11704]
gi|256955469|gb|EEU72101.1| pseudouridylate synthase [Enterococcus faecalis HIP11704]
gi|295113102|emb|CBL31739.1| ribosomal large subunit pseudouridine synthase D [Enterococcus sp.
7L76]
Length = 301
Score = 138 bits (348), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 156/317 (49%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYE 70
+Q WL+ +TV+G V N ++AG E+V +P E D+P L ++YE
Sbjct: 31 IQQWLKE---KHVTVNGETVR-ANYKVTAGDEIVV-TIPEPEVLDMVAEDIP--LTIVYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+I +NKP G+ V P T++N L A S+ + P VHR+ + TSG
Sbjct: 84 DNDVIVVNKPQGMVVHPSAGHPNGTLVNALLHHADHLSAI--NDVVRPGIVHRIDKDTSG 141
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A +KTS+ RK Y ALVHG++ DK I
Sbjct: 142 LLMVAKNDQAHESLAKQLKEKTSL------------RK----YVALVHGVIPHDKGEINA 185
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 186 PIGRSK---VDRKMQAVIEGGKEAVTHFTVLER--FDAFTLVELQLETGRTHQIRVHMKY 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDPLY P +PG+ G +LHA L +HP
Sbjct: 241 IGYPLAGDPLY-------------------------GPKKTLPGN-GQFLHAKLLGFTHP 274
Query: 311 TTNEVIKITAPLPSVLK 327
TT E + APLP V +
Sbjct: 275 TTGEQLVFEAPLPEVFE 291
>gi|418961352|ref|ZP_13513239.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
salivarius SMXD51]
gi|380345019|gb|EIA33365.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
salivarius SMXD51]
Length = 298
Score = 138 bits (348), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 98/311 (31%), Positives = 154/311 (49%), Gaps = 58/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIA 76
+ I +G I V+G V N ++ G E+ + +L + ++P L+++YEDDD+I
Sbjct: 32 KMIDDGNIKVNGDV-KKANYKVNLGDEITFDKPEVKKLSLEPENIP--LDIVYEDDDVIV 88
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P + T++N L + + S + P VHR+ + TSG+L+ AK
Sbjct: 89 VNKPQGMVVHPSPGHFEHTLVNALLYHSP---LSTINGTYRPGIVHRIDKDTSGLLMVAK 145
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
+A +A DKT+ T+ Y ALVHG + ED I P+G +
Sbjct: 146 NDMAHQSLAKQLKDKTN----------------TREYVALVHGNIKEDSGTIDAPLGRSK 189
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
V + G+ A++ +VL+R + TLV+ +++GR HQIR+H+ ++GHPL+
Sbjct: 190 ---VDRKKQAVVKDGRNAVTHFEVLKR--YGDYTLVKCVLETGRTHQIRVHMKYIGHPLV 244
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD LY G K+ G+ G +LHA +L HP TNE +
Sbjct: 245 GDQLY---GPRKTL-----------------------GNSGQFLHAEKLGFIHPRTNEYL 278
Query: 317 KITAPLPSVLK 327
+ TAPLP K
Sbjct: 279 EFTAPLPENFK 289
>gi|352095526|ref|ZP_08956540.1| pseudouridine synthase [Synechococcus sp. WH 8016]
gi|351678668|gb|EHA61813.1| pseudouridine synthase [Synechococcus sp. WH 8016]
Length = 327
Score = 138 bits (348), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 101/306 (33%), Positives = 153/306 (50%), Gaps = 40/306 (13%)
Query: 20 WLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIALNK 79
W +R+ +G+I+++G D ++ + G + + R PW E VP EV+++D DL+ +NK
Sbjct: 47 WQERLASGEISLNGLACPD-DVEVKTGDWIRWQRPPWVEAAVPDQWEVIHDDGDLLVVNK 105
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
PSGL V+PGG F T+ + L+ R+ SL P P+HRLGR TSG+ +CA+
Sbjct: 106 PSGLPVMPGGGFLAHTLTSLLERRSRSVGESLV-----PKPIHRLGRFTSGLQVCARRPE 160
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPG 199
+ ++ F + D T + L+ R + Y + ++ D V + P+ G
Sbjct: 161 TRAALSKQFRPEG---DRQKTYLALTPRLESLQYGETL--VIQTDVVERQHPL-----LG 210
Query: 200 VAKGLYVASPSG-KPALSKVDVLE-RDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
G +P + LS ++ R+ +R L++V I +GRPHQIRIHLA LG PLLG
Sbjct: 211 WIWGPEPTTPERLRKRLSAHSAVQLRERRRTGDLLEVRIHTGRPHQIRIHLAQLGCPLLG 270
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQL--FLSHPTTNEV 315
DPLY D G PGD GY+LHA++L PTT
Sbjct: 271 DPLY------------------QTDQGLS--ATATPGDGGYHLHAWRLEGLCWPPTTQLT 310
Query: 316 IKITAP 321
++ P
Sbjct: 311 LRAQPP 316
>gi|417788320|ref|ZP_12436003.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
salivarius NIAS840]
gi|334308497|gb|EGL99483.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
salivarius NIAS840]
Length = 298
Score = 138 bits (348), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 98/311 (31%), Positives = 154/311 (49%), Gaps = 58/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIA 76
+ I +G I V+G V N ++ G E+ + +L + ++P L+++YEDDD+I
Sbjct: 32 KMIDDGNIKVNGDV-KKANYKVNLGDEITFDKPEVKKLSLEPENIP--LDIVYEDDDVIV 88
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P + T++N L + + S + P VHR+ + TSG+L+ AK
Sbjct: 89 VNKPQGMVVHPSPGHFEHTLVNALLYHSP---LSTINGTYRPGIVHRIDKDTSGLLMVAK 145
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
+A +A DKT+ T+ Y ALVHG + ED I P+G +
Sbjct: 146 NDMAHQSLAKQLKDKTN----------------TREYVALVHGNIKEDSGTIDAPLGRSK 189
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
V + G+ A++ +VL+R + TLV+ +++GR HQIR+H+ ++GHPL+
Sbjct: 190 ---VDRKKQAVVKDGRNAVTHFEVLKR--YGDYTLVKCVLETGRTHQIRVHMKYIGHPLV 244
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD LY G K+ G+ G +LHA +L HP TNE +
Sbjct: 245 GDQLY---GPRKAL-----------------------GNSGQFLHAEKLGFIHPRTNEYL 278
Query: 317 KITAPLPSVLK 327
+ TAPLP K
Sbjct: 279 EFTAPLPENFK 289
>gi|386344155|ref|YP_006040319.1| pseudouridine synthase [Streptococcus thermophilus JIM 8232]
gi|387909307|ref|YP_006339613.1| pseudouridine synthase [Streptococcus thermophilus MN-ZLW-002]
gi|339277616|emb|CCC19364.1| pseudouridine synthase [Streptococcus thermophilus JIM 8232]
gi|387574242|gb|AFJ82948.1| pseudouridine synthase [Streptococcus thermophilus MN-ZLW-002]
Length = 296
Score = 138 bits (348), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 101/311 (32%), Positives = 155/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIA 76
+ I+ G + V+G+ ++ G + Y L +K D+P L+++YED D+
Sbjct: 29 EAIKAGTVLVNGKSAK-AKYVVKEGDVITYVLPEEEVLEYKAEDIP--LDIIYEDADVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGIVVHPSAGHTSGTLVNALMYHV-KDLSSING-VVRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDKAHNALAAELKDKKSL------------RK----YVAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SDKDRKKQAVTA-KGKPAVTRFTVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDPLY G K+ G +LHA L +HPTT E++
Sbjct: 243 GDPLY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPTTGELV 276
Query: 317 KITAPLPSVLK 327
+ TA P + K
Sbjct: 277 EFTAEEPIIFK 287
>gi|312898193|ref|ZP_07757584.1| pseudouridine synthase, RluA family [Megasphaera micronuciformis
F0359]
gi|310620690|gb|EFQ04259.1| pseudouridine synthase, RluA family [Megasphaera micronuciformis
F0359]
Length = 306
Score = 137 bits (346), Expect = 6e-30, Method: Compositional matrix adjust.
Identities = 97/310 (31%), Positives = 150/310 (48%), Gaps = 54/310 (17%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIALN 78
I+NG++++ R++ N ++ G E+V + L + ++P L+++YED D+I +N
Sbjct: 36 IKNGKVSMRNRILK-ANYRVAEGDEIVIEKDEAEDLTVEAENIP--LDIVYEDKDIIIVN 92
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
K G+ V P T++N L W + S ++ P VHRL + TSG+++ AKT
Sbjct: 93 KARGMVVHPAAGNPNGTLVNALLWHCGGELSGING-VIRPGIVHRLDKDTSGLMVAAKTD 151
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A T+ + Y ALVHG + E K I P+G R+P
Sbjct: 152 AAHKSLAEQIKSHTA----------------RRTYVALVHGNIVEAKGRIDAPLG--RHP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ V GK A++ VLER N TLVQ +++GR HQIR+H+A++GHP++ D
Sbjct: 194 KDRVKMAVNMKDGKDAITHFTVLER--FGNYTLVQCRLETGRTHQIRVHMAYIGHPVVND 251
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY GY+R P+ G LH+ L L HP T + +
Sbjct: 252 PLY----------------------GYKRDAFPIEGQA---LHSCALDLVHPITKQAMHF 286
Query: 319 TAPLPSVLKT 328
AP P+ K
Sbjct: 287 EAPWPNDFKA 296
>gi|78485714|ref|YP_391639.1| pseudouridine synthase RluD [Thiomicrospira crunogena XCL-2]
gi|78364000|gb|ABB41965.1| ribosomal large subunit pseudouridine synthase D [Thiomicrospira
crunogena XCL-2]
Length = 352
Score = 137 bits (345), Expect = 7e-30, Method: Compositional matrix adjust.
Identities = 114/339 (33%), Positives = 171/339 (50%), Gaps = 75/339 (22%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDG--------RVVNDPNIILSAGSELVYHRL 54
L E +S +N +Q W I+ G +T+DG +V D +++L A E +
Sbjct: 23 LAELFSDYSRNR--IQDW---IRAGLVTLDGVEHKKPNFKVFGDESVVLLAEIE---DEV 74
Query: 55 PWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQ 114
++ D+P +EV+YED+D++ LNKP+GL V PG T+LN L + +
Sbjct: 75 SYQAQDIP--IEVVYEDEDILVLNKPAGLVVHPGAGNPDGTLLNALLFH---------YE 123
Query: 115 ASHPVP----VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKIT 170
VP VHRL + TSG+++ AK A+T + V +L Q +
Sbjct: 124 TIREVPRAGIVHRLDKETSGLMVVAKNVPAQTHL----------------VEQLQQHDVE 167
Query: 171 KIYRALVHGIVDEDKVI----IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQ 226
++Y A+V G K+I I +PIG R+P K + V + GKPA S VLER
Sbjct: 168 RVYDAIVVG-----KMISGGTISKPIG--RHPTDRKRMAVLTVGGKPATSHYRVLER--F 218
Query: 227 RNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ-PKSFDSEFADGTFAQDGGY 285
R T V+V++++GR HQIR+H+A+LG PL+GDP+Y + P+ EFAD G+
Sbjct: 219 REHTHVRVKLETGRTHQIRVHMAYLGFPLVGDPVYAGRLRIPQQMMPEFADYL----RGF 274
Query: 286 ERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
+R LHA QL L+HP T + +K +P
Sbjct: 275 KRQA----------LHAGQLSLTHPRTGKTMKWKVSMPD 303
>gi|225419732|ref|ZP_03762035.1| hypothetical protein CLOSTASPAR_06070 [Clostridium asparagiforme
DSM 15981]
gi|225041622|gb|EEG51868.1| hypothetical protein CLOSTASPAR_06070 [Clostridium asparagiforme
DSM 15981]
Length = 303
Score = 137 bits (345), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 99/311 (31%), Positives = 157/311 (50%), Gaps = 52/311 (16%)
Query: 18 QGWLQRI-QNGQITVDGRVVNDPNIILSAGSELVYHRLPWK-EPDV---PYLLEVLYEDD 72
+ +LQ++ ++GQ+ V G+ V + +L+ +P EP++ P L+VLYED+
Sbjct: 28 RSYLQKLLKSGQVLVGGQGVKASYAVQEG--DLIELEVPEAVEPEILAEPMDLDVLYEDE 85
Query: 73 DLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGIL 132
D+I +NKP G+ V P T++N L Q S ++ P VHR+ T+G++
Sbjct: 86 DIILINKPKGMVVHPAAGHYTHTLVNGLLDHCRGQLSGING-VMRPGIVHRIDMDTTGVI 144
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPI 192
+ K LA +C+A +L + IT+ Y+A+VHG+V ED+ + PI
Sbjct: 145 IACKNDLAHSCLA----------------EQLKEHSITRRYQAIVHGVVKEDEGTVDAPI 188
Query: 193 GIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
G R+P K + + +G+ A++ VL R R T V+ +++GR HQIR+H+A +
Sbjct: 189 G--RHPVERKKMSINYNNGREAVTHYKVLRR--FRQYTHVECRLETGRTHQIRVHMASIH 244
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
HPLLGD +Y G + P+PG G LHA L + HP T
Sbjct: 245 HPLLGDAVY---GPARC---------------------PIPGLQGQTLHAGVLGIRHPRT 280
Query: 313 NEVIKITAPLP 323
++ TAPLP
Sbjct: 281 GAYMEFTAPLP 291
>gi|336064535|ref|YP_004559394.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pasteurianus ATCC 43144]
gi|334282735|dbj|BAK30308.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pasteurianus ATCC 43144]
Length = 298
Score = 137 bits (345), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 101/309 (32%), Positives = 151/309 (48%), Gaps = 57/309 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIALN 78
I+ G + V+G+ V + G + Y L + ++P L+++YEDDD+ +N
Sbjct: 31 IKKGTVLVNGKAVK-AKYAVKVGDVVTYEVPKEEVLEYTAENIP--LDIIYEDDDVAVVN 87
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 88 KPQGMVVHPSVGHTSGTLVNALMYHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIAKND 145
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 146 TAHNALAAELKDKKSL------------RK----YVAIVHGTIPNDRGVIEAPIG--RSE 187
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K V + GKPAL+ VLER N TLV++ +++GR HQIR+H+A++GHP+ GD
Sbjct: 188 KDRKKQAVTA-KGKPALTHFKVLER--FGNYTLVELTLETGRTHQIRVHMAYIGHPVAGD 244
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY P + G+ G +LHA L +HPTT E +
Sbjct: 245 PLY-------------------------GPRKTLKGN-GQFLHAQTLGFTHPTTGETLTF 278
Query: 319 TAPLPSVLK 327
A P++ K
Sbjct: 279 MAEAPAIFK 287
>gi|218781210|ref|YP_002432528.1| RluA family pseudouridine synthase [Desulfatibacillum alkenivorans
AK-01]
gi|218762594|gb|ACL05060.1| pseudouridine synthase, RluA family [Desulfatibacillum alkenivorans
AK-01]
Length = 321
Score = 137 bits (345), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 105/307 (34%), Positives = 159/307 (51%), Gaps = 47/307 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL------LEVLYEDDDLIAL 77
I+ G +TVD + V P+ +L G E+V +P EP+ + L +LYED D++A+
Sbjct: 40 IRQGLVTVD-KSVKKPSYVLKPG-EMVSVTVP--EPETADIVAQDMDLAILYEDRDIVAV 95
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L S Q P VHRL + TSG++L AK
Sbjct: 96 NKPPGMVVHPAPGHSSNTLVNALLAHCKDLSGIGGVQ--RPGIVHRLDKETSGVILAAKN 153
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A ++ +L+QR++ K Y AL HG++ ED +I P+ R+
Sbjct: 154 DAAHAGLSE----------------QLAQRRVEKFYLALAHGVIKEDTGVIDLPLA--RH 195
Query: 198 PGVAKGLYVASPS-GKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
P K ++V++P+ G+ ALS V ER + + T V+V+I++GR HQIR+HLA L HP++
Sbjct: 196 PSDRKRMHVSTPAKGREALSLWTVKERFL--DATYVKVQIKTGRTHQIRVHLAALHHPVI 253
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y GG+ K + ER + LHA+ + +HP T E +
Sbjct: 254 GDTVY--GGRKKR--GRLPASVLGKAPPPERQM----------LHAHIVSFTHPVTGEKL 299
Query: 317 KITAPLP 323
+TAPLP
Sbjct: 300 TLTAPLP 306
>gi|422721981|ref|ZP_16778558.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX2137]
gi|315027878|gb|EFT39810.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX2137]
Length = 310
Score = 137 bits (345), Expect = 9e-30, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 156/317 (49%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYE 70
+Q WL+ +TV+G V N ++AG E+V +P E D+P L ++YE
Sbjct: 40 IQQWLKE---KHVTVNGETVR-ANYKVTAGDEIVV-TIPEPEVLDMVAEDIP--LTIVYE 92
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+I +NKP G+ V P T++N L A S+ + P VHR+ + TSG
Sbjct: 93 DNDVIVVNKPQGMVVHPSVGHPNGTLVNALLHHADHLSAI--NDVVRPGIVHRIDKDTSG 150
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A +KTS+ RK Y ALVHG++ DK I
Sbjct: 151 LLMVAKNDQAHESLAKQLKEKTSL------------RK----YVALVHGVIPHDKGEINA 194
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 195 PIGRSK---VDRKMQAVIEGGKEAVTHFTVLERF--DAFTLVELQLETGRTHQIRVHMKY 249
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDPLY P +PG+ G +LHA L +HP
Sbjct: 250 IGYPLAGDPLY-------------------------GPKKTLPGN-GQFLHAKLLGFTHP 283
Query: 311 TTNEVIKITAPLPSVLK 327
TT E + APLP V +
Sbjct: 284 TTGEQLVFEAPLPEVFE 300
>gi|445373337|ref|ZP_21426283.1| Pseudouridine synthase [Streptococcus thermophilus MTCC 5460]
gi|445388250|ref|ZP_21428000.1| Pseudouridine synthase [Streptococcus thermophilus MTCC 5461]
gi|444750805|gb|ELW75594.1| Pseudouridine synthase [Streptococcus thermophilus MTCC 5461]
gi|444750959|gb|ELW75739.1| Pseudouridine synthase [Streptococcus thermophilus MTCC 5460]
Length = 296
Score = 137 bits (344), Expect = 9e-30, Method: Compositional matrix adjust.
Identities = 100/311 (32%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIA 76
+ I+ G + V+G+ ++ G + Y L +K D+P L+++YED D+
Sbjct: 29 EAIKAGTVLVNGKSAK-AKYVVKEGDVITYVFPEEEVLEYKAEDIP--LDIIYEDTDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHV-KDLSSING-VVRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDKAHNALAAELKDKKSL------------RK----YVAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SDKDRKKQAVTA-KGKPAVTRFTVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDPLY G K+ G +LHA L +HPTT E++
Sbjct: 243 GDPLY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPTTGELV 276
Query: 317 KITAPLPSVLK 327
+ A P + K
Sbjct: 277 EFNAEEPIIFK 287
>gi|257087008|ref|ZP_05581369.1| pseudouridylate synthase [Enterococcus faecalis D6]
gi|256995038|gb|EEU82340.1| pseudouridylate synthase [Enterococcus faecalis D6]
Length = 301
Score = 137 bits (344), Expect = 9e-30, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 156/317 (49%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYE 70
+Q WL+ +TV+G V N ++AG E+V +P E D+P L ++YE
Sbjct: 31 IQQWLKE---KHVTVNGETVR-ANYKVTAGDEIVV-TIPEPEVLDMVAEDIP--LTIVYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+I +NKP G+ V P T++N L A S+ + P VHR+ + TSG
Sbjct: 84 DNDVIVVNKPQGMVVHPSVGHPNGTLVNALLHHADHLSAI--NDVVRPGIVHRIDKDTSG 141
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A +KTS+ RK Y ALVHG++ DK I
Sbjct: 142 LLMVAKNDQAHESLAKQLKEKTSL------------RK----YVALVHGVIPHDKGEINA 185
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 186 PIGRSK---VDRKMQAVIEGGKEAVTHFTVLER--FDAFTLVELQLETGRTHQIRVHMKY 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDPLY P +PG+ G +LHA L +HP
Sbjct: 241 IGYPLAGDPLY-------------------------GPKKTLPGN-GQFLHAKLLGFTHP 274
Query: 311 TTNEVIKITAPLPSVLK 327
TT E + APLP V +
Sbjct: 275 TTGEQLVFEAPLPEVFE 291
>gi|347549632|ref|YP_004855960.1| putative ribosomal large subunit pseudouridine synthase [Listeria
ivanovii subsp. ivanovii PAM 55]
gi|346982703|emb|CBW86722.1| Putative ribosomal large subunit pseudouridine synthase [Listeria
ivanovii subsp. ivanovii PAM 55]
Length = 289
Score = 136 bits (343), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 96/297 (32%), Positives = 152/297 (51%), Gaps = 59/297 (19%)
Query: 29 ITVDGRVVNDPNIILSAGSEL----VYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQ 84
+ ++ + ++D N L G+ L + H K P Y LE++YEDD L+ +NKP G++
Sbjct: 41 VLLNNKPLDDWNTPLFVGASLSLPIILHE---KIPVYDYDLEIIYEDDFLLVVNKPVGMK 97
Query: 85 VLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCI 144
P ++ T N +Q+ K ++Q ++ + VHRL + TSG++L AK KLA I
Sbjct: 98 THPNDSYETDTCANAVQYYLEK-----TNQEANALAVHRLDQTTSGLVLFAKNKLA---I 149
Query: 145 AGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGL 204
AG ++ R I + Y A V G I +PIG R+ G + +
Sbjct: 150 AGL-------------SWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHHGSRRQI 196
Query: 205 YVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAG 264
SP G+PA++ V VLE D ++N +LV+ +I++GR HQIR+HL+ +GHP++GD LY G
Sbjct: 197 ---SPYGQPAVTHVTVLENDTEKNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLY--G 251
Query: 265 GQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
G P++ N + LHA +L L+HP + + +AP
Sbjct: 252 GSPRA--------------------NRI------MLHAEKLHLNHPFKGKEMNFSAP 282
>gi|257416242|ref|ZP_05593236.1| pseudouridylate synthase [Enterococcus faecalis ARO1/DG]
gi|257158070|gb|EEU88030.1| pseudouridylate synthase [Enterococcus faecalis ARO1/DG]
Length = 301
Score = 136 bits (343), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 105/317 (33%), Positives = 156/317 (49%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYE 70
+Q WL+ +TV+G V N ++AG E+V +P E D+P L ++YE
Sbjct: 31 IQQWLKE---KHVTVNGETVR-ANYKVTAGDEIVV-TIPEPEVLDMVAEDIP--LTIVYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+I +NKP G+ V P T++N L A S+ + P VHR+ + TSG
Sbjct: 84 DNDVIVVNKPQGMVVHPSAGHPNGTLVNALLHHADHLSAI--NDVVRPGIVHRIDKDTSG 141
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK+ A +A +KTS+ RK Y ALVHG++ DK I
Sbjct: 142 LLMVAKSDQAHESLAKQLKEKTSL------------RK----YVALVHGVIPHDKGEINA 185
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 186 PIGRSK---VDRKMQAVIEGGKEAVTHFTVLER--FDTFTLVELQLETGRTHQIRVHMKY 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GD LY P +PG+ G +LHA L +HP
Sbjct: 241 IGYPLAGDTLY-------------------------GPKKTLPGN-GQFLHAKLLGFTHP 274
Query: 311 TTNEVIKITAPLPSVLK 327
TT E + APLP V +
Sbjct: 275 TTGEQLVFEAPLPEVFE 291
>gi|288905537|ref|YP_003430759.1| ribosomal large subunit pseudouridine synthase [Streptococcus
gallolyticus UCN34]
gi|386337983|ref|YP_006034152.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
gallolyticus subsp. gallolyticus ATCC 43143]
gi|288732263|emb|CBI13830.1| putative ribosomal large subunit pseudouridine synthase
[Streptococcus gallolyticus UCN34]
gi|334280619|dbj|BAK28193.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
gallolyticus subsp. gallolyticus ATCC 43143]
Length = 298
Score = 136 bits (343), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 101/309 (32%), Positives = 151/309 (48%), Gaps = 57/309 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIALN 78
I+ G + V+G+ V + G + Y L + ++P L+++YEDDD+ +N
Sbjct: 31 IKKGTVLVNGKAVK-AKYAVKVGDVVTYEVPKEEVLEYTAENIP--LDIIYEDDDVAVVN 87
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 88 KPQGMVVHPSVGHMSGTLVNALMYHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIAKND 145
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 146 KAHNALAAELKDKKSL------------RK----YVAIVHGNIPNDRGVIEAPIG--RSE 187
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K V + GKPA++ VLER N TLV++ +++GR HQIR+H+A++GHP+ GD
Sbjct: 188 KDRKKQAVTA-KGKPAVTHFKVLER--FGNYTLVELTLETGRTHQIRVHMAYIGHPVAGD 244
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY G K+ G +LHA L +HPTT E +
Sbjct: 245 PLY---GPRKTLKGH-----------------------GQFLHAQTLGFTHPTTGETLTF 278
Query: 319 TAPLPSVLK 327
TA P++ K
Sbjct: 279 TAEAPAIFK 287
>gi|424673064|ref|ZP_18110007.1| pseudouridine synthase, RluA family [Enterococcus faecalis 599]
gi|402352874|gb|EJU87710.1| pseudouridine synthase, RluA family [Enterococcus faecalis 599]
Length = 310
Score = 136 bits (343), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 156/317 (49%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYE 70
+Q WL+ +TV+G V N ++AG E+V +P E D+P L ++YE
Sbjct: 40 IQQWLKE---KHVTVNGETVR-ANYKVTAGDEIVV-TIPEPEVLDMVAEDIP--LTIVYE 92
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+I +NKP G+ V P T++N L A S+ + P VHR+ + TSG
Sbjct: 93 DNDVIVVNKPQGMVVHPSVGHPNGTLVNALLHHADHLSAI--NDVVRPGIVHRIDKDTSG 150
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A +KTS+ RK Y ALVHG++ DK I
Sbjct: 151 LLMVAKNDQAYESLAKQLKEKTSL------------RK----YVALVHGVIPHDKGEINA 194
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 195 PIGRSK---VDRKMQAVIEGGKEAVTHFTVLERF--DAFTLVELQLETGRTHQIRVHMKY 249
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDPLY P +PG+ G +LHA L +HP
Sbjct: 250 IGYPLAGDPLY-------------------------GPKKTLPGN-GQFLHAKLLGFTHP 283
Query: 311 TTNEVIKITAPLPSVLK 327
TT E + APLP V +
Sbjct: 284 TTGEQLVFEAPLPEVFE 300
>gi|226496591|ref|NP_001140345.1| uncharacterized protein LOC100272393 [Zea mays]
gi|194699086|gb|ACF83627.1| unknown [Zea mays]
Length = 116
Score = 136 bits (343), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 64/92 (69%), Positives = 78/92 (84%)
Query: 165 SQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERD 224
+RKI+K YRALV GI+D+D+V++ QPIG+V YPGVA+GLY A SGKPA+SKV VLER
Sbjct: 9 EERKISKFYRALVTGILDDDEVVVTQPIGLVHYPGVAEGLYAACSSGKPAMSKVCVLERL 68
Query: 225 VQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
+N TLVQVEI SGRPHQIRIHLA++GHPL+
Sbjct: 69 AHQNHTLVQVEIHSGRPHQIRIHLAYIGHPLV 100
>gi|256959131|ref|ZP_05563302.1| pseudouridylate synthase [Enterococcus faecalis DS5]
gi|256949627|gb|EEU66259.1| pseudouridylate synthase [Enterococcus faecalis DS5]
Length = 301
Score = 136 bits (342), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 105/317 (33%), Positives = 156/317 (49%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYE 70
+Q WL+ +TV+G V N ++AG E+V +P E D+P L ++YE
Sbjct: 31 IQQWLKE---KHVTVNGETVR-ANYKVTAGDEIVV-TIPEPEVLDMVAEDIP--LTIVYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+I +NKP + V P + T++N L A S+ + P VHR+ + TSG
Sbjct: 84 DNDVIVVNKPQDMVVHPSAGHPKGTLVNALLHHADHLSAI--NDVVRPGIVHRIDKDTSG 141
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A +KTS+ RK Y ALVHG++ DK I
Sbjct: 142 LLMVAKNDQAHESLAKQLKEKTSL------------RK----YVALVHGVIPHDKGEINA 185
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 186 PIGRSK---VDRKMQAVIEGGKEAVTHFTVLER--FDAFTLVELQLETGRTHQIRVHMKY 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDPLY P +PG+ G +LHA L +HP
Sbjct: 241 IGYPLAGDPLY-------------------------GPKKTLPGN-GQFLHAKLLGFTHP 274
Query: 311 TTNEVIKITAPLPSVLK 327
TT E + APLP V +
Sbjct: 275 TTGEQLVFEAPLPEVFE 291
>gi|422708626|ref|ZP_16766154.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0027]
gi|315037134|gb|EFT49066.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0027]
Length = 310
Score = 136 bits (342), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 105/317 (33%), Positives = 156/317 (49%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYE 70
+Q WL+ +TV+G V N ++AG E+V +P E D+P L ++YE
Sbjct: 40 IQQWLKE---KHVTVNGETVR-ANYKVTAGDEIVV-TIPEPEVLDMVAEDIP--LTIVYE 92
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+I +NKP + V P + T++N L A S+ + P VHR+ + TSG
Sbjct: 93 DNDVIVVNKPQDMVVHPSAGHPKGTLVNALLHHADHLSAI--NDVVRPGIVHRIDKDTSG 150
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A +KTS+ RK Y ALVHG++ DK I
Sbjct: 151 LLMVAKNDQAHESLAKQLKEKTSL------------RK----YVALVHGVIPHDKGEINA 194
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 195 PIGRSK---VDRKMQAVIEGGKEAVTHFTVLER--FDAFTLVELQLETGRTHQIRVHMKY 249
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDPLY P +PG+ G +LHA L +HP
Sbjct: 250 IGYPLAGDPLY-------------------------GPKKTLPGN-GQFLHAKLLGFTHP 283
Query: 311 TTNEVIKITAPLPSVLK 327
TT E + APLP V +
Sbjct: 284 TTGEQLVFEAPLPEVFE 300
>gi|392989594|ref|YP_006488187.1| 23S rRNA pseudouridine synthase D [Enterococcus hirae ATCC 9790]
gi|392337014|gb|AFM71296.1| 23S rRNA pseudouridine synthase D [Enterococcus hirae ATCC 9790]
Length = 303
Score = 136 bits (342), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 104/324 (32%), Positives = 162/324 (50%), Gaps = 61/324 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYED 71
+Q WL+ +G ++V+G+VV N + E+V L + D+P LE++YED
Sbjct: 31 IQLWLK---DGAVSVNGQVVK-ANYKVKKNDEIVIAVPEPETLSIEAEDIP--LEIVYED 84
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
+ + +NKP G+ V P T++N L + K SS++ P VHR+ + TSG+
Sbjct: 85 EAVAVVNKPQGMVVHPSAGHPNGTMVNALMYHV-KDLSSING-VIRPGIVHRIDKDTSGL 142
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK LA +A DKTS+ RK Y ALVHG++ +K I P
Sbjct: 143 LMVAKNDLAHESLAKQLKDKTSL------------RK----YVALVHGVIPHEKGTINTP 186
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG + V + + GK A++ +VLER + TLV++ +++GR HQIR+H+ ++
Sbjct: 187 IGRSK---VNRKMQAVREDGKLAVTHFNVLER--FNDFTLVELTLETGRTHQIRVHMKYI 241
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
G+PL GDP+Y G K+ G +LHA L +HP
Sbjct: 242 GYPLAGDPVY---GPSKTLKGN-----------------------GQFLHAKLLGFTHPI 275
Query: 312 TNEVIKITAPLPSVL-KTREEGRE 334
T + + APLP++ KT E+ R+
Sbjct: 276 TGQKMVFEAPLPTIFEKTLEKLRK 299
>gi|337287215|ref|YP_004626688.1| RluA family pseudouridine synthase [Thermodesulfatator indicus DSM
15286]
gi|335360043|gb|AEH45724.1| pseudouridine synthase, RluA family [Thermodesulfatator indicus DSM
15286]
Length = 312
Score = 136 bits (342), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 103/308 (33%), Positives = 152/308 (49%), Gaps = 56/308 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-------DVPYLLEVLYEDDDLIA 76
I+NG + +DG+VV+ P + AG E++ +P +P +VP+ E+LYED L
Sbjct: 40 IENGHVKIDGKVVSKPRHKIKAG-EIIEVFVPAPKPLEIKPEEEVPF--EILYEDKHLAV 96
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V PG + T+++ L R K S + + P VHRL + TSG+L+ AK
Sbjct: 97 INKPPGVVVHPGAGHYEGTLVHGLLARL-KDLSGIGGELR-PGIVHRLDKDTSGLLVVAK 154
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
+ F D R+I KIY ALVHG+ I++PIG R
Sbjct: 155 DDKTHQALTQMFKD----------------REIKKIYLALVHGVPRLSAGKIEKPIG--R 196
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
+P + + V + +G+ AL+ V ER + L++VE ++GR HQIR+HLA +GHP++
Sbjct: 197 HPVNRQKMSVHAKTGREALTFYRVRERFPK--AALLEVEPKTGRTHQIRVHLASIGHPIV 254
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD LY G +P P LHAY+L HP T + +
Sbjct: 255 GDELY-GGARPHG-----------------------PKARRQMLHAYRLAFKHPVTGKEL 290
Query: 317 KITAPLPS 324
APLP
Sbjct: 291 SFEAPLPE 298
>gi|306831623|ref|ZP_07464781.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
gallolyticus subsp. gallolyticus TX20005]
gi|325978527|ref|YP_004288243.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
gallolyticus subsp. gallolyticus ATCC BAA-2069]
gi|304426408|gb|EFM29522.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
gallolyticus subsp. gallolyticus TX20005]
gi|325178455|emb|CBZ48499.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
gallolyticus subsp. gallolyticus ATCC BAA-2069]
Length = 298
Score = 135 bits (341), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 101/309 (32%), Positives = 152/309 (49%), Gaps = 57/309 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIALN 78
I+ G + V+G+ V + G + Y L + ++P L+++YEDDD+ +N
Sbjct: 31 IKKGTVLVNGKAVK-AKYAVKVGDVVTYEVPKEEVLEYTAENIP--LDIIYEDDDVAVVN 87
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 88 KPQGMVVHPSVGHTSGTLVNALMYHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIAKND 145
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 146 KAHNALAAELKDKKSL------------RK----YVAIVHGNIPNDRGVIEAPIG--RSE 187
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K V + GKPA++ VLER N TLV++ +++GR HQIR+H+A++G+P+ GD
Sbjct: 188 KDRKKQAVTA-KGKPAVTHFKVLER--FGNYTLVELTLETGRTHQIRVHMAYIGYPVAGD 244
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY P + GD G +LHA L +HPTT E +
Sbjct: 245 PLY-------------------------GPRKTLKGD-GQFLHAQTLGFTHPTTGETLTF 278
Query: 319 TAPLPSVLK 327
TA P++ K
Sbjct: 279 TAEAPAIFK 287
>gi|417810294|ref|ZP_12456973.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
salivarius GJ-24]
gi|335349090|gb|EGM50590.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
salivarius GJ-24]
Length = 298
Score = 135 bits (340), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 96/311 (30%), Positives = 153/311 (49%), Gaps = 58/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIA 76
+ I +G I V+G V N ++ G E+ + +L + ++P L+++YEDDD+I
Sbjct: 32 KMIDDGHIKVNGDV-KKANYKVNLGDEITFDKPEVKKLSLEPENIP--LDIVYEDDDVIV 88
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P + T++N L + + S + P VHR+ + TSG+L+ AK
Sbjct: 89 VNKPQGMVVHPSPGHFEHTLVNALLYHSP---LSTINGTYRPGIVHRIDKDTSGLLMVAK 145
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
+A +A DKT++ + Y ALVHG + ED I P+G +
Sbjct: 146 NDMAHQSLAKQLKDKTNI----------------REYVALVHGNIKEDSGTIDAPLGRSK 189
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
V + G+ A++ +VL+R + TLV+ +++GR HQIR+H+ ++GHPL+
Sbjct: 190 ---VDRKKQAVVKDGRNAVTHFEVLKR--YGDYTLVKCVLETGRTHQIRVHMKYIGHPLV 244
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD LY G K+ G+ G +LHA +L HP NE +
Sbjct: 245 GDQLY---GPRKTL-----------------------GNSGQFLHAEKLGFIHPRINEYL 278
Query: 317 KITAPLPSVLK 327
+ TAPLP K
Sbjct: 279 EFTAPLPENFK 289
>gi|315283354|ref|ZP_07871565.1| ribosomal large subunit pseudouridine synthase D [Listeria marthii
FSL S4-120]
gi|313613002|gb|EFR86933.1| ribosomal large subunit pseudouridine synthase D [Listeria marthii
FSL S4-120]
Length = 289
Score = 135 bits (340), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 96/297 (32%), Positives = 151/297 (50%), Gaps = 59/297 (19%)
Query: 29 ITVDGRVVNDPNIILSAGSEL----VYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQ 84
+ ++ + + D N L G+ L + H K P Y LE++YEDD L+ +NKP G++
Sbjct: 41 VLLNNKPLEDWNTPLFVGASLSLPIILHE---KIPVYAYDLEIIYEDDFLLVVNKPVGMK 97
Query: 85 VLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCI 144
P +++ T N +Q+ K + Q ++ + VHRL + TSG++L AK KLA I
Sbjct: 98 THPNDSYERDTCANAVQYYLEK-----TGQEANALAVHRLDQTTSGLVLFAKNKLA---I 149
Query: 145 AGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGL 204
AG ++ R I + Y A V G I +PIG R+ G + +
Sbjct: 150 AGL-------------SWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHHGSRRQI 196
Query: 205 YVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAG 264
SP G+PA++ V VLE D ++N +LV+ +I++GR HQIR+HL+ +GHP++GD LY G
Sbjct: 197 ---SPYGQPAVTHVKVLENDNEKNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLY--G 251
Query: 265 GQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
G P++ N + LHA +L L+HP + + +AP
Sbjct: 252 GSPRA--------------------NRI------MLHAEKLHLNHPFKGKEMNFSAP 282
>gi|289435585|ref|YP_003465457.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria seeligeri serovar 1/2b str. SLCC3954]
gi|289171829|emb|CBH28375.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria seeligeri serovar 1/2b str. SLCC3954]
Length = 289
Score = 135 bits (340), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 95/294 (32%), Positives = 152/294 (51%), Gaps = 53/294 (18%)
Query: 29 ITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYLLEVLYEDDDLIALNKPSGLQVLP 87
+ ++ + +D N L G+ L + ++ DV Y LEV+YEDD L+ +NKP G++ P
Sbjct: 41 VLLNNKPFDDWNTPLFVGASLSLPVILHEKIDVYEYDLEVIYEDDFLLVVNKPVGMKTHP 100
Query: 88 GGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGY 147
++ T N +Q+ + ++Q ++ + VHRL + TSG++L AK KLA IAG
Sbjct: 101 NDSYETDTCANAVQYYLEQ-----TNQDANALAVHRLDQTTSGLVLFAKNKLA---IAGL 152
Query: 148 FADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVA 207
++ R I + Y A V G I +PIG R+ G + +
Sbjct: 153 -------------SWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHHGSRRQI--- 196
Query: 208 SPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQP 267
SP G+PA++ V VLE D ++N +LV+ +I++GR HQIR+HL+ +GHP++GD LY GG P
Sbjct: 197 SPYGQPAVTHVTVLENDTEKNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLY--GGSP 254
Query: 268 KSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
++ N + LHA +L L+HP + + +AP
Sbjct: 255 RA--------------------NRI------MLHAEKLHLNHPFKGKEMNFSAP 282
>gi|422422957|ref|ZP_16499910.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria seeligeri FSL S4-171]
gi|313636721|gb|EFS02383.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria seeligeri FSL S4-171]
Length = 294
Score = 135 bits (339), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 94/294 (31%), Positives = 152/294 (51%), Gaps = 53/294 (18%)
Query: 29 ITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYLLEVLYEDDDLIALNKPSGLQVLP 87
+ ++ + +D N L G+ L + ++ DV Y LEV+YEDD L+ +NKP G++ P
Sbjct: 46 VLLNNKPFDDWNTPLFVGASLSLPVILHEKIDVYEYDLEVIYEDDFLLVVNKPVGMKTHP 105
Query: 88 GGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGY 147
++ T N +Q+ + ++Q ++ + VHRL + TSG++L AK KLA IAG
Sbjct: 106 NDSYETDTCANAVQYYLEQ-----TNQDANALAVHRLDQTTSGLVLFAKNKLA---IAGL 157
Query: 148 FADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVA 207
++ R I + Y A V G I +PIG R+ G + +
Sbjct: 158 -------------SWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHHGSRRQI--- 201
Query: 208 SPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQP 267
SP G+PA++ + VLE D ++N +LV+ +I++GR HQIR+HL+ +GHP++GD LY GG P
Sbjct: 202 SPYGQPAVTHITVLENDTEKNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLY--GGSP 259
Query: 268 KSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
++ N + LHA +L L+HP + + +AP
Sbjct: 260 RA--------------------NRI------MLHAEKLHLNHPFKGKEMNFSAP 287
>gi|55820603|ref|YP_139045.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
thermophilus LMG 18311]
gi|386086213|ref|YP_006002087.1| Pseudouridine synthase [Streptococcus thermophilus ND03]
gi|55736588|gb|AAV60230.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
thermophilus LMG 18311]
gi|312277926|gb|ADQ62583.1| Pseudouridine synthase [Streptococcus thermophilus ND03]
Length = 296
Score = 135 bits (339), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 99/311 (31%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIA 76
+ I+ G + V+G+ ++ G + Y L +K D+P L+++YED D+
Sbjct: 29 EAIKAGTVLVNGKSAK-AKYVVKEGDVITYVLPEEEVLEYKAEDIP--LDIIYEDADVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHV-KDLSSING-VVRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDKAHNALAAELKDKKSL------------RK----YVAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SDKDRKKQAVTA-KGKPAVTRFTVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDPLY G K+ G +LHA L +HPTT +++
Sbjct: 243 GDPLY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPTTGKLV 276
Query: 317 KITAPLPSVLK 327
+ A P + K
Sbjct: 277 EFNAEEPIIFK 287
>gi|332799431|ref|YP_004460930.1| RluA family pseudouridine synthase [Tepidanaerobacter acetatoxydans
Re1]
gi|332697166|gb|AEE91623.1| pseudouridine synthase, RluA family [Tepidanaerobacter
acetatoxydans Re1]
Length = 308
Score = 135 bits (339), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 97/312 (31%), Positives = 156/312 (50%), Gaps = 61/312 (19%)
Query: 17 LQGWLQRIQNGQITV-DGRVVNDPNIILSAGSELVYHRLPWKEP-DVPYLLEVLYEDDDL 74
++GW++ NG I + R+ + II++ L P +P D+P L++++ED D+
Sbjct: 38 VEGWIK--VNGSIVKPNYRLRQEDQIIVTVPQAL----QPLIDPEDIP--LDIIFEDRDI 89
Query: 75 IALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP--VHRLGRGTSGIL 132
+ +NKP G+ V P T++N L + LS++ P VHRL + TSG++
Sbjct: 90 VVINKPRGMVVYPAPGNYSGTLINALL----NHTKDLSARGGTMRPGIVHRLDKDTSGVI 145
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPI 192
+ AK A ++ +L R++ K+Y+ LV G V EDK I PI
Sbjct: 146 VVAKNDTAHINLSK----------------QLKSREVKKVYQTLVWGKVQEDKATINAPI 189
Query: 193 GIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
G R+P K + V + + K A++ VLER + T ++V I++GR HQIR+H+ F+G
Sbjct: 190 G--RHPIKRKEMAVTTKNSKEAITHFKVLERFDE--FTFLEVAIETGRTHQIRVHMKFIG 245
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
HP++GDP+Y P F+ + G LHAY+L HP+
Sbjct: 246 HPIVGDPIYSRKKVP--FEIK-----------------------GQALHAYKLGFCHPSN 280
Query: 313 NEVIKITAPLPS 324
N+ ++ APLP
Sbjct: 281 NQYMEFEAPLPD 292
>gi|365853555|ref|ZP_09393822.1| pseudouridine synthase, RluA family [Lactobacillus parafarraginis
F0439]
gi|363712180|gb|EHL95879.1| pseudouridine synthase, RluA family [Lactobacillus parafarraginis
F0439]
Length = 303
Score = 135 bits (339), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 100/321 (31%), Positives = 159/321 (49%), Gaps = 59/321 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIALN 78
I++G +TV+G P + ++ H R+ ++P L+++YED+D+I +N
Sbjct: 34 IEDGNVTVNGGT-EKPKYEVKVSDTILIHDVQPKRIDLTPENIP--LDIVYEDNDVIVVN 90
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + + SS++ + P VHR+ + TSG+L+ AK
Sbjct: 91 KPQGMVVHPSAGHPDHTLVNALLYHSP--LSSINGEYR-PGIVHRVDKDTSGLLMVAKNN 147
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A ++ +L +K + Y ALVHG++ ED +I PIG R P
Sbjct: 148 QAHQELS----------------TQLKAQKNLRQYVALVHGVIKEDSGVINAPIG--RSP 189
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K + + G+PA++ V+ER ++ TLV +++GR HQIR+H+ ++GHPL+GD
Sbjct: 190 RDRKKQAIVA-DGRPAITHFTVVER--FKHYTLVNCRLETGRTHQIRVHMQYIGHPLVGD 246
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY G K+ G +LHA +L HP T+E++
Sbjct: 247 PLY---GPKKTIKGH-----------------------GQFLHAQELGFEHPKTHELMIF 280
Query: 319 TAPLPSVL-KTREEGREVDKS 338
TAPLP + KT R D S
Sbjct: 281 TAPLPPIFEKTLTTLRSTDLS 301
>gi|422419871|ref|ZP_16496826.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria seeligeri FSL N1-067]
gi|313632225|gb|EFR99288.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria seeligeri FSL N1-067]
Length = 289
Score = 134 bits (338), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 94/294 (31%), Positives = 152/294 (51%), Gaps = 53/294 (18%)
Query: 29 ITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYLLEVLYEDDDLIALNKPSGLQVLP 87
+ ++ + +D N L G+ L + ++ DV Y LEV+YEDD L+ +NKP G++ P
Sbjct: 41 VLLNNKPFDDWNTPLFVGASLSLPVILHEKIDVYEYDLEVIYEDDFLLVVNKPVGMKTHP 100
Query: 88 GGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGY 147
++ T N +Q+ + ++Q ++ + VHRL + TSG++L AK KLA IAG
Sbjct: 101 NDSYETDTCANAVQYYLEQ-----TNQDANALAVHRLDQTTSGLVLFAKNKLA---IAGL 152
Query: 148 FADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVA 207
++ R I + Y A V G I +PIG R+ G + +
Sbjct: 153 -------------SWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHHGSRRQI--- 196
Query: 208 SPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQP 267
SP G+PA++ + VLE D ++N +LV+ +I++GR HQIR+HL+ +GHP++GD LY GG P
Sbjct: 197 SPYGQPAVTHITVLENDTEKNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLY--GGSP 254
Query: 268 KSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
++ N + LHA +L L+HP + + +AP
Sbjct: 255 RA--------------------NRI------MLHAEKLHLNHPFKGKEMNFSAP 282
>gi|121533717|ref|ZP_01665544.1| pseudouridine synthase, RluA family [Thermosinus carboxydivorans
Nor1]
gi|121307708|gb|EAX48623.1| pseudouridine synthase, RluA family [Thermosinus carboxydivorans
Nor1]
Length = 309
Score = 134 bits (338), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 104/312 (33%), Positives = 156/312 (50%), Gaps = 54/312 (17%)
Query: 21 LQRI-QNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV----PYLLEVLYEDDDLI 75
+QRI G++TV+G+ N L A ++ V RLP +P L++LYED+D+I
Sbjct: 38 IQRIIAAGEVTVNGKA-GKANYKL-APADYVTIRLPEPKPAEIKAEAISLDILYEDEDII 95
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P + T++N L R + S ++ S P VHRL + TSG+++ A
Sbjct: 96 VINKPRGMVVHPAAGNYEGTLVNAL-LRHCDRLSGING-VSRPGIVHRLDKDTSGVMMVA 153
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
KT A +A ++ +R + Y A+VHG + E++ II PIG
Sbjct: 154 KTDRAHLDLA----------------RQIKERTAGRKYVAIVHGNIKENQGIINAPIG-- 195
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R+P K + V + K A++ VLER + TLV+ + +GR HQIR+H+A++GHP+
Sbjct: 196 RHPTDRKKMAVVFTNSKEAITTFQVLER--FGDYTLVECRLFTGRTHQIRVHMAYIGHPV 253
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
+GDP Y G Q FA G LHA +L HP T E
Sbjct: 254 VGDPKYGPGRQ------RFA-------------------IMGQALHAAELTFQHPVTGER 288
Query: 316 IKITAPLPSVLK 327
+ T PLP ++
Sbjct: 289 MSFTVPLPDDMR 300
>gi|315282847|ref|ZP_07871166.1| ribosomal large subunit pseudouridine synthase D [Listeria marthii
FSL S4-120]
gi|313613517|gb|EFR87342.1| ribosomal large subunit pseudouridine synthase D [Listeria marthii
FSL S4-120]
Length = 302
Score = 134 bits (338), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 101/306 (33%), Positives = 144/306 (47%), Gaps = 57/306 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE-----PDVPYLLEVLYEDDDLIALN 78
++NG ITV+G + PN + G E+ Y +E D+P L++ +ED D++ +N
Sbjct: 36 LKNGDITVNGELAK-PNYKVQVGDEIHYEAREPEELEVLAEDIP--LDIYFEDKDMLVVN 92
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 KPEGMVVHPSAGHASGTLVNALLFHCDDLSGI--NGKIRPGIVHRIDKDTSGLLMVAKND 150
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DKTS + Y ALVHG + K I+ PIG R
Sbjct: 151 HAHESLAKQLKDKTS----------------DREYIALVHGDIVHQKGTIEAPIG--RAK 192
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ + V GK A + +VLER TL+ ++ +GR HQIR+HL ++GHPL GD
Sbjct: 193 EDRQKMAVVR-DGKEARTHFEVLER--LPGFTLINCKLDTGRTHQIRVHLKYIGHPLAGD 249
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y P N + G+ G +LHA +L HPTTNE +
Sbjct: 250 PKY-------------------------GPKNTIKGN-GQFLHAAKLGFDHPTTNERMTF 283
Query: 319 TAPLPS 324
APLPS
Sbjct: 284 EAPLPS 289
>gi|116873278|ref|YP_850059.1| ribosomal large subunit pseudouridine synthase [Listeria welshimeri
serovar 6b str. SLCC5334]
gi|116742156|emb|CAK21280.1| Ribosomal large subunit pseudouridine synthase [Listeria welshimeri
serovar 6b str. SLCC5334]
Length = 302
Score = 134 bits (338), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 102/306 (33%), Positives = 145/306 (47%), Gaps = 57/306 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYH-RLPWK----EPDVPYLLEVLYEDDDLIALN 78
++NG ITV+G + PN + G E+ Y R P + D+P L++ +ED D++ +N
Sbjct: 36 LKNGDITVNGELAK-PNYKVQVGDEIHYEIREPEELEVLAEDIP--LDIYFEDKDMLVVN 92
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 KPEGMVVHPSAGHASGTLVNALLFHCDDLSGI--NGKIRPGIVHRIDKDTSGLLMVAKND 150
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DKTS + Y ALVHG + K I+ PIG R
Sbjct: 151 HAHESLAKQLKDKTS----------------DREYIALVHGDIVHQKGTIEAPIG--RAK 192
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ + V GK A + +VLER TL+ ++ +GR HQIR+HL ++GHPL GD
Sbjct: 193 EDRQKMAVVR-DGKEARTHFEVLER--LPGYTLINCKLDTGRTHQIRVHLKYIGHPLAGD 249
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y P N + G+ G YLHA +L HPTTNE +
Sbjct: 250 PKY-------------------------GPKNTIKGN-GQYLHAAKLGFDHPTTNERMTF 283
Query: 319 TAPLPS 324
APLP+
Sbjct: 284 EAPLPA 289
>gi|438002596|ref|YP_007272339.1| Ribosomal large subunit pseudouridine synthase D [Tepidanaerobacter
acetatoxydans Re1]
gi|432179390|emb|CCP26363.1| Ribosomal large subunit pseudouridine synthase D [Tepidanaerobacter
acetatoxydans Re1]
Length = 303
Score = 134 bits (338), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 156/311 (50%), Gaps = 61/311 (19%)
Query: 17 LQGWLQRIQNGQITV-DGRVVNDPNIILSAGSELVYHRLPWKEP-DVPYLLEVLYEDDDL 74
++GW++ NG I + R+ + II++ L P +P D+P L++++ED D+
Sbjct: 33 VEGWIK--VNGSIVKPNYRLRQEDQIIVTVPQAL----QPLIDPEDIP--LDIIFEDRDI 84
Query: 75 IALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP--VHRLGRGTSGIL 132
+ +NKP G+ V P T++N L + LS++ P VHRL + TSG++
Sbjct: 85 VVINKPRGMVVYPAPGNYSGTLINAL----LNHTKDLSARGGTMRPGIVHRLDKDTSGVI 140
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPI 192
+ AK A ++ +L R++ K+Y+ LV G V EDK I PI
Sbjct: 141 VVAKNDTAHINLSK----------------QLKSREVKKVYQTLVWGKVQEDKATINAPI 184
Query: 193 GIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
G R+P K + V + + K A++ VLER + T ++V I++GR HQIR+H+ F+G
Sbjct: 185 G--RHPIKRKEMAVTTKNSKEAITHFKVLERFDE--FTFLEVAIETGRTHQIRVHMKFIG 240
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
HP++GDP+Y P F+ + G LHAY+L HP+
Sbjct: 241 HPIVGDPIYSRKKVP--FEIK-----------------------GQALHAYKLGFCHPSN 275
Query: 313 NEVIKITAPLP 323
N+ ++ APLP
Sbjct: 276 NQYMEFEAPLP 286
>gi|414155728|ref|ZP_11412038.1| RluA family pseudouridine synthase [Streptococcus sp. F0442]
gi|410872663|gb|EKS20604.1| RluA family pseudouridine synthase [Streptococcus sp. F0442]
Length = 296
Score = 134 bits (338), Expect = 6e-29, Method: Compositional matrix adjust.
Identities = 102/320 (31%), Positives = 166/320 (51%), Gaps = 60/320 (18%)
Query: 22 QRIQNGQITVDGRV------VNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLI 75
++I+ G++ V+G V V + +II E+V + ++ D+P L+++YED D++
Sbjct: 29 EQIKEGKVLVNGTVKKAKYTVKEGDIIQYEVPEMV--EISYEAEDLP--LDIVYEDQDVV 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ + P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALLYHV-KDLSGINGELR-PGIVHRIDKDTSGLLMVA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ RK Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDQAHVALAEELKDKKSL------------RK----YWAIVHGNLPNDRGMIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + TLV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFQVLER--FGDYTLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDP Y G K+ + G +LHA L +HP T E
Sbjct: 242 AGDPAY---GPKKTLKGK-----------------------GQFLHARTLGFTHPRTGET 275
Query: 316 IKITAPLPSVL-KTREEGRE 334
++ TA +P++ KT E+ R+
Sbjct: 276 LEFTAEVPAIFEKTLEDLRK 295
>gi|357058623|ref|ZP_09119471.1| hypothetical protein HMPREF9334_01188 [Selenomonas infelix ATCC
43532]
gi|355373579|gb|EHG20895.1| hypothetical protein HMPREF9334_01188 [Selenomonas infelix ATCC
43532]
Length = 303
Score = 134 bits (337), Expect = 6e-29, Method: Compositional matrix adjust.
Identities = 100/312 (32%), Positives = 145/312 (46%), Gaps = 56/312 (17%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE-----PDVPYLLEVLYED 71
+ + QR I +GQ+TVD N L G E+V P +E D+P L++LYED
Sbjct: 28 RSYAQRLIADGQVTVDD-TARKANYKLRGGEEIVCTMPPAEEIEICAEDIP--LDILYED 84
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
D+I +NK G+ V P T++N L W S + A P VHRL + TSG+
Sbjct: 85 ADIIVVNKARGMVVHPAAGIYTGTLVNALLWHCHDLSGI--NGALRPGIVHRLDKDTSGV 142
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AK +A +A DK + + YRA+VHG + +I
Sbjct: 143 MVAAKNDMAHHYLARQIRDKDA----------------RREYRAIVHGNIVPRAGVITGD 186
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+P K + + +GKPA + +VLER + T V +++GR HQIR+H+ +
Sbjct: 187 IG--RHPTDRKKMAIVRENGKPATTHFEVLER--FGDYTYVSCRLETGRTHQIRVHMMSI 242
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPL+GDP Y P + G LH+ L L+HP
Sbjct: 243 GHPLVGDPKYTMKKNPFAI-------------------------VGQALHSLSLSLTHPR 277
Query: 312 TNEVIKITAPLP 323
T + + TAPLP
Sbjct: 278 TGKEMAFTAPLP 289
>gi|374338180|ref|YP_005094891.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
macedonicus ACA-DC 198]
gi|372284291|emb|CCF02556.1| Ribosomal large subunit pseudouridine synthase D [Streptococcus
macedonicus ACA-DC 198]
Length = 298
Score = 134 bits (337), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 101/309 (32%), Positives = 151/309 (48%), Gaps = 57/309 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIALN 78
I+ G + V+G+ V + G + Y L + ++P L+++YEDDD+ +N
Sbjct: 31 IKKGTVLVNGKAVK-AKYSVKVGDVVTYEVPKEEVLEYTAENIP--LDIIYEDDDVAVVN 87
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
K G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 88 KLQGMVVHPSVGHTSGTLVNALMYHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIAKND 145
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 146 KAHNALAAELKDKKSL------------RK----YVAIVHGNIPNDRGVIEAPIG--RSE 187
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K V + GKPA++ VLER N TLV++ +++GR HQIR+H+A++GHP+ GD
Sbjct: 188 KDRKKQAVTA-KGKPAVTHFKVLER--FGNYTLVELTLETGRTHQIRVHMAYIGHPVAGD 244
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY P + GD G +LHA L +HPTT E +
Sbjct: 245 PLY-------------------------GPRKTLKGD-GQFLHAQTLGFTHPTTGETLTF 278
Query: 319 TAPLPSVLK 327
TA P++ K
Sbjct: 279 TAEAPAIFK 287
>gi|16803883|ref|NP_465368.1| hypothetical protein lmo1843 [Listeria monocytogenes EGD-e]
gi|47097693|ref|ZP_00235203.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes str. 1/2a F6854]
gi|254829161|ref|ZP_05233848.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes FSL N3-165]
gi|254912401|ref|ZP_05262413.1| conserved hypothetical protein [Listeria monocytogenes J2818]
gi|254936728|ref|ZP_05268425.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes F6900]
gi|255027649|ref|ZP_05299635.1| hypothetical protein LmonocytFSL_17157 [Listeria monocytogenes FSL
J2-003]
gi|284802289|ref|YP_003414154.1| hypothetical protein LM5578_2045 [Listeria monocytogenes 08-5578]
gi|284995431|ref|YP_003417199.1| hypothetical protein LM5923_1996 [Listeria monocytogenes 08-5923]
gi|386044151|ref|YP_005962956.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes 10403S]
gi|386047496|ref|YP_005965828.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes J0161]
gi|386050820|ref|YP_005968811.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes FSL R2-561]
gi|386054098|ref|YP_005971656.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes Finland 1998]
gi|404284339|ref|YP_006685236.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2372]
gi|404411144|ref|YP_006696732.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC5850]
gi|404413922|ref|YP_006699509.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC7179]
gi|405758894|ref|YP_006688170.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2479]
gi|16411297|emb|CAC99921.1| lmo1843 [Listeria monocytogenes EGD-e]
gi|47013931|gb|EAL04954.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes str. 1/2a F6854]
gi|258601571|gb|EEW14896.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes FSL N3-165]
gi|258609325|gb|EEW21933.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes F6900]
gi|284057851|gb|ADB68792.1| hypothetical protein LM5578_2045 [Listeria monocytogenes 08-5578]
gi|284060898|gb|ADB71837.1| hypothetical protein LM5923_1996 [Listeria monocytogenes 08-5923]
gi|293590383|gb|EFF98717.1| conserved hypothetical protein [Listeria monocytogenes J2818]
gi|345534487|gb|AEO03928.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes J0161]
gi|345537385|gb|AEO06825.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes 10403S]
gi|346424666|gb|AEO26191.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes FSL R2-561]
gi|346646749|gb|AEO39374.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes Finland 1998]
gi|404230970|emb|CBY52374.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC5850]
gi|404233841|emb|CBY55244.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2372]
gi|404236776|emb|CBY58178.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2479]
gi|404239621|emb|CBY61022.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC7179]
Length = 303
Score = 134 bits (337), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 102/306 (33%), Positives = 145/306 (47%), Gaps = 57/306 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYH-RLPWK----EPDVPYLLEVLYEDDDLIALN 78
++NG ITV+G + PN + G E+ Y R P + D+P L++ +ED D++ +N
Sbjct: 36 LKNGDITVNGELAK-PNYKVQVGDEIHYEVREPEELEVLAEDIP--LDIYFEDKDMLVVN 92
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 KPEGMVVHPSAGHASGTLVNALLFHCDDLSGI--NGKIRPGIVHRIDKDTSGLLMVAKND 150
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DKTS + Y ALVHG + K I+ PIG R
Sbjct: 151 HAHESLAKQLKDKTS----------------DREYIALVHGDIVHQKGTIEAPIG--RAK 192
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ + V GK A + +VLER TL+ ++ +GR HQIR+HL ++GHPL GD
Sbjct: 193 EDRQKMAVVR-DGKEARTHFEVLER--LPGYTLINCKLDTGRTHQIRVHLKYIGHPLAGD 249
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y P N + G+ G +LHA +L HPTTNE +
Sbjct: 250 PKY-------------------------GPKNTIKGN-GQFLHAAKLGFDHPTTNERMTF 283
Query: 319 TAPLPS 324
APLPS
Sbjct: 284 EAPLPS 289
>gi|306833765|ref|ZP_07466891.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
bovis ATCC 700338]
gi|304424102|gb|EFM27242.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
bovis ATCC 700338]
Length = 298
Score = 134 bits (337), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 100/309 (32%), Positives = 150/309 (48%), Gaps = 57/309 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIALN 78
I+ G + V+G+ V + G + Y L + ++P L+++YED D+ +N
Sbjct: 31 IKKGTVLVNGKAVK-AKYAVKVGDVVTYEVPKEEVLEYTAENIP--LDIIYEDADVAVVN 87
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 88 KPQGMVVHPSVGHTSGTLVNALMYHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIAKND 145
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 146 TAHNALAAELKDKKSL------------RK----YVAIVHGTIPNDRGVIEAPIG--RSE 187
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K V + GKPAL+ VLER N TLV++ +++GR HQIR+H+A++GHP+ GD
Sbjct: 188 KDRKKQAVTA-KGKPALTHFKVLER--FGNYTLVELTLETGRTHQIRVHMAYIGHPVAGD 244
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY P + G+ G +LHA L +HPTT E +
Sbjct: 245 PLY-------------------------GPRKTLKGN-GQFLHAQTLGFTHPTTGETLTF 278
Query: 319 TAPLPSVLK 327
A P++ K
Sbjct: 279 MAEAPAIFK 287
>gi|260587704|ref|ZP_05853617.1| ribosomal large subunit pseudouridine synthase D [Blautia hansenii
DSM 20583]
gi|331084005|ref|ZP_08333112.1| hypothetical protein HMPREF0992_02036 [Lachnospiraceae bacterium
6_1_63FAA]
gi|260541969|gb|EEX22538.1| ribosomal large subunit pseudouridine synthase D [Blautia hansenii
DSM 20583]
gi|330402367|gb|EGG81937.1| hypothetical protein HMPREF0992_02036 [Lachnospiraceae bacterium
6_1_63FAA]
Length = 305
Score = 134 bits (336), Expect = 8e-29, Method: Compositional matrix adjust.
Identities = 99/314 (31%), Positives = 155/314 (49%), Gaps = 50/314 (15%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+ +LQ+ +++G ++V+ + ++ ++ E+ KEPD+ L++LYED
Sbjct: 30 RSFLQKQLKDGNVSVNEKTAK-ASLKVAEDDEVRIFIPENKEPDIVPEDIPLDILYEDQQ 88
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
L+ +NKP G+ V P +T++N L + Q S ++ P VHR+ T+G L+
Sbjct: 89 LLVVNKPKGMVVHPSAGHYSQTLVNALMFHCKDQLSGING-VLRPGIVHRIDMDTTGALV 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
KT LA +A +L IT++YRA+VHG + ED I+ IG
Sbjct: 148 VCKTDLAHQSLAE----------------QLKVHSITRLYRAIVHGRLKEDFGTIEGTIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P K + + +GKPA + VLER T V+ E+++GR HQIR+H++ +GH
Sbjct: 192 --RHPTDRKKMAINVRNGKPATTHYKVLER--FDRFTYVECELETGRTHQIRVHMSSIGH 247
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PLLGD +Y G KS +P G LHA L HP +N
Sbjct: 248 PLLGDIVY---GPKKS---------------------ALPNLQGQTLHAMVLGFLHPVSN 283
Query: 314 EVIKITAPLPSVLK 327
E ++ TAPLP +
Sbjct: 284 EYMEFTAPLPEYFE 297
>gi|312866736|ref|ZP_07726950.1| pseudouridine synthase, RluA family [Streptococcus parasanguinis
F0405]
gi|311097817|gb|EFQ56047.1| pseudouridine synthase, RluA family [Streptococcus parasanguinis
F0405]
Length = 296
Score = 134 bits (336), Expect = 8e-29, Method: Compositional matrix adjust.
Identities = 100/320 (31%), Positives = 164/320 (51%), Gaps = 60/320 (18%)
Query: 22 QRIQNGQITVDGRV------VNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLI 75
++I+ G++ V+G V V + +II E+ + ++ D+P L+++YED D++
Sbjct: 29 EQIKEGKVLVNGTVKKAKYTVKEGDIIQYEVPEV--EEVSYEAEDLP--LDIVYEDQDVV 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ + P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALLYHV-KDLSGINGELR-PGIVHRIDKDTSGLLMVA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDQAHVALAEELKDKKSL----------------RKYWAIVHGNLPNDRGMIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFQVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDP Y G K+ + G +LHA L +HP T E
Sbjct: 242 AGDPAY---GPKKTLKGQ-----------------------GQFLHARTLGFTHPRTGET 275
Query: 316 IKITAPLPSVL-KTREEGRE 334
++ TA +P++ KT E+ R+
Sbjct: 276 LEFTAEVPAIFEKTLEDLRK 295
>gi|315304428|ref|ZP_07874717.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria ivanovii FSL F6-596]
gi|313627200|gb|EFR96044.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria ivanovii FSL F6-596]
Length = 289
Score = 134 bits (336), Expect = 8e-29, Method: Compositional matrix adjust.
Identities = 93/294 (31%), Positives = 152/294 (51%), Gaps = 53/294 (18%)
Query: 29 ITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYLLEVLYEDDDLIALNKPSGLQVLP 87
+ ++ + +D N L G+ L + ++ DV Y LEV+YEDD L+ +NKP G++ P
Sbjct: 41 VLLNNKPFDDWNTPLFVGASLSLPVILHEKIDVYEYDLEVIYEDDFLLVVNKPVGMKTHP 100
Query: 88 GGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGY 147
++ T N +Q+ + ++Q ++ + VHRL + TSG++L AK KLA IAG
Sbjct: 101 NDSYETDTCANAVQYYLEQ-----TNQDANALAVHRLDQTTSGLVLFAKNKLA---IAGL 152
Query: 148 FADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVA 207
++ R I + Y A V G I +PIG R+ G + +
Sbjct: 153 -------------SWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHHGSRRQI--- 196
Query: 208 SPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQP 267
SP G+PA++ + VLE D ++N ++V+ +I++GR HQIR+HL+ +GHP++GD LY GG P
Sbjct: 197 SPYGQPAVTHITVLENDTEKNTSIVECQIETGRTHQIRVHLSGIGHPIIGDTLY--GGSP 254
Query: 268 KSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
++ N + LHA +L L+HP + + +AP
Sbjct: 255 RA--------------------NRI------MLHAEKLHLNHPFKGKEMNFSAP 282
>gi|194468025|ref|ZP_03074011.1| pseudouridine synthase, RluA family [Lactobacillus reuteri 100-23]
gi|194452878|gb|EDX41776.1| pseudouridine synthase, RluA family [Lactobacillus reuteri 100-23]
Length = 303
Score = 134 bits (336), Expect = 8e-29, Method: Compositional matrix adjust.
Identities = 102/327 (31%), Positives = 160/327 (48%), Gaps = 62/327 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYED 71
+Q W I++G + V+G+ V P L G + ++ D+P L+++YED
Sbjct: 33 IQHW---IEDGHVLVNGKQVK-PKYKLLVGDHVQIIPEEPQKIDLAPEDIP--LDIVYED 86
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP G+ V P T++N L + + S+++ + P VHR+ + TSG+
Sbjct: 87 DDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHSP--LSTINGEFR-PGIVHRIDKDTSGL 143
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK +A + KT+ + Y ALVHG++ EDK I P
Sbjct: 144 LMVAKNDMAHRSLTAQLKAKTN----------------KREYVALVHGVIKEDKGTIDAP 187
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
+G +G+ V G+ A++ +VLER +N TLV ++++GR HQIR+H+ ++
Sbjct: 188 LGRSLKDRKKQGVVV---DGRHAVTHFNVLER--FKNYTLVACQLETGRTHQIRVHMKYI 242
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPL GDPLY P + G+ G YLHA L HP
Sbjct: 243 GHPLAGDPLY-------------------------GPRKTLAGN-GQYLHARLLGFKHPR 276
Query: 312 TNEVIKITAPLPS-VLKTREEGREVDK 337
T + + TAPLP+ +K E R+ D+
Sbjct: 277 TGKEMVFTAPLPAYFVKMLEHLRKTDQ 303
>gi|257884651|ref|ZP_05664304.1| pseudouridylate synthase [Enterococcus faecium 1,231,501]
gi|261207803|ref|ZP_05922488.1| pseudouridylate synthase [Enterococcus faecium TC 6]
gi|289566255|ref|ZP_06446687.1| RNA pseudouridine synthase ylyB [Enterococcus faecium D344SRF]
gi|294616594|ref|ZP_06696370.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1636]
gi|416131314|ref|ZP_11597685.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E4452]
gi|430820160|ref|ZP_19438797.1| RluA family pseudouridine synthase [Enterococcus faecium E0045]
gi|430822263|ref|ZP_19440842.1| RluA family pseudouridine synthase [Enterococcus faecium E0120]
gi|430825314|ref|ZP_19443519.1| RluA family pseudouridine synthase [Enterococcus faecium E0164]
gi|430828567|ref|ZP_19446687.1| RluA family pseudouridine synthase [Enterococcus faecium E0269]
gi|430849881|ref|ZP_19467648.1| RluA family pseudouridine synthase [Enterococcus faecium E1185]
gi|430864759|ref|ZP_19480584.1| RluA family pseudouridine synthase [Enterococcus faecium E1574]
gi|430870884|ref|ZP_19483471.1| RluA family pseudouridine synthase [Enterococcus faecium E1575]
gi|431195499|ref|ZP_19500477.1| RluA family pseudouridine synthase [Enterococcus faecium E1620]
gi|431295228|ref|ZP_19507116.1| RluA family pseudouridine synthase [Enterococcus faecium E1626]
gi|431620624|ref|ZP_19522789.1| RluA family pseudouridine synthase [Enterococcus faecium E1904]
gi|431743697|ref|ZP_19532573.1| RluA family pseudouridine synthase [Enterococcus faecium E2071]
gi|431765402|ref|ZP_19553916.1| RluA family pseudouridine synthase [Enterococcus faecium E4215]
gi|431766987|ref|ZP_19555447.1| RluA family pseudouridine synthase [Enterococcus faecium E1321]
gi|257820489|gb|EEV47637.1| pseudouridylate synthase [Enterococcus faecium 1,231,501]
gi|260078186|gb|EEW65892.1| pseudouridylate synthase [Enterococcus faecium TC 6]
gi|289161962|gb|EFD09830.1| RNA pseudouridine synthase ylyB [Enterococcus faecium D344SRF]
gi|291590544|gb|EFF22277.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1636]
gi|364093667|gb|EHM35915.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E4452]
gi|430439850|gb|ELA50160.1| RluA family pseudouridine synthase [Enterococcus faecium E0045]
gi|430443321|gb|ELA53306.1| RluA family pseudouridine synthase [Enterococcus faecium E0120]
gi|430446207|gb|ELA55892.1| RluA family pseudouridine synthase [Enterococcus faecium E0164]
gi|430483400|gb|ELA60478.1| RluA family pseudouridine synthase [Enterococcus faecium E0269]
gi|430536576|gb|ELA76943.1| RluA family pseudouridine synthase [Enterococcus faecium E1185]
gi|430553540|gb|ELA93226.1| RluA family pseudouridine synthase [Enterococcus faecium E1574]
gi|430558683|gb|ELA98094.1| RluA family pseudouridine synthase [Enterococcus faecium E1575]
gi|430571877|gb|ELB10751.1| RluA family pseudouridine synthase [Enterococcus faecium E1620]
gi|430581318|gb|ELB19763.1| RluA family pseudouridine synthase [Enterococcus faecium E1626]
gi|430603570|gb|ELB41088.1| RluA family pseudouridine synthase [Enterococcus faecium E1904]
gi|430606486|gb|ELB43837.1| RluA family pseudouridine synthase [Enterococcus faecium E2071]
gi|430628489|gb|ELB64924.1| RluA family pseudouridine synthase [Enterococcus faecium E4215]
gi|430631860|gb|ELB68160.1| RluA family pseudouridine synthase [Enterococcus faecium E1321]
Length = 303
Score = 134 bits (336), Expect = 8e-29, Method: Compositional matrix adjust.
Identities = 106/325 (32%), Positives = 160/325 (49%), Gaps = 63/325 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+Q WL+ NG ++V+G+ V N + G E+ +P E ++P L ++YE
Sbjct: 31 IQLWLK---NGAVSVNGQPVK-ANYKVKQGDEITV-LIPEPETLDVVPENIP--LTIVYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+ +NKP G+ V P T++N L + K S+++ P VHR+ + TSG
Sbjct: 84 DEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHI-KDLSTING-VIRPGIVHRIDKDTSG 141
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A DKTS+ RK Y ALVHG + +K I
Sbjct: 142 LLMVAKNDQAHESLAQQLKDKTSL------------RK----YVALVHGEIPHEKGTINA 185
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + + + GKPA++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 186 PIGRSKE---NRKMQAIREDGKPAVTHFTVLER--FEGFTLVELKLETGRTHQIRVHMKY 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDP+Y G K+ G +LHA L +HP
Sbjct: 241 IGYPLAGDPVY---GPKKTLKGN-----------------------GQFLHAQMLGFTHP 274
Query: 311 TTNEVIKITAPLPSVL-KTREEGRE 334
TTNE + APLP V KT E+ R+
Sbjct: 275 TTNEKMIFEAPLPEVFEKTLEKLRK 299
>gi|430852585|ref|ZP_19470316.1| RluA family pseudouridine synthase [Enterococcus faecium E1258]
gi|430541419|gb|ELA81564.1| RluA family pseudouridine synthase [Enterococcus faecium E1258]
Length = 303
Score = 134 bits (336), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 106/325 (32%), Positives = 160/325 (49%), Gaps = 63/325 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+Q WL+ NG ++V+G+ V N + G E+ +P E ++P L ++YE
Sbjct: 31 IQLWLK---NGAVSVNGQPVK-ANYKVKQGDEITV-LIPEPETLDVGPENIP--LTIVYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+ +NKP G+ V P T++N L + K S+++ P VHR+ + TSG
Sbjct: 84 DEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHI-KDLSTING-VIRPGIVHRIDKDTSG 141
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A DKTS+ RK Y ALVHG + +K I
Sbjct: 142 LLMVAKNDQAHESLAQQLKDKTSL------------RK----YVALVHGEIPHEKGTINA 185
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + + + GKPA++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 186 PIGRSKE---NRKMQAIREDGKPAVTHFTVLER--FEGFTLVELKLETGRTHQIRVHMKY 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDP+Y G K+ G +LHA L +HP
Sbjct: 241 IGYPLAGDPVY---GPKKTLKGN-----------------------GQFLHAQMLGFTHP 274
Query: 311 TTNEVIKITAPLPSVL-KTREEGRE 334
TTNE + APLP V KT E+ R+
Sbjct: 275 TTNEKMIFEAPLPEVFEKTLEKLRK 299
>gi|255022986|ref|ZP_05294972.1| hypothetical protein LmonocyFSL_05005 [Listeria monocytogenes FSL
J1-208]
gi|422809924|ref|ZP_16858335.1| Ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL J1-208]
gi|378751588|gb|EHY62176.1| Ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL J1-208]
Length = 302
Score = 133 bits (335), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 101/306 (33%), Positives = 146/306 (47%), Gaps = 57/306 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYH-RLPWK----EPDVPYLLEVLYEDDDLIALN 78
++NG ITV+G + PN + G E+ Y R P + D+P L++ +ED D++ +N
Sbjct: 36 LKNGDITVNGELAK-PNYKVQVGDEIHYEVREPEELEVLAEDIP--LDIYFEDKDMLVVN 92
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 KPEGMVVHPSAGHASGTLVNALLFHCDDLSGI--NGKIRPGIVHRIDKDTSGLLMVAKND 150
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DKTS + Y ALVHG + K I+ PIG R
Sbjct: 151 HAHESLAKQLKDKTS----------------DREYIALVHGDIVHQKGTIEAPIG--RAK 192
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ + V GK A + +VLER TL++ ++ +GR HQIR+HL ++GHPL GD
Sbjct: 193 EDRQKMAVVR-DGKEARTHFEVLER--LPGYTLIKCKLDTGRTHQIRVHLKYIGHPLAGD 249
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y P N + G+ G +LHA +L HPTTNE +
Sbjct: 250 PKY-------------------------GPKNTIKGN-GQFLHAAKLGFDHPTTNERMTF 283
Query: 319 TAPLPS 324
APLP+
Sbjct: 284 EAPLPN 289
>gi|322389731|ref|ZP_08063278.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
parasanguinis ATCC 903]
gi|321143570|gb|EFX39001.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
parasanguinis ATCC 903]
Length = 296
Score = 133 bits (335), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 100/320 (31%), Positives = 164/320 (51%), Gaps = 60/320 (18%)
Query: 22 QRIQNGQITVDGRV------VNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLI 75
++I+ G++ V+G V V + +II E+ + ++ D+P L+++YED D++
Sbjct: 29 EQIKEGKVLVNGTVKKAKYTVKEGDIIQYEVPEV--EEVSYEAEDLP--LDIVYEDQDVV 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ + P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALLYHV-KDLSGINGELR-PGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDQAHVALAEELKDKKSL----------------RKYWAIVHGNLPNDRGMIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFQVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDP Y G K+ + G +LHA L +HP T E
Sbjct: 242 AGDPAY---GPKKTLKGQ-----------------------GQFLHARTLGFTHPRTGET 275
Query: 316 IKITAPLPSVL-KTREEGRE 334
++ TA +P++ KT E+ R+
Sbjct: 276 LEFTAEVPAIFEKTLEDLRK 295
>gi|313896045|ref|ZP_07829599.1| pseudouridine synthase, RluA family [Selenomonas sp. oral taxon 137
str. F0430]
gi|312975470|gb|EFR40931.1| pseudouridine synthase, RluA family [Selenomonas sp. oral taxon 137
str. F0430]
Length = 301
Score = 133 bits (335), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 101/316 (31%), Positives = 155/316 (49%), Gaps = 56/316 (17%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE-----PDVPYLLEVLYED 71
+ ++QR I +G + VDG V PN L +G E+ P +E D+P L+VLYED
Sbjct: 26 RSYVQRLITDGNVRVDGAPVK-PNYKLRSGEEICCTVPPAEEVVIAAEDIP--LDVLYED 82
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
+D+I +NK G+ V P T++N L +R + S ++ + P VHRL + TSG+
Sbjct: 83 EDIIVINKARGMVVHPAAGNLTGTLVNALLFRC-RDLSGINGELR-PGIVHRLDKDTSGV 140
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AK +A +A ++ + + YRALVHG + E +I
Sbjct: 141 MVAAKNDMAHHFLA----------------QQIRSKDARREYRALVHGNIAERAGVITGD 184
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+P K + + GK A + +VLER + TLV +++GR HQIR+H+ +
Sbjct: 185 IG--RHPTDRKRMAIVRSGGKSATTHFEVLER--FGDYTLVSCVLETGRTHQIRVHMTSI 240
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPL+GD Y A P G G LH++ L L+HP
Sbjct: 241 GHPLVGDAKYTAMKNPF-------------------------GIHGQALHSHILTLAHPR 275
Query: 312 TNEVIKITAPLPSVLK 327
T ++ TAPLP+ ++
Sbjct: 276 TGAQMRFTAPLPADME 291
>gi|289547904|ref|YP_003472892.1| pseudouridine synthase [Thermocrinis albus DSM 14484]
gi|289181521|gb|ADC88765.1| pseudouridine synthase, RluA family [Thermocrinis albus DSM 14484]
Length = 324
Score = 133 bits (334), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 98/302 (32%), Positives = 154/302 (50%), Gaps = 48/302 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
++ G + VDG+VV P+ + G E+V +P EP D+P LE+LYEDDDL +
Sbjct: 43 VEGGYVLVDGQVVYKPSRKVKGG-EVVVLCVPKVEPLSLPAEDIP--LEILYEDDDLAVV 99
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
KP GL V P + T++N L +R + + P VHRL R T G+++ AK
Sbjct: 100 VKPCGLVVHPSPGYTSGTLVNALLFRWRDLPTV--GEWYRPGIVHRLDRNTMGVMVVAKR 157
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+LA +A F +RK+ K+YRALV G+V+ D+ + P+ R
Sbjct: 158 ELAHRRLAEQF----------------EKRKVLKVYRALVKGLVERDEGTLSMPLA--RD 199
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P K + S G+ A++ VL+R + +L+++ I +GR HQIR+H+A +GHP+LG
Sbjct: 200 PRHRKR-FTVSEKGRDAITHYKVLKRYRSLSVSLLEIRIYTGRTHQIRVHMAGIGHPVLG 258
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
D +Y G P S E +N G+C + L +Y+L HP + + ++
Sbjct: 259 DRIY--GYVPSSLPQE---------------INEAMGEC-HMLVSYRLGFYHPVSGQWME 300
Query: 318 IT 319
+
Sbjct: 301 FS 302
>gi|355677867|ref|ZP_09060634.1| hypothetical protein HMPREF9469_03671 [Clostridium citroniae
WAL-17108]
gi|354812953|gb|EHE97567.1| hypothetical protein HMPREF9469_03671 [Clostridium citroniae
WAL-17108]
Length = 303
Score = 133 bits (334), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 95/311 (30%), Positives = 154/311 (49%), Gaps = 50/311 (16%)
Query: 18 QGWLQRI-QNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+ ++Q++ ++GQ+ V+ + V + ++S + EP++ L++LYED D
Sbjct: 29 RSYIQKLLKSGQVLVNKKGVK-ASYVVSEDDHIELEVPAAVEPEIEAEAMDLDILYEDQD 87
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
+I +NKP G+ V P T++N L + Q S ++ P VHR+ T+G+L+
Sbjct: 88 IILINKPKGMVVHPAAGHYSHTLVNGLMYHCKDQLSGING-VMRPGIVHRIDMDTTGVLI 146
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
K +A IA +L + IT+ Y+A+VHG++ E++ + PIG
Sbjct: 147 ACKNDMAHNSIAA----------------QLKEHSITRRYQAIVHGVIKEEEGTVVAPIG 190
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+ K + + +G+ A++ VL+R Q T V+ +++GR HQIR+H+A L H
Sbjct: 191 --RHQTERKKMCINYSNGRGAITHYRVLQRFSQ--FTYVECRLETGRTHQIRVHMASLHH 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PLLGD +Y G K PVPG G LHA L + HP T
Sbjct: 247 PLLGDHVY---GPAKC---------------------PVPGLTGQTLHAGILGIVHPRTG 282
Query: 314 EVIKITAPLPS 324
E ++ TAPLP
Sbjct: 283 EYMEFTAPLPE 293
>gi|337282172|ref|YP_004621643.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
parasanguinis ATCC 15912]
gi|335369765|gb|AEH55715.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
parasanguinis ATCC 15912]
Length = 296
Score = 133 bits (334), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 100/320 (31%), Positives = 164/320 (51%), Gaps = 60/320 (18%)
Query: 22 QRIQNGQITVDGRV------VNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLI 75
++I+ G++ V+G V V + +II E+ + ++ D+P L+++YED D++
Sbjct: 29 EQIKEGKVLVNGTVKKAKYTVKEGDIIQYEVPEV--EEVSYEAEDLP--LDIVYEDQDVV 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ + P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALLYHI-KDLSGINGELR-PGIVHRIDKDTSGLLMVA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDQAHVALAEELKDKKSL----------------RKYWAIVHGNLPNDRGMIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFQVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDP Y G K+ + G +LHA L +HP T E
Sbjct: 242 AGDPAY---GPKKTLKGQ-----------------------GQFLHARTLGFTHPRTGET 275
Query: 316 IKITAPLPSVL-KTREEGRE 334
++ TA +P++ KT E+ R+
Sbjct: 276 LEFTAEVPAIFEKTLEDLRK 295
>gi|291087665|ref|ZP_06572048.1| ribosomal large subunit pseudouridine synthase D [Clostridium sp.
M62/1]
gi|291074400|gb|EFE11764.1| pseudouridine synthase, RluA family [Clostridium sp. M62/1]
Length = 300
Score = 133 bits (334), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 96/313 (30%), Positives = 150/313 (47%), Gaps = 55/313 (17%)
Query: 18 QGWLQRIQNGQ-ITVDGRVVNDPNIILSAGSELVYHRLPWKEP-----DVPYLLEVLYED 71
+ +LQ++ + + VD R V + + LSAG ++ + EP D+P L+++YED
Sbjct: 24 RSYLQKLLKSELVEVDKRTVKN-SYKLSAGEKIEFEVPEAAEPEIKAEDIP--LDIIYED 80
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
D+I +NKP G+ V P +T++N L + S ++ P VHR+ T+G+
Sbjct: 81 SDIILVNKPKGMVVHPAAGHYSQTLVNGLMYHCRDGLSGING-VLRPGIVHRIDMDTTGV 139
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ K A IA +L IT+ Y A+VHG++ ED+ + P
Sbjct: 140 LIVCKNDFAHNAIA----------------EQLKVHSITRKYFAIVHGVIQEDEGTVDAP 183
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+P K + + +GK A++ VLER R T V+ ++++GR HQIR+H+A +
Sbjct: 184 IG--RHPVDRKKMSINRKNGKEAVTHYRVLER--FRQFTYVECQLETGRTHQIRVHMASI 239
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPLLGD +Y P G LHA L + HP
Sbjct: 240 GHPLLGDSVYGPSKIPFKLQ-------------------------GQTLHAGVLGIVHPR 274
Query: 312 TNEVIKITAPLPS 324
T ++ +APLP
Sbjct: 275 TGNYMEFSAPLPE 287
>gi|423098750|ref|ZP_17086458.1| pseudouridine synthase, RluA family [Listeria innocua ATCC 33091]
gi|370794577|gb|EHN62340.1| pseudouridine synthase, RluA family [Listeria innocua ATCC 33091]
Length = 302
Score = 133 bits (334), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 99/306 (32%), Positives = 144/306 (47%), Gaps = 57/306 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE-----PDVPYLLEVLYEDDDLIALN 78
++NG ITV+G + PN + G E+ Y +E D+P L++ +ED D++ +N
Sbjct: 36 LKNGDITVNGELAK-PNYKVQVGDEIRYEAREPEELEILAEDIP--LDIYFEDKDMLVVN 92
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 KPEGMVVHPSAGHASGTLVNALLFHCDDLSGI--NGKIRPGIVHRIDKDTSGLLMVAKND 150
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DKTS + Y ALVHG + K +I+ PIG R
Sbjct: 151 HAHESLAKQLKDKTS----------------DREYIALVHGDIIHQKGMIEAPIG--RAK 192
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ + V GK A + +V+ER TL+ ++ +GR HQIR+HL ++GHPL GD
Sbjct: 193 EDRQKMAVVR-DGKEARTHFEVIER--LPGYTLINCKLDTGRTHQIRVHLKYIGHPLAGD 249
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y P N + G+ G +LHA +L HPTTNE +
Sbjct: 250 PKY-------------------------GPKNTIKGN-GQFLHAAKLGFDHPTTNERMTF 283
Query: 319 TAPLPS 324
APLP
Sbjct: 284 EAPLPD 289
>gi|171778236|ref|ZP_02919442.1| hypothetical protein STRINF_00281 [Streptococcus infantarius subsp.
infantarius ATCC BAA-102]
gi|171282936|gb|EDT48360.1| pseudouridine synthase, RluA family [Streptococcus infantarius
subsp. infantarius ATCC BAA-102]
Length = 298
Score = 133 bits (334), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 99/309 (32%), Positives = 151/309 (48%), Gaps = 57/309 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIALN 78
I+ G + V+G+ V + G + Y L +K ++P L+++YED+D+ +
Sbjct: 31 IKKGTVLVNGKAVK-AKYAVKVGDVVTYEVPEEEVLEYKAENIP--LDIVYEDEDVAVVY 87
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 88 KPQGMVVHPSAGHTSGTLVNALMYHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIAKND 145
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 146 TAHNALAAELKDKKSL------------RK----YVAIVHGNIPNDRGVIEAPIG--RSE 187
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K V + GKPA++ VLER N TLV++ +++GR HQIR+H+A++GHP+ GD
Sbjct: 188 KDRKKQAVTA-KGKPAVTHFKVLER--FGNYTLVELTLETGRTHQIRVHMAYIGHPVAGD 244
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY P + G+ G +LHA L +HP T E +
Sbjct: 245 PLY-------------------------GPRKTLKGN-GQFLHAQTLGFTHPKTGETMTF 278
Query: 319 TAPLPSVLK 327
TA +P + K
Sbjct: 279 TAEVPVIFK 287
>gi|332654861|ref|ZP_08420603.1| ribosomal large subunit pseudouridine synthase D [Ruminococcaceae
bacterium D16]
gi|332516204|gb|EGJ45812.1| ribosomal large subunit pseudouridine synthase D [Ruminococcaceae
bacterium D16]
Length = 301
Score = 133 bits (334), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 88/260 (33%), Positives = 128/260 (49%), Gaps = 47/260 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+V+YEDDD+I +NKP GL V P T++N L + S ++ + P VHR+
Sbjct: 78 LDVVYEDDDVIVVNKPVGLVVHPAPGHPDGTLVNALLYHCGDSLSGINGELR-PGIVHRI 136
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
R TSG+++ AK A +A D T + ++Y A+ G ED
Sbjct: 137 DRDTSGLIIAAKNDRAHLALAAQLQDHT----------------LARVYEAVAVGGFKED 180
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ + PIG R+P K + V P G+PA++ VL R CT ++ +++GR HQI
Sbjct: 181 RGTVNAPIG--RHPVDRKKMAV-DPKGRPAVTHWKVLGR--YPGCTHLECRLETGRTHQI 235
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+A+LGHPLLGD +Y A PVPG G LHA +
Sbjct: 236 RVHMAYLGHPLLGDTVYGAK-------------------------KPVPGLAGQCLHARR 270
Query: 305 LFLSHPTTNEVIKITAPLPS 324
L HPTT + +++ PLP
Sbjct: 271 LRFIHPTTGQPVEVECPLPE 290
>gi|148240644|ref|YP_001226031.1| pseudouridylate synthase [Synechococcus sp. WH 7803]
gi|147849183|emb|CAK24734.1| Pseudouridylate synthase [Synechococcus sp. WH 7803]
Length = 314
Score = 133 bits (334), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 93/295 (31%), Positives = 149/295 (50%), Gaps = 44/295 (14%)
Query: 20 WLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIALNK 79
W RI+ G++ ++G + + ++ + + + + R PW EP +P V+Y+D D++ +NK
Sbjct: 44 WQSRIRTGELLLNGTCLQN-DVPVGSKDVVQWRRPPWLEPAIPDRWSVVYDDGDVLVINK 102
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
PSGL V+PGG F Q T+ L ++S L+ + P PVHRLGR TSG+ +CA+
Sbjct: 103 PSGLPVMPGGGFLQHTLSALLM-----ETSRLAGSSQAPKPVHRLGRFTSGLQVCARRPQ 157
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPG 199
+ ++ F + RK + + G+ + +++ + + R
Sbjct: 158 TRARLSRQFRPEGGC------------RKTYLAWAQPMAGLRADQPLVVTTDV-VERSHP 204
Query: 200 VAKGLYVASPS-GKPALSKVDVL-ERDVQRNCT---LVQVEIQSGRPHQIRIHLAFLGHP 254
+ ++ PS G+P ++ E + R C+ LV+V I +GRPHQIRIHLA LG P
Sbjct: 205 LLGWVWGPDPSDGEPLRRRLQARSELRLLRRCSQGDLVEVAISTGRPHQIRIHLAQLGSP 264
Query: 255 LLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
LLGDPLY+ P+ + A VPGD GY LHA+ L +
Sbjct: 265 LLGDPLYL----PQQRINTAA----------------VPGDGGYRLHAHTLVFEN 299
>gi|299821727|ref|ZP_07053615.1| ribosomal large subunit pseudouridine synthase [Listeria grayi DSM
20601]
gi|299817392|gb|EFI84628.1| ribosomal large subunit pseudouridine synthase [Listeria grayi DSM
20601]
Length = 302
Score = 133 bits (334), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 102/308 (33%), Positives = 147/308 (47%), Gaps = 57/308 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAG-----SELVYHRLPWKEPDVPYLLEVLYEDDDLIA 76
Q +++GQ+TVDG VV PN G E + + D+P L++ YED+DL+
Sbjct: 34 QLLKDGQVTVDGEVVK-PNYKCQLGDIVEMEERAPEVIEIEAEDIP--LDIYYEDEDLLV 90
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ + P VHR+ + TSG+L+ AK
Sbjct: 91 VNKPEGMVVHPSAGHYTGTLVNALLYHC-KDLSGINGKIR-PGIVHRIDKDTSGLLMVAK 148
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A KTS + Y ALVHG + K I+ PIG R
Sbjct: 149 NDAAHESLASQLKAKTS----------------HREYVALVHGDIAHQKGTIEAPIG--R 190
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
+ + V GK A + +VLER + TL+ ++ +GR HQIR+HL ++GHPL
Sbjct: 191 AKDDRQKMAVVG-DGKEARTHFEVLER--FGDFTLITCQLDTGRTHQIRVHLKYIGHPLA 247
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDP Y P N +PG+ G YLHA +L HP T E +
Sbjct: 248 GDPKY-------------------------GPKNTLPGN-GQYLHAKKLGFVHPRTKEEL 281
Query: 317 KITAPLPS 324
+PLP+
Sbjct: 282 SFESPLPA 289
>gi|116873677|ref|YP_850458.1| ribosomal large subunit pseudouridine synthase D [Listeria
welshimeri serovar 6b str. SLCC5334]
gi|116742555|emb|CAK21679.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria welshimeri serovar 6b str. SLCC5334]
Length = 289
Score = 132 bits (333), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 96/297 (32%), Positives = 148/297 (49%), Gaps = 59/297 (19%)
Query: 29 ITVDGRVVNDPNIILSAGSEL----VYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQ 84
+ ++ + ++D N L G+ L + H K P Y LE++YEDD L+ +NKP G++
Sbjct: 41 VLLNNKPLDDWNTPLFVGASLSLPIILHD---KIPVYEYDLEIIYEDDFLLVVNKPVGMK 97
Query: 85 VLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCI 144
P ++ T N +Q+ K + Q ++ + VHRL + TSG++L AK KLA I
Sbjct: 98 THPNDSYETDTCANAVQYYLEK-----TDQEANALAVHRLDQTTSGLVLFAKNKLA---I 149
Query: 145 AGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGL 204
AG ++ R I + Y A V G I +PIG R+ G + +
Sbjct: 150 AGL-------------SWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHHGSRRQI 196
Query: 205 YVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAG 264
SP G+PA++ V VLE D + N +LV+ +I++GR HQIR+HL+ +GHP++GD LY
Sbjct: 197 ---SPYGQPAVTHVKVLENDTENNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLY--- 250
Query: 265 GQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
GG R N + LHA +L L+HP + + +AP
Sbjct: 251 ------------------GGSNR-ANRI------MLHAEKLHLNHPFKGKEMNFSAP 282
>gi|347549239|ref|YP_004855567.1| hypothetical protein LIV_1819 [Listeria ivanovii subsp. ivanovii
PAM 55]
gi|346982310|emb|CBW86304.1| Conserved hypothetical protein [Listeria ivanovii subsp. ivanovii
PAM 55]
Length = 302
Score = 132 bits (333), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 103/317 (32%), Positives = 149/317 (47%), Gaps = 67/317 (21%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--------DVPYLLEVLYEDDDLI 75
+++G ITV+G + PN + G E+ L +EP D+P L++ YED D++
Sbjct: 36 LKSGDITVNGEIAK-PNYKVQVGDEI---HLEVREPETLEVLAEDIP--LDIYYEDKDML 89
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ + P VHR+ + TSG+L+ A
Sbjct: 90 VVNKPEGMVVHPSAGHASGTLVNALLFHC-KDLSGINGKIR-PGIVHRIDKDTSGLLMVA 147
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DKTS + Y ALVHG + K I+ PIG
Sbjct: 148 KNDHAHESLAKQLKDKTS----------------DREYIALVHGDIVHQKGTIEAPIGRA 191
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
+ + GK A + +V+ER TL+ ++ +GR HQIR+HL ++GHPL
Sbjct: 192 KED---RQKMAVVRDGKEARTHFEVIER--LEGYTLINCKLDTGRTHQIRVHLKYIGHPL 246
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDP Y P N + G+ G +LHA +L HPTT E
Sbjct: 247 AGDPKY-------------------------GPKNTLKGN-GQFLHAAKLGFDHPTTGER 280
Query: 316 IKITAPLPS----VLKT 328
+ APLPS VLKT
Sbjct: 281 MTFEAPLPSSFEKVLKT 297
>gi|294617890|ref|ZP_06697499.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1679]
gi|291595835|gb|EFF27119.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1679]
Length = 303
Score = 132 bits (333), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 106/325 (32%), Positives = 160/325 (49%), Gaps = 63/325 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+Q WL+ NG ++V+G+ V N + G E+ +P E ++P L ++YE
Sbjct: 31 IQLWLK---NGAVSVNGQPVK-ANYKVKQGDEITV-LIPEPETLDVVPENIP--LTIVYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+ +NKP G+ V P T++N L + K S+++ P VHR+ + TSG
Sbjct: 84 DEDVAVINKPQGMVVHPSAGHTHGTMVNALIYHI-KDLSTING-VIRPGIVHRIDKDTSG 141
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A DKTS+ RK Y ALVHG + +K I
Sbjct: 142 LLMVAKNDQAHESLAQQLKDKTSL------------RK----YVALVHGEIPHEKGTINA 185
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + + + GKPA++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 186 PIGRSKE---NRKMQAIREDGKPAVTHFTVLER--FEGFTLVELKLETGRTHQIRVHMKY 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDP+Y G K+ G +LHA L +HP
Sbjct: 241 IGYPLAGDPVY---GPKKTLKGN-----------------------GQFLHAQMLGFTHP 274
Query: 311 TTNEVIKITAPLPSVL-KTREEGRE 334
TTNE + APLP V KT E+ R+
Sbjct: 275 TTNEKMIFEAPLPEVFEKTLEKLRK 299
>gi|229552260|ref|ZP_04440985.1| pseudouridylate synthase [Lactobacillus rhamnosus LMS2-1]
gi|258539670|ref|YP_003174169.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus Lc 705]
gi|385835319|ref|YP_005873093.1| RluA family pseudouridine synthase [Lactobacillus rhamnosus ATCC
8530]
gi|418070676|ref|ZP_12707951.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus R0011]
gi|421770413|ref|ZP_16207110.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus LRHMDP2]
gi|421773631|ref|ZP_16210272.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus LRHMDP3]
gi|423077996|ref|ZP_17066683.1| pseudouridine synthase, RluA family [Lactobacillus rhamnosus ATCC
21052]
gi|229314396|gb|EEN80369.1| pseudouridylate synthase [Lactobacillus rhamnosus LMS2-1]
gi|257151346|emb|CAR90318.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus Lc 705]
gi|355394810|gb|AER64240.1| pseudouridine synthase, RluA family protein [Lactobacillus
rhamnosus ATCC 8530]
gi|357540096|gb|EHJ24113.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus R0011]
gi|357552376|gb|EHJ34149.1| pseudouridine synthase, RluA family [Lactobacillus rhamnosus ATCC
21052]
gi|411181631|gb|EKS48798.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus LRHMDP3]
gi|411182285|gb|EKS49437.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus LRHMDP2]
Length = 306
Score = 132 bits (333), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 110/350 (31%), Positives = 167/350 (47%), Gaps = 64/350 (18%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--- 59
+I + T H S +Q WLQ +G +TV+G V N ++AG ++V +P +P
Sbjct: 17 IITAHETTHTRSQ-VQKWLQ---DGLVTVNGNPVK-ANFKVTAG-DVVTVTIPEVKPLKA 70
Query: 60 -DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
P LE++YEDD +I +NKP G+ V P T++N L + + P
Sbjct: 71 VAEPIPLEIVYEDDQVIVVNKPQGMVVHPAPGHPDGTLVNGLLYHTKLPGIN---GVIRP 127
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHR+ + TSG+L+ AKT+ A+ ++ KTS+ + Y ALVH
Sbjct: 128 GIVHRIDKDTSGLLMVAKTEAAQLSLSAQLKAKTSI----------------REYLALVH 171
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G ED+ I P+G R P K V + G+ A++ VLER N TLV+ + +
Sbjct: 172 GTFKEDEGTIDAPLG--RDPRDRKRQAVVA-DGRHAVTHFQVLERFT--NYTLVKCILDT 226
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+A++ HP+ GDPLY P +PG G
Sbjct: 227 GRTHQIRVHMAYIHHPVAGDPLY-------------------------GPKRTLPGH-GQ 260
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKTREEGREVDKSVGSERIRGIQ 348
+LHA +L HP T +++ TAP+P + E D G ++ R ++
Sbjct: 261 FLHAAKLGFVHPVTGKLLTFTAPVPPIF----EKTLTDLRAGIDKTRNVR 306
>gi|425058453|ref|ZP_18461834.1| pseudouridine synthase, RluA family [Enterococcus faecium 504]
gi|430836003|ref|ZP_19453988.1| RluA family pseudouridine synthase [Enterococcus faecium E0680]
gi|403038394|gb|EJY49610.1| pseudouridine synthase, RluA family [Enterococcus faecium 504]
gi|430488843|gb|ELA65491.1| RluA family pseudouridine synthase [Enterococcus faecium E0680]
Length = 303
Score = 132 bits (333), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 105/325 (32%), Positives = 160/325 (49%), Gaps = 63/325 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+Q WL+ NG ++V+G+ V N + G ++ +P E ++P L ++YE
Sbjct: 31 IQLWLK---NGAVSVNGQPVK-ANYKVKQGDDITV-LIPEPETLDVVPENIP--LTIVYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+ +NKP G+ V P T++N L + K S+++ P VHR+ + TSG
Sbjct: 84 DEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHI-KDLSTING-VIRPGIVHRIDKDTSG 141
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A DKTS+ RK Y ALVHG + +K I
Sbjct: 142 LLMVAKNDQAHESLAQQLKDKTSL------------RK----YVALVHGEIPHEKGTINA 185
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + + + GKPA++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 186 PIGRSKE---NRKMQAIREDGKPAVTHFTVLER--FEGFTLVELKLETGRTHQIRVHMKY 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDP+Y G K+ G +LHA L +HP
Sbjct: 241 IGYPLAGDPVY---GPKKTLKGN-----------------------GQFLHAQMLGFTHP 274
Query: 311 TTNEVIKITAPLPSVL-KTREEGRE 334
TTNE + APLP V KT E+ R+
Sbjct: 275 TTNEKMIFEAPLPEVFEKTLEKLRK 299
>gi|427405917|ref|ZP_18896122.1| RluA family pseudouridine synthase [Selenomonas sp. F0473]
gi|425708758|gb|EKU71797.1| RluA family pseudouridine synthase [Selenomonas sp. F0473]
Length = 301
Score = 132 bits (332), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 99/313 (31%), Positives = 145/313 (46%), Gaps = 56/313 (17%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE-----PDVPYLLEVLYED 71
+ ++QR I G++ VDG N L G + R P +E D+P L+VLYED
Sbjct: 26 RSYVQRLIAEGRVLVDG-ARRKANYKLCGGERIACERPPAEEVAVAAEDIP--LDVLYED 82
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
D+I +NK G+ V P T++N L + S + A P VHRL + TSG+
Sbjct: 83 GDIIVVNKARGMVVHPAAGIFTGTLVNALLFHCRDLSGI--NGALRPGIVHRLDKDTSGV 140
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AK +A +A DK + + YRA+VHG + E +I
Sbjct: 141 MVAAKNDMAHHFLARQIRDKEA----------------RRAYRAVVHGNIAERAGVISGD 184
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+P K + + GKPA++ +VLER T V +++GR HQIR+H+ +
Sbjct: 185 IG--RHPVDRKRMAIVRTGGKPAVTHFEVLERFGA--YTFVACRLETGRTHQIRVHMTSI 240
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPL+GD Y A P + G LH++ L L+HP
Sbjct: 241 GHPLVGDTKYTAMKHPFAIR-------------------------GQALHSHTLTLTHPR 275
Query: 312 TNEVIKITAPLPS 324
T + TAPLP+
Sbjct: 276 TGTKMTFTAPLPA 288
>gi|257869391|ref|ZP_05649044.1| pseudouridylate synthase [Enterococcus gallinarum EG2]
gi|357051723|ref|ZP_09112890.1| hypothetical protein HMPREF9478_02873 [Enterococcus saccharolyticus
30_1]
gi|257803555|gb|EEV32377.1| pseudouridylate synthase [Enterococcus gallinarum EG2]
gi|355379322|gb|EHG26486.1| hypothetical protein HMPREF9478_02873 [Enterococcus saccharolyticus
30_1]
Length = 301
Score = 132 bits (332), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 101/316 (31%), Positives = 150/316 (47%), Gaps = 60/316 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
+Q WL+ G +T G + N + AG +LV L + D+P L ++Y+D
Sbjct: 31 IQQWLKE---GAVTCQGDPIR-ANYKVKAGDQLVIQVPEPESLDLEPEDIP--LTIVYQD 84
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
D+ +NKP G+ V P T++N L + + SS + P VHR+ + TSG+
Sbjct: 85 QDVAVINKPQGMVVHPSAGHPNGTLVNALLYHMTDLSSI--NDVVRPGIVHRIDKDTSGL 142
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK A +A DKTS+ RK Y ALVHG + +K I P
Sbjct: 143 LMIAKNDHAHEALAKQLKDKTSL------------RK----YVALVHGNISHEKGTINAP 186
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG + V + + GKPA++ VLER Q TLV++++++GR HQIR+H+ ++
Sbjct: 187 IGRSK---VNRKMQAVQEDGKPAVTHFTVLERFDQ--FTLVELQLETGRTHQIRVHMQYI 241
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
G PL GDP+Y G K+ G +LHA L +HPT
Sbjct: 242 GFPLAGDPVY---GPKKTLKGN-----------------------GQFLHAKLLGFTHPT 275
Query: 312 TNEVIKITAPLPSVLK 327
T E + APLP + +
Sbjct: 276 TGESMVFEAPLPELFE 291
>gi|430837884|ref|ZP_19455834.1| RluA family pseudouridine synthase [Enterococcus faecium E0688]
gi|430858355|ref|ZP_19475983.1| RluA family pseudouridine synthase [Enterococcus faecium E1552]
gi|430492164|gb|ELA68578.1| RluA family pseudouridine synthase [Enterococcus faecium E0688]
gi|430545564|gb|ELA85537.1| RluA family pseudouridine synthase [Enterococcus faecium E1552]
Length = 303
Score = 132 bits (332), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 106/325 (32%), Positives = 160/325 (49%), Gaps = 63/325 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+Q WL+ NG ++V+G+ V N + G E+ +P E ++P L ++YE
Sbjct: 31 IQLWLK---NGAVSVNGQPVK-ANYKVKQGDEITV-LIPEPETLDVVPENIP--LTIVYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+ +NKP G+ V P T++N L + K S+++ P VHR+ + TSG
Sbjct: 84 DEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHI-KDLSTING-VIRPGIVHRIDKDTSG 141
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A DKTS+ RK Y ALVHG + +K I
Sbjct: 142 LLMVAKNDQAHESLAQQLKDKTSL------------RK----YVALVHGEIPHEKGTINA 185
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + + + V GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 186 PIGRSKE---NRKMQVIREDGKSAVTHFTVLER--FEGFTLVELKLETGRTHQIRVHMKY 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDP+Y G K+ G +LHA L +HP
Sbjct: 241 IGYPLAGDPVY---GPKKTLKGN-----------------------GQFLHAQMLGFTHP 274
Query: 311 TTNEVIKITAPLPSVL-KTREEGRE 334
TTNE + APLP V KT E+ R+
Sbjct: 275 TTNEKMIFEAPLPEVFEKTLEKLRK 299
>gi|293553487|ref|ZP_06674115.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1039]
gi|430833308|ref|ZP_19451321.1| RluA family pseudouridine synthase [Enterococcus faecium E0679]
gi|291602364|gb|EFF32588.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1039]
gi|430486763|gb|ELA63599.1| RluA family pseudouridine synthase [Enterococcus faecium E0679]
Length = 303
Score = 132 bits (332), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 105/325 (32%), Positives = 160/325 (49%), Gaps = 63/325 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+Q WL+ NG ++V+G+ V N + G ++ +P E ++P L ++YE
Sbjct: 31 IQLWLK---NGAVSVNGQPVK-ANYKVKQGDDITV-LIPEPETLDVVPENIP--LTIVYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+ +NKP G+ V P T++N L + K S+++ P VHR+ + TSG
Sbjct: 84 DEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHI-KDLSTING-VIRPGIVHRIDKDTSG 141
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A DKTS+ RK Y ALVHG + +K I
Sbjct: 142 LLMVAKNDQAHESLAQQLKDKTSL------------RK----YVALVHGEIPHEKGTINA 185
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + + + GKPA++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 186 PIGRSKE---NRKMQAIREDGKPAVTHFTVLER--FEGFTLVELKLETGRTHQIRVHMKY 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDP+Y G K+ G +LHA L +HP
Sbjct: 241 IGYPLAGDPVY---GPKKTLKGN-----------------------GQFLHAQMLGFTHP 274
Query: 311 TTNEVIKITAPLPSVL-KTREEGRE 334
TTNE + APLP V KT E+ R+
Sbjct: 275 TTNEKMFFEAPLPEVFEKTLEKLRK 299
>gi|16801023|ref|NP_471291.1| hypothetical protein lin1957 [Listeria innocua Clip11262]
gi|422413387|ref|ZP_16490346.1| ribosomal large subunit pseudouridine synthase D [Listeria innocua
FSL S4-378]
gi|16414458|emb|CAC97187.1| lin1957 [Listeria innocua Clip11262]
gi|313618258|gb|EFR90322.1| ribosomal large subunit pseudouridine synthase D [Listeria innocua
FSL S4-378]
Length = 302
Score = 132 bits (332), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 99/309 (32%), Positives = 144/309 (46%), Gaps = 57/309 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE-----PDVPYLLEVLYEDDDLIALN 78
++NG ITV+G + PN + G E+ Y +E D+P L++ +ED D++ +N
Sbjct: 36 LKNGDITVNGELAK-PNYKVQVGDEIRYEAREPEELEILAEDIP--LDIYFEDKDMLVVN 92
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 KPEGMVVHPSAGHASGTLVNALLFHCDDLSGI--NGKIRPGIVHRIDKDTSGLLMVAKND 150
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DKTS + Y ALVHG + K I+ PIG R
Sbjct: 151 HAHESLAKQLKDKTS----------------DREYIALVHGDIVHQKGTIEAPIG--RAK 192
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ + V GK A + +V+ER TL+ ++ +GR HQIR+HL ++GHPL GD
Sbjct: 193 EDRQKMAVVR-DGKEARTHFEVIER--LPGYTLINCKLDTGRTHQIRVHLKYIGHPLAGD 249
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y P N + G+ G +LHA +L HPTTNE +
Sbjct: 250 PKY-------------------------GPKNTIKGN-GQFLHAAKLGFDHPTTNERMTF 283
Query: 319 TAPLPSVLK 327
APLP +
Sbjct: 284 EAPLPDSFE 292
>gi|441471608|emb|CCQ21363.1| Uncharacterized RNA pseudouridine synthase YlyB [Listeria
monocytogenes]
gi|441474742|emb|CCQ24496.1| Uncharacterized RNA pseudouridine synthase YlyB [Listeria
monocytogenes N53-1]
Length = 303
Score = 132 bits (332), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 101/306 (33%), Positives = 144/306 (47%), Gaps = 57/306 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYH-RLPWK----EPDVPYLLEVLYEDDDLIALN 78
++NG I V+G + PN + G E+ Y R P + D+P L++ +ED D++ +N
Sbjct: 36 LKNGDIMVNGELAK-PNYKVQVGDEIHYEVREPEELEVLAEDIP--LDIYFEDKDMLVVN 92
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 KPEGMVVHPSAGHASGTLVNALLFHCDDLSGI--NGKIRPGIVHRIDKDTSGLLMVAKND 150
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DKTS + Y ALVHG + K I+ PIG R
Sbjct: 151 HAHESLAKQLKDKTS----------------DREYIALVHGDIVHQKGTIEAPIG--RAK 192
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ + V GK A + +VLER TL+ ++ +GR HQIR+HL ++GHPL GD
Sbjct: 193 EDRQKMAVVR-DGKEARTHFEVLER--LPGYTLINCKLDTGRTHQIRVHLKYIGHPLAGD 249
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y P N + G+ G +LHA +L HPTTNE +
Sbjct: 250 PKY-------------------------GPKNTIKGN-GQFLHAAKLGFDHPTTNERMTF 283
Query: 319 TAPLPS 324
APLPS
Sbjct: 284 EAPLPS 289
>gi|347531804|ref|YP_004838567.1| pseudouridine synthase, RluA family protein [Roseburia hominis
A2-183]
gi|345501952|gb|AEN96635.1| pseudouridine synthase, RluA family protein [Roseburia hominis
A2-183]
Length = 307
Score = 132 bits (332), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 81/263 (30%), Positives = 131/263 (49%), Gaps = 46/263 (17%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L++LYEDDDL+ +NKP G+ V P T++N + + S ++ + P VHR+
Sbjct: 84 LDILYEDDDLLVVNKPKGMVVHPSAGHYTGTLVNAIMYHCRDSLSGINGEIR-PGIVHRI 142
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
T+G L+ K D++ V A+ ++ + + + YR +V+G+V E+
Sbjct: 143 DMDTTGSLIVCKN------------DESHVFIAE----QIKEHSVNRRYRGIVYGVVKEE 186
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ + PIG R+P K + + +GKPA++ VLER T ++ ++++GR HQI
Sbjct: 187 EGTVNAPIG--RHPIERKKMAINEKNGKPAITHYKVLER--FERYTYMEFKLETGRTHQI 242
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+A +GHPLLGD LY +G P G LHA
Sbjct: 243 RVHMASIGHPLLGDTLYSSGRSPYKLQ-------------------------GQTLHAMT 277
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
+ HP T E +++TAPLP +
Sbjct: 278 IGFIHPRTREYMEVTAPLPEYFE 300
>gi|339640863|ref|ZP_08662307.1| pseudouridine synthase, RluA family [Streptococcus sp. oral taxon
056 str. F0418]
gi|339454132|gb|EGP66747.1| pseudouridine synthase, RluA family [Streptococcus sp. oral taxon
056 str. F0418]
Length = 295
Score = 132 bits (332), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 98/312 (31%), Positives = 158/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+NGQI V+G+ + +++ + LP E D+P LE++Y+D+D+
Sbjct: 29 EQIKNGQILVNGQAKKAKYTVKEG--DIISYELPEPEVVEYVAEDIP--LEIVYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALIYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ RK Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDQAHVALAAELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPAL++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPALTRFQVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA+ L +HP T EV
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAHTLGFTHPRTGEV 275
Query: 316 IKITAPLPSVLK 327
++ TA P++ +
Sbjct: 276 LEFTAEAPAIFQ 287
>gi|217964005|ref|YP_002349683.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes HCC23]
gi|290893028|ref|ZP_06556017.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes FSL J2-071]
gi|386008615|ref|YP_005926893.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes L99]
gi|386027223|ref|YP_005947999.1| putative 23S RNA-specific pseudouridine synthase D [Listeria
monocytogenes M7]
gi|404408287|ref|YP_006691002.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2376]
gi|422410090|ref|ZP_16487051.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL F2-208]
gi|217333275|gb|ACK39069.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes HCC23]
gi|290557388|gb|EFD90913.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes FSL J2-071]
gi|307571425|emb|CAR84604.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes L99]
gi|313608111|gb|EFR84172.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL F2-208]
gi|336023804|gb|AEH92941.1| putative 23S RNA-specific pseudouridine synthase D [Listeria
monocytogenes M7]
gi|404242436|emb|CBY63836.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2376]
Length = 302
Score = 132 bits (332), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 101/306 (33%), Positives = 145/306 (47%), Gaps = 57/306 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYH-RLPWK----EPDVPYLLEVLYEDDDLIALN 78
+++G ITV+G + PN + G E+ Y R P + D+P L++ +ED D++ +N
Sbjct: 36 LKSGDITVNGELAK-PNYKVQVGDEIHYEVREPEELEVLAEDIP--LDIYFEDKDMLVVN 92
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 KPEGMVVHPSAGHASGTLVNALLFHCDDLSGI--NGKIRPGIVHRIDKDTSGLLMVAKND 150
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DKTS + Y ALVHG + K I+ PIG R
Sbjct: 151 HAHESLAKQLKDKTS----------------DREYIALVHGDIVHQKGTIEAPIG--RAK 192
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ + V GK A + +VLER TL+ ++ +GR HQIR+HL ++GHPL GD
Sbjct: 193 EDRQKMAVVR-DGKEARTHFEVLER--LPGYTLINCKLDTGRTHQIRVHLKYIGHPLAGD 249
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y P N + G+ G +LHA +L HPTTNE +
Sbjct: 250 PKY-------------------------GPKNTIKGN-GQFLHAAKLGFDHPTTNERMTF 283
Query: 319 TAPLPS 324
APLPS
Sbjct: 284 EAPLPS 289
>gi|55822493|ref|YP_140934.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
thermophilus CNRZ1066]
gi|55738478|gb|AAV62119.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
thermophilus CNRZ1066]
Length = 292
Score = 132 bits (331), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 96/307 (31%), Positives = 152/307 (49%), Gaps = 57/307 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIA 76
+ I+ G + V+G+ ++ G + Y L +K D+P L+++YED D+
Sbjct: 29 EAIKAGTVLVNGKSAK-AKYVVKEGDVITYVLPEEEVLEYKAEDIP--LDIIYEDADVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHV-KDLSSING-VVRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDKAHNALAAELKDKKSL----------------RKYVAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SDKDRKKQAVTA-KGKPAVTRFTVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDPLY G K+ G +LHA L +HPTT +++
Sbjct: 243 GDPLY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPTTGKLV 276
Query: 317 KITAPLP 323
++T P
Sbjct: 277 ELTQKNP 283
>gi|289435186|ref|YP_003465058.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria seeligeri serovar 1/2b str. SLCC3954]
gi|422419459|ref|ZP_16496414.1| ribosomal large subunit pseudouridine synthase D [Listeria
seeligeri FSL N1-067]
gi|422422550|ref|ZP_16499503.1| ribosomal large subunit pseudouridine synthase D [Listeria
seeligeri FSL S4-171]
gi|289171430|emb|CBH27974.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria seeligeri serovar 1/2b str. SLCC3954]
gi|313632720|gb|EFR99690.1| ribosomal large subunit pseudouridine synthase D [Listeria
seeligeri FSL N1-067]
gi|313637301|gb|EFS02795.1| ribosomal large subunit pseudouridine synthase D [Listeria
seeligeri FSL S4-171]
Length = 303
Score = 132 bits (331), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 101/309 (32%), Positives = 145/309 (46%), Gaps = 63/309 (20%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--------DVPYLLEVLYEDDDLI 75
+++G ITV+G + PN + G E+ L +EP D+P L++ +ED D++
Sbjct: 36 LKSGDITVNGEIAK-PNYKVQVGDEIY---LEVREPEELEVLAEDIP--LDIYFEDKDML 89
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + S + P VHR+ + TSG+L+ A
Sbjct: 90 VVNKPEGMVVHPSAGHASGTLVNALLFHCDDLSGI--NGKIRPGIVHRIDKDTSGLLMVA 147
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DKTS + Y ALVHG + K I+ PIG
Sbjct: 148 KNDHAHESLAKQLKDKTS----------------DREYIALVHGDIVHQKGTIEAPIG-- 189
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R + + V GK A + +V+ER TL+ ++ +GR HQIR+HL ++GHPL
Sbjct: 190 RAKEDRQKMAVVR-DGKEARTHFEVIER--LPGYTLINCKLDTGRTHQIRVHLKYIGHPL 246
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDP Y P N + G+ G YLHA +L HPTTNE
Sbjct: 247 AGDPKY-------------------------GPKNTIKGN-GQYLHAAKLGFDHPTTNER 280
Query: 316 IKITAPLPS 324
+ APLPS
Sbjct: 281 MTFEAPLPS 289
>gi|307704906|ref|ZP_07641797.1| pseudouridine synthase, RluA family protein [Streptococcus mitis
SK597]
gi|307621520|gb|EFO00566.1| pseudouridine synthase, RluA family protein [Streptococcus mitis
SK597]
Length = 295
Score = 132 bits (331), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 157/311 (50%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVITYHVPEPEVLEYVAEDIP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E++
Sbjct: 243 GDEVY---GPRKTLKG-----------------------LGQFLHAKTLGFTHPRTGEIL 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|424824052|ref|ZP_18249065.1| Ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes str. Scott A]
gi|332312732|gb|EGJ25827.1| Ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes str. Scott A]
Length = 291
Score = 132 bits (331), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 96/297 (32%), Positives = 151/297 (50%), Gaps = 57/297 (19%)
Query: 28 QITVDGRVVNDPNIILSAGSEL---VYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQ 84
+ ++ + ++D N L G+ L V+ L K P Y LE++YEDD L+ +NKP ++
Sbjct: 42 NVLLNNKPLDDWNTPLFVGASLSLPVF--LHDKIPVYEYDLEIIYEDDFLLVVNKPVDMK 99
Query: 85 VLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCI 144
P ++ T N +Q+ K + Q ++ + VHRL + TSG++L AK KLA I
Sbjct: 100 THPNDSYETDTCANAVQYYLEK-----TGQDANALAVHRLDQTTSGLVLFAKNKLA---I 151
Query: 145 AGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGL 204
AG ++ R I + Y A V G I +PIG R+ G + +
Sbjct: 152 AGL-------------SWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHHGSRRQI 198
Query: 205 YVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAG 264
SP G+PA++ V VLE D ++N +LV+ +I++GR HQIR+HL+ +GHP++GD LY G
Sbjct: 199 ---SPYGQPAVTHVKVLENDNEKNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLY--G 253
Query: 265 GQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
G P++ N + LHA +L L+HP + + +AP
Sbjct: 254 GSPRA--------------------NRI------MLHAEKLHLNHPFKGKEMNFSAP 284
>gi|315640856|ref|ZP_07895955.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
italicus DSM 15952]
gi|315483395|gb|EFU73892.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
italicus DSM 15952]
Length = 302
Score = 132 bits (331), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 101/317 (31%), Positives = 156/317 (49%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL------LEVLYE 70
+Q WL+ + +DG VV N + G + ++P EP+ L LE++YE
Sbjct: 32 IQLWLKE---ACVKIDGVVVK-ANYKVQKGDRITI-QIP--EPETLDLIAENLPLEIVYE 84
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+ +NKP G+ V P T++N L + + SS + P VHR+ + TSG
Sbjct: 85 DADVAVINKPQGMVVHPSAGHPNGTLVNALIYHLNSLSSI--NGVIRPGIVHRIDKDTSG 142
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A DKTS+ RK Y ALVHG++ DK +I+
Sbjct: 143 LLMVAKNDQAHEDLAKQLKDKTSL------------RK----YVALVHGVIPHDKGVIRA 186
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG V + + +GK A++ VLER + TLV++++++GR HQIR+H+ +
Sbjct: 187 PIG---RSTVDRKMQAVVDNGKDAVTHFQVLER--YEDYTLVELQLETGRTHQIRVHMQY 241
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL+GDP+Y G +R + G +LHA L +HP
Sbjct: 242 IGYPLVGDPVY----------------------GLKRTIK----GNGQFLHAKLLGFTHP 275
Query: 311 TTNEVIKITAPLPSVLK 327
+T E + APLP + K
Sbjct: 276 STGEKMVFEAPLPEIFK 292
>gi|46908477|ref|YP_014866.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes serotype 4b str. F2365]
gi|47093359|ref|ZP_00231127.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes str. 4b H7858]
gi|226224852|ref|YP_002758959.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes serotype 4b str. CLIP 80459]
gi|254825192|ref|ZP_05230193.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL J1-194]
gi|254931643|ref|ZP_05265002.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes HPB2262]
gi|254992053|ref|ZP_05274243.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes FSL J2-064]
gi|386732992|ref|YP_006206488.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes 07PF0776]
gi|405750642|ref|YP_006674108.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes ATCC 19117]
gi|405753516|ref|YP_006676981.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2378]
gi|405756422|ref|YP_006679886.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2540]
gi|406705038|ref|YP_006755392.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes L312]
gi|417315884|ref|ZP_12102554.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes J1816]
gi|417318302|ref|ZP_12104891.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes J1-220]
gi|424715125|ref|YP_007015840.1| Uncharacterized RNA pseudouridine synthase YhcT [Listeria
monocytogenes serotype 4b str. LL195]
gi|46881748|gb|AAT05043.1| ribosomal large subunit pseudouridine synthase, RluA family
[Listeria monocytogenes serotype 4b str. F2365]
gi|47018278|gb|EAL09043.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes str. 4b H7858]
gi|225877314|emb|CAS06028.1| Putative ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes serotype 4b str. CLIP 80459]
gi|293583198|gb|EFF95230.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes HPB2262]
gi|293594437|gb|EFG02198.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL J1-194]
gi|328465825|gb|EGF37013.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes J1816]
gi|328472136|gb|EGF43011.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes J1-220]
gi|384391750|gb|AFH80820.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes 07PF0776]
gi|404219842|emb|CBY71206.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes ATCC 19117]
gi|404222716|emb|CBY74079.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2378]
gi|404225622|emb|CBY76984.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2540]
gi|406362068|emb|CBY68341.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes L312]
gi|424014309|emb|CCO64849.1| Uncharacterized RNA pseudouridine synthase YhcT [Listeria
monocytogenes serotype 4b str. LL195]
Length = 289
Score = 132 bits (331), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 96/297 (32%), Positives = 151/297 (50%), Gaps = 57/297 (19%)
Query: 28 QITVDGRVVNDPNIILSAGSEL---VYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQ 84
+ ++ + ++D N L G+ L V+ L K P Y LE++YEDD L+ +NKP ++
Sbjct: 40 NVLLNNKPLDDWNTPLFVGASLSLPVF--LHDKIPVYEYDLEIIYEDDFLLVVNKPVDMK 97
Query: 85 VLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCI 144
P ++ T N +Q+ K + Q ++ + VHRL + TSG++L AK KLA I
Sbjct: 98 THPNDSYETDTCANAVQYYLEK-----TGQDANALAVHRLDQTTSGLVLFAKNKLA---I 149
Query: 145 AGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGL 204
AG ++ R I + Y A V G I +PIG R+ G + +
Sbjct: 150 AGL-------------SWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHHGSRRQI 196
Query: 205 YVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAG 264
SP G+PA++ V VLE D ++N +LV+ +I++GR HQIR+HL+ +GHP++GD LY G
Sbjct: 197 ---SPYGQPAVTHVKVLENDNEKNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLY--G 251
Query: 265 GQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
G P++ N + LHA +L L+HP + + +AP
Sbjct: 252 GSPRA--------------------NRI------MLHAEKLHLNHPFKGKEMNFSAP 282
>gi|284802691|ref|YP_003414556.1| hypothetical protein LM5578_2447 [Listeria monocytogenes 08-5578]
gi|284995833|ref|YP_003417601.1| hypothetical protein LM5923_2398 [Listeria monocytogenes 08-5923]
gi|404284742|ref|YP_006685639.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2372]
gi|404411551|ref|YP_006697139.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC5850]
gi|404414328|ref|YP_006699915.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC7179]
gi|405759296|ref|YP_006688572.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2479]
gi|284058253|gb|ADB69194.1| hypothetical protein LM5578_2447 [Listeria monocytogenes 08-5578]
gi|284061300|gb|ADB72239.1| hypothetical protein LM5923_2398 [Listeria monocytogenes 08-5923]
gi|404231377|emb|CBY52781.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC5850]
gi|404234244|emb|CBY55647.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2372]
gi|404237178|emb|CBY58580.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2479]
gi|404240027|emb|CBY61428.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC7179]
Length = 291
Score = 132 bits (331), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 96/298 (32%), Positives = 150/298 (50%), Gaps = 59/298 (19%)
Query: 28 QITVDGRVVNDPNIILSAGSELVYHRLPW----KEPDVPYLLEVLYEDDDLIALNKPSGL 83
+ ++ + ++D N L G+ L LP K P Y LE++YEDD L+ +NKP +
Sbjct: 42 NVLLNNKPLDDWNTPLFVGASL---SLPIFLHDKIPVYEYDLEIIYEDDFLLVVNKPVDM 98
Query: 84 QVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTC 143
+ P ++ T N +Q+ K + Q ++ + VHRL + TSG++L AK KLA
Sbjct: 99 KTHPNDSYETDTCANAVQYYLEK-----TGQDANALAVHRLDQTTSGLVLFAKNKLA--- 150
Query: 144 IAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKG 203
IAG ++ R I + Y A V G I +PIG R+ G +
Sbjct: 151 IAGL-------------SWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHHGSRRQ 197
Query: 204 LYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVA 263
+ SP G+PA++ V VLE D ++N +LV+ +I++GR HQIR+HL+ +GHP++GD LY
Sbjct: 198 I---SPYGQPAVTHVKVLENDNEKNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLY-- 252
Query: 264 GGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
GG P++ N + LHA +L L+HP + + +AP
Sbjct: 253 GGSPRA--------------------NRI------MLHAEKLHLNHPFKGKEMNFSAP 284
>gi|47096862|ref|ZP_00234442.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes str. 1/2a F6854]
gi|254912805|ref|ZP_05262817.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes J2818]
gi|254937132|ref|ZP_05268829.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes F6900]
gi|386047900|ref|YP_005966232.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes J0161]
gi|47014781|gb|EAL05734.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes str. 1/2a F6854]
gi|258609734|gb|EEW22342.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes F6900]
gi|293590800|gb|EFF99134.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes J2818]
gi|345534891|gb|AEO04332.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes J0161]
Length = 289
Score = 132 bits (331), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 96/298 (32%), Positives = 150/298 (50%), Gaps = 59/298 (19%)
Query: 28 QITVDGRVVNDPNIILSAGSELVYHRLPW----KEPDVPYLLEVLYEDDDLIALNKPSGL 83
+ ++ + ++D N L G+ L LP K P Y LE++YEDD L+ +NKP +
Sbjct: 40 NVLLNNKPLDDWNTPLFVGASL---SLPIFLHDKIPVYEYDLEIIYEDDFLLVVNKPVDM 96
Query: 84 QVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTC 143
+ P ++ T N +Q+ K + Q ++ + VHRL + TSG++L AK KLA
Sbjct: 97 KTHPNDSYETDTCANAVQYYLEK-----TGQDTNALAVHRLDQTTSGLVLFAKNKLA--- 148
Query: 144 IAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKG 203
IAG ++ R I + Y A V G I +PIG R+ G +
Sbjct: 149 IAGL-------------SWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHHGSRRQ 195
Query: 204 LYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVA 263
+ SP G+PA++ V VLE D ++N +LV+ +I++GR HQIR+HL+ +GHP++GD LY
Sbjct: 196 I---SPYGQPAVTHVKVLENDNEKNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLY-- 250
Query: 264 GGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
GG P++ N + LHA +L L+HP + + +AP
Sbjct: 251 GGSPRA--------------------NRI------MLHAEKLHLNHPFKGKEMNFSAP 282
>gi|422416363|ref|ZP_16493320.1| ribosomal large subunit pseudouridine synthase D [Listeria innocua
FSL J1-023]
gi|313623251|gb|EFR93499.1| ribosomal large subunit pseudouridine synthase D [Listeria innocua
FSL J1-023]
Length = 297
Score = 132 bits (331), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 99/306 (32%), Positives = 143/306 (46%), Gaps = 57/306 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE-----PDVPYLLEVLYEDDDLIALN 78
++NG ITV+G + PN + G E+ Y +E D+P L++ +ED D++ +N
Sbjct: 31 LKNGDITVNGELAK-PNYKVQVGDEIRYEAREPEELEILAEDIP--LDIYFEDKDMLVVN 87
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 88 KPEGMVVHPSAGHASGTLVNALLFHCDDLSGI--NGKIRPGIVHRIDKDTSGLLMVAKND 145
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DKTS + Y ALVHG + K I+ PIG R
Sbjct: 146 HAHESLAKQLKDKTS----------------DREYIALVHGDIVHQKGTIEAPIG--RAK 187
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ + V GK A + +V+ER TL+ ++ +GR HQIR+HL ++GHPL GD
Sbjct: 188 EDRQKMAVVR-DGKEARTHFEVIER--LPGYTLINCKLDTGRTHQIRVHLKYIGHPLAGD 244
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y P N + G+ G +LHA +L HPTTNE +
Sbjct: 245 PKY-------------------------GPKNTIKGN-GQFLHAAKLGFDHPTTNERMTF 278
Query: 319 TAPLPS 324
APLP
Sbjct: 279 EAPLPD 284
>gi|320530727|ref|ZP_08031771.1| pseudouridine synthase, RluA family [Selenomonas artemidis F0399]
gi|320137014|gb|EFW28952.1| pseudouridine synthase, RluA family [Selenomonas artemidis F0399]
Length = 301
Score = 132 bits (331), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 102/325 (31%), Positives = 157/325 (48%), Gaps = 58/325 (17%)
Query: 6 FYSTKHKNSAPLQGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE-----P 59
F + + +N + + ++QR I +G + VDG V PN L +G E+ P +E
Sbjct: 16 FLARQMENCS--RSYVQRLITDGNVRVDGARVK-PNYKLRSGEEICCTVPPAEEVVIAAE 72
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P L+VLYED+D+I +NK G+ V P T++N L +R + S ++ + P
Sbjct: 73 DIP--LDVLYEDEDIIVINKERGMVVHPAAGNLTGTLVNALLFRC-RDLSGINGELR-PG 128
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHRL + TSG+++ AK +A +A ++ + + YRALVHG
Sbjct: 129 IVHRLDKDTSGVMVAAKNDMAHHFLA----------------QQIRSKAARREYRALVHG 172
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
+ E +I IG R+P K + + GK A + +VLER + T V +++G
Sbjct: 173 NIAERAGVITGDIG--RHPTDRKRMAIVRSGGKSATTHFEVLER--FGDYTFVSCVLETG 228
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H+ +GHPL+GD Y A P G G
Sbjct: 229 RTHQIRVHMTSIGHPLVGDAKYTAMKNPF-------------------------GIHGQA 263
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPS 324
LH++ L L HP T ++ TAPLP+
Sbjct: 264 LHSHILTLVHPRTGAQMRFTAPLPA 288
>gi|148544158|ref|YP_001271528.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri DSM 20016]
gi|184153530|ref|YP_001841871.1| pseudouridylate synthase [Lactobacillus reuteri JCM 1112]
gi|227364587|ref|ZP_03848648.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri MM2-3]
gi|325682298|ref|ZP_08161815.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri MM4-1A]
gi|148531192|gb|ABQ83191.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri DSM 20016]
gi|183224874|dbj|BAG25391.1| pseudouridylate synthase [Lactobacillus reuteri JCM 1112]
gi|227070424|gb|EEI08786.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri MM2-3]
gi|324978137|gb|EGC15087.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri MM4-1A]
Length = 303
Score = 132 bits (331), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 101/327 (30%), Positives = 159/327 (48%), Gaps = 62/327 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYED 71
+Q W I++G + V+G+ V P L G + ++ D+P L+++YED
Sbjct: 33 IQHW---IEDGHVLVNGKQVK-PKYKLLVGDHVQIIPEEPQKIDLAPEDIP--LDIVYED 86
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP G+ V P T++N L + + S+++ + P VHR+ + TSG+
Sbjct: 87 DDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHSP--LSTINGEFR-PGIVHRIDKDTSGL 143
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK +A + KT+ + Y ALVHG++ EDK I P
Sbjct: 144 LMVAKNDMAHRSLTAQLKAKTN----------------KREYVALVHGVIKEDKGTIDAP 187
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
+G + + V G+ A++ +VLER +N TLV ++++GR HQIR+H+ ++
Sbjct: 188 LGRSLKDRKKQAVVV---DGRHAVTHFNVLER--FKNYTLVACQLETGRTHQIRVHMKYI 242
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPL GDPLY P + G+ G YLHA L HP
Sbjct: 243 GHPLAGDPLY-------------------------GPRKTLAGN-GQYLHARLLGFKHPR 276
Query: 312 TNEVIKITAPLPS-VLKTREEGREVDK 337
T + + TAPLP+ +K E R+ D+
Sbjct: 277 TGKEMVFTAPLPAYFVKMLEHLRKTDQ 303
>gi|16804283|ref|NP_465768.1| hypothetical protein lmo2244 [Listeria monocytogenes EGD-e]
gi|254826867|ref|ZP_05231554.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL N3-165]
gi|386044557|ref|YP_005963362.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes 10403S]
gi|386051220|ref|YP_005969211.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL R2-561]
gi|386054499|ref|YP_005972057.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes Finland 1998]
gi|16411714|emb|CAD00322.1| lmo2244 [Listeria monocytogenes EGD-e]
gi|258599247|gb|EEW12572.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL N3-165]
gi|345537791|gb|AEO07231.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes 10403S]
gi|346425066|gb|AEO26591.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL R2-561]
gi|346647150|gb|AEO39775.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes Finland 1998]
gi|441472059|emb|CCQ21814.1| Uncharacterized RNA pseudouridine synthase YhcT [Listeria
monocytogenes]
gi|441475195|emb|CCQ24949.1| Uncharacterized RNA pseudouridine synthase YhcT [Listeria
monocytogenes N53-1]
Length = 289
Score = 132 bits (331), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 96/298 (32%), Positives = 150/298 (50%), Gaps = 59/298 (19%)
Query: 28 QITVDGRVVNDPNIILSAGSELVYHRLPW----KEPDVPYLLEVLYEDDDLIALNKPSGL 83
+ ++ + ++D N L G+ L LP K P Y LE++YEDD L+ +NKP +
Sbjct: 40 NVLLNNKPLDDWNTPLFVGASL---SLPIFLHDKIPVYEYDLEIIYEDDFLLVVNKPVDM 96
Query: 84 QVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTC 143
+ P ++ T N +Q+ K + Q ++ + VHRL + TSG++L AK KLA
Sbjct: 97 KTHPNDSYETDTCANAVQYYLEK-----TGQDANALAVHRLDQTTSGLVLFAKNKLA--- 148
Query: 144 IAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKG 203
IAG ++ R I + Y A V G I +PIG R+ G +
Sbjct: 149 IAGL-------------SWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHHGSRRQ 195
Query: 204 LYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVA 263
+ SP G+PA++ V VLE D ++N +LV+ +I++GR HQIR+HL+ +GHP++GD LY
Sbjct: 196 I---SPYGQPAVTHVKVLENDNEKNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLY-- 250
Query: 264 GGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
GG P++ N + LHA +L L+HP + + +AP
Sbjct: 251 GGSPRA--------------------NRI------MLHAEKLHLNHPFKGKEMNFSAP 282
>gi|422871013|ref|ZP_16917506.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK1087]
gi|328946167|gb|EGG40312.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK1087]
Length = 298
Score = 132 bits (331), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 95/312 (30%), Positives = 156/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I++G+I V+G+ + +++Y+ LP E D+P LE++Y+D+D+
Sbjct: 31 EQIKDGRILVNGQAKKAKYAVKEG--DIIYYELPEPEVVEYVAEDIP--LEIVYQDEDVA 86
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + Q S + P VHR+ + TSG+L+ A
Sbjct: 87 VINKPQGMVVHPSAGHTSGTLVNALMYHI--QDLSGINGVLRPGIVHRIDKDTSGLLMIA 144
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 145 KNDQAHVALADELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPAL+ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 187 RSEKDRKKQAVTA-KGKPALTSFQVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 243
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T EV
Sbjct: 244 AGDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEV 277
Query: 316 IKITAPLPSVLK 327
++ TA +P++ +
Sbjct: 278 LEFTAEVPAIFQ 289
>gi|322385620|ref|ZP_08059264.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
cristatus ATCC 51100]
gi|417922861|ref|ZP_12566347.1| pseudouridine synthase, RluA family [Streptococcus cristatus ATCC
51100]
gi|321270358|gb|EFX53274.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
cristatus ATCC 51100]
gi|342832009|gb|EGU66312.1| pseudouridine synthase, RluA family [Streptococcus cristatus ATCC
51100]
Length = 300
Score = 131 bits (330), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 104/320 (32%), Positives = 161/320 (50%), Gaps = 58/320 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+NGQI V+G + G + Y + + D+P LE++Y+D+D+
Sbjct: 31 EQIKNGQILVNGEA-KKAKYAVKEGDVISYEVPDPEVVEYVAEDLP--LEIVYQDEDVAV 87
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 88 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 145
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 146 NDQAHLALADELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG--R 187
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPAL++ VLER + TLV++++++GR HQIR+H+A++GHP+
Sbjct: 188 SEKDRKKQAVTA-KGKPALTRFQVLER--FGDYTLVELQLETGRTHQIRVHMAYIGHPVA 244
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T EV+
Sbjct: 245 GDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEVL 278
Query: 317 KITAPLPSV-LKTREEGREV 335
+ TA PS+ L+T E+ R+V
Sbjct: 279 EFTAEAPSIFLETLEKLRKV 298
>gi|402303330|ref|ZP_10822426.1| pseudouridine synthase, RluA family [Selenomonas sp. FOBRC9]
gi|400378960|gb|EJP31810.1| pseudouridine synthase, RluA family [Selenomonas sp. FOBRC9]
Length = 301
Score = 131 bits (330), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 99/316 (31%), Positives = 154/316 (48%), Gaps = 56/316 (17%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE-----PDVPYLLEVLYED 71
+ ++QR I +G + VDG V PN L +G E+ P +E D+P L+VLYED
Sbjct: 26 RSYVQRLITDGNVRVDGAPVK-PNYKLRSGEEICCTVPPAEEVVIAAEDIP--LDVLYED 82
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
+D+I +NK G+ V P T++N L +R + S ++ + P VHRL + TSG+
Sbjct: 83 EDIIVINKARGMVVHPAAGNLTGTLVNALLFRC-RDLSGINGELR-PGIVHRLDKDTSGV 140
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AK +A +A ++ + + YRALVHG + E ++
Sbjct: 141 MVAAKNDMAHHFLA----------------QQIRSKDARREYRALVHGNIAERAGVVTGD 184
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+P K + + GK A + +VLER + T V +++GR HQIR+H+ +
Sbjct: 185 IG--RHPTDRKRMAIVRSGGKSATTHFEVLER--FGDYTFVSCVLETGRTHQIRVHMTSI 240
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPL+GD Y A P G G LH++ L L+HP
Sbjct: 241 GHPLVGDAKYTAMKNPF-------------------------GIHGQALHSHILTLAHPR 275
Query: 312 TNEVIKITAPLPSVLK 327
T ++ TAPLP+ ++
Sbjct: 276 TGTQMRFTAPLPADME 291
>gi|46908075|ref|YP_014464.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes serotype 4b str. F2365]
gi|47094208|ref|ZP_00231922.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes str. 4b H7858]
gi|226224446|ref|YP_002758553.1| hypothetical protein Lm4b_01859 [Listeria monocytogenes serotype 4b
str. CLIP 80459]
gi|254826115|ref|ZP_05231116.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL J1-194]
gi|254852749|ref|ZP_05242097.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL R2-503]
gi|254931987|ref|ZP_05265346.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes HPB2262]
gi|300763844|ref|ZP_07073841.1| RluA family ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes FSL N1-017]
gi|386732583|ref|YP_006206079.1| hypothetical protein MUO_09460 [Listeria monocytogenes 07PF0776]
gi|404281456|ref|YP_006682354.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2755]
gi|404287272|ref|YP_006693858.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes serotype 7 str. SLCC2482]
gi|405750196|ref|YP_006673662.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes ATCC 19117]
gi|405753070|ref|YP_006676535.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2378]
gi|405756004|ref|YP_006679468.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2540]
gi|406704627|ref|YP_006754981.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes L312]
gi|417315489|ref|ZP_12102165.1| hypothetical protein LM1816_11407 [Listeria monocytogenes J1816]
gi|417317939|ref|ZP_12104540.1| hypothetical protein LM220_09240 [Listeria monocytogenes J1-220]
gi|424823604|ref|ZP_18248617.1| Pseudouridylate synthase [Listeria monocytogenes str. Scott A]
gi|46881345|gb|AAT04641.1| ribosomal large subunit pseudouridine synthase, RluA family
[Listeria monocytogenes serotype 4b str. F2365]
gi|47017415|gb|EAL08234.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes str. 4b H7858]
gi|225876908|emb|CAS05617.1| unnamed protein product [Listeria monocytogenes serotype 4b str.
CLIP 80459]
gi|258606073|gb|EEW18681.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL R2-503]
gi|293583538|gb|EFF95570.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes HPB2262]
gi|293595355|gb|EFG03116.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL J1-194]
gi|300515580|gb|EFK42630.1| RluA family ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes FSL N1-017]
gi|328466193|gb|EGF37350.1| hypothetical protein LM1816_11407 [Listeria monocytogenes J1816]
gi|328473565|gb|EGF44402.1| hypothetical protein LM220_09240 [Listeria monocytogenes J1-220]
gi|332312284|gb|EGJ25379.1| Pseudouridylate synthase [Listeria monocytogenes str. Scott A]
gi|384391341|gb|AFH80411.1| hypothetical protein MUO_09460 [Listeria monocytogenes 07PF0776]
gi|404219396|emb|CBY70760.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes ATCC 19117]
gi|404222270|emb|CBY73633.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2378]
gi|404225204|emb|CBY76566.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2540]
gi|404228091|emb|CBY49496.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2755]
gi|404246201|emb|CBY04426.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes serotype 7 str. SLCC2482]
gi|406361657|emb|CBY67930.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes L312]
Length = 303
Score = 131 bits (330), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 101/306 (33%), Positives = 144/306 (47%), Gaps = 57/306 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYH-RLPWK----EPDVPYLLEVLYEDDDLIALN 78
++NG ITV+G + PN + G E+ Y R P + D+P L++ +ED D++ +N
Sbjct: 36 LKNGDITVNGELAK-PNYKVQVGDEIHYEVREPEELEVLAEDIP--LDIYFEDKDMLVVN 92
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 KPEGMVVHPSAGHASGTLVNALLFHCDDLSGI--NGKIRPGIVHRIDKDTSGLLMVAKND 150
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DKTS + Y ALVHG + K I+ PIG R
Sbjct: 151 HAHESLAKQLKDKTS----------------DREYIALVHGDIVHQKGTIEAPIG--RAK 192
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ + V GK A + +VLER TL+ ++ +GR HQIR+HL ++GHPL GD
Sbjct: 193 EDRQKMAVVR-DGKEARTHFEVLER--LPGYTLINCKLDTGRTHQIRVHLKYIGHPLAGD 249
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y P N + G+ G +LHA +L HPTT E +
Sbjct: 250 PKY-------------------------GPKNTIKGN-GQFLHAAKLGFDHPTTKERMMF 283
Query: 319 TAPLPS 324
APLPS
Sbjct: 284 EAPLPS 289
>gi|373115711|ref|ZP_09529878.1| RluA family pseudouridine synthase [Lachnospiraceae bacterium
7_1_58FAA]
gi|371670098|gb|EHO35186.1| RluA family pseudouridine synthase [Lachnospiraceae bacterium
7_1_58FAA]
Length = 304
Score = 131 bits (330), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 101/305 (33%), Positives = 147/305 (48%), Gaps = 52/305 (17%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-DV---PYLLEVLYEDDDLIALNK 79
++ G +T+ GR V + +A +++ RLP EP DV L+V YED D+I +NK
Sbjct: 35 LEAGAVTLGGRPVKKNDK--AAAGDVLEVRLPEPEPVDVLPQAIPLDVAYEDADVIVVNK 92
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
P GL V P T++N L + + S ++ A P VHR+ R TSG+L+ AK
Sbjct: 93 PVGLVVHPAAGHPDGTLVNALLYHCGELLSGING-ALRPGIVHRIDRDTSGLLIAAKNDF 151
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPG 199
A +A D + + + Y A+ G + ED+ + PIG R+P
Sbjct: 152 AHQALAAQLQDHS----------------LYREYEAVCVGGLREDRGTVDAPIG--RHPT 193
Query: 200 VAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDP 259
K + V +G+PA++ VLER T +Q +++GR HQIR+HLA +GHPLLGD
Sbjct: 194 DRKKMCVDWKNGRPAVTHWTVLER--FPGYTHIQCRLETGRTHQIRVHLASIGHPLLGDV 251
Query: 260 LYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKIT 319
+Y A PVPG G LHA +L HP T E + +
Sbjct: 252 VYGAK-------------------------KPVPGLAGQCLHARRLSFVHPRTGERVTVE 286
Query: 320 APLPS 324
PLP+
Sbjct: 287 CPLPA 291
>gi|162447675|ref|YP_001620807.1| ribosomal large subunit pseudouridine synthase, RluA-like protein
[Acholeplasma laidlawii PG-8A]
gi|161985782|gb|ABX81431.1| ribosomal large subunit pseudouridine synthase, RluA-like protein
[Acholeplasma laidlawii PG-8A]
Length = 297
Score = 131 bits (330), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 94/310 (30%), Positives = 154/310 (49%), Gaps = 65/310 (20%)
Query: 24 IQNGQITVDG-------RVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIA 76
I++G + V+G ++ N I L+ ++ + L K D L ++YEDDD++
Sbjct: 32 IKDGLVMVNGLTTKAGYKLKNSDEITLNLEAKEETNPLKPKNID----LNIVYEDDDIMV 87
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP---VHRLGRGTSGILL 133
+NKP GL V P F + T+++ L + +LS+ P+ +HR+ + TSG++L
Sbjct: 88 INKPKGLVVHPSETFSETTLVSGLLH----HTDTLSTHNDDPLRPGILHRIDKDTSGLIL 143
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AKT A +A +L I + Y ALV G++D +K +I PI
Sbjct: 144 VAKTNEAHKILA----------------QDLKSHDIKREYIALVEGVLDHNKGVIDAPIA 187
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P + + V + +GKPA++ +V+ R+ TL+ ++++GR HQIR+HLA++ H
Sbjct: 188 --RHPKIRTKMAVVA-TGKPAITHFEVMR--TFRDHTLLHCKLETGRTHQIRVHLAYIKH 242
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
P+ GDPLY G + K G LHA++L HP T
Sbjct: 243 PVTGDPLY--GTKAKILKD------------------------GQLLHAFRLEFVHPITK 276
Query: 314 EVIKITAPLP 323
+V+ + APLP
Sbjct: 277 KVMMLEAPLP 286
>gi|424714718|ref|YP_007015433.1| Uncharacterized RNA pseudouridine synthase YlyB [Listeria
monocytogenes serotype 4b str. LL195]
gi|424013902|emb|CCO64442.1| Uncharacterized RNA pseudouridine synthase YlyB [Listeria
monocytogenes serotype 4b str. LL195]
Length = 304
Score = 131 bits (330), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 101/306 (33%), Positives = 144/306 (47%), Gaps = 57/306 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYH-RLPWK----EPDVPYLLEVLYEDDDLIALN 78
++NG ITV+G + PN + G E+ Y R P + D+P L++ +ED D++ +N
Sbjct: 37 LKNGDITVNGELAK-PNYKVQVGDEIHYEVREPEELEVLAEDIP--LDIYFEDKDMLVVN 93
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 94 KPEGMVVHPSAGHASGTLVNALLFHCDDLSGI--NGKIRPGIVHRIDKDTSGLLMVAKND 151
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DKTS + Y ALVHG + K I+ PIG R
Sbjct: 152 HAHESLAKQLKDKTS----------------DREYIALVHGDIVHQKGTIEAPIG--RAK 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ + V GK A + +VLER TL+ ++ +GR HQIR+HL ++GHPL GD
Sbjct: 194 EDRQKMAVVR-DGKEARTHFEVLER--LPGYTLINCKLDTGRTHQIRVHLKYIGHPLAGD 250
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y P N + G+ G +LHA +L HPTT E +
Sbjct: 251 PKY-------------------------GPKNTIKGN-GQFLHAAKLGFDHPTTKERMMF 284
Query: 319 TAPLPS 324
APLPS
Sbjct: 285 EAPLPS 290
>gi|33866818|ref|NP_898377.1| pseudouridine synthase [Synechococcus sp. WH 8102]
gi|33639419|emb|CAE08803.1| probable pseudouridine synthase [Synechococcus sp. WH 8102]
Length = 315
Score = 131 bits (330), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 102/311 (32%), Positives = 155/311 (49%), Gaps = 65/311 (20%)
Query: 6 FYSTKHKNSAPLQGWLQRIQNGQITVDG-RVVNDPNIILSAGSELVYHRLPWKEPDVPYL 64
+ + ++++SA + W QRI +G++ +G R+ D L+ G +++ R PW E +P
Sbjct: 28 WLAERYQHSAG-EVWRQRIHSGELDCNGQRLTADRR--LAGGEAVLWRRPPWLEEAIPDQ 84
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
E +++D DL+ +NKPSGL V+PGG F T+ L+ ++ PVHRL
Sbjct: 85 WETIHDDGDLLVINKPSGLPVMPGGGFLLHTLTALLEPTGAR-------------PVHRL 131
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI---- 180
GR TSG+ +CA+ + + ++ F + S RK+ + + V G+
Sbjct: 132 GRFTSGLQVCARDPMTRAALSKQFRPEGSC------------RKVYQAWAQRVPGLEQGQ 179
Query: 181 ---VDEDKVIIKQP-IGIVRYPGVAKGLYVASPSGK--PALSKVDVLERDVQRNCTLVQV 234
V D V + P +G V P K P K A S++++LER + + +QV
Sbjct: 180 TLTVTNDVVERQHPLLGWVWGPEPLK----QEPIRKRLTARSELELLERTAEGD--RLQV 233
Query: 235 EIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPG 294
I +GRPHQIRIHLA LG PLLGDPLY+ + E + PG
Sbjct: 234 TITTGRPHQIRIHLAQLGSPLLGDPLYL-------LNREIS-------------ATATPG 273
Query: 295 DCGYYLHAYQL 305
D GY LHA+QL
Sbjct: 274 DGGYRLHAWQL 284
>gi|260893452|ref|YP_003239549.1| RluA family pseudouridine synthase [Ammonifex degensii KC4]
gi|260865593|gb|ACX52699.1| pseudouridine synthase, RluA family [Ammonifex degensii KC4]
Length = 331
Score = 131 bits (330), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 105/327 (32%), Positives = 164/327 (50%), Gaps = 60/327 (18%)
Query: 18 QGWLQRIQN-GQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+ +LQR+ N G + V GR V P+ + G E++ P + +V P LE++YED+D
Sbjct: 31 RSYLQRLINEGYVQVGGRKVK-PSYKVKPGEEILVFLPPAETLEVEPEPIPLEIIYEDED 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
L+ +NKP G+ V PG ++ T++N L + +S S + P VHRL + TSG+L+
Sbjct: 90 LLVVNKPRGMVVHPGAGHKRGTLVNALLYHC--RSLSGINGVLRPGIVHRLDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK A ++ +L +R++ K Y ALV+G V + I+ PIG
Sbjct: 148 VAKNDAAHLSLSA----------------QLKERRVLKEYWALVYGEVKPAQGRIEAPIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P + + V + G+PA++ +V+E TL++V ++GR HQIR+HL +LGH
Sbjct: 192 --RHPRYRQKMAVVA-GGRPAVTHYEVVE--YFPGYTLLRVRPETGRTHQIRVHLHYLGH 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
P++GD Y P P G G +LHA L +HP T
Sbjct: 247 PIVGDLKY-------------------------GPARPHLGLEGQFLHAGVLGFTHPRTG 281
Query: 314 EVIKITAPLP-------SVLKTREEGR 333
E ++ APLP + L+ R+ GR
Sbjct: 282 EFLRFEAPLPPELERVLAELRARQAGR 308
>gi|199598373|ref|ZP_03211792.1| Pseudouridylate synthase, 23S RNA-specific [Lactobacillus rhamnosus
HN001]
gi|258508458|ref|YP_003171209.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus GG]
gi|385828126|ref|YP_005865898.1| pseudouridylate synthase [Lactobacillus rhamnosus GG]
gi|199590692|gb|EDY98779.1| Pseudouridylate synthase, 23S RNA-specific [Lactobacillus rhamnosus
HN001]
gi|257148385|emb|CAR87358.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus GG]
gi|259649771|dbj|BAI41933.1| pseudouridylate synthase [Lactobacillus rhamnosus GG]
Length = 306
Score = 131 bits (330), Expect = 5e-28, Method: Compositional matrix adjust.
Identities = 110/350 (31%), Positives = 166/350 (47%), Gaps = 64/350 (18%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--- 59
+I + T H S +Q WLQ +G +TV+G V N ++AG ++V +P +P
Sbjct: 17 IITAHETTHTRSQ-VQKWLQ---DGLVTVNGNPVK-ANFKVTAG-DVVTVTIPEVKPLKA 70
Query: 60 -DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
P LE++YEDD +I +NKP G+ V P T++N L + + P
Sbjct: 71 VAEPIPLEIVYEDDQVIVVNKPQGMVVHPAPGHPDGTLVNGLLYHTKLPGIN---GVIRP 127
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHR+ + TSG+L+ AKT+ A+ ++ KTS+ + Y ALVH
Sbjct: 128 GIVHRIDKDTSGLLMVAKTEAAQLSLSAQLKAKTSI----------------REYLALVH 171
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G ED+ I P+G R P K V + G+ A++ VLER N TLV+ + +
Sbjct: 172 GTFKEDEGTIDAPLG--RDPRDRKRQAVVA-DGRHAVTHFQVLERFT--NYTLVKCILDT 226
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+A+ HP+ GDPLY P +PG G
Sbjct: 227 GRTHQIRVHMAYTHHPVAGDPLY-------------------------GPKRTLPGH-GQ 260
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKTREEGREVDKSVGSERIRGIQ 348
+LHA +L HP T +++ TAP+P + E D G ++ R ++
Sbjct: 261 FLHAAKLGFVHPVTGKLLTFTAPVPPIF----EKTLTDLRAGIDKTRNVR 306
>gi|365539749|ref|ZP_09364924.1| 23S rRNA pseudouridine synthase D [Vibrio ordalii ATCC 33509]
Length = 324
Score = 131 bits (330), Expect = 5e-28, Method: Compositional matrix adjust.
Identities = 110/339 (32%), Positives = 163/339 (48%), Gaps = 66/339 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNI------ILSAGSELVYHRLPWKEPDVPYLLEVLYE 70
L+ WL G++ V+G V+ P + I++ +EL W+ D+P L ++YE
Sbjct: 36 LKEWLL---EGKVQVNGDVITKPRMKVMGGEIITVQAELEDEE-RWEAQDIP--LNIVYE 89
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGR 126
DDD++ +NKP V PG TVLN L + A VP VHRL +
Sbjct: 90 DDDIMVINKPRDFVVHPGAGTPDGTVLNALLFHYP---------AIAEVPRAGIVHRLDK 140
Query: 127 GTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKV 186
T+G+++ AKT A+T + V L +RKIT+ Y A+V G + +
Sbjct: 141 DTTGLMVVAKTVPAQTHL----------------VRALQKRKITREYEAIVIGTMTAGGM 184
Query: 187 IIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRI 246
I K PIG R+ + L SP GKPA++ V E R T +++ +++GR HQIR+
Sbjct: 185 IDK-PIG--RH-STKRTLMAVSPMGKPAVTHYRVAEH--FREHTRLRLRLETGRTHQIRV 238
Query: 247 HLAFLGHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAY 303
H+++L HPLLGD Y GG+ PK E D G++R LHA
Sbjct: 239 HMSYLQHPLLGDTAY--GGRARIPKGATQELTDMI----RGFDRQA----------LHAV 282
Query: 304 QLFLSHPTTNEVIKITAPLPSVLKTREEGREVDKSVGSE 342
L L HP T E+++ AP+P + E VD + +
Sbjct: 283 MLRLEHPVTGEMLEFHAPVPDDMIIMAEALRVDTKLNKK 321
>gi|238927877|ref|ZP_04659637.1| pseudouridylate synthase [Selenomonas flueggei ATCC 43531]
gi|238884210|gb|EEQ47848.1| pseudouridylate synthase [Selenomonas flueggei ATCC 43531]
Length = 299
Score = 131 bits (329), Expect = 5e-28, Method: Compositional matrix adjust.
Identities = 101/317 (31%), Positives = 149/317 (47%), Gaps = 58/317 (18%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+ + QR I G + VDG N LS G+E+V LP E D+P L++LYE
Sbjct: 25 RSYAQRLIAGGNVAVDGER-RKANFKLS-GAEMVVCTLPPAEETEICAEDIP--LDILYE 80
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+I +NK G+ V P T++N L S S + A P VHRL + TSG
Sbjct: 81 DADIIVINKRRGMVVHPAAGVHTGTLVNALLHHCSDLSGI--NGALRPGIVHRLDKDTSG 138
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+++ AK +A +A DK + + YRA+V+G + E +I
Sbjct: 139 VMVAAKNDMAHHYLARQIRDKEA----------------RREYRAIVYGNIVERAGVITG 182
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
IG R+P K + + +G+PA + +VLER + T V +++GR HQIR+H+
Sbjct: 183 DIG--RHPTDRKKMAIVRENGRPATTHFEVLER--FGDYTFVACRLETGRTHQIRVHMTS 238
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHPL+GD Y A P + G LH+ L L+HP
Sbjct: 239 IGHPLVGDTKYTAKKNPFAI-------------------------TGQALHSLTLTLTHP 273
Query: 311 TTNEVIKITAPLPSVLK 327
T E + TAPLP+ ++
Sbjct: 274 RTQEEMTFTAPLPADME 290
>gi|254994200|ref|ZP_05276390.1| hypothetical protein LmonocytoFSL_15395 [Listeria monocytogenes FSL
J2-064]
Length = 296
Score = 131 bits (329), Expect = 5e-28, Method: Compositional matrix adjust.
Identities = 101/306 (33%), Positives = 144/306 (47%), Gaps = 57/306 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYH-RLPWK----EPDVPYLLEVLYEDDDLIALN 78
++NG ITV+G + PN + G E+ Y R P + D+P L++ +ED D++ +N
Sbjct: 36 LKNGDITVNGELAK-PNYKVQVGDEIHYEVREPEELEVLAEDIP--LDIYFEDKDMLVVN 92
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 KPEGMVVHPSAGHASGTLVNALLFHCDDLSGI--NGKIRPGIVHRIDKDTSGLLMVAKND 150
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DKTS + Y ALVHG + K I+ PIG R
Sbjct: 151 HAHESLAKQLKDKTS----------------DREYIALVHGDIVHQKGTIEAPIG--RAK 192
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ + V GK A + +VLER TL+ ++ +GR HQIR+HL ++GHPL GD
Sbjct: 193 EDRQKMAVVR-DGKEARTHFEVLER--LPGYTLINCKLDTGRTHQIRVHLKYIGHPLAGD 249
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y P N + G+ G +LHA +L HPTT E +
Sbjct: 250 PKY-------------------------GPKNTIKGN-GQFLHAAKLGFDHPTTKERMMF 283
Query: 319 TAPLPS 324
APLPS
Sbjct: 284 EAPLPS 289
>gi|420263260|ref|ZP_14765898.1| pseudouridylate synthase [Enterococcus sp. C1]
gi|394769548|gb|EJF49393.1| pseudouridylate synthase [Enterococcus sp. C1]
Length = 302
Score = 131 bits (329), Expect = 5e-28, Method: Compositional matrix adjust.
Identities = 103/316 (32%), Positives = 153/316 (48%), Gaps = 62/316 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL------LEVLYE 70
+Q WL+ +T++G V N + AG LV ++P EP+V L L ++Y+
Sbjct: 32 VQQWLKE---DAVTLEGETVR-ANYKVKAGDHLVI-QVP--EPEVVDLEPENIPLTIVYQ 84
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+ +NKP G+ V P T++N L + S+ + P VHR+ + TSG
Sbjct: 85 DADVAVINKPQGMVVHPSAGHPNGTLVNALLYHMDDLSTI--NDVVRPGIVHRIDKDTSG 142
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A DKTS+ RK Y ALVHG + +K I
Sbjct: 143 LLMIAKNDQAHESLAKQLKDKTSL------------RK----YVALVHGTISHEKGTINA 186
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + +GKPA++ VLER Q TLV++++++GR HQIR+H+ +
Sbjct: 187 PIGRSK---VNRKMQAVIENGKPAVTHFTVLERFEQ--FTLVELQLETGRTHQIRVHMQY 241
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G PL GDPLY P + G+ G +LHA L +HP
Sbjct: 242 IGFPLAGDPLY-------------------------GPKRTLKGN-GQFLHAKLLGFTHP 275
Query: 311 TTNEVIKITAPLPSVL 326
TT E + APLP +
Sbjct: 276 TTGESLVFEAPLPELF 291
>gi|336434973|ref|ZP_08614691.1| hypothetical protein HMPREF0988_00276 [Lachnospiraceae bacterium
1_4_56FAA]
gi|336001866|gb|EGN31993.1| hypothetical protein HMPREF0988_00276 [Lachnospiraceae bacterium
1_4_56FAA]
Length = 308
Score = 131 bits (329), Expect = 5e-28, Method: Compositional matrix adjust.
Identities = 97/309 (31%), Positives = 148/309 (47%), Gaps = 53/309 (17%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE--PDV---PYLLEVLYEDDDLIALN 78
+++G +TV+G V PN + E V ++P E P++ L++LYED D++ +N
Sbjct: 35 VKDGYVTVNGNTVK-PNYKVGT-DESVQTKIPEPETLPEIVPEALPLDILYEDADILVVN 92
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N + + + S ++ P VHR+ T+G LL K
Sbjct: 93 KPKGMVVHPAPGHYSGTLVNAVMFHCRENLSGING-VLRPGIVHRIDMDTTGSLLICKND 151
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +AG +L + IT+ Y A+VHG + ED I PIG R+P
Sbjct: 152 RAHNFLAG----------------QLKEHSITRKYHAIVHGNLKEDTGTINAPIG--RHP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K + V +P+G+ A++ VLER N T V+ +++GR HQIR+H+A +GHP+LGD
Sbjct: 194 ADRKKMSVHAPNGRRAVTHYRVLER--FGNYTYVECTLETGRTHQIRVHMASIGHPILGD 251
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
+Y P G LHA L + HPTT E ++
Sbjct: 252 SVYGPAKCPFRLQ-------------------------GQTLHAKILGIVHPTTGEYMEF 286
Query: 319 TAPLPSVLK 327
APLP +
Sbjct: 287 DAPLPDYFQ 295
>gi|420245965|ref|ZP_14749488.1| pseudouridine synthase, RluA family [Rhizobium sp. CF080]
gi|398044520|gb|EJL37336.1| pseudouridine synthase, RluA family [Rhizobium sp. CF080]
Length = 340
Score = 131 bits (329), Expect = 5e-28, Method: Compositional matrix adjust.
Identities = 101/313 (32%), Positives = 149/313 (47%), Gaps = 41/313 (13%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLIAL 77
I+ G + ++G+V+ +P ++AG + V LP E D+P LEVLYEDDDLI +
Sbjct: 46 IEQGAVRLNGKVITEPKKKITAG-DAVEIDLPEPEDPEPKGEDIP--LEVLYEDDDLIVI 102
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
KP+GL V PG T++N L + S + P VHRL + TSG+++ AK
Sbjct: 103 AKPAGLVVHPGAGNWTGTLVNALIYHCGASLSGIGG-VKRPGIVHRLDKDTSGVMVAAKN 161
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+A +A FAD + + Y+A+V G K I P+G
Sbjct: 162 DIAHRHLADQFADHGR------------SGPLERAYQAVVWGRPRGLKGTIDAPLGRAGD 209
Query: 198 PGVAKGLYVASPSGKPALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
S + A++ V+ER D L++ +++GR HQIR+H+A +G
Sbjct: 210 RTKRAVQKEDSSDAREAITHYQVIERFHEKPDATALAALIECRLETGRTHQIRVHMAHIG 269
Query: 253 HPLLGDPLYVAGGQPKS-FDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPL+GD Y AG + K+ +FA G VN P LHA+ L HP
Sbjct: 270 HPLIGDQDYSAGFKTKANLLPDFAKGV----------VNRFPRQA---LHAFLLAFEHPR 316
Query: 312 TNEVIKITAPLPS 324
T EV++ AP+P
Sbjct: 317 TGEVMEFEAPMPE 329
>gi|227544604|ref|ZP_03974653.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri CF48-3A]
gi|338204549|ref|YP_004650694.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri SD2112]
gi|227185411|gb|EEI65482.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri CF48-3A]
gi|336449789|gb|AEI58404.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri SD2112]
Length = 303
Score = 131 bits (329), Expect = 5e-28, Method: Compositional matrix adjust.
Identities = 101/327 (30%), Positives = 157/327 (48%), Gaps = 62/327 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYED 71
+Q W I++G + V+G V P L G + ++ D+P L+++YED
Sbjct: 33 IQHW---IEDGHVLVNGEQVK-PKYKLLVGDHVQIIPEEPQKIDLTPEDIP--LDIVYED 86
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP G+ V P T++N L + + S+++ + P VHR+ + TSG+
Sbjct: 87 DDVIVVNKPQGMVVHPAPGHPNHTLVNALLYHSP--LSTINGEFR-PGIVHRIDKDTSGL 143
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK +A + KT+ + Y ALVHG++ EDK I P
Sbjct: 144 LMVAKNDMAHRSLTAQLKAKTN----------------KREYVALVHGVIKEDKGTIDAP 187
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
+G + + V G+ A++ +VLER +N TLV ++++GR HQIR+H+ ++
Sbjct: 188 LGRSLKDRKKQAVVV---DGRHAITHFNVLER--FKNYTLVACQLETGRTHQIRVHMKYI 242
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPL GDPLY P + G+ G YLHA L HP
Sbjct: 243 GHPLAGDPLY-------------------------GPRKTLAGN-GQYLHARLLGFKHPR 276
Query: 312 TNEVIKITAPLPSVL-KTREEGREVDK 337
T + + TAPLP+ K E R+ D+
Sbjct: 277 TGKEMVFTAPLPAYFTKMLEHLRKTDQ 303
>gi|417917067|ref|ZP_12560629.1| pseudouridine synthase, RluA family [Streptococcus parasanguinis
SK236]
gi|342830716|gb|EGU65041.1| pseudouridine synthase, RluA family [Streptococcus parasanguinis
SK236]
Length = 296
Score = 131 bits (329), Expect = 6e-28, Method: Compositional matrix adjust.
Identities = 101/320 (31%), Positives = 164/320 (51%), Gaps = 60/320 (18%)
Query: 22 QRIQNGQITVDGRV------VNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLI 75
++I+ G++ V+G V V + +II E+ + ++ D+P L+++YED D++
Sbjct: 29 EQIKEGKVLVNGTVKKAKYTVKEGDIIQYEVPEV--EEVSYEAEDLP--LDIVYEDQDVV 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NK G+ V P T++N L + K S ++ + P VHR+ + TSG+L+ A
Sbjct: 85 VVNKSQGMVVHPSAGHTSGTLVNALLYHV-KDLSGINGELR-PGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ RK Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDQAHVALAEELKDKKSL------------RK----YWAIVHGNLPNDRGMIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFQVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDP Y G K+ + G +LHA L +HP T E
Sbjct: 242 AGDPAY---GPKKTLKGQ-----------------------GQFLHARTLGFTHPRTGET 275
Query: 316 IKITAPLPSVL-KTREEGRE 334
++ TA +P++ KT E+ R+
Sbjct: 276 LEFTAEVPAIFEKTLEDLRK 295
>gi|336124920|ref|YP_004566968.1| ribosomal large subunit pseudouridine synthase [Vibrio anguillarum
775]
gi|335342643|gb|AEH33926.1| Ribosomal large subunit pseudouridine synthase [Vibrio anguillarum
775]
Length = 324
Score = 130 bits (328), Expect = 6e-28, Method: Compositional matrix adjust.
Identities = 110/339 (32%), Positives = 162/339 (47%), Gaps = 66/339 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNI------ILSAGSELVYHRLPWKEPDVPYLLEVLYE 70
L+ WL G++ V+G V+ P I++ +EL W+ D+P L ++YE
Sbjct: 36 LKEWLL---EGKVQVNGEVITKPRTKVMGGEIITVQAELEDEE-RWEAQDIP--LNIVYE 89
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGR 126
DDD++ +NKP V PG TVLN L + A VP VHRL +
Sbjct: 90 DDDIMVINKPRDFVVHPGAGTPDGTVLNALLFHYP---------AIAEVPRAGIVHRLDK 140
Query: 127 GTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKV 186
T+G+++ AKT A+T + V L +RKIT+ Y A+V G + +
Sbjct: 141 DTTGLMVVAKTVPAQTHL----------------VRALQKRKITREYEAIVIGTMTAGGM 184
Query: 187 IIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRI 246
I K PIG R+ + L SP GKPA++ V E R T +++ +++GR HQIR+
Sbjct: 185 IDK-PIG--RH-STKRTLMAVSPMGKPAVTHYRVAEH--FREHTRLRLRLETGRTHQIRV 238
Query: 247 HLAFLGHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAY 303
H+++L HPLLGD Y GG+ PK E D G++R LHA
Sbjct: 239 HMSYLQHPLLGDTAY--GGRARIPKGATQELTDMI----RGFDRQA----------LHAV 282
Query: 304 QLFLSHPTTNEVIKITAPLPSVLKTREEGREVDKSVGSE 342
L L HP T E+++ AP+P + E VD + +
Sbjct: 283 MLRLEHPVTGEMLEFHAPVPDDMIIMAEALRVDTKLNKK 321
>gi|366088576|ref|ZP_09455049.1| ribosomal large subunit pseudouridine synthase [Lactobacillus
acidipiscis KCTC 13900]
Length = 300
Score = 130 bits (328), Expect = 6e-28, Method: Compositional matrix adjust.
Identities = 97/309 (31%), Positives = 152/309 (49%), Gaps = 62/309 (20%)
Query: 26 NGQITVDGRVVNDPNIILSAGSELV-----YHRLPWKEPDVPYLLEVLYEDDDLIALNKP 80
+G+I V+G+ P + G ++ H+L D+P L+++YEDDD++ +NKP
Sbjct: 35 DGKILVNGQQ-EKPRYQVKDGDQVTINEPEVHKLDLVAQDIP--LDIVYEDDDVLVVNKP 91
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRA--SKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
+G+ V P +T++N L + SK + +L P VHR+ R TSG+L+ AK
Sbjct: 92 AGMVVHPAPGHPDQTLVNALLYHCPLSKINGTLR-----PGIVHRIDRDTSGLLMVAKND 146
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DKT++ + Y ALVHGI+ ED + P+ R P
Sbjct: 147 HAHHSLAQQLKDKTTI----------------RYYIALVHGIIKEDHGTVNAPLA--RSP 188
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K V + G+ A++ +VL R +N TLV+ +++GR HQIR+HL ++GHP+ GD
Sbjct: 189 KDRKKQAVVA-GGRRAVTHFEVLRR--YQNYTLVKCRLETGRTHQIRVHLKYIGHPVAGD 245
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P+Y G K+ G +LHA +L +HP T + +
Sbjct: 246 PVY---GPKKTL-----------------------AGPGQFLHAAELGFTHPVTKKRLDF 279
Query: 319 TAPLPSVLK 327
APLP+ K
Sbjct: 280 KAPLPNYFK 288
>gi|254853367|ref|ZP_05242715.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL R2-503]
gi|300763946|ref|ZP_07073942.1| RluA family ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes FSL N1-017]
gi|404281864|ref|YP_006682762.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2755]
gi|404287677|ref|YP_006694263.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes serotype 7 str. SLCC2482]
gi|258606732|gb|EEW19340.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL R2-503]
gi|300515287|gb|EFK42338.1| RluA family ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes FSL N1-017]
gi|404228499|emb|CBY49904.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2755]
gi|404246606|emb|CBY04831.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes serotype 7 str. SLCC2482]
Length = 289
Score = 130 bits (328), Expect = 6e-28, Method: Compositional matrix adjust.
Identities = 96/297 (32%), Positives = 151/297 (50%), Gaps = 57/297 (19%)
Query: 28 QITVDGRVVNDPNIILSAGSEL---VYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQ 84
+ ++ + ++D N L G+ L V+ L K P Y LE++YEDD L+ +NKP ++
Sbjct: 40 NVLLNNKPLDDWNTPLFVGASLSLPVF--LHDKIPVYEYDLEIIYEDDFLLVVNKPVDMK 97
Query: 85 VLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCI 144
P ++ T N +Q+ K + Q ++ + VHRL + TSG++L AK KLA I
Sbjct: 98 THPNDSYETDTCANAVQYYLEK-----TGQDANALAVHRLDQTTSGLVLFAKNKLA---I 149
Query: 145 AGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGL 204
AG ++ R I + Y A V G I +PIG R+ G + +
Sbjct: 150 AGL-------------SWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHHGSRRQI 196
Query: 205 YVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAG 264
SP G+PA++ V VLE D ++N +LV+ +I++GR HQIR+HL+ +GHP++GD LY G
Sbjct: 197 ---SPYGQPAVTHVKVLENDNEKNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLY--G 251
Query: 265 GQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
G P++ N + LHA +L L+HP + + +AP
Sbjct: 252 GFPRA--------------------NRI------MLHAEKLHLNHPFKGKEMNFSAP 282
>gi|401565108|ref|ZP_10805963.1| pseudouridine synthase, RluA family [Selenomonas sp. FOBRC6]
gi|400188141|gb|EJO22315.1| pseudouridine synthase, RluA family [Selenomonas sp. FOBRC6]
Length = 302
Score = 130 bits (328), Expect = 7e-28, Method: Compositional matrix adjust.
Identities = 100/311 (32%), Positives = 146/311 (46%), Gaps = 52/311 (16%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL---LEVLYEDDD 73
+ + QR I+ GQ+TVDG V N L G E+ P +E ++ L+VLYED+D
Sbjct: 27 RSYAQRLIETGQVTVDG-VARKGNYKLRGGEEIACTVPPAEEVEIRAEQIPLDVLYEDED 85
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
+I LNK G+ V P + T++N L + S + A P VHRL + TSG+++
Sbjct: 86 MIVLNKVRGMVVHPAAGIVRGTLVNALLYHCKDLSGI--NGALRPGIVHRLDKDTSGVMV 143
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +A DK + + YRA+V+G + II IG
Sbjct: 144 VAKNDMAHHFLARQIRDKEA----------------RREYRAIVYGNIVPRAGIITGDIG 187
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P K + + +GKPA + +VLER T + +++GR HQIR+HL +GH
Sbjct: 188 --RHPTDRKKMAIVRENGKPATTHFEVLER--FGAYTYISCRLETGRTHQIRVHLTSIGH 243
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL+GD Y A P + G LH+ L L HP +
Sbjct: 244 PLVGDAKYTAKKNPFAI-------------------------VGQALHSLTLRLVHPRSG 278
Query: 314 EVIKITAPLPS 324
E + TAPLP+
Sbjct: 279 EEMAFTAPLPA 289
>gi|315303759|ref|ZP_07874262.1| ribosomal large subunit pseudouridine synthase D [Listeria ivanovii
FSL F6-596]
gi|313627868|gb|EFR96498.1| ribosomal large subunit pseudouridine synthase D [Listeria ivanovii
FSL F6-596]
Length = 302
Score = 130 bits (328), Expect = 7e-28, Method: Compositional matrix adjust.
Identities = 100/309 (32%), Positives = 145/309 (46%), Gaps = 63/309 (20%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--------DVPYLLEVLYEDDDLI 75
++NG ITV G + PN + G E+ L +EP D+P L++ +ED D++
Sbjct: 36 LKNGDITVSGEIAK-PNYKVQVGDEI---HLEVREPEELEVLAEDIP--LDIYFEDKDML 89
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ + P VHR+ + TSG+L+ A
Sbjct: 90 VVNKPEGMVVHPSAGHASSTLVNALLFHC-KDLSGINGKIR-PGIVHRIDKDTSGLLMVA 147
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DKTS + Y ALVHG + K I+ PIG
Sbjct: 148 KNDHAHESLAKQLKDKTS----------------DREYIALVHGDIVHQKGTIEAPIG-- 189
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R + + V GK A + +V+ER TL+ ++ +GR HQIR+HL ++GHPL
Sbjct: 190 RAKEDRQKMAVVR-DGKEARTHFEVIER--LEGYTLINCKLDTGRTHQIRVHLKYIGHPL 246
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDP Y P N + G+ G +LHA +L HP T E
Sbjct: 247 AGDPKY-------------------------GPKNTLKGN-GQFLHAAKLGFDHPATGER 280
Query: 316 IKITAPLPS 324
+ APLPS
Sbjct: 281 MTFEAPLPS 289
>gi|417935378|ref|ZP_12578697.1| pseudouridine synthase, RluA family [Streptococcus mitis bv. 2 str.
F0392]
gi|340769871|gb|EGR92389.1| pseudouridine synthase, RluA family [Streptococcus mitis bv. 2 str.
F0392]
Length = 299
Score = 130 bits (328), Expect = 7e-28, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 155/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G+ + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKAGQVLVNGQA-KKAKYTVQEGDIVTYHVPEPEVLEYVAEDIP--LEIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + TLV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYTLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ GY G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLK------------GY-----------GQFLHAKTLGFTHPRTGETM 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|336426840|ref|ZP_08606848.1| hypothetical protein HMPREF0994_02854 [Lachnospiraceae bacterium
3_1_57FAA_CT1]
gi|336010480|gb|EGN40463.1| hypothetical protein HMPREF0994_02854 [Lachnospiraceae bacterium
3_1_57FAA_CT1]
Length = 307
Score = 130 bits (328), Expect = 7e-28, Method: Compositional matrix adjust.
Identities = 90/309 (29%), Positives = 142/309 (45%), Gaps = 47/309 (15%)
Query: 18 QGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL---LEVLYEDDDL 74
+ ++Q++ Q + + N L E+ + EPD+ L++LYEDDD+
Sbjct: 31 RSFIQKMMKEQKVLVNNIPVKANYRLRTEDEICFTLPEAAEPDIEAENIPLDILYEDDDV 90
Query: 75 IALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLC 134
+ +NKP G+ V P T++N + + S ++ P VHR+ R T+G L+
Sbjct: 91 LVVNKPKGMVVHPAAGHYSGTLVNAVMYHCRGSLSGING-VMRPGIVHRIDRDTTGSLII 149
Query: 135 AKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGI 194
K A IA D T I + YRA+VHG++ E+++ I P+G
Sbjct: 150 CKNDNAHLSIAAQLKDHT----------------IVRRYRAIVHGVIREEELCINSPVG- 192
Query: 195 VRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHP 254
R+P K + +GK A++ + VLER R T ++ +++GR HQIR+H+ +GHP
Sbjct: 193 -RHPTDRKKMAAGVRNGKEAVTHIKVLER--FRAYTYIECRLETGRTHQIRVHMDSIGHP 249
Query: 255 LLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNE 314
LLGD +Y G + S G LHA L HP + E
Sbjct: 250 LLGDTVY--GNRKYSLPYVLQ---------------------GQTLHAMTLGFIHPVSGE 286
Query: 315 VIKITAPLP 323
++ APLP
Sbjct: 287 YVETMAPLP 295
>gi|257878226|ref|ZP_05657879.1| pseudouridylate synthase [Enterococcus faecium 1,230,933]
gi|257880994|ref|ZP_05660647.1| pseudouridylate synthase [Enterococcus faecium 1,231,502]
gi|257889576|ref|ZP_05669229.1| pseudouridylate synthase [Enterococcus faecium 1,231,410]
gi|257892484|ref|ZP_05672137.1| pseudouridylate synthase [Enterococcus faecium 1,231,408]
gi|260559776|ref|ZP_05831955.1| pseudouridylate synthase [Enterococcus faecium C68]
gi|293559348|ref|ZP_06675890.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1162]
gi|293569846|ref|ZP_06680933.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1071]
gi|294621730|ref|ZP_06700894.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium U0317]
gi|314939741|ref|ZP_07846963.1| pseudouridine synthase, RluA family [Enterococcus faecium
TX0133a04]
gi|314941758|ref|ZP_07848635.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133C]
gi|314948303|ref|ZP_07851695.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0082]
gi|314952391|ref|ZP_07855398.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133A]
gi|314991990|ref|ZP_07857443.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133B]
gi|314995712|ref|ZP_07860802.1| pseudouridine synthase, RluA family [Enterococcus faecium
TX0133a01]
gi|383328291|ref|YP_005354175.1| RluA family pseudouridine synthase [Enterococcus faecium Aus0004]
gi|389868530|ref|YP_006375953.1| pseudouridylate synthase [Enterococcus faecium DO]
gi|406581288|ref|ZP_11056446.1| RluA family pseudouridine synthase [Enterococcus sp. GMD4E]
gi|406583592|ref|ZP_11058648.1| RluA family pseudouridine synthase [Enterococcus sp. GMD3E]
gi|406585861|ref|ZP_11060815.1| RluA family pseudouridine synthase [Enterococcus sp. GMD2E]
gi|406591362|ref|ZP_11065646.1| RluA family pseudouridine synthase [Enterococcus sp. GMD1E]
gi|410937476|ref|ZP_11369336.1| pseudouridylate synthase [Enterococcus sp. GMD5E]
gi|415899988|ref|ZP_11551736.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E4453]
gi|424790436|ref|ZP_18216980.1| pseudouridine synthase, RluA family [Enterococcus faecium V689]
gi|424795203|ref|ZP_18221087.1| pseudouridine synthase, RluA family [Enterococcus faecium S447]
gi|424857346|ref|ZP_18281506.1| pseudouridine synthase, RluA family [Enterococcus faecium R499]
gi|424907805|ref|ZP_18331258.1| pseudouridine synthase, RluA family [Enterococcus faecium R497]
gi|424950447|ref|ZP_18365611.1| pseudouridine synthase, RluA family [Enterococcus faecium R496]
gi|424954133|ref|ZP_18369048.1| pseudouridine synthase, RluA family [Enterococcus faecium R494]
gi|424955881|ref|ZP_18370688.1| pseudouridine synthase, RluA family [Enterococcus faecium R446]
gi|424959148|ref|ZP_18373749.1| pseudouridine synthase, RluA family [Enterococcus faecium P1986]
gi|424963812|ref|ZP_18377965.1| pseudouridine synthase, RluA family [Enterococcus faecium P1190]
gi|424969001|ref|ZP_18382592.1| pseudouridine synthase, RluA family [Enterococcus faecium P1140]
gi|424970858|ref|ZP_18384334.1| pseudouridine synthase, RluA family [Enterococcus faecium P1139]
gi|424975249|ref|ZP_18388423.1| pseudouridine synthase, RluA family [Enterococcus faecium P1137]
gi|424979575|ref|ZP_18392419.1| pseudouridine synthase, RluA family [Enterococcus faecium P1123]
gi|424981648|ref|ZP_18394369.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV99]
gi|424983351|ref|ZP_18395944.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV69]
gi|424988051|ref|ZP_18400393.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV38]
gi|424991676|ref|ZP_18403811.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV26]
gi|424993822|ref|ZP_18405797.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV168]
gi|424997132|ref|ZP_18408899.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV165]
gi|425000110|ref|ZP_18411691.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV161]
gi|425004135|ref|ZP_18415464.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV102]
gi|425007659|ref|ZP_18418779.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV1]
gi|425009934|ref|ZP_18420917.1| pseudouridine synthase, RluA family [Enterococcus faecium E422]
gi|425013990|ref|ZP_18424687.1| pseudouridine synthase, RluA family [Enterococcus faecium E417]
gi|425016446|ref|ZP_18427010.1| pseudouridine synthase, RluA family [Enterococcus faecium C621]
gi|425019678|ref|ZP_18430021.1| pseudouridine synthase, RluA family [Enterococcus faecium C497]
gi|425023611|ref|ZP_18433721.1| pseudouridine synthase, RluA family [Enterococcus faecium C1904]
gi|425031025|ref|ZP_18436170.1| pseudouridine synthase, RluA family [Enterococcus faecium 515]
gi|425035452|ref|ZP_18440288.1| pseudouridine synthase, RluA family [Enterococcus faecium 514]
gi|425038031|ref|ZP_18442664.1| pseudouridine synthase, RluA family [Enterococcus faecium 513]
gi|425040841|ref|ZP_18445283.1| pseudouridine synthase, RluA family [Enterococcus faecium 511]
gi|425044098|ref|ZP_18448282.1| pseudouridine synthase, RluA family [Enterococcus faecium 510]
gi|425047425|ref|ZP_18451378.1| pseudouridine synthase, RluA family [Enterococcus faecium 509]
gi|425053912|ref|ZP_18457431.1| pseudouridine synthase, RluA family [Enterococcus faecium 506]
gi|425060223|ref|ZP_18463521.1| pseudouridine synthase, RluA family [Enterococcus faecium 503]
gi|427394942|ref|ZP_18887864.1| RluA family pseudouridine synthase [Enterococcus durans
FB129-CNAB-4]
gi|430830513|ref|ZP_19448571.1| RluA family pseudouridine synthase [Enterococcus faecium E0333]
gi|430844296|ref|ZP_19462194.1| RluA family pseudouridine synthase [Enterococcus faecium E1050]
gi|430846276|ref|ZP_19464136.1| RluA family pseudouridine synthase [Enterococcus faecium E1133]
gi|430854615|ref|ZP_19472328.1| RluA family pseudouridine synthase [Enterococcus faecium E1392]
gi|430862181|ref|ZP_19479533.1| RluA family pseudouridine synthase [Enterococcus faecium E1573]
gi|430959905|ref|ZP_19487040.1| RluA family pseudouridine synthase [Enterococcus faecium E1576]
gi|431008935|ref|ZP_19489375.1| RluA family pseudouridine synthase [Enterococcus faecium E1578]
gi|431228594|ref|ZP_19501735.1| RluA family pseudouridine synthase [Enterococcus faecium E1622]
gi|431258945|ref|ZP_19505122.1| RluA family pseudouridine synthase [Enterococcus faecium E1623]
gi|431369935|ref|ZP_19509634.1| RluA family pseudouridine synthase [Enterococcus faecium E1627]
gi|431499479|ref|ZP_19515058.1| RluA family pseudouridine synthase [Enterococcus faecium E1634]
gi|431539725|ref|ZP_19517929.1| RluA family pseudouridine synthase [Enterococcus faecium E1731]
gi|431745976|ref|ZP_19534813.1| RluA family pseudouridine synthase [Enterococcus faecium E2134]
gi|431748515|ref|ZP_19537272.1| RluA family pseudouridine synthase [Enterococcus faecium E2297]
gi|431754618|ref|ZP_19543279.1| RluA family pseudouridine synthase [Enterococcus faecium E2883]
gi|431770610|ref|ZP_19559010.1| RluA family pseudouridine synthase [Enterococcus faecium E1644]
gi|431773136|ref|ZP_19561469.1| RluA family pseudouridine synthase [Enterococcus faecium E2369]
gi|431775999|ref|ZP_19564268.1| RluA family pseudouridine synthase [Enterococcus faecium E2560]
gi|431778534|ref|ZP_19566745.1| RluA family pseudouridine synthase [Enterococcus faecium E4389]
gi|431782102|ref|ZP_19570240.1| RluA family pseudouridine synthase [Enterococcus faecium E6012]
gi|431785508|ref|ZP_19573533.1| RluA family pseudouridine synthase [Enterococcus faecium E6045]
gi|447913117|ref|YP_007394529.1| Ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium NRRL B-2354]
gi|257812454|gb|EEV41212.1| pseudouridylate synthase [Enterococcus faecium 1,230,933]
gi|257816652|gb|EEV43980.1| pseudouridylate synthase [Enterococcus faecium 1,231,502]
gi|257825936|gb|EEV52562.1| pseudouridylate synthase [Enterococcus faecium 1,231,410]
gi|257828863|gb|EEV55470.1| pseudouridylate synthase [Enterococcus faecium 1,231,408]
gi|260074000|gb|EEW62323.1| pseudouridylate synthase [Enterococcus faecium C68]
gi|291587594|gb|EFF19471.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1071]
gi|291598739|gb|EFF29792.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium U0317]
gi|291606712|gb|EFF36104.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1162]
gi|313590103|gb|EFR68948.1| pseudouridine synthase, RluA family [Enterococcus faecium
TX0133a01]
gi|313593425|gb|EFR72270.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133B]
gi|313595508|gb|EFR74353.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133A]
gi|313599436|gb|EFR78279.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133C]
gi|313640970|gb|EFS05550.1| pseudouridine synthase, RluA family [Enterococcus faecium
TX0133a04]
gi|313645284|gb|EFS09864.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0082]
gi|364089059|gb|EHM31781.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E4453]
gi|378937985|gb|AFC63057.1| pseudouridine synthase, RluA family [Enterococcus faecium Aus0004]
gi|388533779|gb|AFK58971.1| pseudouridylate synthase [Enterococcus faecium DO]
gi|402920777|gb|EJX41265.1| pseudouridine synthase, RluA family [Enterococcus faecium V689]
gi|402924802|gb|EJX44990.1| pseudouridine synthase, RluA family [Enterococcus faecium S447]
gi|402929095|gb|EJX48889.1| pseudouridine synthase, RluA family [Enterococcus faecium R499]
gi|402929667|gb|EJX49405.1| pseudouridine synthase, RluA family [Enterococcus faecium R497]
gi|402933179|gb|EJX52634.1| pseudouridine synthase, RluA family [Enterococcus faecium R496]
gi|402937617|gb|EJX56719.1| pseudouridine synthase, RluA family [Enterococcus faecium R494]
gi|402947438|gb|EJX65648.1| pseudouridine synthase, RluA family [Enterococcus faecium R446]
gi|402948129|gb|EJX66294.1| pseudouridine synthase, RluA family [Enterococcus faecium P1190]
gi|402949976|gb|EJX68001.1| pseudouridine synthase, RluA family [Enterococcus faecium P1140]
gi|402951210|gb|EJX69159.1| pseudouridine synthase, RluA family [Enterococcus faecium P1986]
gi|402954282|gb|EJX71918.1| pseudouridine synthase, RluA family [Enterococcus faecium P1137]
gi|402957504|gb|EJX74892.1| pseudouridine synthase, RluA family [Enterococcus faecium P1123]
gi|402960500|gb|EJX77637.1| pseudouridine synthase, RluA family [Enterococcus faecium P1139]
gi|402963258|gb|EJX80143.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV99]
gi|402971822|gb|EJX88067.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV69]
gi|402973029|gb|EJX89182.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV38]
gi|402976157|gb|EJX92072.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV26]
gi|402981680|gb|EJX97195.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV168]
gi|402986753|gb|EJY01862.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV165]
gi|402989884|gb|EJY04786.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV161]
gi|402990538|gb|EJY05408.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV102]
gi|402994548|gb|EJY09074.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV1]
gi|402999798|gb|EJY13969.1| pseudouridine synthase, RluA family [Enterococcus faecium E417]
gi|403001579|gb|EJY15625.1| pseudouridine synthase, RluA family [Enterococcus faecium E422]
gi|403007115|gb|EJY20710.1| pseudouridine synthase, RluA family [Enterococcus faecium C621]
gi|403009283|gb|EJY22740.1| pseudouridine synthase, RluA family [Enterococcus faecium C1904]
gi|403011007|gb|EJY24345.1| pseudouridine synthase, RluA family [Enterococcus faecium C497]
gi|403016436|gb|EJY29254.1| pseudouridine synthase, RluA family [Enterococcus faecium 515]
gi|403017943|gb|EJY30664.1| pseudouridine synthase, RluA family [Enterococcus faecium 514]
gi|403020389|gb|EJY32931.1| pseudouridine synthase, RluA family [Enterococcus faecium 513]
gi|403027699|gb|EJY39574.1| pseudouridine synthase, RluA family [Enterococcus faecium 511]
gi|403028578|gb|EJY40396.1| pseudouridine synthase, RluA family [Enterococcus faecium 506]
gi|403030860|gb|EJY42514.1| pseudouridine synthase, RluA family [Enterococcus faecium 510]
gi|403033618|gb|EJY45110.1| pseudouridine synthase, RluA family [Enterococcus faecium 509]
gi|403042820|gb|EJY53762.1| pseudouridine synthase, RluA family [Enterococcus faecium 503]
gi|404452818|gb|EJZ99969.1| RluA family pseudouridine synthase [Enterococcus sp. GMD4E]
gi|404456387|gb|EKA03110.1| RluA family pseudouridine synthase [Enterococcus sp. GMD3E]
gi|404461969|gb|EKA07817.1| RluA family pseudouridine synthase [Enterococcus sp. GMD2E]
gi|404467838|gb|EKA12898.1| RluA family pseudouridine synthase [Enterococcus sp. GMD1E]
gi|410734089|gb|EKQ76010.1| pseudouridylate synthase [Enterococcus sp. GMD5E]
gi|425724078|gb|EKU86962.1| RluA family pseudouridine synthase [Enterococcus durans
FB129-CNAB-4]
gi|430483115|gb|ELA60214.1| RluA family pseudouridine synthase [Enterococcus faecium E0333]
gi|430496886|gb|ELA72945.1| RluA family pseudouridine synthase [Enterococcus faecium E1050]
gi|430539070|gb|ELA79332.1| RluA family pseudouridine synthase [Enterococcus faecium E1133]
gi|430548274|gb|ELA88179.1| RluA family pseudouridine synthase [Enterococcus faecium E1392]
gi|430549472|gb|ELA89304.1| RluA family pseudouridine synthase [Enterococcus faecium E1573]
gi|430556389|gb|ELA95897.1| RluA family pseudouridine synthase [Enterococcus faecium E1576]
gi|430560850|gb|ELB00142.1| RluA family pseudouridine synthase [Enterococcus faecium E1578]
gi|430574896|gb|ELB13659.1| RluA family pseudouridine synthase [Enterococcus faecium E1622]
gi|430577040|gb|ELB15645.1| RluA family pseudouridine synthase [Enterococcus faecium E1623]
gi|430583682|gb|ELB22040.1| RluA family pseudouridine synthase [Enterococcus faecium E1627]
gi|430588115|gb|ELB26320.1| RluA family pseudouridine synthase [Enterococcus faecium E1634]
gi|430593945|gb|ELB31920.1| RluA family pseudouridine synthase [Enterococcus faecium E1731]
gi|430609616|gb|ELB46800.1| RluA family pseudouridine synthase [Enterococcus faecium E2134]
gi|430613436|gb|ELB50446.1| RluA family pseudouridine synthase [Enterococcus faecium E2297]
gi|430619212|gb|ELB56040.1| RluA family pseudouridine synthase [Enterococcus faecium E2883]
gi|430635537|gb|ELB71633.1| RluA family pseudouridine synthase [Enterococcus faecium E1644]
gi|430637203|gb|ELB73236.1| RluA family pseudouridine synthase [Enterococcus faecium E2369]
gi|430642114|gb|ELB77897.1| RluA family pseudouridine synthase [Enterococcus faecium E2560]
gi|430644080|gb|ELB79783.1| RluA family pseudouridine synthase [Enterococcus faecium E4389]
gi|430647477|gb|ELB82923.1| RluA family pseudouridine synthase [Enterococcus faecium E6045]
gi|430648117|gb|ELB83540.1| RluA family pseudouridine synthase [Enterococcus faecium E6012]
gi|445188826|gb|AGE30468.1| Ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium NRRL B-2354]
Length = 303
Score = 130 bits (328), Expect = 7e-28, Method: Compositional matrix adjust.
Identities = 105/325 (32%), Positives = 159/325 (48%), Gaps = 63/325 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+Q WL+ NG ++V+G+ V N + G E+ +P E ++P L ++YE
Sbjct: 31 IQLWLK---NGAVSVNGQPVK-ANYKVKQGDEITV-LIPEPETLDVVPENIP--LTIVYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+ +NKP G+ V P T++N L + K S+++ P VHR+ + TSG
Sbjct: 84 DEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHI-KDLSTING-VIRPGIVHRIDKDTSG 141
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A DKTS+ RK Y ALVHG + +K I
Sbjct: 142 LLMVAKNDQAHESLAQQLKDKTSL------------RK----YVALVHGEIPHEKGTINA 185
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + + + GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 186 PIGRSKE---NRKMQAIREDGKSAVTHFTVLER--FEGFTLVELKLETGRTHQIRVHMKY 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDP+Y G K+ G +LHA L +HP
Sbjct: 241 IGYPLAGDPVY---GPKKTLKGN-----------------------GQFLHAQMLGFTHP 274
Query: 311 TTNEVIKITAPLPSVL-KTREEGRE 334
TTNE + APLP V KT E+ R+
Sbjct: 275 TTNEKMIFEAPLPEVFEKTLEKLRK 299
>gi|343492231|ref|ZP_08730604.1| 23S rRNA pseudouridine synthase D [Vibrio nigripulchritudo ATCC
27043]
gi|342827571|gb|EGU61959.1| 23S rRNA pseudouridine synthase D [Vibrio nigripulchritudo ATCC
27043]
Length = 324
Score = 130 bits (328), Expect = 8e-28, Method: Compositional matrix adjust.
Identities = 103/328 (31%), Positives = 156/328 (47%), Gaps = 56/328 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL+ G+I VDG VV P + + G E++ H W+ D+P L ++YED
Sbjct: 36 LKEWLK---EGKIQVDGEVVTKPRLKVMGGEEIILHAELEDEERWEAQDIP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD++ +NKP V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 DDILVINKPRDFVVHPGAGTPDGTVLNALLHHYPD-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V EL +R IT+ Y A+ G + +I++P
Sbjct: 146 MVVAKTVPAQTRL----------------VRELQKRNITREYEAIAIGRMTAGG-MIEKP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L + GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 189 IG--RH-STKRTLMAVNELGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ PK E + A D LHA L +
Sbjct: 244 QHPLLGDTPY--GGRARIPKGASEELTEMIRAFD--------------RQALHAVMLRFA 287
Query: 309 HPTTNEVIKITAPLPSVLKTREEGREVD 336
HP T E ++ AP+P + E +D
Sbjct: 288 HPVTGEELEFHAPVPDDMVAMAEALRID 315
>gi|227529323|ref|ZP_03959372.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
vaginalis ATCC 49540]
gi|227350751|gb|EEJ41042.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
vaginalis ATCC 49540]
Length = 305
Score = 130 bits (327), Expect = 8e-28, Method: Compositional matrix adjust.
Identities = 103/316 (32%), Positives = 156/316 (49%), Gaps = 61/316 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-RLPWK---EPD-VPYLLEVLYED 71
LQ W I++G +TV+G V P L G +V + P K EP+ +P L+++YED
Sbjct: 33 LQKW---IEDGNVTVNGEKVK-PKYKLVVGDRVVVQPKKPQKIDLEPENIP--LDIVYED 86
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP G+ V P T++N L + + S+++ + P VHR+ + TSG+
Sbjct: 87 DDVIVVNKPQGMVVHPAPGHPNHTLVNALLYHSP--LSTINGEFR-PGIVHRIDKDTSGL 143
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK LA +A KT+ + Y ALVHG++ E++ I P
Sbjct: 144 LMIAKNDLAHRSLAAQLKAKTN----------------EREYVALVHGVIKEERGTIDAP 187
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
+G R K V G+ A++ VLE + ++ TLV +++GR HQIR+H+ ++
Sbjct: 188 LG--RSKKDRKKQAVVE-DGRHAVTHFKVLE--LFQHYTLVSCRLETGRTHQIRVHMKYI 242
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPL GDPLY P +PG+ G YLHA L HP
Sbjct: 243 GHPLAGDPLY-------------------------GPRKTLPGN-GQYLHARLLGFKHPR 276
Query: 312 TNEVIKITAPLPSVLK 327
T + + T+PLP +
Sbjct: 277 TGKQMTFTSPLPEYFQ 292
>gi|307706435|ref|ZP_07643244.1| pseudouridine synthase, RluA family protein [Streptococcus mitis
SK321]
gi|307618145|gb|EFN97303.1| pseudouridine synthase, RluA family protein [Streptococcus mitis
SK321]
Length = 295
Score = 130 bits (327), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 100/312 (32%), Positives = 160/312 (51%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYL-----LEVLYEDDDLI 75
++I++GQ+ V+G+V + G + YH LP EP+V Y+ LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYH-LP--EPEVLEYVAENLPLEIIYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ RK Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDEAHLALAQELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T E+
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGEI 275
Query: 316 IKITAPLPSVLK 327
++ TA +P + K
Sbjct: 276 LEFTADIPEIFK 287
>gi|255280911|ref|ZP_05345466.1| ribosomal large subunit pseudouridine synthase D [Bryantella
formatexigens DSM 14469]
gi|255268359|gb|EET61564.1| pseudouridine synthase, RluA family [Marvinbryantia formatexigens
DSM 14469]
Length = 325
Score = 130 bits (327), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 88/268 (32%), Positives = 131/268 (48%), Gaps = 48/268 (17%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P L++LYEDDDL+ +NKP G+ V PG T++N L + S ++ P
Sbjct: 97 DIP--LDILYEDDDLLVVNKPKGMVVHPGAGHYSHTLVNALMYHCRDNLSGING-VLRPG 153
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + T+G LL K + IAG +L + IT+ YRA+VHG
Sbjct: 154 IVHRIDQNTTGSLLVCKNDFSHNFIAG----------------QLKEHSITRRYRAIVHG 197
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
+ D + PIG R+P K + V +GKPA++ VLE+ T ++ +++G
Sbjct: 198 KISSDGT-VNAPIG--RHPVERKKMAVNEKNGKPAVTHYRVLEQ--FEKFTYIECVLETG 252
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H++ + HP+LGD +Y G + P PG G
Sbjct: 253 RTHQIRVHMSSIHHPILGDDVY---GPARC---------------------PFPGLQGQT 288
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLK 327
LHA L HP T E ++ +APLP +
Sbjct: 289 LHAQVLGFIHPRTGEYMEFSAPLPQYFE 316
>gi|424847927|ref|ZP_18272469.1| pseudouridine synthase, RluA family [Enterococcus faecium R501]
gi|402918671|gb|EJX39338.1| pseudouridine synthase, RluA family [Enterococcus faecium R501]
Length = 303
Score = 130 bits (327), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 105/325 (32%), Positives = 159/325 (48%), Gaps = 63/325 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+Q WL+ NG ++V+G+ V N + G E+ +P E ++P L ++YE
Sbjct: 31 IQLWLK---NGAVSVNGQPVK-ANYKVKQGDEITV-LIPEPETLDVVPENIP--LTIVYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+ +NKP G+ V P T++N L + K S+++ P VHR+ + TSG
Sbjct: 84 DEDVAVVNKPQGMVVHPSAGHTHGTMVNALMYHI-KDLSTING-VIRPGIVHRIDKDTSG 141
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A DKTS+ RK Y ALVHG + +K I
Sbjct: 142 LLMVAKNDQAHESLAQQLKDKTSL------------RK----YVALVHGEIPHEKGTINA 185
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + + + GK A++ VLER TLV++++++GR HQIR+H+ +
Sbjct: 186 PIGRSKE---NRKMQAIREDGKSAVTHFTVLER--FEGFTLVELKLETGRTHQIRVHMKY 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDP+Y G K+ G +LHA L +HP
Sbjct: 241 IGYPLAGDPVY---GPKKTLKGN-----------------------GQFLHAQMLGFTHP 274
Query: 311 TTNEVIKITAPLPSVL-KTREEGRE 334
TTNE + APLP V KT E+ R+
Sbjct: 275 TTNEKMIFEAPLPEVFEKTLEKLRK 299
>gi|50365205|ref|YP_053630.1| 23S rRNA/tRNA pseudouridine synthase [Mesoplasma florum L1]
gi|50363761|gb|AAT75746.1| 23S rRNA/tRNA pseudouridine synthase [Mesoplasma florum L1]
Length = 311
Score = 130 bits (327), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 96/312 (30%), Positives = 149/312 (47%), Gaps = 65/312 (20%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL-----------LEVLYEDD 72
I++G + V+G V N L E+ E ++P + L+++YEDD
Sbjct: 35 IKDGNVIVNGNVETKQNFNLIGDIEI--------EINIPEVKTSTINPEKIDLDIVYEDD 86
Query: 73 DLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGIL 132
D++ +NKP+ + V PG + T++N L R ++ S++ P VHR+ + T+G+L
Sbjct: 87 DILVVNKPNNMVVHPGAGNTEGTMVNALLGRDAEFLSTIGG-VERPGIVHRIDKQTTGLL 145
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPI 192
+ AK DK+ + + L +I K Y ALV G + EDK II PI
Sbjct: 146 IVAKN------------DKSHQVLTEM----LKNHEIYKEYVALVWGEIKEDKGIIDAPI 189
Query: 193 GIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
G R+ K + V S + K A++ +V++R TLV+ I++GR HQIR+H F+
Sbjct: 190 G--RHQNDRKKMMVTSKNSKYAVTNFEVIKR--LDKTTLVKCAIETGRTHQIRVHFNFIK 245
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
HP++ DP Y G A+ D G LHAY+L HP T
Sbjct: 246 HPIVNDPSY---------------GKLAEK----------QTDFGQMLHAYKLEFLHPIT 280
Query: 313 NEVIKITAPLPS 324
E++K+ A LP
Sbjct: 281 KEMVKLKAELPK 292
>gi|322376434|ref|ZP_08050927.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp.
M334]
gi|321282241|gb|EFX59248.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp.
M334]
Length = 296
Score = 130 bits (327), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 95/312 (30%), Positives = 159/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYL-----LEVLYEDDDLI 75
++I++GQ+ V+G+V + G + YH +P EP+V Y+ LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYH-VP--EPEVLEYVAENLPLEIVYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIGRS 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
+G+ + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 187 EKDRKKQGV---TAKGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP+T E
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPSTGET 275
Query: 316 IKITAPLPSVLK 327
++ TA +P + K
Sbjct: 276 LEFTADIPELFK 287
>gi|422846563|ref|ZP_16893246.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK72]
gi|325687371|gb|EGD29392.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK72]
Length = 298
Score = 130 bits (327), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 99/312 (31%), Positives = 159/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I++G+I V+G+V + +++ + LP E D+P LE++Y+D+D+
Sbjct: 31 EQIKDGRILVNGQVKKAKYAVKEG--DVISYELPEPEVVEYVAEDIP--LEIVYQDEDVA 86
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + Q S + P VHR+ + TSG+L+ A
Sbjct: 87 VINKPQGMVVHPSAGHTSGTLVNALMYHI--QDLSGINGVLRPGIVHRIDKDTSGLLMVA 144
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ RK Y A+VHG + D+ +I+ PIG
Sbjct: 145 KNDQAHVALADELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG-- 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPAL++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 187 RSEKDRKKQAVTA-KGKPALTRFQVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 243
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ GY G +LHA L +HP T EV
Sbjct: 244 AGDEVY---GPRKTLK------------GY-----------GQFLHARTLGFTHPRTGEV 277
Query: 316 IKITAPLPSVLK 327
++ TA +P + +
Sbjct: 278 LEFTAEVPVIFQ 289
>gi|422876543|ref|ZP_16923013.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK1056]
gi|332361351|gb|EGJ39155.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK1056]
Length = 298
Score = 130 bits (327), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 96/312 (30%), Positives = 158/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I++G+I V+G+V + +++ + LP E D+P LE++Y+D+D+
Sbjct: 31 EQIKDGRILVNGQVKKAKYAVKEG--DVISYELPEPEVVEYVPEDIP--LEIIYQDEDVA 86
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 87 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 144
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 145 KNDQAHVALADELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPAL++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 187 RSEKDRKKQAVTA-KGKPALTRFQVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 243
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T EV
Sbjct: 244 AGDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEV 277
Query: 316 IKITAPLPSVLK 327
++ TA +P+V +
Sbjct: 278 LEFTAEVPAVFQ 289
>gi|383937986|ref|ZP_09991215.1| pseudouridine synthase, RluA family [Streptococcus pseudopneumoniae
SK674]
gi|418973487|ref|ZP_13521475.1| pseudouridine synthase, RluA family [Streptococcus pseudopneumoniae
ATCC BAA-960]
gi|383348746|gb|EID26704.1| pseudouridine synthase, RluA family [Streptococcus pseudopneumoniae
ATCC BAA-960]
gi|383715114|gb|EID71091.1| pseudouridine synthase, RluA family [Streptococcus pseudopneumoniae
SK674]
Length = 295
Score = 130 bits (327), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 95/311 (30%), Positives = 156/311 (50%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDLP--LEIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGETL 276
Query: 317 KITAPLPSVLK 327
+ TA +P++ K
Sbjct: 277 EFTADIPAIFK 287
>gi|422884289|ref|ZP_16930738.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK49]
gi|332360722|gb|EGJ38531.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK49]
Length = 298
Score = 130 bits (326), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 95/312 (30%), Positives = 159/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I++G+I V+G+V ++ +++ + LP E D+P LE++Y+D+D+
Sbjct: 31 EQIKDGRILVNGQVKKAKYVVKEG--DVISYELPEPEVVEYVPEDIP--LEIVYQDEDVA 86
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 87 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 144
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL +K + Y A+VHG + D+ +I+ PIG
Sbjct: 145 KNDQAHVALAD----------------ELKNKKSLRKYWAIVHGNLPNDRGVIEAPIG-- 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPAL++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 187 RSEKDRKKQAVTA-KGKPALTRFQVLER--FGDFSLVELQLETGRTHQIRVHMAYIGHPV 243
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T EV
Sbjct: 244 AGDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEV 277
Query: 316 IKITAPLPSVLK 327
++ TA +P++ +
Sbjct: 278 LEFTAEVPAIFQ 289
>gi|257866108|ref|ZP_05645761.1| pseudouridylate synthase [Enterococcus casseliflavus EC30]
gi|257872439|ref|ZP_05652092.1| pseudouridylate synthase [Enterococcus casseliflavus EC10]
gi|257800042|gb|EEV29094.1| pseudouridylate synthase [Enterococcus casseliflavus EC30]
gi|257806603|gb|EEV35425.1| pseudouridylate synthase [Enterococcus casseliflavus EC10]
Length = 302
Score = 130 bits (326), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 102/316 (32%), Positives = 152/316 (48%), Gaps = 62/316 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL------LEVLYE 70
+Q WL+ +T+ G V N + AG L+ ++P EP+V L L ++Y+
Sbjct: 32 IQQWLKE---DAVTLKGETVR-ANYKVKAGDHLII-QVP--EPEVVDLQPENIPLTIVYQ 84
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+ +NKP G+ V P T++N L + S+ + P VHR+ + TSG
Sbjct: 85 DADVAVINKPQGMVVHPSAGHPNGTLVNALLYHMDDLSTI--NDVVRPGIVHRIDKDTSG 142
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A DKTS+ RK Y ALVHG + +K I
Sbjct: 143 LLMIAKNDQAHESLAKQLKDKTSL------------RK----YVALVHGTISHEKGTINA 186
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + +GKPA++ VLER Q TLV++++++GR HQIR+H+ +
Sbjct: 187 PIGRSK---VNRKMQAVIENGKPAVTHFTVLERFEQ--FTLVELQLETGRTHQIRVHMQY 241
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G PL GDPLY P + G+ G +LHA L +HP
Sbjct: 242 IGFPLAGDPLY-------------------------GPKRTLKGN-GQFLHAKLLGFTHP 275
Query: 311 TTNEVIKITAPLPSVL 326
TT E + APLP +
Sbjct: 276 TTGESLVFEAPLPELF 291
>gi|217963594|ref|YP_002349272.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes HCC23]
gi|386009020|ref|YP_005927298.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes L99]
gi|386027633|ref|YP_005948409.1| ribosomal large subunit pseudouridine synthase,RluD subfamily
[Listeria monocytogenes M7]
gi|422810325|ref|ZP_16858736.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes FSL J1-208]
gi|217332864|gb|ACK38658.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes HCC23]
gi|307571830|emb|CAR85009.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes L99]
gi|336024214|gb|AEH93351.1| ribosomal large subunit pseudouridine synthase,RluD subfamily
[Listeria monocytogenes M7]
gi|378751989|gb|EHY62577.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes FSL J1-208]
Length = 289
Score = 130 bits (326), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 95/297 (31%), Positives = 150/297 (50%), Gaps = 57/297 (19%)
Query: 28 QITVDGRVVNDPNIILSAGSEL---VYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQ 84
+ ++ + ++D N L G+ L V+ L K P Y LE++YEDD L+ +NKP ++
Sbjct: 40 NVLLNNKPLDDWNTPLFVGASLSLPVF--LHDKIPTYEYDLEIIYEDDFLLVVNKPVDMK 97
Query: 85 VLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCI 144
++ T N +Q+ K + Q ++ + VHRL + TSG++L AK KLA I
Sbjct: 98 THANDSYETDTCANAVQYYLEK-----TGQDANALAVHRLDQTTSGLVLFAKNKLA---I 149
Query: 145 AGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGL 204
AG ++ R I + Y A V G I +PIG R+ G + +
Sbjct: 150 AGL-------------SWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHHGSRRQI 196
Query: 205 YVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAG 264
SP G+PA++ V VLE D ++N +LV+ +I++GR HQIR+HL+ +GHP++GD LY G
Sbjct: 197 ---SPYGQPAVTHVKVLENDNEKNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLY--G 251
Query: 265 GQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
G P++ N + LHA +L L+HP + + +AP
Sbjct: 252 GSPRA--------------------NRI------MLHAEKLHLNHPFKGKEMNFSAP 282
>gi|342163977|ref|YP_004768616.1| 23S rRNA pseudouridine synthase [Streptococcus pseudopneumoniae
IS7493]
gi|341933859|gb|AEL10756.1| 23S rRNA pseudouridine synthase [Streptococcus pseudopneumoniae
IS7493]
Length = 295
Score = 130 bits (326), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 95/311 (30%), Positives = 156/311 (50%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDLP--LEIIYQDEDVAI 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGETL 276
Query: 317 KITAPLPSVLK 327
+ TA +P++ K
Sbjct: 277 EFTADIPAIFK 287
>gi|429737650|ref|ZP_19271506.1| pseudouridine synthase, RluA family [Selenomonas sp. oral taxon 138
str. F0429]
gi|429152013|gb|EKX94850.1| pseudouridine synthase, RluA family [Selenomonas sp. oral taxon 138
str. F0429]
Length = 302
Score = 130 bits (326), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 99/311 (31%), Positives = 146/311 (46%), Gaps = 52/311 (16%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL---LEVLYEDDD 73
+ + QR I+ GQ+TVDG V N L G E+ P +E ++ L+VLYED+D
Sbjct: 27 RSYAQRLIETGQVTVDG-VARKGNYKLRGGEEIACTVPPAEEVEIRAEQIPLDVLYEDED 85
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
+I +NK G+ V P + T++N L + S + A P VHRL + TSG+++
Sbjct: 86 MIVINKVRGMVVHPAAGVVRGTLVNALLYHCKDLSGI--NGALRPGIVHRLDKDTSGVMV 143
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +A DK + + YRA+V+G + II IG
Sbjct: 144 AAKNDMAHHFLARQIRDKEA----------------RREYRAIVYGNIVPRAGIITGDIG 187
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P K + + +GKPA + +VLER T + +++GR HQIR+HL +GH
Sbjct: 188 --RHPTDRKKMAIVRENGKPATTHFEVLER--FGAYTYISCRLETGRTHQIRVHLTSIGH 243
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL+GD Y A P + G LH+ L L HP +
Sbjct: 244 PLVGDAKYTAKKNPFAI-------------------------VGQALHSLTLRLVHPRSG 278
Query: 314 EVIKITAPLPS 324
E + TAPLP+
Sbjct: 279 EEMAFTAPLPA 289
>gi|346306277|ref|ZP_08848435.1| hypothetical protein HMPREF9457_00144 [Dorea formicigenerans
4_6_53AFAA]
gi|345900082|gb|EGX69910.1| hypothetical protein HMPREF9457_00144 [Dorea formicigenerans
4_6_53AFAA]
Length = 304
Score = 130 bits (326), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 87/270 (32%), Positives = 134/270 (49%), Gaps = 48/270 (17%)
Query: 57 KEPDVP---YLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
KEPD+ L++LYED+D+I +NKP + V P T++N L + + S ++
Sbjct: 67 KEPDINPENIPLDILYEDEDVIVVNKPKQMVVHPAPGHYSGTLVNALMYHCGNELSGING 126
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
S P VHR+ T+G L+ K +A +A ++L + I +IY
Sbjct: 127 -TSRPGIVHRIDMDTTGSLIICKNDMAHQSLA----------------VQLKEHSINRIY 169
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + E++ + PIG R+P K + + + + + A++ VL+R N T +Q
Sbjct: 170 EAIVHGNIKEEEGTVNAPIG--RHPTDRKKMSIHAKNARNAITHYKVLKR--FGNYTYIQ 225
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
++++GR HQIR+H+A +GHPLLGD +Y PK P
Sbjct: 226 CKLETGRTHQIRVHMASIGHPLLGDQVY----GPKKC--------------------PFS 261
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLP 323
G LHA L HP TNE I++ APLP
Sbjct: 262 KLVGQTLHARTLGFIHPRTNEYIEVNAPLP 291
>gi|421490625|ref|ZP_15937996.1| pseudouridine synthase, RluA family [Streptococcus anginosus
SK1138]
gi|400372886|gb|EJP25822.1| pseudouridine synthase, RluA family [Streptococcus anginosus
SK1138]
Length = 298
Score = 130 bits (326), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 99/311 (31%), Positives = 156/311 (50%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I+NGQI V+G+V + AG + Y L + ++P L+++Y+D+D+
Sbjct: 29 EQIKNGQILVNGQV-KKAKYAVKAGDVITYELPEPEALEYVAENLP--LDIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NK G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKAQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHIKLAEELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T EV+
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPKTGEVM 276
Query: 317 KITAPLPSVLK 327
K TA P++ +
Sbjct: 277 KFTAEAPAIFQ 287
>gi|227551404|ref|ZP_03981453.1| pseudouridylate synthase [Enterococcus faecium TX1330]
gi|257887487|ref|ZP_05667140.1| pseudouridylate synthase [Enterococcus faecium 1,141,733]
gi|257895982|ref|ZP_05675635.1| pseudouridylate synthase [Enterococcus faecium Com12]
gi|293570492|ref|ZP_06681547.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E980]
gi|424763586|ref|ZP_18191056.1| pseudouridine synthase, RluA family [Enterococcus faecium TX1337RF]
gi|430841190|ref|ZP_19459109.1| RluA family pseudouridine synthase [Enterococcus faecium E1007]
gi|431034982|ref|ZP_19491859.1| RluA family pseudouridine synthase [Enterococcus faecium E1590]
gi|431737805|ref|ZP_19526757.1| RluA family pseudouridine synthase [Enterococcus faecium E1972]
gi|431751736|ref|ZP_19540423.1| RluA family pseudouridine synthase [Enterococcus faecium E2620]
gi|431756578|ref|ZP_19545210.1| RluA family pseudouridine synthase [Enterococcus faecium E3083]
gi|431761829|ref|ZP_19550391.1| RluA family pseudouridine synthase [Enterococcus faecium E3548]
gi|227179523|gb|EEI60495.1| pseudouridylate synthase [Enterococcus faecium TX1330]
gi|257823541|gb|EEV50473.1| pseudouridylate synthase [Enterococcus faecium 1,141,733]
gi|257832547|gb|EEV58968.1| pseudouridylate synthase [Enterococcus faecium Com12]
gi|291609438|gb|EFF38705.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E980]
gi|402422600|gb|EJV54833.1| pseudouridine synthase, RluA family [Enterococcus faecium TX1337RF]
gi|430493966|gb|ELA70216.1| RluA family pseudouridine synthase [Enterococcus faecium E1007]
gi|430563697|gb|ELB02906.1| RluA family pseudouridine synthase [Enterococcus faecium E1590]
gi|430598411|gb|ELB36152.1| RluA family pseudouridine synthase [Enterococcus faecium E1972]
gi|430615030|gb|ELB52000.1| RluA family pseudouridine synthase [Enterococcus faecium E2620]
gi|430620432|gb|ELB57234.1| RluA family pseudouridine synthase [Enterococcus faecium E3083]
gi|430624521|gb|ELB61171.1| RluA family pseudouridine synthase [Enterococcus faecium E3548]
Length = 303
Score = 129 bits (325), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 92/271 (33%), Positives = 135/271 (49%), Gaps = 50/271 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L ++YED+D+ +NKP G+ V P T++N L + K S+++ P VHR+
Sbjct: 78 LTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHV-KDLSTING-VIRPGIVHRI 135
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A +A DKTS+ RK Y ALVHG + +
Sbjct: 136 DKDTSGLLMVAKNDQAHESLAKQLKDKTSL------------RK----YVALVHGEIPHE 179
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PIG + + + GKPA++ VLER TLV++++++GR HQI
Sbjct: 180 KGTINAPIGRSKE---NRKMQAIREDGKPAVTHFTVLER--FEGFTLVELKLETGRTHQI 234
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G+PL GDP+Y G K+ G +LHA
Sbjct: 235 RVHMKYIGYPLAGDPVY---GPKKTLKGN-----------------------GQFLHAQM 268
Query: 305 LFLSHPTTNEVIKITAPLPSVL-KTREEGRE 334
L +HPTTNE + APLP V KT E+ R+
Sbjct: 269 LGFTHPTTNEKMIFEAPLPEVFEKTLEKLRK 299
>gi|433450856|ref|ZP_20412712.1| pseudouridine synthase, RluA family protein [Mycoplasma sp. G5847]
gi|431933803|gb|ELK20362.1| pseudouridine synthase, RluA family protein [Mycoplasma sp. G5847]
Length = 310
Score = 129 bits (325), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 88/314 (28%), Positives = 158/314 (50%), Gaps = 57/314 (18%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELV-------YHRLPWKEPDVPYLLEVLY 69
+ ++Q+ I+ ++V+ +++ + N ++ SE++ + K D+ L+++Y
Sbjct: 30 RSYIQKLIKEECVSVNDQIITNNNFVVKPNSEIIISIKDATLNENISKNEDID--LDIIY 87
Query: 70 EDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTS 129
+DDDL+ +NK + + V P T++N L + + SS++ + P VHR+ + T+
Sbjct: 88 QDDDLLVINKQNNITVHPSLNNTNNTIVNAL-LASDVELSSINGEL-RPGIVHRIDKQTT 145
Query: 130 GILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIK 189
G+L+ AK ++ F + +I K Y A+V G++ +K +I
Sbjct: 146 GLLIVAKNDKTHKLLSEMFKN----------------HQIYKEYLAIVSGVIKPNKGLID 189
Query: 190 QPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLA 249
PIG R K + V + + K A++ +V+ER +Q TLV+ +IQ+GR HQIR+H
Sbjct: 190 APIG--RSAIDRKKMSVTAKNSKQAITSFEVVERFLQN--TLVKCQIQTGRTHQIRVHFN 245
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
++ HP+L DP+Y G + + F D G YLHAY+L H
Sbjct: 246 YINHPVLNDPIY--GKKHQDF-----------------------TDFGQYLHAYKLKFIH 280
Query: 310 PTTNEVIKITAPLP 323
P T + I++ +PLP
Sbjct: 281 PITKKEIELISPLP 294
>gi|320546984|ref|ZP_08041285.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
equinus ATCC 9812]
gi|320448386|gb|EFW89128.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
equinus ATCC 9812]
Length = 298
Score = 129 bits (325), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 92/274 (33%), Positives = 137/274 (50%), Gaps = 51/274 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L + ++P L+++YED+D+ +NKP G+ V P T++N L + K SS++
Sbjct: 65 LEYTAENIP--LDIIYEDEDVAVVNKPQGMVVHPSVGHTSGTLVNALMYHI-KDLSSING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AK A +A DK S+ RK Y
Sbjct: 122 -VIRPGIVHRIDKDTSGLLMIAKNDAAHNALAAELKDKKSL------------RK----Y 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ +I+ PIG R K V + GKPA++ VLER + TLV+
Sbjct: 165 VAIVHGNIPNDRGVIEAPIG--RSDKDRKKQAVTA-KGKPAVTHFKVLER--FGSYTLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+ +++GR HQIR+H+A++GHP+ GDPLY G K+
Sbjct: 220 LTLETGRTHQIRVHMAYIGHPVAGDPLY---GPRKTLKGH-------------------- 256
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G +LHA L +HP T E I TA +P + K
Sbjct: 257 ---GQFLHAQTLGFTHPKTGETITFTAEVPEIFK 287
>gi|383753720|ref|YP_005432623.1| putative ribosomal large subunit pseudouridine synthase D
[Selenomonas ruminantium subsp. lactilytica TAM6421]
gi|381365772|dbj|BAL82600.1| putative ribosomal large subunit pseudouridine synthase D
[Selenomonas ruminantium subsp. lactilytica TAM6421]
Length = 312
Score = 129 bits (325), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 105/307 (34%), Positives = 147/307 (47%), Gaps = 56/307 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I+ + VDG N L G E V LP EP D+P L++LYED D+I +
Sbjct: 38 IEQAHVLVDG-AQRKANFKLRGG-EAVQVALPEAEPISVEPEDIP--LDILYEDKDIIVV 93
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK G+ V P T++N L Q S + P VHRL + TSG+++CAK
Sbjct: 94 NKARGMVVHPASGVYSGTLVNALLHHC--QDLSGINGEIRPGIVHRLDKDTSGVMVCAKN 151
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A K + + Y A+V+G + E+ IIK IG R+
Sbjct: 152 DTAHLDLAEQIRTKAA----------------HRTYWAIVYGNIKEEAGIIKGDIG--RH 193
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P K + + +GKPA++ VLER + TLV+ ++++GR HQIR+H+ +GHPL+
Sbjct: 194 PTDRKKMAIVRENGKPAVTHFKVLERFGE--YTLVECKLETGRTHQIRVHMNSIGHPLVN 251
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP Y G KS S FA G LH+ QL L+HP T E +
Sbjct: 252 DPKY---GPKKS--SPFAIQ-------------------GQALHSLQLTLTHPVTREEMT 287
Query: 318 ITAPLPS 324
TAPLP+
Sbjct: 288 FTAPLPT 294
>gi|411119450|ref|ZP_11391830.1| ribosomal large subunit pseudouridine synthase D [Oscillatoriales
cyanobacterium JSC-12]
gi|410711313|gb|EKQ68820.1| ribosomal large subunit pseudouridine synthase D [Oscillatoriales
cyanobacterium JSC-12]
Length = 322
Score = 129 bits (325), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 105/317 (33%), Positives = 155/317 (48%), Gaps = 59/317 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I Q+ ++G V I++ G +L+ ++P EP ++P L++LYEDD+L+ +
Sbjct: 40 ISQKQVLINGTVCTSKKEIVNQG-DLIRVQIPDAEPLDIQPENIP--LDILYEDDELLII 96
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQW--RASKQSSSLSS--QASHPVPVHRLGRGTSGILL 133
NKP+G+ V P Q T++N L W R + S+LS P VHRL + T+G +
Sbjct: 97 NKPAGMVVHPSPGHSQGTLVNALLWHCRTTNGESTLSGIGGVQRPGIVHRLDKDTTGAIC 156
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AKT LA + F DKT+ D Y LVHG + I PIG
Sbjct: 157 VAKTDLAHLHLQQQFHDKTARRD----------------YWGLVHGAPKAESGTIDAPIG 200
Query: 194 IVRYPGVAKGLYVA--SPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
R+P + + + G+ A++ V ER N TL+ E+++GR HQIR+H A++
Sbjct: 201 --RHPVDRQKMAIVPEEKGGRRAVTHWQVKER--LGNYTLMNFELETGRTHQIRVHTAYI 256
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
G P++GDPLY +G +S VN VPG LHA++L L HP
Sbjct: 257 GFPIVGDPLYSSG---RSLG-----------------VN-VPGQV---LHAWRLRLKHPV 292
Query: 312 TNEVIKITAPLPSVLKT 328
I+ APLP+ T
Sbjct: 293 AENEIEAIAPLPTFSTT 309
>gi|379705487|ref|YP_005203946.1| ribosomal large subunit pseudouridine synthase [Streptococcus
infantarius subsp. infantarius CJ18]
gi|374682186|gb|AEZ62475.1| ribosomal large subunit pseudouridine synthase [Streptococcus
infantarius subsp. infantarius CJ18]
Length = 298
Score = 129 bits (325), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 98/309 (31%), Positives = 150/309 (48%), Gaps = 57/309 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIALN 78
I+ G + V+G+ V + G + Y L +K ++P L+++YED+D+ +
Sbjct: 31 IKKGTVLVNGKAVK-AKYAVKVGDVVTYEVPEEGVLEYKAENIP--LDIVYEDEDVAVVY 87
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 88 KPQGMVVHPSVGHTSGTLVNALMYHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIAKND 145
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 146 TAHNALAAELKDKKSL------------RK----YVAIVHGNIPNDRGVIEAPIG--RSE 187
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K V + GKPA++ VLER N TLV++ +++GR HQIR+H+A++GH + GD
Sbjct: 188 KDRKKQAV-TAKGKPAVTHFKVLER--FGNYTLVELTLETGRTHQIRVHMAYIGHAVAGD 244
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY P + G+ G +LHA L +HP T E +
Sbjct: 245 PLYA-------------------------PRKTLKGN-GQFLHAQTLGFTHPKTGETMTF 278
Query: 319 TAPLPSVLK 327
TA +P + K
Sbjct: 279 TAEVPVIFK 287
>gi|290893595|ref|ZP_06556577.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL J2-071]
gi|404408685|ref|YP_006691400.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2376]
gi|290556797|gb|EFD90329.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL J2-071]
gi|404242834|emb|CBY64234.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2376]
Length = 289
Score = 129 bits (325), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 95/297 (31%), Positives = 149/297 (50%), Gaps = 57/297 (19%)
Query: 28 QITVDGRVVNDPNIILSAGSEL---VYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQ 84
+ ++ + ++D N L G+ L V+ L K P Y LE++YEDD L+ +NKP ++
Sbjct: 40 NVLLNNKPLDDWNTPLFVGASLSLPVF--LHDKIPTYEYDLEIIYEDDFLLVVNKPVDMK 97
Query: 85 VLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCI 144
++ T N +Q+ K + Q ++ + VHRL + TSG++L AK KLA I
Sbjct: 98 THANDSYETDTCANAVQYYLEK-----TGQDANALAVHRLDQTTSGLVLFAKNKLA---I 149
Query: 145 AGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGL 204
AG ++ R I + Y A V G I +PIG R+ G + +
Sbjct: 150 AGL-------------SWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHHGSRRQI 196
Query: 205 YVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAG 264
SP G+PA++ V VLE D + N +LV+ +I++GR HQIR+HL+ +GHP++GD LY G
Sbjct: 197 ---SPYGQPAVTHVKVLENDNENNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLY--G 251
Query: 265 GQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
G P++ N + LHA +L L+HP + + +AP
Sbjct: 252 GSPRA--------------------NRI------MLHAEKLHLNHPFKGKEMNFSAP 282
>gi|227510357|ref|ZP_03940406.1| pseudouridylate synthase [Lactobacillus brevis subsp. gravesensis
ATCC 27305]
gi|227190009|gb|EEI70076.1| pseudouridylate synthase [Lactobacillus brevis subsp. gravesensis
ATCC 27305]
Length = 303
Score = 129 bits (325), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 81/263 (30%), Positives = 138/263 (52%), Gaps = 50/263 (19%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+++YED+D+I +NKP G+ V P T++N L + + SS++ + P VHR+
Sbjct: 77 LDIVYEDEDVIVVNKPQGMVVHPSAGHPNHTLVNALLFHSP--LSSINGEYR-PGIVHRI 133
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK +A ++ +L +K + Y ALVHG + ED
Sbjct: 134 DKDTSGLLMVAKNDMAHKALSK----------------QLKAKKNLRKYVALVHGRIKED 177
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+IK PI R P K + + G+PA++ +V+ER ++ TL++ +++GR HQI
Sbjct: 178 SGVIKAPIA--RSPKDRKKQAIVA-DGRPAITHFEVMER--FQDYTLIECRLETGRTHQI 232
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++GHP++GDPLY G K+ G +LHA +
Sbjct: 233 RVHMQYIGHPIVGDPLY---GPKKTIKGH-----------------------GQFLHAQE 266
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T++++ +AP+P + +
Sbjct: 267 LGFEHPRTHQLMIFSAPIPEIFE 289
>gi|365844925|ref|ZP_09385734.1| pseudouridine synthase, RluA family [Flavonifractor plautii ATCC
29863]
gi|364562519|gb|EHM40359.1| pseudouridine synthase, RluA family [Flavonifractor plautii ATCC
29863]
Length = 304
Score = 129 bits (325), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 101/305 (33%), Positives = 145/305 (47%), Gaps = 52/305 (17%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-DV---PYLLEVLYEDDDLIALNK 79
++ G +T+ GR V +A +++ RLP EP DV L+V YED D+I +NK
Sbjct: 35 LEEGAVTLGGRPVK--KNYKAAEGDVLEVRLPEPEPVDVLPQAIPLDVAYEDADVIVVNK 92
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
P GL V P T++N L + + S ++ A P VHR+ R TSG+L+ AK
Sbjct: 93 PVGLVVHPAAGHPDGTLVNALLYHCGESLSGING-ALRPGIVHRIDRDTSGLLIAAKNDF 151
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPG 199
A +A D + + + Y A+ G + ED + PIG R+P
Sbjct: 152 AHQALAAQLQDHS----------------LYREYEAVCVGGLREDHGTVDAPIG--RHPT 193
Query: 200 VAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDP 259
K + V +G+PA++ VLER T +Q +++GR HQIR+HLA +GHPLLGD
Sbjct: 194 DRKKMCVDWKNGRPAVTHWTVLER--FPGYTHIQCRLETGRTHQIRVHLASIGHPLLGDV 251
Query: 260 LYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKIT 319
+Y A PVPG G LHA +L HP T E + +
Sbjct: 252 VYGAK-------------------------KPVPGLAGQCLHARRLSFVHPRTGERVTVE 286
Query: 320 APLPS 324
PLP+
Sbjct: 287 CPLPA 291
>gi|419799995|ref|ZP_14325308.1| pseudouridine synthase, RluA family [Streptococcus parasanguinis
F0449]
gi|385696494|gb|EIG26975.1| pseudouridine synthase, RluA family [Streptococcus parasanguinis
F0449]
Length = 296
Score = 129 bits (324), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 101/320 (31%), Positives = 163/320 (50%), Gaps = 60/320 (18%)
Query: 22 QRIQNGQITVDGRV------VNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLI 75
++I+ G++ V+G V V + +II E+ + ++ D+P L+++YED D++
Sbjct: 29 EQIKEGKVLVNGAVKKAKYTVKEGDIIQYDVPEV--EEVSYEAEDLP--LDIVYEDQDVV 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ + P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALLYHV-KDLSGINGELR-PGIVHRIDKDTSGLLMVA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ RK Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDQAHVALAEELKDKKSL------------RK----YWAIVHGNLPNDRGMIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GK A+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKTAVTRFQVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDP Y G K+ + G +LHA L +HP T E
Sbjct: 242 AGDPAY---GPKKTLKGQ-----------------------GQFLHARTLGFTHPRTGET 275
Query: 316 IKITAPLPSVL-KTREEGRE 334
++ TA +P + KT E+ R+
Sbjct: 276 LEFTAEVPVIFEKTLEDLRK 295
>gi|227513366|ref|ZP_03943415.1| pseudouridylate synthase [Lactobacillus buchneri ATCC 11577]
gi|227524509|ref|ZP_03954558.1| pseudouridylate synthase [Lactobacillus hilgardii ATCC 8290]
gi|227083239|gb|EEI18551.1| pseudouridylate synthase [Lactobacillus buchneri ATCC 11577]
gi|227088319|gb|EEI23631.1| pseudouridylate synthase [Lactobacillus hilgardii ATCC 8290]
Length = 303
Score = 129 bits (324), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 84/277 (30%), Positives = 141/277 (50%), Gaps = 50/277 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+++YED+D+I +NKP G+ V P T++N L + + SS++ + P VHR+
Sbjct: 77 LDIVYEDEDVIVVNKPQGMVVHPSAGHPNHTLVNALLFHSP--LSSINGEYR-PGIVHRI 133
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK +A ++ +L +K + Y ALVHG + ED
Sbjct: 134 DKDTSGLLMVAKNDMAHKALSK----------------QLKAKKNLRKYVALVHGRIKED 177
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+IK PIG R P K + + G+PA++ +V+ER + TL+ +++GR HQI
Sbjct: 178 SGVIKAPIG--RSPKDRKKQAIVA-DGRPAITHFEVMER--FEDYTLIDCRLETGRTHQI 232
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++GHP++GDPLY G K+ G +LHA +
Sbjct: 233 RVHMQYIGHPIVGDPLY---GPKKTIKGH-----------------------GQFLHAQE 266
Query: 305 LFLSHPTTNEVIKITAPLPSVLKTREEGREVDKSVGS 341
L HP ++++ +AP+P + + V+ S+ S
Sbjct: 267 LGFEHPRNHKLMIFSAPIPEIFEKTLRTLRVNNSLES 303
>gi|257898611|ref|ZP_05678264.1| pseudouridylate synthase [Enterococcus faecium Com15]
gi|431429735|ref|ZP_19512837.1| RluA family pseudouridine synthase [Enterococcus faecium E1630]
gi|431759107|ref|ZP_19547723.1| RluA family pseudouridine synthase [Enterococcus faecium E3346]
gi|257836523|gb|EEV61597.1| pseudouridylate synthase [Enterococcus faecium Com15]
gi|430587969|gb|ELB26180.1| RluA family pseudouridine synthase [Enterococcus faecium E1630]
gi|430626554|gb|ELB63125.1| RluA family pseudouridine synthase [Enterococcus faecium E3346]
Length = 303
Score = 129 bits (324), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 92/271 (33%), Positives = 135/271 (49%), Gaps = 50/271 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L ++YED+D+ +NKP G+ V P T++N L + K S+++ P VHR+
Sbjct: 78 LTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHI-KDLSTING-VIRPGIVHRI 135
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A +A DKTS+ RK Y ALVHG + +
Sbjct: 136 DKDTSGLLMVAKNDQAHESLAKQLKDKTSL------------RK----YVALVHGEIPHE 179
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PIG + + + GKPA++ VLER TLV++++++GR HQI
Sbjct: 180 KGTINAPIGRSKE---NRKMQAIREDGKPAVTHFTVLER--FEGFTLVELKLETGRTHQI 234
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G+PL GDP+Y G K+ G +LHA
Sbjct: 235 RVHMKYIGYPLAGDPVY---GPKKTLKGN-----------------------GQFLHAQM 268
Query: 305 LFLSHPTTNEVIKITAPLPSVL-KTREEGRE 334
L +HPTTNE + APLP V KT E+ R+
Sbjct: 269 LGFTHPTTNEKMVFEAPLPEVFEKTLEKLRK 299
>gi|147678153|ref|YP_001212368.1| pseudouridylate synthase [Pelotomaculum thermopropionicum SI]
gi|146274250|dbj|BAF59999.1| pseudouridylate synthase [Pelotomaculum thermopropionicum SI]
Length = 312
Score = 129 bits (324), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 89/267 (33%), Positives = 131/267 (49%), Gaps = 47/267 (17%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P LEV YED D+I +NKP G+ V P T++N L + S S + P V
Sbjct: 78 PIPLEVYYEDADVIVINKPRGMVVHPADGNYSGTLVNALLYHCSDLSGI--NGVMRPGIV 135
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AK A +A +L +R+IT+ Y ALVHG++
Sbjct: 136 HRLDKDTSGLIMVAKNDTAHLSLA----------------RQLKERQITRRYLALVHGLL 179
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
E ++ PIG R P K + V + K A+++ VLER + T +++ +++GR
Sbjct: 180 KEQSGMVDAPIG--RDPRDRKKMAVLQKNAKQAVTRYRVLER--FKGYTYIELMLETGRT 235
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H++++GHP++GD Y P P G G +LH
Sbjct: 236 HQIRVHMSYIGHPVVGDLKY-------------------------GPSRPHFGLEGQFLH 270
Query: 302 AYQLFLSHPTTNEVIKITAPLPSVLKT 328
A L HP T E ++ APLP VLK
Sbjct: 271 AAVLGFHHPRTGEYLQFEAPLPDVLKA 297
>gi|366085944|ref|ZP_09452429.1| 23S RNA-specific pseudouridylate synthase [Lactobacillus zeae KCTC
3804]
Length = 306
Score = 129 bits (324), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 107/350 (30%), Positives = 169/350 (48%), Gaps = 64/350 (18%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--- 59
+I + + H S +Q WLQ +G +TV+G+ V N +S G +++ +P P
Sbjct: 17 VITAHESTHTRSQ-VQKWLQ---DGLVTVNGQPVK-ANYKVSLG-DVIAVSIPEARPLEA 70
Query: 60 -DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
P L+++YEDD +I +NKP G+ V P T++N L + + P
Sbjct: 71 VAEPIPLDIVYEDDQVIVVNKPQGMVVHPAPGHPDGTLVNGLLYHTDLPGIN---GVIRP 127
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHR+ + TSG+L+ AKT+ A+ ++ KTS+ + Y ALVH
Sbjct: 128 GIVHRIDKDTSGLLMVAKTEKAQLSLSAQLKAKTSI----------------REYLALVH 171
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G ED+ I P+G R P K V + G+ A++ VLER + TL++ +++
Sbjct: 172 GTFKEDEGTIDAPLG--RDPRDRKRQAVVA-DGRHAVTHFQVLERFA--HYTLIKCVLET 226
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+A++ HP+ GDPLY P +PG+ G
Sbjct: 227 GRTHQIRVHMAYIHHPVAGDPLY-------------------------GPKRTLPGN-GQ 260
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKTREEGREVDKSVGSERIRGIQ 348
+LHA +L HPTT +++ TAP+P V E D G ++ R ++
Sbjct: 261 FLHAAKLGFVHPTTGKLLTFTAPVPEVF----EKTLADLRAGIDKTRNVR 306
>gi|374602422|ref|ZP_09675415.1| RluA family pseudouridine synthase [Paenibacillus dendritiformis
C454]
gi|374392024|gb|EHQ63353.1| RluA family pseudouridine synthase [Paenibacillus dendritiformis
C454]
Length = 323
Score = 129 bits (324), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 99/315 (31%), Positives = 152/315 (48%), Gaps = 56/315 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLP--WKEPDVPYL--LEVLYEDD 72
+Q W I++ + V+GR V PN + AG E+ R+P VP L++ YED
Sbjct: 52 VQLW---IRDAHVLVNGRSVK-PNYKVGAGDEIEL-RIPDPASTDIVPEAIPLDIYYEDA 106
Query: 73 DLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGIL 132
D+I +NKP G+ V P TV+N L + S ++ + P VHR+ + TSG+L
Sbjct: 107 DVIVINKPRGMVVHPAPGHLSGTVVNALMHHC-RDLSGINGELR-PGIVHRIDKDTSGLL 164
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPI 192
+ AK A T +A +L + + Y+ALVHG + D+ I PI
Sbjct: 165 MAAKNDRAHTELAA----------------QLKAHTVLRKYKALVHGNLAHDQGTIDAPI 208
Query: 193 GIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
G R P K V + K A++ V ER + TLV++++++GR HQIR+H+ ++G
Sbjct: 209 G--RDPHDRKMFAVTDRNSKRAVTHFQVAER--FGDVTLVELQLETGRTHQIRVHMKYIG 264
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
HPL+GDP+Y G + + D G LHA L HP +
Sbjct: 265 HPLVGDPMYTRGVRGVTMD-------------------------GQALHAATLGFVHPVS 299
Query: 313 NEVIKITAPLPSVLK 327
E+++ APLP ++
Sbjct: 300 GELLQFEAPLPDDME 314
>gi|125717901|ref|YP_001035034.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK36]
gi|422862703|ref|ZP_16909335.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK408]
gi|125497818|gb|ABN44484.1| Ribosomal large subunit pseudouridine synthase D, putative
[Streptococcus sanguinis SK36]
gi|327474176|gb|EGF19586.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK408]
Length = 298
Score = 129 bits (324), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 94/312 (30%), Positives = 156/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I++G+I V+G+ + +++ + LP E D+P LE++Y+D+D+
Sbjct: 31 EQIKDGRILVNGQAKKAKYAVKEG--DVISYELPEPEVVEYVAEDIP--LEIVYQDEDVA 86
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + Q S + P VHR+ + TSG+L+ A
Sbjct: 87 VINKPQGMVVHPSAGHTSGTLVNALMYHI--QDLSGINGVLRPGIVHRIDKDTSGLLMIA 144
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 145 KNDQAHVALADELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPAL++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 187 RSEKDRKKQAVTA-KGKPALTRFQVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 243
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T EV
Sbjct: 244 AGDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEV 277
Query: 316 IKITAPLPSVLK 327
++ TA +P++ +
Sbjct: 278 LEFTAEVPAIFQ 289
>gi|425054142|ref|ZP_18457657.1| pseudouridine synthase, RluA family [Enterococcus faecium 505]
gi|403036667|gb|EJY48010.1| pseudouridine synthase, RluA family [Enterococcus faecium 505]
Length = 303
Score = 129 bits (324), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 92/271 (33%), Positives = 135/271 (49%), Gaps = 50/271 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L ++YED+D+ +NKP G+ V P T++N L + K S+++ P VHR+
Sbjct: 78 LTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHI-KDLSTING-VIRPGIVHRI 135
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A +A DKTS+ RK Y ALVHG + +
Sbjct: 136 DKDTSGLLMVAKNDQAHESLAEQLKDKTSL------------RK----YVALVHGEIPHE 179
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PIG + + + GKPA++ VLER TLV++++++GR HQI
Sbjct: 180 KGTINAPIGRSKE---NRKMQAIREDGKPAVTHFTVLER--FEGFTLVELKLETGRTHQI 234
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G+PL GDP+Y G K+ G +LHA
Sbjct: 235 RVHMKYIGYPLAGDPVY---GPKKTLKGN-----------------------GQFLHAQM 268
Query: 305 LFLSHPTTNEVIKITAPLPSVL-KTREEGRE 334
L +HPTTNE + APLP V KT E+ R+
Sbjct: 269 LGFTHPTTNEKMVFEAPLPEVFEKTLEKLRK 299
>gi|422410529|ref|ZP_16487490.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL F2-208]
gi|313607319|gb|EFR83739.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL F2-208]
Length = 289
Score = 129 bits (324), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 95/297 (31%), Positives = 149/297 (50%), Gaps = 57/297 (19%)
Query: 28 QITVDGRVVNDPNIILSAGSEL---VYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQ 84
+ ++ + ++D N L G+ L V+ L K P Y LE++YEDD L+ +NKP ++
Sbjct: 40 NVLLNNKPLDDWNTPLFVGASLSLPVF--LHDKIPTYEYDLEIIYEDDFLLVVNKPVDMK 97
Query: 85 VLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCI 144
++ T N +Q+ K + Q ++ + VHRL + TSG++L AK KLA I
Sbjct: 98 THANDSYETDTCANAVQYYLEK-----TGQDANALAVHRLDQTTSGLVLFAKNKLA---I 149
Query: 145 AGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGL 204
AG ++ R I + Y A V G I +PIG R+ G + +
Sbjct: 150 AGL-------------SWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHHGSRRQI 196
Query: 205 YVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAG 264
SP G+PA++ V VLE D ++N +LV+ +I++GR HQIR+HL+ +GHP++GD LY G
Sbjct: 197 ---SPYGQPAVTHVKVLENDNEKNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLY--G 251
Query: 265 GQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
G P + N + LHA +L L+HP + + +AP
Sbjct: 252 GSPSA--------------------NRI------MLHAEKLHLNHPFKGKEMNFSAP 282
>gi|88809883|ref|ZP_01125389.1| probable pseudouridine synthase [Synechococcus sp. WH 7805]
gi|88786267|gb|EAR17428.1| probable pseudouridine synthase [Synechococcus sp. WH 7805]
Length = 298
Score = 129 bits (324), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 102/304 (33%), Positives = 159/304 (52%), Gaps = 52/304 (17%)
Query: 15 APLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDL 74
+P W RI++G++ ++G+ + + ++ + + + + R PW EP +P V+Y+D D+
Sbjct: 13 SPRDVWDSRIRSGELLLNGQSLQN-DVPVGSRDVVQWRRPPWLEPAIPDQWSVVYDDGDV 71
Query: 75 IALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLC 134
+ +NKPSGL V+PGG F Q T L+ L AS+ S+ +SQ P PVHRLGR TSG+ +C
Sbjct: 72 LVINKPSGLPVMPGGGFLQHT-LSALLMEASR--SAGASQV--PKPVHRLGRFTSGLQVC 126
Query: 135 AKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGI 194
A+ + ++ F + RK + V G+ + +++ +
Sbjct: 127 ARRPQTRAELSRQFRPEGGC------------RKTYLAWANPVKGLRADQPLVVTTDVVE 174
Query: 195 VRYPGVAKGLYVASP---SGKP------ALSKVDVLERDVQRNCTLVQVEIQSGRPHQIR 245
+P + +V P G+P A S++ +L+R Q + LV+V I +GRPHQIR
Sbjct: 175 RVHPLLG---WVWGPDPFDGEPLRRRLHARSELRLLKRCDQGD--LVEVAISTGRPHQIR 229
Query: 246 IHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQL 305
IHLA LG PLLGDPLY+ P+ + A VPGD GY LHA+ L
Sbjct: 230 IHLAQLGSPLLGDPLYL----PQQRINAAA----------------VPGDGGYRLHAHTL 269
Query: 306 FLSH 309
L +
Sbjct: 270 ALEN 273
>gi|354565422|ref|ZP_08984597.1| pseudouridine synthase, RluA family [Fischerella sp. JSC-11]
gi|353549381|gb|EHC18823.1| pseudouridine synthase, RluA family [Fischerella sp. JSC-11]
Length = 315
Score = 129 bits (324), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 100/315 (31%), Positives = 151/315 (47%), Gaps = 57/315 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLI 75
Q I+ GQ+ ++G++ + G + +P EP D+P L++LYEDD L+
Sbjct: 33 QLIEQGQVQLNGKICTSKKTSVKQGDRICL-EIPPAEPLELTAQDIP--LDILYEDDQLL 89
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
LNKP+GL V P T++N + Q P VHRL + T+G + A
Sbjct: 90 ILNKPAGLVVHPAPGHPDGTLVNAILAHCPNLPGIGGVQ--RPGIVHRLDKDTTGAIAIA 147
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
KT+ A + KT+ QR+ Y +V+G+ + I PIG
Sbjct: 148 KTEFAHQHLQAQLKAKTA------------QRE----YLGVVYGVPKTENGTIDLPIG-- 189
Query: 196 RYPGVAKGLYVASPS--GKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P K + V SP G+PA + +LER N TL+ ++++GR HQIR+H A +GH
Sbjct: 190 RHPVDRKKMAVVSPEKGGRPATTHWRILER--LGNYTLMHFQLETGRTHQIRVHSAHIGH 247
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
P++GDP+Y +G + G P G LHA++L L HP +
Sbjct: 248 PIVGDPVYSSG----------------RSVGVNLP--------GQALHAWRLRLQHPVSE 283
Query: 314 EVIKITAPLPSVLKT 328
E I++TAP+P KT
Sbjct: 284 EWIEVTAPIPQTFKT 298
>gi|419781535|ref|ZP_14307354.1| pseudouridine synthase, RluA family [Streptococcus oralis SK100]
gi|383184135|gb|EIC76662.1| pseudouridine synthase, RluA family [Streptococcus oralis SK100]
Length = 299
Score = 129 bits (324), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 94/311 (30%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKAGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDIP--LEIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +L+++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFQVLER--FGDYSLLELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGETM 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|417923129|ref|ZP_12566601.1| pseudouridine synthase, RluA family [Streptococcus mitis SK569]
gi|342837252|gb|EGU71448.1| pseudouridine synthase, RluA family [Streptococcus mitis SK569]
Length = 295
Score = 129 bits (324), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 95/311 (30%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKLGQVLVNGQV-KKAKYTVQEGDIVTYHVTEPEVLEYVAEDIP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMVAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKNLGFTHPRTGETL 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|347525390|ref|YP_004832138.1| ribosomal large subunit pseudouridine synthase [Lactobacillus
ruminis ATCC 27782]
gi|345284349|gb|AEN78202.1| ribosomal large subunit pseudouridine synthase [Lactobacillus
ruminis ATCC 27782]
Length = 301
Score = 129 bits (324), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 97/310 (31%), Positives = 148/310 (47%), Gaps = 56/310 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAG----SELVYHRLPWKEPDVPYLLEVLYEDDDLIAL 77
Q I G ITV+G+ + S E L + ++P L+++YEDDD+I +
Sbjct: 31 QLIDGGNITVNGKTEKAKYKVKSGDVIRLEEPETKTLELRPENIP--LDIVYEDDDVIVI 88
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P + T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 89 NKPQGMVVHPAPGHDEHTLVNALLYHCP---LSTINGTFRPGIVHRIDKDTSGLLMVAKN 145
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A DKT++ + Y ALVHG + ED+ I PIG R
Sbjct: 146 DKAHRSLAKQLKDKTNI----------------REYVALVHGRIAEDEGTINAPIG--RS 187
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
K V G+ A++ +VL+R R+ T V+ +++GR HQIR+H+ ++GHPL+G
Sbjct: 188 LKDRKKQAVVK-DGRNAVTHFEVLKR--YRDYTFVKCILETGRTHQIRVHMKYIGHPLVG 244
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DPLY P + G+ G +LHA +L HPTT +++
Sbjct: 245 DPLY-------------------------GPKKTIKGN-GQFLHAGKLGFVHPTTGKLLV 278
Query: 318 ITAPLPSVLK 327
APLP + +
Sbjct: 279 FEAPLPKIFQ 288
>gi|221633017|ref|YP_002522242.1| RluA family pseudouridine synthase [Thermomicrobium roseum DSM
5159]
gi|221156507|gb|ACM05634.1| pseudouridine synthase, RluA family [Thermomicrobium roseum DSM
5159]
Length = 322
Score = 129 bits (324), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 108/315 (34%), Positives = 149/315 (47%), Gaps = 61/315 (19%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLE-------VLYEDDDL 74
Q ++ G I V+G + VY LP EP P LE V+YEDDD+
Sbjct: 42 QLMKRGAILVNGEPCKPAQRVRYGDRLEVY--LPPVEP--PTDLEPEFLPIPVIYEDDDI 97
Query: 75 IALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASH-PVPVHRLGRGTSGILL 133
I +KP G+ P + T++N L+ L Q SH P VHRL + TSG+L+
Sbjct: 98 IVFDKPPGIVTHPAPGHEHGTLVNALK----AIRPDLQVQPSHRPGIVHRLDKDTSGLLV 153
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AKT+ A+ + + + R + K Y ALVHG+V+ D I PI
Sbjct: 154 VAKTEAARLAL----------------LEQWQSRSVVKKYTALVHGVVEPDSGTIDAPIS 197
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R P + V S G+PA++ VLER R TL+ V I++GR HQIR+H AF+GH
Sbjct: 198 --RDPVERTKMAVVS-WGRPAITHFRVLER--FRCATLLDVTIETGRTHQIRVHCAFIGH 252
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
P++GD +Q GG+ PVP +LHA L HPTT
Sbjct: 253 PVVGD---------------------SQYGGHRPFCVPVPRQ---FLHARYLRFVHPTTG 288
Query: 314 EVIKITAPLPSVLKT 328
+ I++ PLP L+T
Sbjct: 289 QAIELETPLPYDLRT 303
>gi|194015066|ref|ZP_03053683.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus pumilus ATCC 7061]
gi|194014092|gb|EDW23657.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus pumilus ATCC 7061]
Length = 304
Score = 129 bits (324), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 97/317 (30%), Positives = 154/317 (48%), Gaps = 61/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV------PYLLEVLYE 70
+Q W +++G I V+G+ V N + AG ++ ++ EP+V P L++ YE
Sbjct: 33 VQQW---VKDGLIEVNGKQVK-ANYKVQAGDQI---KVEIPEPEVLDVEAEPMDLDIYYE 85
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D++ +NKP G+ V P T++N L + S + P VHR+ + TSG
Sbjct: 86 DADVLVVNKPRGMVVHPAPGHVSGTLVNGLMAHCTDLSGI--NGVMRPGIVHRIDKDTSG 143
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK +A +S V +L + +T+ Y A+VHGI+ D I
Sbjct: 144 LLMVAKNDMAH----------------ESLVNQLVAKTVTRKYTAVVHGIIQHDTGTIDA 187
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R + + V S K A++ DV+ER ++ T+V+ +++GR HQIR+H+ +
Sbjct: 188 PIG--RDKKDRQSMTVTKESAKQAVTHFDVIER--FQDFTVVECRLETGRTHQIRVHMKY 243
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDP Y G K+ D G LHA L HP
Sbjct: 244 IGYPLAGDPKY---GPRKTVDFN-----------------------GQLLHAGVLGFDHP 277
Query: 311 TTNEVIKITAPLPSVLK 327
T E I+ TAP+P+ ++
Sbjct: 278 RTGEYIEFTAPIPADMQ 294
>gi|387879746|ref|YP_006310049.1| RluA family pseudouridine synthase [Streptococcus parasanguinis
FW213]
gi|386793197|gb|AFJ26232.1| RluA family pseudouridine synthase [Streptococcus parasanguinis
FW213]
Length = 296
Score = 129 bits (323), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 99/320 (30%), Positives = 162/320 (50%), Gaps = 60/320 (18%)
Query: 22 QRIQNGQITVDGRV------VNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLI 75
++I+ G++ V+G V V + +II E+ + ++ D+P L+++YED D++
Sbjct: 29 EQIKEGKVLVNGTVKKAKYTVKEGDIIQYEVPEV--EEVSYEAEDLP--LDIVYEDQDVV 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ + P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALLYHI-KDLSGINGEL-RPGIVHRIDKDTSGLLMVA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDQAHVALAEELKDKKSL----------------RKYWAIVHGNLPNDRGMIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFQVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDP Y G K+ + G +LHA L + P T E
Sbjct: 242 AGDPAY---GPKKTLKGQ-----------------------GQFLHARTLGFTQPRTGET 275
Query: 316 IKITAPLPSVL-KTREEGRE 334
++ TA +P + KT E+ R+
Sbjct: 276 LEFTAEVPVIFEKTLEDLRK 295
>gi|406576385|ref|ZP_11052014.1| 23S rluA family pseudouridine synthase [Streptococcus sp. GMD6S]
gi|404461392|gb|EKA07323.1| 23S rluA family pseudouridine synthase [Streptococcus sp. GMD6S]
Length = 299
Score = 129 bits (323), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 94/311 (30%), Positives = 155/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G +V + G + YH L + D+P L+++Y+D+D+
Sbjct: 29 EQIKAGQVLVNG-LVKKAKYTVQEGDIVTYHVPEPEVLEYVAEDIP--LDIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ + G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGQ-----------------------GQFLHAKTLGFTHPRTGETL 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|419508000|ref|ZP_14047653.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA49542]
gi|379611718|gb|EHZ76440.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA49542]
Length = 295
Score = 129 bits (323), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 99/312 (31%), Positives = 160/312 (51%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYL-----LEVLYEDDDLI 75
++I++GQ+ V+G+V + G + YH +P EP+V Y+ LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDIVTYH-VP--EPEVLEYVAENLPLEIIYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ RK Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDEAHLALAQELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T E+
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGEI 275
Query: 316 IKITAPLPSVLK 327
++ TA +P + K
Sbjct: 276 LEFTADIPEIFK 287
>gi|257875741|ref|ZP_05655394.1| pseudouridylate synthase [Enterococcus casseliflavus EC20]
gi|257809907|gb|EEV38727.1| pseudouridylate synthase [Enterococcus casseliflavus EC20]
Length = 302
Score = 129 bits (323), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 102/316 (32%), Positives = 152/316 (48%), Gaps = 62/316 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL------LEVLYE 70
+Q WL+ +T+ G V N + AG L+ ++P EP+V L L ++Y+
Sbjct: 32 IQQWLKE---DAVTLMGETVR-ANYKVKAGDHLII-QVP--EPEVVDLQPENIPLTIVYQ 84
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+ +NKP G+ V P T++N L + S+ + P VHR+ + TSG
Sbjct: 85 DADVAVINKPQGMVVHPSAGHPNGTLVNALLYHMDDLSTI--NDVVRPGIVHRIDKDTSG 142
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A DKTS+ RK Y ALVHG + +K I
Sbjct: 143 LLMIAKNDQAHESLAKQLKDKTSL------------RK----YVALVHGTISHEKGTINA 186
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + +GKPA++ VLER Q TLV++++++GR HQIR+H+ +
Sbjct: 187 PIGRSK---VNRKMQAVIENGKPAVTHFTVLERFEQ--FTLVELQLETGRTHQIRVHMQY 241
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G PL GDPLY P + G+ G +LHA L +HP
Sbjct: 242 IGFPLAGDPLY-------------------------GPKRTLKGN-GQFLHAKLLGFTHP 275
Query: 311 TTNEVIKITAPLPSVL 326
TT E + APLP +
Sbjct: 276 TTGESLVFEAPLPELF 291
>gi|422882191|ref|ZP_16928647.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK355]
gi|332360785|gb|EGJ38592.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK355]
Length = 298
Score = 129 bits (323), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 95/311 (30%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQI V+G+ + G + Y + + D+P LE++Y+D+D+
Sbjct: 31 EQIKDGQILVNGQA-KKAKYAVKEGDVVSYELSEPEVVEYVAEDIP--LEIVYQDEDVAV 87
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 88 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 145
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 146 NDQAHAALADELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 187
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPAL++ VLER + TLV++++++GR HQIR+H+A++GHP+
Sbjct: 188 SEKDRKKQAV-TAKGKPALTRFQVLER--FGDYTLVELQLETGRTHQIRVHMAYIGHPVA 244
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T EV+
Sbjct: 245 GDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEVL 278
Query: 317 KITAPLPSVLK 327
+ TA P++ +
Sbjct: 279 EFTAEAPAIFQ 289
>gi|336451272|ref|ZP_08621712.1| pseudouridine synthase, RluA family [Idiomarina sp. A28L]
gi|336281889|gb|EGN75152.1| pseudouridine synthase, RluA family [Idiomarina sp. A28L]
Length = 328
Score = 129 bits (323), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 106/316 (33%), Positives = 155/316 (49%), Gaps = 50/316 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-----PYLLEVLYED 71
L+ W IQ G + +DG VV P + AG E+V EP+V L V+YED
Sbjct: 42 LKTW---IQEGNVRIDGNVVTKPREKVIAGQEVVLE--ATLEPEVFSAPEAIDLNVVYED 96
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DDL+ +NKP+GL V PG T+LN L SSL Q VHRL + T+G+
Sbjct: 97 DDLLIINKPAGLVVHPGAGTPDGTLLNALL----HHCSSLE-QLPRAGIVHRLDKETTGL 151
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT T + V L R+IT+ Y A+ G++ +
Sbjct: 152 MVVAKTLPTYTAL----------------VAALQAREITREYEAICTGVMTAGGSV---E 192
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
I R+P + L + SGKPA++ V ER R T +++ ++SGR HQIR+H+A L
Sbjct: 193 AAIGRHP-TKRTLMAVTRSGKPAVTHYRVAERF--RAHTRLRLRLESGRTHQIRVHMAHL 249
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
+PL+GDP Y GG+P+ + ++ G+ R LHA +L L HP
Sbjct: 250 TYPLVGDPQY--GGRPRP-PRQASEAFITLLRGFTRQA----------LHAIRLALVHPR 296
Query: 312 TNEVIKITAPLPSVLK 327
T E+++ PLP ++
Sbjct: 297 TGEMMEWEVPLPEDMQ 312
>gi|16801409|ref|NP_471677.1| hypothetical protein lin2346 [Listeria innocua Clip11262]
gi|422413803|ref|ZP_16490762.1| ribosomal large subunit pseudouridine synthase D [Listeria innocua
FSL S4-378]
gi|423099149|ref|ZP_17086857.1| pseudouridine synthase, RluA family [Listeria innocua ATCC 33091]
gi|16414869|emb|CAC97573.1| lin2346 [Listeria innocua Clip11262]
gi|313617601|gb|EFR89910.1| ribosomal large subunit pseudouridine synthase D [Listeria innocua
FSL S4-378]
gi|370794384|gb|EHN62159.1| pseudouridine synthase, RluA family [Listeria innocua ATCC 33091]
Length = 289
Score = 129 bits (323), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 95/297 (31%), Positives = 147/297 (49%), Gaps = 59/297 (19%)
Query: 29 ITVDGRVVNDPNIILSAGSEL----VYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQ 84
+ ++ + ++D N L G+ L + H K P Y LE++YEDD L+ +NKP G++
Sbjct: 41 VLLNNKPLDDWNTPLFVGASLSLPIILHD---KIPVYEYDLEIIYEDDFLLVVNKPVGMK 97
Query: 85 VLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCI 144
++ T N +Q+ K + Q ++ + VHRL + TSG++L AK KLA I
Sbjct: 98 THANDSYETDTCANAVQYYLEK-----TGQEANALAVHRLDQTTSGLVLFAKNKLA---I 149
Query: 145 AGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGL 204
AG ++ R I + Y A V G I +PIG R+ G + +
Sbjct: 150 AGL-------------SWQMENRAIHRTYLAAVDGTWGLVMQTINKPIGEDRHHGSRRQI 196
Query: 205 YVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAG 264
SP G+PA++ V VLE D + N +LV+ +I++GR HQIR+HL+ +GHP++GD LY
Sbjct: 197 ---SPYGQPAVTHVKVLENDNENNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLY--- 250
Query: 265 GQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
GG R N + LHA +L L+HP + + +AP
Sbjct: 251 ------------------GGSSR-ANRI------MLHAEKLHLNHPFKGKEMNFSAP 282
>gi|335996600|ref|ZP_08562517.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
ruminis SPM0211]
gi|335351670|gb|EGM53161.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
ruminis SPM0211]
Length = 301
Score = 129 bits (323), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 97/310 (31%), Positives = 149/310 (48%), Gaps = 56/310 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAG----SELVYHRLPWKEPDVPYLLEVLYEDDDLIAL 77
Q + G ITV+G+ + S E L + ++P L+++YEDDD+I +
Sbjct: 31 QLLDGGNITVNGKTEKAKYKVKSGDVIRLEEPETKTLELRPENIP--LDIVYEDDDVIVI 88
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P + T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 89 NKPQGMVVHPAPGHDEHTLVNALLYHCP---LSTINGTFRPGIVHRIDKDTSGLLMVAKN 145
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A DKT++ + Y ALVHG + ED+ I PIG R
Sbjct: 146 DKAHRSLAKQLKDKTNI----------------REYVALVHGRIAEDEGTINAPIG--RS 187
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
K V G+ A++ +VL+R R+ TLV+ +++GR HQIR+H+ ++GHPL+G
Sbjct: 188 LKDRKKQAVVK-DGRNAVTHFEVLKR--YRDYTLVKCILETGRTHQIRVHMKYIGHPLVG 244
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DPLY P + G+ G +LHA +L HPTT +++
Sbjct: 245 DPLY-------------------------GPKKTIKGN-GQFLHAGKLGFVHPTTGKLLI 278
Query: 318 ITAPLPSVLK 327
APLP + +
Sbjct: 279 FEAPLPKIFQ 288
>gi|334127579|ref|ZP_08501491.1| ribosomal large subunit pseudouridine synthase D [Centipeda
periodontii DSM 2778]
gi|333389533|gb|EGK60698.1| ribosomal large subunit pseudouridine synthase D [Centipeda
periodontii DSM 2778]
Length = 302
Score = 129 bits (323), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 104/317 (32%), Positives = 150/317 (47%), Gaps = 58/317 (18%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+ +LQR I +TVDG V N L G ++ +P E D+P L+VLYE
Sbjct: 27 RSYLQRLIAEELVTVDG-VTRKANYKLRGGEQIAC-AVPAAEEVTIAAEDIP--LDVLYE 82
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+I +NK G+ V P Q T++N L Q S + A P VHRL + TSG
Sbjct: 83 DADIIVINKRRGMIVHPAAGVYQGTLVNALLHHC--QDLSGINGALRPGIVHRLDKDTSG 140
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+++ AK +A +A DK + QR+ YRA+VHG + +I
Sbjct: 141 VMVAAKNDMAHHYLAHQIRDKEA------------QRE----YRAIVHGNIVPRAGVITG 184
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
IG R+P K + + +GKPA + +VLER T V +++GR HQIR+H+
Sbjct: 185 DIG--RHPTDRKKMAIVRENGKPATTHFEVLER--FGAYTYVACRLETGRTHQIRVHMTS 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHPL+GD Y A P + G LH++ L L+HP
Sbjct: 241 IGHPLVGDTKYTAKKHPFAIQ-------------------------GQALHSFSLSLTHP 275
Query: 311 TTNEVIKITAPLPSVLK 327
T E + TAPLP+ ++
Sbjct: 276 RTGEGMVFTAPLPADME 292
>gi|422848774|ref|ZP_16895450.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK115]
gi|325689795|gb|EGD31799.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK115]
Length = 298
Score = 129 bits (323), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 94/312 (30%), Positives = 157/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I++G+I V+G+ + +++Y+ LP E D+P LE++Y+D+D+
Sbjct: 31 EQIKDGRILVNGQAKKAKYAVKEG--DIIYYELPEPEVVEYVPEDIP--LEIVYQDEDVA 86
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 87 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 144
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 145 KNDQAHVALADELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GK AL++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 187 RSEKDRKKQAVTA-KGKSALTRFQVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 243
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T EV
Sbjct: 244 AGDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEV 277
Query: 316 IKITAPLPSVLK 327
++ TA +P++ +
Sbjct: 278 LEFTAEVPAIFQ 289
>gi|422823680|ref|ZP_16871868.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK405]
gi|422855614|ref|ZP_16902272.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK1]
gi|324993007|gb|EGC24927.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK405]
gi|327462303|gb|EGF08630.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK1]
Length = 298
Score = 129 bits (323), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 94/312 (30%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I++G+I V+G+ + +++ + LP E D+P LE++Y+D+D+
Sbjct: 31 EQIKDGRILVNGQAKKAKYAVKEG--DVISYELPEPEVVEYVAEDIP--LEIVYQDEDVA 86
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + + S + P VHR+ + TSG+L+ A
Sbjct: 87 VVNKPQGMVVHPSAGHTSGTLVNALMYHINDLSGI--NGVLRPGIVHRIDKDTSGLLMIA 144
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 145 KNDQAHVALADELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPAL++ VLER + TLV++++++GR HQIR+H+A++GHP+
Sbjct: 187 RSEKDRKKQAVTA-KGKPALTRFQVLER--FGDYTLVELQLETGRTHQIRVHMAYIGHPV 243
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T EV
Sbjct: 244 AGDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEV 277
Query: 316 IKITAPLPSVLK 327
++ TA P++ +
Sbjct: 278 LEFTAEAPAIFQ 289
>gi|417849155|ref|ZP_12495080.1| pseudouridine synthase, RluA family [Streptococcus mitis SK1080]
gi|339456782|gb|EGP69364.1| pseudouridine synthase, RluA family [Streptococcus mitis SK1080]
Length = 295
Score = 129 bits (323), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 155/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKLGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDIP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGETL 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|422854169|ref|ZP_16900833.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK160]
gi|325696405|gb|EGD38295.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK160]
Length = 298
Score = 129 bits (323), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 96/312 (30%), Positives = 158/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I++G+I V+G+ + +++Y+ LP E D+P LE++Y+D+D+
Sbjct: 31 EQIKDGRILVNGQAKKAKYAVKEG--DIIYYELPEPEVVEYVPEDIP--LEIVYQDEDVA 86
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 87 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 144
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ RK Y A+VHG + D+ +I+ PIG
Sbjct: 145 KNDQAHVALADELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG-- 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GK AL++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 187 RSEKDRKKQAVTA-KGKSALTRFQVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 243
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T EV
Sbjct: 244 AGDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEV 277
Query: 316 IKITAPLPSVLK 327
++ TA +P++ +
Sbjct: 278 LEFTAEVPAIFQ 289
>gi|357041028|ref|ZP_09102810.1| pseudouridine synthase, RluA family [Desulfotomaculum gibsoniae DSM
7213]
gi|355355887|gb|EHG03690.1| pseudouridine synthase, RluA family [Desulfotomaculum gibsoniae DSM
7213]
Length = 312
Score = 129 bits (323), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 101/309 (32%), Positives = 148/309 (47%), Gaps = 52/309 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDDLIALNKP 80
I +G +TV+ V N L G + P E V P L++ YED D+I +NKP
Sbjct: 38 IGDGAVTVNQEAVR-ANYRLKEGDTVAVVVPPPVELKVCPEPIPLDIFYEDKDIIVVNKP 96
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
G+ V P T++N L Q S + P VHR+ + TSG+L+ AK LA
Sbjct: 97 RGMVVHPAEGNYSGTLVNALLHHC--QDLSGINGVLRPGIVHRIDKDTSGLLMVAKNDLA 154
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGV 200
+AG +L + + + Y ALVHG++ D ++ PIG R+P
Sbjct: 155 HEHLAG----------------QLKEHTVRRGYLALVHGVLTSDLGVVDAPIG--RHPRE 196
Query: 201 AKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPL 260
+ + V + +GK A++ VL R N TL+Q+ +++GR HQIR+H+A++G+PL+GD
Sbjct: 197 RQKMAVTNRNGKAAVTHYRVLNR--AGNYTLLQLRLETGRTHQIRVHMAYIGYPLVGDTK 254
Query: 261 YVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITA 320
Y G K S DG F LHAY L HP + E ++ TA
Sbjct: 255 Y---GPNK---SHLLDGQF--------------------LHAYLLGFVHPRSGEYLEFTA 288
Query: 321 PLPSVLKTR 329
PLP L +
Sbjct: 289 PLPVELTAK 297
>gi|269101904|ref|ZP_06154601.1| ribosomal large subunit pseudouridine synthase D [Photobacterium
damselae subsp. damselae CIP 102761]
gi|268161802|gb|EEZ40298.1| ribosomal large subunit pseudouridine synthase D [Photobacterium
damselae subsp. damselae CIP 102761]
Length = 324
Score = 129 bits (323), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 99/324 (30%), Positives = 156/324 (48%), Gaps = 47/324 (14%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIALN 78
I G++ VDG +++ P I + G +LV + + W+ D+P L+++YEDDD+I +N
Sbjct: 40 ILAGKVAVDGEIIDKPRIKMMGGEQLVINAEIEDEVRWEAQDIP--LDIVYEDDDIIVIN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP V PG TVLN L W SL+ + VHRL + T+G+++ AKT
Sbjct: 98 KPRDFVVHPGAGTPDGTVLNALLW----HCPSLAEVPRAGI-VHRLDKDTTGLMVVAKTV 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A+T + V L +R IT+ Y A+ G + + K I R+
Sbjct: 153 QAQTRL----------------VRALQKRNITREYEAIAMGKMTGGGTVEK---AIGRH- 192
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ GKPA++ V E R T + + +++GR HQIR+H+++L HPL+GD
Sbjct: 193 STKRTCMAVHELGKPAITHYRVAEH--FREHTRIVLRLETGRTHQIRVHMSYLTHPLVGD 250
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
Y GG+P+ +D ++R LHA L L+HP T E+++
Sbjct: 251 ATY--GGRPRP-PRNASDELIQALRAFDRQA----------LHARMLRLTHPITGELMEW 297
Query: 319 TAPLPSVLKTREEGREVDKSVGSE 342
APLP+ + + DK + E
Sbjct: 298 HAPLPNDMVAMIDILRKDKELNDE 321
>gi|268319474|ref|YP_003293130.1| pseudouridine synthase, RluA family [Lactobacillus johnsonii
FI9785]
gi|262397849|emb|CAX66863.1| pseudouridine synthase, RluA family [Lactobacillus johnsonii
FI9785]
Length = 304
Score = 129 bits (323), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 100/334 (29%), Positives = 161/334 (48%), Gaps = 68/334 (20%)
Query: 18 QGWLQRIQNGQITVDGR-----VVNDPNIILSAGSELVYHRLPWKE-------PDVPYLL 65
+G L ++ +IT R +VND NI+++ +E V +++ + P P L
Sbjct: 13 KGRLDKVITEKITDLSRTKIKELVNDKNILVNNKAEKVSYKVQSGDVIDVTIPPVKPLSL 72
Query: 66 E-------VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
E ++YED D+I +NKP G+ V P T++N L + + S + P
Sbjct: 73 EAENLHLDIVYEDSDVIVVNKPQGMVVHPSAGHPDHTLVNGLLYHTRDLADS--PEGFRP 130
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHR+ + TSG+L+ AK A+ + A K +++R+ Y A+VH
Sbjct: 131 GIVHRIDKDTSGLLMIAKNDRARESLEKQLAKK------------INKRE----YLAIVH 174
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G + +I PIG R P K + V +P GK A++ VLE+ +N +LV+ +++
Sbjct: 175 GNFEVKNGVINAPIG--RNPNSRKQMAV-NPKGKAAVTHFTVLEQ--FKNYSLVKCVLET 229
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+ ++GHPL GDPLY G K+ G
Sbjct: 230 GRTHQIRVHMKYIGHPLAGDPLY---GPKKTLSGH-----------------------GQ 263
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKTREEG 332
+LHA L P+TNE ++ +APLP++ + + E
Sbjct: 264 FLHAKTLGFYQPSTNEWLEFSAPLPTIFEKQLEN 297
>gi|225378086|ref|ZP_03755307.1| hypothetical protein ROSEINA2194_03746 [Roseburia inulinivorans DSM
16841]
gi|225210087|gb|EEG92441.1| hypothetical protein ROSEINA2194_03746 [Roseburia inulinivorans DSM
16841]
Length = 303
Score = 129 bits (323), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 82/268 (30%), Positives = 129/268 (48%), Gaps = 48/268 (17%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P L++LYEDDDL+ +NKP G+ V P T++N + + S ++ + P
Sbjct: 77 DIP--LDILYEDDDLLVVNKPKGMVVHPSAGHYSGTLVNAIMYHCKDSLSGINGEIR-PG 133
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ T+G L+ K + IA ++ + + + YR +V+G
Sbjct: 134 IVHRIDMDTTGSLIVCKNDESHVFIAE----------------QIKEHSVNRRYRGIVYG 177
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
+V +D+ I PIG R+P K + + +GK A++ VLER T ++ ++++G
Sbjct: 178 VVRDDEGTIHAPIG--RHPVDRKKMAINEKNGKDAITHYKVLER--FDKYTYMEFKLETG 233
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H+A +GHPLLGD LY G P G
Sbjct: 234 RTHQIRVHMASIGHPLLGDTLYSNGKSPYKLQ-------------------------GQT 268
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLK 327
LHA + HP T E ++I+APLP +
Sbjct: 269 LHAMTIGFIHPGTREYMEISAPLPEYFE 296
>gi|227872363|ref|ZP_03990714.1| pseudouridylate synthase [Oribacterium sinus F0268]
gi|227841792|gb|EEJ52071.1| pseudouridylate synthase [Oribacterium sinus F0268]
Length = 303
Score = 129 bits (323), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 99/325 (30%), Positives = 157/325 (48%), Gaps = 51/325 (15%)
Query: 4 IEFYSTKHKNSAPLQGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV- 61
++ Y ++ K+ + +L + IQ G ++V+G ++ + AG + + K+P+V
Sbjct: 14 LDKYLSEQKDHDFSRSYLGKCIQEGCVSVNGEKAK-ASLKVKAGDRIDFDIPEQKDPEVL 72
Query: 62 --PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
L+++YEDDDL+ +NK G+ V P T++N + A SS++ + P
Sbjct: 73 PEAIPLDIVYEDDDLLVVNKERGMVVHPAAGHYSGTLVNAVLAHAGSSLSSING-VNRPG 131
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + T+G+LL K L+ +A +L + IT+ Y ALV G
Sbjct: 132 IVHRIDKDTTGLLLICKNDLSHQSLA----------------KQLEEHSITRRYHALVFG 175
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
+ E+ II PIG R K ++ GK AL+ VLER + TLV+ +++G
Sbjct: 176 KIKEEDGIISAPIG--RDEKDRKKQAISYKHGKEALTHYKVLER--FSDSTLVECRLETG 231
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H+ +GHPLLGDP+Y G + N G G
Sbjct: 232 RTHQIRVHMKSIGHPLLGDPVY----------------------GLK---NRKDGISGQA 266
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L HP T E ++ +AP P+
Sbjct: 267 LHAMILGFQHPRTGEYMEFSAPYPA 291
>gi|334133945|ref|ZP_08507480.1| pseudouridine synthase, RluA family [Paenibacillus sp. HGF7]
gi|333608453|gb|EGL19750.1| pseudouridine synthase, RluA family [Paenibacillus sp. HGF7]
Length = 321
Score = 129 bits (323), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 107/315 (33%), Positives = 152/315 (48%), Gaps = 63/315 (20%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+Q W I++G VDGR V PN LS G ++V +P EP ++P L+V+YE
Sbjct: 51 IQQW---IRDGHARVDGRNVK-PNYKLSEG-QVVDLAIPDPEPLDIAAENIP--LDVVYE 103
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+I +NKP GL V P T++N L K S ++ P VHR+ + TSG
Sbjct: 104 DGDVIVINKPRGLVVHPAPGHYSGTLVNALMHHC-KDLSGING-VMRPGIVHRIDKDTSG 161
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A +L + +T+ Y ALVHG + D I
Sbjct: 162 LLMIAKNDQAHASLA----------------EQLKEHSVTRKYVALVHGNLQHDHGTIDA 205
Query: 191 PIGIVRYPGVAKGLY-VASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLA 249
PIG Y + LY V + K A++ VLER TLV++++++GR HQIR+HL
Sbjct: 206 PIGRDSYD---RKLYTVTDKNSKHAVTHFAVLER--FDGYTLVELKLETGRTHQIRVHLK 260
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
F+GHPL+GDP Y G+ K + G LHA L +H
Sbjct: 261 FIGHPLVGDPSY---GRSKGMTMD-----------------------GQALHAQILGFTH 294
Query: 310 PTTNEVIKITAPLPS 324
P T E ++ AP+P
Sbjct: 295 PRTGERLEFEAPIPE 309
>gi|256384025|gb|ACU78595.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma
mycoides subsp. capri str. GM12]
gi|256384857|gb|ACU79426.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma
mycoides subsp. capri str. GM12]
gi|296455719|gb|ADH21954.1| ribosomal large subunit pseudouridine synthase D [synthetic
Mycoplasma mycoides JCVI-syn1.0]
Length = 310
Score = 129 bits (323), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 87/312 (27%), Positives = 161/312 (51%), Gaps = 53/312 (16%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSEL-VYHRLPWKEPDV----PYLLEVLYED 71
+ ++Q+ I+ I+V+ +++ + N ++ S++ + + P +P++ L+++Y+D
Sbjct: 30 RSYIQKLIKEECISVNNQIITNNNFVVKPNSQITITIKDPILDPNLVKNDEIDLDIIYQD 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DDL+ +NK + + V P T++N L + + SS++ + P VHR+ + T+G+
Sbjct: 90 DDLLVINKQNNITVHPSLSNTNNTIVNAL-LASDVELSSINGEL-RPGIVHRIDKQTTGL 147
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK ++ F + +I K Y A+V G++ +K +I P
Sbjct: 148 LIVAKNDKTHKLLSEMFKN----------------HQIYKEYLAIVSGVIKPNKGLIDAP 191
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R K + V + + K A++ +V+ER ++ TLV+ +IQ+GR HQIR+H ++
Sbjct: 192 IG--RSQIDRKKMSVTAKNSKQAITTFEVVERFLKN--TLVKCQIQTGRTHQIRVHFNYI 247
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HP+L DP+Y G + + F D G YLHAY+L +HP
Sbjct: 248 NHPVLNDPVY--GKKHQEF-----------------------TDFGQYLHAYKLRFTHPI 282
Query: 312 TNEVIKITAPLP 323
T + I++ +PLP
Sbjct: 283 TKKEIELISPLP 294
>gi|291546177|emb|CBL19285.1| ribosomal large subunit pseudouridine synthase D [Ruminococcus sp.
SR1/5]
Length = 304
Score = 128 bits (322), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 97/319 (30%), Positives = 148/319 (46%), Gaps = 51/319 (15%)
Query: 12 KNSAPLQGWLQRI-QNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEV 67
K+S + +LQ++ + GQITV G N + + EPD+ L++
Sbjct: 24 KDSGLSRSFLQKLLKEGQITV-GEKAAKSNYKVRENDRIHLEIPDSSEPDIVPEDIPLDI 82
Query: 68 LYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRG 127
LYED+D++ +NKP G+ V P Q T++N + S ++ P VHR+ +
Sbjct: 83 LYEDEDVLIVNKPKGMVVHPAAGHYQGTLVNAVMAHCGDSLSGING-VMRPGIVHRIDKD 141
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
T+G LL K +A +A +L I + YRA+V G + ED+
Sbjct: 142 TTGALLVCKNDIAHRDLA----------------EQLKCHSIRRRYRAVVQGNLKEDEGT 185
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
I+ PIG R+P K + + +GK A++ VLER + T V+ +++GR HQIR+H
Sbjct: 186 IEGPIG--RHPTDRKKMAINHKNGKDAITHYKVLERFGE--ATYVECRLETGRTHQIRVH 241
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
+A +GHPLLGD +Y + P + G LHA L
Sbjct: 242 MASIGHPLLGDTVYGSSRNPYHLE-------------------------GQALHAMILGF 276
Query: 308 SHPTTNEVIKITAPLPSVL 326
HP T E ++ TAPLP
Sbjct: 277 VHPRTGEYMEFTAPLPEYF 295
>gi|422878953|ref|ZP_16925419.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK1059]
gi|422928799|ref|ZP_16961741.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis ATCC 29667]
gi|422931773|ref|ZP_16964704.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK340]
gi|332366655|gb|EGJ44398.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK1059]
gi|339616067|gb|EGQ20725.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis ATCC 29667]
gi|339619505|gb|EGQ24084.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK340]
Length = 298
Score = 128 bits (322), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 95/312 (30%), Positives = 156/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I++G+I V+G+V + +++ + LP E D+P LE++Y+D+D+
Sbjct: 31 EQIKDGRILVNGQVKKAKYAVKEG--DVISYELPEPEVVEYVAEDIP--LEIVYQDEDVA 86
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + Q S + P VHR+ + TSG+L+ A
Sbjct: 87 VINKPQGMVVHPSAGHTSGTLVNALMYHI--QDLSGINGVLRPGIVHRIDKDTSGLLMIA 144
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL +K + Y A+VHG + D+ +I+ PIG
Sbjct: 145 KNDQAHVALAD----------------ELKAKKSLRKYWAIVHGNLPNDRGVIEAPIG-- 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPAL++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 187 RSEKDRKKQAVTA-KGKPALTRFQVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 243
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T EV
Sbjct: 244 AGDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEV 277
Query: 316 IKITAPLPSVLK 327
++ TA P++ +
Sbjct: 278 LEFTAEAPAIFQ 289
>gi|422826249|ref|ZP_16874428.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK678]
gi|324995685|gb|EGC27597.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK678]
Length = 298
Score = 128 bits (322), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 95/312 (30%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I++GQI V+G+ + +++ + LP E D+P LE++Y+D+D+
Sbjct: 31 EQIKDGQILVNGQAKKAKYAVKEG--DVISYELPEPEVVEYVPEDIP--LEIVYQDEDVA 86
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + Q S + P VHR+ + TSG+L+ A
Sbjct: 87 VVNKPQGMVVHPSAGHTSGTLVNALMYHI--QDLSGINGVLRPGIVHRIDKDTSGLLMIA 144
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 145 KNDQAHLALADELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPAL++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 187 RSEKDRKKQAVTA-KGKPALTRFQVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 243
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T EV
Sbjct: 244 AGDEVY---GPRKTLKGH-----------------------GQFLHAQTLGFTHPRTGEV 277
Query: 316 IKITAPLPSVLK 327
++ TA +P + +
Sbjct: 278 LEFTAEVPVIFQ 289
>gi|423332645|ref|ZP_17310427.1| pseudouridylate synthase [Lactobacillus reuteri ATCC 53608]
gi|337727763|emb|CCC02849.1| pseudouridylate synthase [Lactobacillus reuteri ATCC 53608]
Length = 303
Score = 128 bits (322), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 99/327 (30%), Positives = 158/327 (48%), Gaps = 62/327 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYED 71
+Q W I++G + V+G+ V P L G + ++ ++P L+++YED
Sbjct: 33 IQHW---IEDGHVLVNGKQVK-PKYKLLVGDHIQIIPEEPQKIDLTPENIP--LDIVYED 86
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
+D+I +NKP G+ V P T++N L + + S+++ + P VHR+ + TSG+
Sbjct: 87 EDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHSP--LSTINGEFR-PGIVHRIDKDTSGL 143
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK +A + KT+ + Y ALVHG++ EDK I P
Sbjct: 144 LMVAKNDMAHRSLTAQLKAKTN----------------KREYVALVHGVIKEDKGTIDAP 187
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
+G + + V G+ A++ +VLER +N TLV ++++GR HQIR+H+ ++
Sbjct: 188 LGRSLKDRKKQAVVV---DGRHAVTHFNVLER--FKNYTLVACQLETGRTHQIRVHMKYI 242
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPL GDPLY P + G+ G YLHA L HP
Sbjct: 243 GHPLAGDPLY-------------------------GPRKTLAGN-GQYLHARLLGFKHPR 276
Query: 312 TNEVIKITAPLPSVL-KTREEGREVDK 337
T + + TAPLP+ K E R+ D+
Sbjct: 277 TGKEMVFTAPLPAYFTKMLEHLRKTDQ 303
>gi|227890010|ref|ZP_04007815.1| pseudouridylate synthase [Lactobacillus johnsonii ATCC 33200]
gi|227849454|gb|EEJ59540.1| pseudouridylate synthase [Lactobacillus johnsonii ATCC 33200]
Length = 304
Score = 128 bits (322), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 100/334 (29%), Positives = 162/334 (48%), Gaps = 68/334 (20%)
Query: 18 QGWLQRIQNGQITVDGR-----VVNDPNIILSAGSELVYHRLPWKE-------PDVPYLL 65
+G L ++ +IT R +VND NI+++ +E V +++ + P P L
Sbjct: 13 KGRLDKVIAEKITDLSRTKIKELVNDKNILVNNKAEKVSYKVQSGDVIDVTIPPVKPLSL 72
Query: 66 E-------VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
E ++YED D+I +NKP G+ V P T++N L + + S + P
Sbjct: 73 EAENLHLDIVYEDSDVIVVNKPQGIVVHPSAGHPDHTLVNGLLYHTRDLADS--PEGFRP 130
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHR+ + TSG+L+ AK A+ + A+K +++R+ Y A+VH
Sbjct: 131 GIVHRIDKDTSGLLMIAKNDRARESLEKQLAEK------------INKRE----YLAIVH 174
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G + +I PIG R P K + V +P GK A++ VLE+ +N +LV+ +++
Sbjct: 175 GNFEVKNGVINAPIG--RNPNNRKQMAV-NPKGKAAVTHFTVLEQ--FKNYSLVKCVLET 229
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+ ++GHPL GDPLY G K+ G
Sbjct: 230 GRTHQIRVHMKYIGHPLAGDPLY---GPKKTLSGH-----------------------GQ 263
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKTREEG 332
+LHA L P+TNE ++ +APLP++ + + E
Sbjct: 264 FLHAKTLGFYQPSTNEWLEFSAPLPTIFEKQLEN 297
>gi|270292963|ref|ZP_06199174.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp.
M143]
gi|270278942|gb|EFA24788.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp.
M143]
Length = 299
Score = 128 bits (322), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 94/311 (30%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G+V + G + YH L + D+P L+++Y+D+D+
Sbjct: 29 EQIKAGQVLVNGQV-KKAKYTVQEGDIVTYHVPEPEVLEYVAEDIP--LDIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGETM 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|379723203|ref|YP_005315334.1| hypothetical protein PM3016_5487 [Paenibacillus mucilaginosus 3016]
gi|386725924|ref|YP_006192250.1| hypothetical protein B2K_27955 [Paenibacillus mucilaginosus K02]
gi|378571875|gb|AFC32185.1| YlyB [Paenibacillus mucilaginosus 3016]
gi|384093049|gb|AFH64485.1| hypothetical protein B2K_27955 [Paenibacillus mucilaginosus K02]
Length = 329
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 109/325 (33%), Positives = 149/325 (45%), Gaps = 64/325 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYED 71
LQ W I++G +TV GR+V PN L G L L D+P L+V+YED
Sbjct: 57 LQQW---IKDGHVTVSGRIVK-PNYKLGEGDSLKLVVPEPQELELTAEDIP--LDVIYED 110
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
D+I +NKP G+ V P T++N L + S + P VHR+ + TSG+
Sbjct: 111 SDVIVVNKPRGMVVHPAPGHYSGTLVNALLYHCKDLSGI--NGIMRPGIVHRIDKDTSGL 168
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK LA + +L T+ Y ALVHG V + + P
Sbjct: 169 LMAAKNDLAHAGLT----------------EQLKAHSATRKYIALVHGNVPHENGTVDAP 212
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R P K V + K A++ VLER + TL+++++++GR HQIR+H+ F+
Sbjct: 213 IG--RDPKDRKLYTVTEKNSKHAVTHFIVLER--FGDYTLLELKLETGRTHQIRVHMKFI 268
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPL+GDP Y G KS +P D G LHA L HP
Sbjct: 269 GHPLVGDPQY---GPSKS--------------------KGIPMD-GQALHAAVLGFKHPR 304
Query: 312 TNEVIKITAPLP-------SVLKTR 329
T E + APLP VLK R
Sbjct: 305 TGEELLFEAPLPEDMNRLLEVLKMR 329
>gi|322387558|ref|ZP_08061167.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
infantis ATCC 700779]
gi|419843101|ref|ZP_14366425.1| pseudouridine synthase, RluA family [Streptococcus infantis ATCC
700779]
gi|321141425|gb|EFX36921.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
infantis ATCC 700779]
gi|385703203|gb|EIG40329.1| pseudouridine synthase, RluA family [Streptococcus infantis ATCC
700779]
Length = 297
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 96/311 (30%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G V + G + Y L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGHV-KKAKYTVQEGDVITYQIPEPEVLEYVAEDIP--LEIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHMALAQELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + TL+++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFQVLER--FGDYTLLELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGETL 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|331703570|ref|YP_004400257.1| ribosomal large subunit pseudouridylatesynthase D [Mycoplasma
mycoides subsp. capri LC str. 95010]
gi|328802125|emb|CBW54279.1| Ribosomal large subunit pseudouridylatesynthase D [Mycoplasma
mycoides subsp. capri LC str. 95010]
Length = 310
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 87/312 (27%), Positives = 161/312 (51%), Gaps = 53/312 (16%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSEL-VYHRLPWKEPDV----PYLLEVLYED 71
+ ++Q+ I+ I+V+ +++ + N ++ S++ + + P +P++ L+++Y+D
Sbjct: 30 RSYIQKLIKEECISVNNQIITNNNFLVKPNSQITITIKDPILDPNLVKNEDIDLDIVYQD 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DDL+ +NK + + V P T++N L + + SS++ + P VHR+ + T+G+
Sbjct: 90 DDLLVINKQNNITVHPSLNNTNNTIVNAL-LASDVELSSINGEL-RPGIVHRIDKQTTGL 147
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK ++ F + +I K Y A+V G++ +K +I P
Sbjct: 148 LIVAKNDKTHKLLSEMFKN----------------HQIYKEYLAIVTGVIKPNKGLIDAP 191
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R K + V + + K A++ +V+ER ++ TLV+ +IQ+GR HQIR+H ++
Sbjct: 192 IG--RSQTDRKKMSVTAKNSKQAITTFEVVERFLKN--TLVKCQIQTGRTHQIRVHFNYI 247
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HP+L DP+Y G + + F D G YLHAY+L +HP
Sbjct: 248 NHPVLNDPVY--GKKHQEF-----------------------TDFGQYLHAYKLKFTHPI 282
Query: 312 TNEVIKITAPLP 323
T + I++ +PLP
Sbjct: 283 TKKEIELISPLP 294
>gi|375090784|ref|ZP_09737096.1| RluA family pseudouridine synthase [Facklamia languida CCUG 37842]
gi|374564946|gb|EHR36225.1| RluA family pseudouridine synthase [Facklamia languida CCUG 37842]
Length = 313
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 103/317 (32%), Positives = 155/317 (48%), Gaps = 61/317 (19%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRL---PWKEPDVPYL-----LEVLYEDDDLI 75
I++GQ+ VDG+ N +L G E++ L P E D+ LE++YEDDDL+
Sbjct: 37 IKDGQVLVDGQK-QKANYLLQ-GDEVLQVALRSDPDSESDLDLQGEAMPLEIVYEDDDLL 94
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP+GL V P T++N L + Q SS SQA P VHR+ + TSG+L+ A
Sbjct: 95 VVNKPAGLVVHPAKGHATGTLVNGLIYYLKGQLSS-GSQAYRPGIVHRIDKDTSGLLVVA 153
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A ++ +L R++ + Y ALV+G V D I + +
Sbjct: 154 KNDAAHQALS----------------QQLQTRQLKRTYLALVNGSVQVDSGQID--MALK 195
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R P + + +GK A++ VL+R +LV+ ++Q+GR HQIR+HL +GHPL
Sbjct: 196 RDPK-NRLRWQVDETGKEAITDFKVLQR--WPVASLVEAQLQTGRTHQIRVHLEAIGHPL 252
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPG-----DCGYYLHAYQLFLSHP 310
+GDP+ Y R + +PG G LHA+QL L HP
Sbjct: 253 IGDPV------------------------YRRHLQNIPGPFTHLTSGQLLHAHQLSLVHP 288
Query: 311 TTNEVIKITAPLPSVLK 327
T EV+ T +P+ ++
Sbjct: 289 RTGEVLTFTCEMPAAMQ 305
>gi|255528132|ref|ZP_05394960.1| pseudouridine synthase, RluA family [Clostridium carboxidivorans
P7]
gi|296186658|ref|ZP_06855060.1| pseudouridine synthase, RluA family [Clostridium carboxidivorans
P7]
gi|255508173|gb|EET84585.1| pseudouridine synthase, RluA family [Clostridium carboxidivorans
P7]
gi|296048695|gb|EFG88127.1| pseudouridine synthase, RluA family [Clostridium carboxidivorans
P7]
Length = 305
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 92/271 (33%), Positives = 138/271 (50%), Gaps = 51/271 (18%)
Query: 58 EP-DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
EP D+P L+++YED D+I +NKP G+ V P T++N L S S + +
Sbjct: 74 EPEDIP--LDIVYEDSDVIVVNKPQGMVVHPASGVYTGTLVNALLNHCSDLSGI--NGVT 129
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
P VHR+ + TSGIL+ AK + +A D + +T+ Y AL
Sbjct: 130 RPGIVHRIDKDTSGILVVAKNDKSHNKLAEQLKDHS----------------MTRAYTAL 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
V GI+ ED+ I +P+G R+P V + GK A++ VLER ++ TLV+ +
Sbjct: 174 VEGILKEDEGTIDKPLG--RHP-VERIKISVIKDGKRAVTHYRVLER--FKSNTLVECVL 228
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDC 296
++GR HQIR+H+A++GHPL+GDP+Y G + + F+
Sbjct: 229 ETGRTHQIRVHMAYIGHPLVGDPVY--GYKKQKFNLN----------------------- 263
Query: 297 GYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G LHA +L HP+TNE I+ T+ LP K
Sbjct: 264 GQMLHAKKLGFIHPSTNEYIEFTSDLPDYFK 294
>gi|296536195|ref|ZP_06898317.1| ribosomal large subunit pseudouridine synthase D [Roseomonas
cervicalis ATCC 49957]
gi|296263477|gb|EFH09980.1| ribosomal large subunit pseudouridine synthase D [Roseomonas
cervicalis ATCC 49957]
Length = 343
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 95/311 (30%), Positives = 151/311 (48%), Gaps = 51/311 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-----DVPYLLEVLYEDDDLIALN 78
I+ G +T DG+ DP+ + G+ V + D+P L +L+ED LI L+
Sbjct: 58 IEAGHVTRDGQPAGDPSEAIRTGATYVVAPPAAQPATPQAQDIP--LTILFEDRHLIVLD 115
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP+GL V P Q T++N L A ++ + + + P VHRL + TSG+++ AK++
Sbjct: 116 KPAGLVVHPAPGNQDGTLVNALLAHAGEELTGIGGE-KRPGIVHRLDKDTSGVMVVAKSE 174
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
+A T ++ FA R + + Y AL G+ + P+G R+P
Sbjct: 175 VAHTALSAAFA----------------SRDLERAYLALAWGVPAPASGEVDAPVG--RHP 216
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K + V + +GK AL++ ER +C L++ + +GR HQIR+H+A +GHPL+GD
Sbjct: 217 TDRKRMAVVARNGKHALTRY-ATERAWGTSCALLRCRLATGRTHQIRVHMAHIGHPLVGD 275
Query: 259 PLYV------AGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
P+Y+ A G P + A+D P LHA L HP T
Sbjct: 276 PVYLRRLPATARGLPVA----------ARDALLAFPRQ--------ALHAESLGFHHPVT 317
Query: 313 NEVIKITAPLP 323
E+++ + PLP
Sbjct: 318 GEMLRFSTPLP 328
>gi|408356929|ref|YP_006845460.1| pseudouridine synthase RluD [Amphibacillus xylanus NBRC 15112]
gi|407727700|dbj|BAM47698.1| pseudouridine synthase RluD [Amphibacillus xylanus NBRC 15112]
Length = 304
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 98/315 (31%), Positives = 160/315 (50%), Gaps = 61/315 (19%)
Query: 15 APLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE-----PD-VPYLLEVL 68
A +Q W I++G +TV+G V N + ++V+ LP +E P+ +P L+++
Sbjct: 31 AQIQNW---IKSGHVTVNGSEVK-ANYRVQENDQVVW-ELPEQESIKIEPEAIP--LDII 83
Query: 69 YEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGT 128
YEDDD++ +NKP G+ V P T++N L +KQ ++++ + P VHR+ R T
Sbjct: 84 YEDDDILIVNKPKGMVVHPSVGHHSGTLVNAL-LHHTKQLTTINGE-DRPGIVHRIDRDT 141
Query: 129 SGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVII 188
SG+L+ AKT A +A +L R+ + Y ALVHG + + I
Sbjct: 142 SGLLIIAKTDQAYESLA----------------QQLKDREAQRTYLALVHGAIPHEYGTI 185
Query: 189 KQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHL 248
+ PIG R P + + V + +GK A++ +V+ER + + TL++ +++GR HQIR+HL
Sbjct: 186 EAPIG--RNPKDRQSMAVVN-NGKEAITYFEVIER-INQKYTLIKCSLKTGRTHQIRVHL 241
Query: 249 AFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
++G P++GDP Y G+ K+F + G LHA +L
Sbjct: 242 KYIGFPIVGDPKY---GRKKTFQED-----------------------GQALHACELGFR 275
Query: 309 HPTTNEVIKITAPLP 323
HP TNE + P
Sbjct: 276 HPKTNEWMHFEVEPP 290
>gi|335032000|ref|ZP_08525412.1| pseudouridine synthase, RluA family [Streptococcus anginosus SK52 =
DSM 20563]
gi|333768140|gb|EGL45343.1| pseudouridine synthase, RluA family [Streptococcus anginosus SK52 =
DSM 20563]
Length = 298
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 98/311 (31%), Positives = 156/311 (50%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I+NGQI V+G+V + AG + Y L + ++P L+++Y+D+D+
Sbjct: 29 EQIKNGQILVNGQV-KKAKYAVKAGDVITYELSEPEALEYVAENLP--LDIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NK G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKAQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHIKLAEELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T EV+
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPKTGEVM 276
Query: 317 KITAPLPSVLK 327
+ TA P++ +
Sbjct: 277 EFTAEAPAIFQ 287
>gi|323351668|ref|ZP_08087322.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis VMC66]
gi|322122154|gb|EFX93880.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis VMC66]
Length = 298
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 94/312 (30%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I++G+I V+G+ + +++ + LP E D+P LE++Y+D+D+
Sbjct: 31 EQIKDGRILVNGQAKKAKYAVKEG--DVISYELPEPEVVEYVAEDIP--LEIVYQDEDVA 86
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + Q S + P VHR+ + TSG+L+ A
Sbjct: 87 VINKPQGMVVHPSAGHTSGTLVNALMYHI--QDLSGINGVLRPGIVHRIDKDTSGLLMIA 144
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 145 KNDQAHVALADELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPAL++ VLER N +LV++++++GR HQIR+H+A++GHP+
Sbjct: 187 RSEKDRKKQAVTA-KGKPALTRFQVLER--FGNYSLVELQLETGRTHQIRVHMAYIGHPV 243
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T E
Sbjct: 244 AGDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEE 277
Query: 316 IKITAPLPSVLK 327
++ TA +P++ +
Sbjct: 278 LEFTAEVPAIFQ 289
>gi|315221340|ref|ZP_07863261.1| pseudouridine synthase, RluA family [Streptococcus anginosus F0211]
gi|315189459|gb|EFU23153.1| pseudouridine synthase, RluA family [Streptococcus anginosus F0211]
Length = 298
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 98/311 (31%), Positives = 156/311 (50%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I+NGQI V+G+V + AG + Y L + ++P L+++Y+D+D+
Sbjct: 29 EQIKNGQILVNGQV-KKAKYAVKAGDVITYELPEPEALEYVAENLP--LDIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NK G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKAQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHIKLAEELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T EV+
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPKTGEVM 276
Query: 317 KITAPLPSVLK 327
+ TA P++ +
Sbjct: 277 EFTAEAPAIFQ 287
>gi|42561113|ref|NP_975564.1| ribosomal large subunit pseudouridylate synthase D [Mycoplasma
mycoides subsp. mycoides SC str. PG1]
gi|42492610|emb|CAE77206.1| ribosomal large subunit pseudouridylate synthase D [Mycoplasma
mycoides subsp. mycoides SC str. PG1]
gi|301320622|gb|ADK69265.1| pseudouridine synthase, RluA family [Mycoplasma mycoides subsp.
mycoides SC str. Gladysdale]
Length = 310
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 87/312 (27%), Positives = 160/312 (51%), Gaps = 53/312 (16%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSEL-VYHRLPWKEPDV----PYLLEVLYED 71
+ ++Q+ I+ I+V+ +++ + N ++ S++ + + P +P++ L+++Y+D
Sbjct: 30 RSYIQKLIKEECISVNNQIITNNNFLVKPNSQITITIKDPILDPNLVKNDEIDLDIIYQD 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DDL+ +NK + + V P T++N L + + SS++ + P VHR+ + T+G+
Sbjct: 90 DDLLVINKQNNITVHPSLNNTNNTIVNAL-LASDVELSSINGEL-RPGIVHRIDKQTTGL 147
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK ++ F + +I K Y A+V G++ +K +I P
Sbjct: 148 LIVAKNDKTHKLLSEMFKN----------------HQIYKEYLAIVTGVIKPNKGLIDAP 191
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R K + V + + K A++ +V+ER + TLV+ +IQ+GR HQIR+H ++
Sbjct: 192 IG--RSQTDRKKMSVTAKNSKQAITTFEVVERFFKN--TLVKCQIQTGRTHQIRVHFNYI 247
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HP+L DP+Y G + + F D G YLHAY+L +HP
Sbjct: 248 NHPVLNDPVY--GKKHQEF-----------------------TDFGQYLHAYKLKFTHPI 282
Query: 312 TNEVIKITAPLP 323
T + I++ +PLP
Sbjct: 283 TKKEIELISPLP 294
>gi|365858615|ref|ZP_09398538.1| putative ribosomal large subunit pseudouridine synthase D
[Acetobacteraceae bacterium AT-5844]
gi|363713926|gb|EHL97486.1| putative ribosomal large subunit pseudouridine synthase D
[Acetobacteraceae bacterium AT-5844]
Length = 343
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 101/313 (32%), Positives = 152/313 (48%), Gaps = 54/313 (17%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPW-------KEPDVPYLLEVLYEDDDLIA 76
I+ G +T G+V+ DP+ + G E YH P + D+P L VL+ED LI
Sbjct: 57 IEEGHVTRGGKVLTDPSEPVREGVE--YHVAPPPPVPATPQAQDIP--LTVLFEDRQLIV 112
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
L+KP+GL V P + T++N L A + + + + P VHRL + TSG+++ AK
Sbjct: 113 LDKPAGLVVHPAPGNEDGTLVNALLAHAGDELAGIGGE-KRPGIVHRLDKDTSGVMVVAK 171
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
T+ A ++ FA S+ + + Y AL G+ I+ PIG R
Sbjct: 172 TERAHQTLSATFA---------------SRENLERSYLALTWGVPTSLTGEIEAPIG--R 214
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
+P K + V + +GK AL++ ER C L++ + +GR HQIR+HL+ +GHP++
Sbjct: 215 HPTDRKRMAVVARNGKDALTRYST-ERAWGTACALIRCRLATGRTHQIRVHLSHIGHPIV 273
Query: 257 GDPLYV------AGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
GDP+Y+ A G P S A+D P LHA L HP
Sbjct: 274 GDPVYLKRIPAGARGLPTS----------ARDALLAFPRQ--------ALHAESLGFLHP 315
Query: 311 TTNEVIKITAPLP 323
T E ++ +APLP
Sbjct: 316 VTGEKLRFSAPLP 328
>gi|323486916|ref|ZP_08092232.1| pseudouridine synthase [Clostridium symbiosum WAL-14163]
gi|323399779|gb|EGA92161.1| pseudouridine synthase [Clostridium symbiosum WAL-14163]
Length = 305
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 87/263 (33%), Positives = 127/263 (48%), Gaps = 46/263 (17%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L++LYED+D+I +NKP G+ V P + T++N L +Q S ++ P VHR+
Sbjct: 79 LDILYEDEDVILINKPKGMVVHPAAGHYEGTLVNGLMHHCREQLSGING-VMRPGIVHRI 137
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
T+G+L+ K LA IA +L IT+ Y A+V G + +D
Sbjct: 138 DMDTTGVLIVCKNDLAHNSIAE----------------QLKVHSITRKYYAVVFGSLKDD 181
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ I PIG R+P K + + S +GK A++ VLER TLV+ +++GR HQI
Sbjct: 182 EGTIHAPIG--RHPNDRKKMSINSKNGKDAVTHYKVLER--FHGYTLVECRLETGRTHQI 237
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+A +GHPLLGD +Y QP G LHA
Sbjct: 238 RVHMASIGHPLLGDQVYGPAKQPFRLQ-------------------------GQTLHAGV 272
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T E ++ +APLP +
Sbjct: 273 LGFLHPRTGEYMEFSAPLPKYFE 295
>gi|406587502|ref|ZP_11062382.1| 23S rluA family pseudouridine synthase [Streptococcus sp. GMD1S]
gi|419813600|ref|ZP_14338413.1| 23S rluA family pseudouridine synthase [Streptococcus sp. GMD2S]
gi|419816963|ref|ZP_14341134.1| 23S rluA family pseudouridine synthase [Streptococcus sp. GMD4S]
gi|404466504|gb|EKA11836.1| 23S rluA family pseudouridine synthase [Streptococcus sp. GMD4S]
gi|404472711|gb|EKA17126.1| 23S rluA family pseudouridine synthase [Streptococcus sp. GMD2S]
gi|404473015|gb|EKA17386.1| 23S rluA family pseudouridine synthase [Streptococcus sp. GMD1S]
Length = 299
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 94/311 (30%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKAGQVLVNGQV-KKAKYTVQEGDIVTYHVPEPEVLEYVAEDIP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +L+++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFQVLER--FGDYSLLELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGETL 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|166031852|ref|ZP_02234681.1| hypothetical protein DORFOR_01553 [Dorea formicigenerans ATCC
27755]
gi|166028305|gb|EDR47062.1| pseudouridine synthase, RluA family [Dorea formicigenerans ATCC
27755]
Length = 302
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 86/270 (31%), Positives = 134/270 (49%), Gaps = 48/270 (17%)
Query: 57 KEPDVP---YLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
KEPD+ L++LYED+D+I +NKP + V P T++N L + + S ++
Sbjct: 67 KEPDIEPENIPLDILYEDEDVIVVNKPKQMVVHPAPGHYSGTLVNALMYHCGNELSGING 126
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
S P VHR+ T+G L+ K +A +A ++L + I +IY
Sbjct: 127 -TSRPGIVHRIDMDTTGSLIICKNDMAHQSLA----------------VQLEEHSINRIY 169
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + E++ + PIG R+P K + + + + + A++ VL+R + T +Q
Sbjct: 170 EAIVHGNIKEEEGTVNAPIG--RHPTDRKKMSIHAKNARNAITHYKVLKR--FGDYTYIQ 225
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
++++GR HQIR+H+A +GHPLLGD +Y PK P
Sbjct: 226 CKLETGRTHQIRVHMASIGHPLLGDQVY----GPKKC--------------------PFS 261
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLP 323
G LHA L HP TNE I++ APLP
Sbjct: 262 KLVGQTLHARTLGFIHPRTNEYIEVNAPLP 291
>gi|319947181|ref|ZP_08021415.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
australis ATCC 700641]
gi|417920275|ref|ZP_12563787.1| pseudouridine synthase, RluA family [Streptococcus australis ATCC
700641]
gi|319747229|gb|EFV99488.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
australis ATCC 700641]
gi|342829926|gb|EGU64267.1| pseudouridine synthase, RluA family [Streptococcus australis ATCC
700641]
Length = 296
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 97/319 (30%), Positives = 160/319 (50%), Gaps = 58/319 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I+ G+I V+G+V + G + Y + ++ D+P LE++Y+D D++
Sbjct: 29 EQIKEGKILVNGQV-KKAKYTVKEGDVISYEVPQMEEVTYEAEDIP--LEIVYQDADVVV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ + P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGINGELR-PGIVHRIDKDTSGLLMVAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A EL +K + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDAAHVALAD----------------ELKAKKSLRKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPAL++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SDKDRKKQAVTA-KGKPALTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y P + G G +LHA L +HP T EV+
Sbjct: 243 GDEVY-------------------------GPRRTLKGH-GQFLHAKTLGFTHPRTGEVM 276
Query: 317 KITAPLPSVL-KTREEGRE 334
+ + +P V KT E+ R+
Sbjct: 277 EFSVEVPEVFQKTLEQLRQ 295
>gi|315612946|ref|ZP_07887857.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis ATCC 49296]
gi|315315056|gb|EFU63097.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis ATCC 49296]
Length = 299
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 97/312 (31%), Positives = 158/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYL-----LEVLYEDDDLI 75
++I+ GQ+ V+G+V I+ G + YH +P EP+V Y+ LE++Y+D+D+
Sbjct: 29 EQIKAGQVLVNGQV-KKAKYIVQEGDIVAYH-VP--EPEVLEYVAENLPLEIIYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + +L+++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFQVLER--FGDYSLLELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T E
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGET 275
Query: 316 IKITAPLPSVLK 327
++ TA +P + K
Sbjct: 276 LEFTADIPEIFK 287
>gi|431071442|ref|ZP_19494413.1| RluA family pseudouridine synthase [Enterococcus faecium E1604]
gi|431104314|ref|ZP_19497038.1| RluA family pseudouridine synthase [Enterococcus faecium E1613]
gi|431582302|ref|ZP_19520251.1| RluA family pseudouridine synthase [Enterococcus faecium E1861]
gi|431740225|ref|ZP_19529142.1| RluA family pseudouridine synthase [Enterococcus faecium E2039]
gi|430567075|gb|ELB06161.1| RluA family pseudouridine synthase [Enterococcus faecium E1604]
gi|430569902|gb|ELB08881.1| RluA family pseudouridine synthase [Enterococcus faecium E1613]
gi|430594192|gb|ELB32162.1| RluA family pseudouridine synthase [Enterococcus faecium E1861]
gi|430603761|gb|ELB41274.1| RluA family pseudouridine synthase [Enterococcus faecium E2039]
Length = 303
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 88/263 (33%), Positives = 130/263 (49%), Gaps = 49/263 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L ++YED+D+ +NKP G+ V P T++N L + K S+++ P VHR+
Sbjct: 78 LTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHI-KDLSTING-VIRPGIVHRI 135
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A +A DKTS+ RK Y ALVHG + +
Sbjct: 136 DKDTSGLLMVAKNDQAHESLAKQLKDKTSL------------RK----YVALVHGEIPHE 179
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PIG + + + GKPA++ VLER TLV++++++GR HQI
Sbjct: 180 KGTINAPIGRSKE---NRKMQAIREDGKPAVTHFTVLER--FEGFTLVELKLETGRTHQI 234
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G+PL GDP+Y G K+ G +LHA
Sbjct: 235 RVHMKYIGYPLAGDPVY---GPKKTLKGN-----------------------GQFLHAQM 268
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L +HPTTNE + APLP V +
Sbjct: 269 LGFTHPTTNEKMVFEAPLPEVFE 291
>gi|323691964|ref|ZP_08106213.1| pseudouridine synthase [Clostridium symbiosum WAL-14673]
gi|355628019|ref|ZP_09049548.1| hypothetical protein HMPREF1020_03627 [Clostridium sp. 7_3_54FAA]
gi|323503973|gb|EGB19786.1| pseudouridine synthase [Clostridium symbiosum WAL-14673]
gi|354819987|gb|EHF04418.1| hypothetical protein HMPREF1020_03627 [Clostridium sp. 7_3_54FAA]
Length = 305
Score = 128 bits (322), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 87/263 (33%), Positives = 127/263 (48%), Gaps = 46/263 (17%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L++LYED+D+I +NKP G+ V P + T++N L +Q S ++ P VHR+
Sbjct: 79 LDILYEDEDVILINKPKGMVVHPAAGHYEGTLVNGLMHHCREQLSGING-VMRPGIVHRI 137
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
T+G+L+ K LA IA +L IT+ Y A+V G + +D
Sbjct: 138 DMDTTGVLIVCKNDLAHNSIAE----------------QLKVHSITRKYYAVVFGSLKDD 181
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ I PIG R+P K + + S +GK A++ VLER TLV+ +++GR HQI
Sbjct: 182 EGTIHAPIG--RHPNDRKKMSINSKNGKDAVTHYKVLER--FHGYTLVECRLETGRTHQI 237
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+A +GHPLLGD +Y QP G LHA
Sbjct: 238 RVHMASIGHPLLGDQVYGPAKQPFRLQ-------------------------GQTLHAGV 272
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T E ++ +APLP +
Sbjct: 273 LGFLHPRTGEYMEFSAPLPKYFE 295
>gi|312869892|ref|ZP_07730031.1| pseudouridine synthase, RluA family [Lactobacillus oris PB013-T2-3]
gi|417884854|ref|ZP_12529015.1| pseudouridine synthase, RluA family [Lactobacillus oris F0423]
gi|311094477|gb|EFQ52782.1| pseudouridine synthase, RluA family [Lactobacillus oris PB013-T2-3]
gi|341596810|gb|EGS39396.1| pseudouridine synthase, RluA family [Lactobacillus oris F0423]
Length = 304
Score = 128 bits (321), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 106/320 (33%), Positives = 152/320 (47%), Gaps = 69/320 (21%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL---------LEV 67
LQ W I +G + V+G+ V P L+ G ++V EP+ P L++
Sbjct: 33 LQKW---IVDGNVRVNGQPVK-PKYKLAVGDQVVI------EPEAPQKVDLTPEKIPLDI 82
Query: 68 LYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRG 127
+YEDDD+I +NKP G+ V P T++N L + + S+++ + P VHR+ +
Sbjct: 83 VYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHSP--LSTINGEFR-PGIVHRIDKD 139
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
TSG+L+ AK LA +A KT+ QR+ Y ALVHG++ +D
Sbjct: 140 TSGLLMVAKNDLAHRSLAAQLKAKTN------------QRE----YVALVHGVIKQDAGT 183
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
I PIG R K V S G+ A++ VL R R+ TLV +++GR HQIR+H
Sbjct: 184 IDAPIG--RSKKDRKKQAVVS-DGRHAVTHFKVLRR--FRHYTLVSCRLETGRTHQIRVH 238
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
+ +GHPL GDPLY P +PG G YLHA L
Sbjct: 239 MKSIGHPLAGDPLY-------------------------GPRKTLPG-RGQYLHARLLGF 272
Query: 308 SHPTTNEVIKITAPLPSVLK 327
HP T + + TAPLP +
Sbjct: 273 KHPRTGKDLVFTAPLPEYFQ 292
>gi|302386409|ref|YP_003822231.1| RluA family pseudouridine synthase [Clostridium saccharolyticum
WM1]
gi|302197037|gb|ADL04608.1| pseudouridine synthase, RluA family [Clostridium saccharolyticum
WM1]
Length = 304
Score = 128 bits (321), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 94/316 (29%), Positives = 151/316 (47%), Gaps = 55/316 (17%)
Query: 18 QGWLQRIQNGQ-ITVDGRVVNDPNIILSAGSELVYHRLPWKEP-----DVPYLLEVLYED 71
+ +LQ++ Q + V+ + V N ++AG + KEP D+P L ++YED
Sbjct: 29 RSYLQKLLKEQSVLVEEKPVKS-NYKVNAGDRISVFFPESKEPEIQPEDIP--LNIIYED 85
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
D+I +NKP G+ V P T++N L + S ++ P VHR+ T+G+
Sbjct: 86 KDIILINKPKGMVVHPAAGHYSGTLVNGLMSHCRSELSGING-VMRPGIVHRIDMDTTGV 144
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ K +A + I+ +L + IT+ Y A+VHG++ ED+ + P
Sbjct: 145 LIVCKNDMAHSSISE----------------QLKEHSITRKYAAIVHGVLKEDEGTVNAP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+P K + + +G+ A++ VLER Q T ++ ++++GR HQIR+H+A +
Sbjct: 189 IG--RHPVDRKKMSINEKNGREAVTHYRVLERFKQ--FTYIECQLETGRTHQIRVHMASI 244
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPLLGD +Y P G LHA L + HP
Sbjct: 245 GHPLLGDSVYGPSKCPFRL-------------------------TGQTLHAGILGIIHPR 279
Query: 312 TNEVIKITAPLPSVLK 327
T E ++ TAPLP +
Sbjct: 280 TGEYMEFTAPLPDYFE 295
>gi|306825452|ref|ZP_07458792.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp.
oral taxon 071 str. 73H25AP]
gi|304432390|gb|EFM35366.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp.
oral taxon 071 str. 73H25AP]
Length = 299
Score = 128 bits (321), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 155/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G+V + G + YH L + D+P L+++Y+D+D+
Sbjct: 29 EQIKAGQVLVNGQV-KKAKYTVQEGDIVTYHVPEPEVLEYVAEDIP--LDIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +L+++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFQVLER--FGDYSLLELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E++
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGEIL 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|289167775|ref|YP_003446044.1| 23S_rRNA pseudouridine synthase [Streptococcus mitis B6]
gi|288907342|emb|CBJ22179.1| 23S rRNA pseudouridine synthase [Streptococcus mitis B6]
Length = 295
Score = 128 bits (321), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 94/311 (30%), Positives = 155/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + ++P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAENIP--LEIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQDLKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGETL 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|398831174|ref|ZP_10589353.1| pseudouridine synthase, RluA family [Phyllobacterium sp. YR531]
gi|398212742|gb|EJM99344.1| pseudouridine synthase, RluA family [Phyllobacterium sp. YR531]
Length = 350
Score = 128 bits (321), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 96/314 (30%), Positives = 151/314 (48%), Gaps = 44/314 (14%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--------DVPYLLEVLYEDDDLI 75
I +GQ+T+DG+VV++ L G + + EP D+P L++LYED DL+
Sbjct: 52 ISSGQVTIDGKVVSETKHKLRDGMNI---EIIVPEPEDATPTGEDIP--LDILYEDTDLV 106
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP+GL V PG T++N L S + P VHRL + TSG+++ A
Sbjct: 107 VINKPAGLVVHPGNGNWTGTLVNALIHHCGDTLSGIGG-VKRPGIVHRLDKETSGVIVVA 165
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K LA ++ FAD D + + Y A+V G D I +G
Sbjct: 166 KNDLAHRHLSAQFADHGRTGD------------LERAYLAIVWGTPDRTTGTIDAHLGRS 213
Query: 196 RYPGVAKGL-YVASPSGKPALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIRIHLA 249
+ + + + A++ +VLER D +L++ ++++GR HQIR+H+
Sbjct: 214 HRDRTKQAIVHEEREDARHAVTHFEVLERFGAREDSTALASLIECQLETGRTHQIRVHMT 273
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
+GHPL+GD Y GG K+ ++F + + G++R LHA L H
Sbjct: 274 HIGHPLVGDMEY--GGAYKTKANKFDEPLQSIVKGFDRQA----------LHARLLAFEH 321
Query: 310 PTTNEVIKITAPLP 323
PTT E+++ APLP
Sbjct: 322 PTTGEIMRFEAPLP 335
>gi|422416786|ref|ZP_16493743.1| ribosomal large subunit pseudouridine synthase D, partial [Listeria
innocua FSL J1-023]
gi|313622709|gb|EFR93062.1| ribosomal large subunit pseudouridine synthase D [Listeria innocua
FSL J1-023]
Length = 288
Score = 128 bits (321), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 95/297 (31%), Positives = 147/297 (49%), Gaps = 59/297 (19%)
Query: 29 ITVDGRVVNDPNIILSAGSEL----VYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQ 84
+ ++ + ++D N L G+ L + H K P Y LE++YEDD L+ +NKP G++
Sbjct: 40 VLLNNKPLDDWNTPLFVGASLSLPIILHD---KIPVYEYDLEIIYEDDFLLVVNKPVGMK 96
Query: 85 VLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCI 144
++ T N +Q+ K + Q ++ + VHRL + TSG++L AK KLA I
Sbjct: 97 THANDSYETDTCANAVQYYLEK-----TGQEANALAVHRLDQTTSGLVLFAKNKLA---I 148
Query: 145 AGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGL 204
AG ++ R I + Y A V G I +PIG R+ G + +
Sbjct: 149 AGL-------------SWQMENRAIHRTYLAAVDGTWGLVMQKINKPIGEDRHHGSRRQI 195
Query: 205 YVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAG 264
SP G+PA++ V VLE D + N +LV+ +I++GR HQIR+HL+ +GHP++GD LY
Sbjct: 196 ---SPYGQPAVTHVKVLENDNENNTSLVECQIETGRTHQIRVHLSGIGHPIIGDTLY--- 249
Query: 265 GQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
GG R N + LHA +L L+HP + + +AP
Sbjct: 250 ------------------GGSSR-ANRI------MLHAEKLHLNHPFIGKEMNFSAP 281
>gi|229168633|ref|ZP_04296355.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH621]
gi|228614789|gb|EEK71892.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH621]
Length = 302
Score = 128 bits (321), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 98/314 (31%), Positives = 153/314 (48%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LEV YED D
Sbjct: 34 VQQW---IKDAVVTVNGKSVKG-NYKVKGNDEITVTIPEPEELDIQPEDMNLEVYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P + T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L ++ +T+ Y+A+VHG++ DK II PIG
Sbjct: 148 VAKNDMAH----------------ESLVNQLVEKTVTRRYKAIVHGVIPHDKGIIDAPIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L +HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFNHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIEFEAPIPEVFE 294
>gi|337748284|ref|YP_004642446.1| hypothetical protein KNP414_04043 [Paenibacillus mucilaginosus
KNP414]
gi|336299473|gb|AEI42576.1| YlyB [Paenibacillus mucilaginosus KNP414]
Length = 329
Score = 128 bits (321), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 109/325 (33%), Positives = 149/325 (45%), Gaps = 64/325 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYED 71
LQ W I++G +TV GR+V PN L G L L D+P L+V+YED
Sbjct: 57 LQQW---IKDGHVTVSGRIVK-PNYKLGEGDSLKLVVPEPQELELTAEDIP--LDVVYED 110
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
D+I +NKP G+ V P T++N L + S + P VHR+ + TSG+
Sbjct: 111 SDVIVVNKPRGMVVHPAPGHYSGTLVNALLYHCKDLSGI--NGIMRPGIVHRIDKDTSGL 168
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK LA + +L T+ Y ALVHG V + + P
Sbjct: 169 LMAAKNDLAHAGLT----------------EQLKAHSATRKYIALVHGNVPHENGTVDAP 212
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R P K V + K A++ VLER + TL+++++++GR HQIR+H+ F+
Sbjct: 213 IG--RDPKDRKLYTVTEKNSKHAVTHFIVLER--FGDYTLLELKLETGRTHQIRVHMKFI 268
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPL+GDP Y G KS +P D G LHA L HP
Sbjct: 269 GHPLVGDPQY---GPSKS--------------------KGIPMD-GQALHAAVLGFKHPR 304
Query: 312 TNEVIKITAPLP-------SVLKTR 329
T E + APLP VLK R
Sbjct: 305 TGEELLFEAPLPEDMNRLLEVLKMR 329
>gi|260771109|ref|ZP_05880036.1| ribosomal large subunit pseudouridine synthase D [Vibrio furnissii
CIP 102972]
gi|375130113|ref|YP_004992212.1| 23S rRNA pseudouridine synthase D/large subunit [Vibrio furnissii
NCTC 11218]
gi|260613706|gb|EEX38898.1| ribosomal large subunit pseudouridine synthase D [Vibrio furnissii
CIP 102972]
gi|315179286|gb|ADT86200.1| 23S rRNA pseudouridine synthase D/large subunit [Vibrio furnissii
NCTC 11218]
Length = 324
Score = 128 bits (321), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 104/315 (33%), Positives = 150/315 (47%), Gaps = 56/315 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL G++ V+G VV P + G + W+ D+P L ++YED
Sbjct: 36 LKEWLL---EGKVMVNGNVVTKPRTKVMGGEAITVQAELEDEQRWEAQDIP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP L V PG TVLN L + ++ VHRL + T+G+
Sbjct: 91 DDIIVINKPRDLVVHPGAGTPDGTVLNALLFHFPP-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V EL +R IT+ Y A+ G + +I K P
Sbjct: 146 MVVAKTVPAQTRL----------------VRELQKRNITREYEAIAIGKMTAGGMIDK-P 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GKPA++ V E R T +++ +++GR HQIR+H+A+L
Sbjct: 189 IG--RH-STKRTLMAVSPLGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMAYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ PK E D G++R LHA L
Sbjct: 244 QHPLLGDTAY--GGRARIPKGATQELTDMI----RGFDRQA----------LHAVMLRFE 287
Query: 309 HPTTNEVIKITAPLP 323
HP T E ++ AP+P
Sbjct: 288 HPITGEPLEFHAPVP 302
>gi|42519111|ref|NP_965041.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
johnsonii NCC 533]
gi|41583398|gb|AAS09007.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
johnsonii NCC 533]
Length = 304
Score = 128 bits (321), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 99/331 (29%), Positives = 161/331 (48%), Gaps = 68/331 (20%)
Query: 18 QGWLQRIQNGQITVDGR-----VVNDPNIILSAGSELVYHRLPWKE-------PDVPYLL 65
+G L ++ +IT R +VND NI+++ +E V +++ + P P L
Sbjct: 13 KGRLDKVIAEKITDLSRTKIKELVNDKNILVNNKAEKVSYKVQSGDVIDVTIPPVKPLSL 72
Query: 66 E-------VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
E ++YED D+I +NKP G+ V P T++N L + + S + P
Sbjct: 73 EAENLHLDIVYEDSDVIVVNKPQGMVVHPSAGHPDHTLVNGLLYHTRDLADS--PEGFRP 130
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHR+ + TSG+L+ AK A+ + A+K +++R+ Y A+VH
Sbjct: 131 GIVHRIDKDTSGLLMIAKNDKARESLEKQLAEK------------INKRE----YLAIVH 174
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G + +I PIG R P K + V +P GK A++ VLE+ +N +LV+ +++
Sbjct: 175 GNFEVKNGVINAPIG--RNPNNRKQMAV-NPKGKAAVTHFTVLEQ--FKNYSLVKCVLET 229
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+ ++GHPL GDPLY G K+ G
Sbjct: 230 GRTHQIRVHMKYIGHPLAGDPLY---GPKKTLSGH-----------------------GQ 263
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKTR 329
+LHA L P+TNE ++ +APLP++ + +
Sbjct: 264 FLHAKTLGFYQPSTNEWLEFSAPLPTIFEKQ 294
>gi|336421660|ref|ZP_08601816.1| hypothetical protein HMPREF0993_01193 [Lachnospiraceae bacterium
5_1_57FAA]
gi|336000131|gb|EGN30284.1| hypothetical protein HMPREF0993_01193 [Lachnospiraceae bacterium
5_1_57FAA]
Length = 304
Score = 128 bits (321), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 96/313 (30%), Positives = 151/313 (48%), Gaps = 50/313 (15%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+ ++Q+ I+ +TV+ + V N LS G + KEPD+ L++LYED D
Sbjct: 28 RSYIQKLIKENYVTVNQKPVK-ANYRLSLGDRVEIDLPEAKEPDIRPEDIPLDILYEDKD 86
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
+I +NKP + V P +T++N L + S ++ P VHR+ T+G L+
Sbjct: 87 IIIVNKPKQMVVHPAPGHYSQTLVNALMYHCGSDLSGINGTMR-PGIVHRIDMDTTGSLV 145
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
K +A ++ +L + I +IY A+VHG + E+ + PIG
Sbjct: 146 ACKNDMAHQSLS----------------RQLKEHSIRRIYVAIVHGNIKEEYGTVNAPIG 189
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P K + + S +G+ A++ VLER + T ++ E+++GR HQIR+H+A LGH
Sbjct: 190 --RHPTERKKMSIHSRNGREAVTHYQVLER--FGDYTYIRCELETGRTHQIRVHMASLGH 245
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PLLGD +Y PK P P G LHA L + HP T
Sbjct: 246 PLLGDGVY----GPKKC--------------------PFPHLQGQTLHARTLGIIHPRTG 281
Query: 314 EVIKITAPLPSVL 326
E +++ APLP+
Sbjct: 282 EYLEVNAPLPAYF 294
>gi|312881916|ref|ZP_07741679.1| 23S rRNA pseudouridine synthase D [Vibrio caribbenthicus ATCC
BAA-2122]
gi|309370434|gb|EFP97923.1| 23S rRNA pseudouridine synthase D [Vibrio caribbenthicus ATCC
BAA-2122]
Length = 325
Score = 128 bits (321), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 102/316 (32%), Positives = 150/316 (47%), Gaps = 56/316 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL +G++ VDG VV P + G +V H W+ D+P L+++YED
Sbjct: 36 LKDWLL---DGKVQVDGEVVTKPRTKVMGGEVIVLHAELEDEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP G V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 DDIIVINKPRGFVVHPGAGTPDGTVLNALLHHFPD-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R IT+ Y A+ G + + +QP
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRNITREYEAIAIGRMTAGGRV-EQP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L +P GKPA++ V E R T +++ +++GR HQIR+H+A+L
Sbjct: 189 IG--RH-STKRTLMAVAPLGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMAYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ P+ E A+ D LHA L
Sbjct: 244 QHPLLGDTAY--GGRARIPRGATPELAEKIRQFD--------------RQALHAVMLKFE 287
Query: 309 HPTTNEVIKITAPLPS 324
HP T E ++ AP+P
Sbjct: 288 HPITGEELEFHAPVPD 303
>gi|333904809|ref|YP_004478680.1| RNA pseudouridylate synthase [Streptococcus parauberis KCTC 11537]
gi|333120074|gb|AEF25008.1| RNA pseudouridylate synthase [Streptococcus parauberis KCTC 11537]
gi|456370694|gb|EMF49590.1| Ribosomal large subunit pseudouridine synthase D [Streptococcus
parauberis KRS-02109]
gi|457095660|gb|EMG26131.1| Ribosomal large subunit pseudouridine synthase D [Streptococcus
parauberis KRS-02083]
Length = 295
Score = 128 bits (321), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 92/274 (33%), Positives = 140/274 (51%), Gaps = 51/274 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L ++ D+P L+V+YED+DL +NKP G+ V P T++N L ++ K S ++
Sbjct: 65 LDYQAEDIP--LDVVYEDEDLAIINKPQGMVVHPSAGHSSGTMVNALLYQI-KDLSGING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AK A +A EL +K + Y
Sbjct: 122 -VVRPGIVHRIDKDTSGLLMVAKNDAAHQALAD----------------ELKAKKSLRKY 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ II+ PIG R K V + GK A+++ V+ER + TLV+
Sbjct: 165 LAIVHGNLPNDRGIIEAPIG--RSEKDRKKQAVIA-RGKEAVTRFQVIER--FGDYTLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+ +++GR HQIR+H+A++GHP+ GDPLY P +P
Sbjct: 220 LTLETGRTHQIRVHMAYIGHPVAGDPLY-------------------------GPRKTLP 254
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G+ G +LHA L L+HP T EV+ TA P + +
Sbjct: 255 GN-GQFLHAQTLGLTHPRTGEVMTFTAEPPLIFQ 287
>gi|329116866|ref|ZP_08245583.1| pseudouridine synthase, RluA family [Streptococcus parauberis NCFD
2020]
gi|326907271|gb|EGE54185.1| pseudouridine synthase, RluA family [Streptococcus parauberis NCFD
2020]
Length = 295
Score = 128 bits (321), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 92/274 (33%), Positives = 140/274 (51%), Gaps = 51/274 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L ++ D+P L+V+YED+DL +NKP G+ V P T++N L ++ K S ++
Sbjct: 65 LDYQAEDIP--LDVVYEDEDLAIINKPQGMVVHPSAGHSSGTMVNALLYQI-KDLSGING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AK A +A EL +K + Y
Sbjct: 122 -VVRPGIVHRIDKDTSGLLMVAKNDAAHRALAD----------------ELKAKKSLRKY 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ II+ PIG R K V + GK A+++ V+ER + TLV+
Sbjct: 165 LAIVHGNLPNDRGIIEAPIG--RSEKDRKKQAVIA-RGKEAVTRFQVIER--FGDYTLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+ +++GR HQIR+H+A++GHP+ GDPLY P +P
Sbjct: 220 LTLETGRTHQIRVHMAYIGHPVAGDPLY-------------------------GPRKTLP 254
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G+ G +LHA L L+HP T EV+ TA P + +
Sbjct: 255 GN-GQFLHAQTLGLTHPRTGEVMTFTAEPPLIFQ 287
>gi|309800529|ref|ZP_07694680.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
infantis SK1302]
gi|308115840|gb|EFO53365.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
infantis SK1302]
Length = 297
Score = 128 bits (321), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 94/311 (30%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + Y L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYQVPEPEVLEYVAEDIP--LEIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG
Sbjct: 144 NDDAHLALAQELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIGRSE 187
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
+ + V GKPA+++ VLER + TL+++++++GR HQIR+H+A++GHP+
Sbjct: 188 KDRKKQAVTV---KGKPAVTRFQVLER--FGDYTLLELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPKTGETM 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPDIFK 287
>gi|293377440|ref|ZP_06623642.1| pseudouridine synthase, RluA family [Enterococcus faecium PC4.1]
gi|292643958|gb|EFF62066.1| pseudouridine synthase, RluA family [Enterococcus faecium PC4.1]
Length = 305
Score = 128 bits (321), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 88/262 (33%), Positives = 129/262 (49%), Gaps = 49/262 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L ++YED+D+ +NKP G+ V P T++N L + K S+++ P VHR+
Sbjct: 78 LTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHV-KDLSTING-VIRPGIVHRI 135
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A +A DKTS+ RK Y ALVHG + +
Sbjct: 136 DKDTSGLLMVAKNDQAHESLAKQLKDKTSL------------RK----YVALVHGEIPHE 179
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PIG + + + GKPA++ VLER TLV++++++GR HQI
Sbjct: 180 KGTINAPIGRSKE---NRKMQAIREDGKPAVTHFTVLER--FEGFTLVELKLETGRTHQI 234
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G+PL GDP+Y G K+ G +LHA
Sbjct: 235 RVHMKYIGYPLAGDPVY---GPKKTLKGN-----------------------GQFLHAQM 268
Query: 305 LFLSHPTTNEVIKITAPLPSVL 326
L +HPTTNE + APLP V
Sbjct: 269 LGFTHPTTNEKMIFEAPLPEVF 290
>gi|366162122|ref|ZP_09461877.1| ribosomal large subunit pseudouridine synthase D [Acetivibrio
cellulolyticus CD2]
Length = 304
Score = 128 bits (321), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 99/327 (30%), Positives = 163/327 (49%), Gaps = 57/327 (17%)
Query: 18 QGWLQRIQN-GQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV----PYLLE--VLYE 70
+ ++Q++ N G + V+G +V N + + E+ ++P EP+V P +E VLYE
Sbjct: 28 RSYIQKLLNDGHVLVNGSLVK-SNYKIKSSDEITV-QIP--EPEVLDIVPENIEIPVLYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+ ++ +NKP G+ V P T++N L SS++ P VHR+ + TSG
Sbjct: 84 DEHVLVVNKPKGMVVHPAAGNYSGTLVNALMDYCGDSLSSING-VIRPGIVHRIDKDTSG 142
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK+ A ++ ++L I ++Y ALVHGI+ E+ I
Sbjct: 143 VLVVAKSNEAHEKLS----------------LKLKDHDINRVYVALVHGIIREESGKIDA 186
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R+P K + V + +G+ A++ VLER ++ TLV+V++++GR HQIR+H+++
Sbjct: 187 PIG--RHPVDRKKMAVNTNNGRRAVTYFKVLER--FKDATLVEVKLETGRTHQIRVHMSY 242
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+P++GD +Y G + +D G LHA L HP
Sbjct: 243 IGYPIIGDTVY--GKKKDKYDI-----------------------GGQALHAKTLGFVHP 277
Query: 311 TTNEVIKITAPLPSVLKTREEGREVDK 337
NE ++ A LP K E DK
Sbjct: 278 VKNEYMEFEAELPEYFKKLLEELRWDK 304
>gi|385825909|ref|YP_005862251.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
johnsonii DPC 6026]
gi|329667353|gb|AEB93301.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
johnsonii DPC 6026]
Length = 304
Score = 128 bits (321), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 99/331 (29%), Positives = 161/331 (48%), Gaps = 68/331 (20%)
Query: 18 QGWLQRIQNGQITVDGR-----VVNDPNIILSAGSELVYHRLPWKE-------PDVPYLL 65
+G L ++ +IT R +VND NI+++ +E V +++ + P P L
Sbjct: 13 KGRLDKVIAEKITDLSRTKIKELVNDKNILVNNKAEKVSYKVQSGDVIDVTIPPVKPLSL 72
Query: 66 E-------VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
E ++YED D+I +NKP G+ V P T++N L + + S + P
Sbjct: 73 EAENLHLDIVYEDSDVIVVNKPQGMVVHPSAGHPDHTLVNGLLYHTRDLADS--PEGFRP 130
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHR+ + TSG+L+ AK A+ + A+K +++R+ Y A+VH
Sbjct: 131 GIVHRIDKDTSGLLMIAKNDKARESLEKQLAEK------------INKRE----YLAIVH 174
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G + +I PIG R P K + V +P GK A++ VLE+ +N +LV+ +++
Sbjct: 175 GNFEVKNGVINAPIG--RNPNNRKQMAV-NPKGKAAVTHFTVLEQ--FKNYSLVKCVLET 229
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+ ++GHPL GDPLY G K+ G
Sbjct: 230 GRTHQIRVHMKYIGHPLAGDPLY---GPKKTLSGH-----------------------GQ 263
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKTR 329
+LHA L P+TNE ++ +APLP++ + +
Sbjct: 264 FLHAKTLGFYQPSTNEWLEFSAPLPTIFEKQ 294
>gi|418962916|ref|ZP_13514765.1| pseudouridine synthase, RluA family [Streptococcus anginosus subsp.
whileyi CCUG 39159]
gi|383344892|gb|EID23042.1| pseudouridine synthase, RluA family [Streptococcus anginosus subsp.
whileyi CCUG 39159]
Length = 298
Score = 128 bits (321), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 99/311 (31%), Positives = 156/311 (50%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I+NGQI V+G+V + AG + Y L + ++P L+++Y+D+D+
Sbjct: 29 EQIKNGQILVNGQV-KKAKYAVKAGDVITYELSEPEALEYVAENLP--LDIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NK G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKAQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHIKLAEELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T EV+
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPKTGEVM 276
Query: 317 KITAPLPSVLK 327
+ TA +P V +
Sbjct: 277 EFTAEVPIVFQ 287
>gi|223042001|ref|ZP_03612184.1| 23S rRNA pseudouridine synthase D [Actinobacillus minor 202]
gi|223017199|gb|EEF15628.1| 23S rRNA pseudouridine synthase D [Actinobacillus minor 202]
Length = 325
Score = 128 bits (321), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 99/313 (31%), Positives = 156/313 (49%), Gaps = 50/313 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYED 71
L+ W I+N Q+ V+G++VN + G + V + ++ ++P L ++YED
Sbjct: 36 LKVW---IENDQVWVNGKIVNKAREKVFGGELIEIQAEVEEEVRFEPQNIP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP L V PG TVLN L + + + VHRL + T+G+
Sbjct: 91 DDIIVINKPKDLVVHPGAGNPDGTVLNALLYHYPPIAEVPRAGI-----VHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AK A+T + V L +R+IT+ Y A+ GI+ + + +P
Sbjct: 146 MVVAKNIPAQTHL----------------VTALQKRRITREYEAIASGIMTQGGKV-DEP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
+ R+P + V P GKPA++ ++ER RN T +++ +++GR HQIR+H+A +
Sbjct: 189 MA--RHPTKRTAMAV-HPMGKPAVTHYRIMER--FRNYTRLRLRLETGRTHQIRVHMAHI 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD LY GG P+ G E + + G LHA L L HP
Sbjct: 244 AHPLLGDQLY--GGXPRP-----------PKGASEEFLTVLRGFQRQALHATMLRLEHPI 290
Query: 312 TNEVIKITAPLPS 324
T E+++ APLP
Sbjct: 291 TGELMEWHAPLPD 303
>gi|381182085|ref|ZP_09890907.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
protein [Listeriaceae bacterium TTU M1-001]
gi|380318001|gb|EIA21298.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
protein [Listeriaceae bacterium TTU M1-001]
Length = 306
Score = 128 bits (321), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 96/309 (31%), Positives = 144/309 (46%), Gaps = 57/309 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIALN 78
+++G I V+ V N + G + Y L + D+P L++ YED D++ +N
Sbjct: 36 LKSGDILVNNESVK-ANYKVQTGDTITYQIREVTELVAEAEDIP--LDIYYEDKDVLVVN 92
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + Q S + P VHR+ + TSG+L+ AK
Sbjct: 93 KPQGMVVHPAAGHMSGTLVNALLYHC--QDLSGINGVIRPGIVHRIDKDTSGLLMVAKND 150
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A ++ DKTS +IY ALVHG + K I+ PIG R
Sbjct: 151 AAHVSLSSQLKDKTS----------------DRIYLALVHGDIKHQKGTIEAPIG--RAK 192
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K + V + GK A + +V+ER + TL++ ++ +GR HQIR+HL ++GHPL D
Sbjct: 193 EDRKKMAVVA-DGKEARTHFEVVER--FGDYTLIKCQLDTGRTHQIRVHLKYIGHPLAAD 249
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y P N + G G +LHA +L HPTT E +
Sbjct: 250 PKY-------------------------GPKNTLNGH-GQFLHASELGFEHPTTGERLHF 283
Query: 319 TAPLPSVLK 327
APLP++ +
Sbjct: 284 EAPLPNIFE 292
>gi|421074245|ref|ZP_15535285.1| pseudouridine synthase, RluA family [Pelosinus fermentans JBW45]
gi|392527751|gb|EIW50837.1| pseudouridine synthase, RluA family [Pelosinus fermentans JBW45]
Length = 310
Score = 127 bits (320), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 84/259 (32%), Positives = 128/259 (49%), Gaps = 47/259 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L +LYED+D+I +NK G+ V P T++N L S + + P VHRL
Sbjct: 82 LAILYEDNDIIIINKSRGMVVHPAAGNYNGTLVNALLEHCEDLSGI--NGVARPGIVHRL 139
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+++ AK+ A +A D+T+ ++ Y A+V+G + ED
Sbjct: 140 DKDTSGVMVVAKSDRAHVSLAKQIKDRTA----------------SRRYLAIVYGNIKED 183
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+IK PIG R+P K + V + K A +K V+ER + TLV+ ++ +GR HQI
Sbjct: 184 HGVIKAPIG--RHPSDRKKMSVTFTNSKEATTKFRVMER--FGDYTLVECKLLTGRTHQI 239
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++GH ++GDP Y G P S G LH+ +
Sbjct: 240 RVHMTYIGHSVVGDPKYGPGRMPFSI-------------------------IGQALHSAE 274
Query: 305 LFLSHPTTNEVIKITAPLP 323
L +SHP T E++ TAPLP
Sbjct: 275 LRISHPVTEEIMIFTAPLP 293
>gi|332522697|ref|ZP_08398949.1| pseudouridine synthase, RluA family [Streptococcus porcinus str.
Jelinkova 176]
gi|332313961|gb|EGJ26946.1| pseudouridine synthase, RluA family [Streptococcus porcinus str.
Jelinkova 176]
Length = 299
Score = 127 bits (320), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 97/313 (30%), Positives = 157/313 (50%), Gaps = 58/313 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ G + V+G+VV + +G E+ Y L +K ++P ++++YED DL
Sbjct: 29 EQIKKGLVLVNGQVVK-AKYSVKSGDEITYQLPEEEILDYKAENLP--IDIIYEDSDLAI 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NK G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKAQGMVVHPSAGHSSGTLVNALMYHI-KDLSSING-VVRPGIVHRIDKDTSGLLMVAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A EL +K + Y A+VHG + D+ +I+ PIG
Sbjct: 144 NDKAHQVLA----------------EELKAKKSLRKYLAIVHGNLPNDRGMIEAPIGRSE 187
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
+ + V GK A+++ VLER + TL+++ +++GR HQIR+H+A++GHP+
Sbjct: 188 KDRKKQSVTV---KGKDAVTRFTVLER--FGDYTLLELSLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDPLY G K+ G +LHA L L+HPT+ E++
Sbjct: 243 GDPLY---GPRKTLKG-----------------------AGQFLHAQTLGLTHPTSGELM 276
Query: 317 KITAPLPSV-LKT 328
TA P++ LKT
Sbjct: 277 TFTAEPPAIFLKT 289
>gi|417794337|ref|ZP_12441595.1| pseudouridine synthase, RluA family [Streptococcus oralis SK255]
gi|334270181|gb|EGL88588.1| pseudouridine synthase, RluA family [Streptococcus oralis SK255]
Length = 299
Score = 127 bits (320), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 94/311 (30%), Positives = 153/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G+ + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKAGQVLVNGQA-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDLP--LEIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGETL 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|399052196|ref|ZP_10741761.1| pseudouridine synthase, RluA family [Brevibacillus sp. CF112]
gi|433545647|ref|ZP_20501997.1| pseudouridine synthase [Brevibacillus agri BAB-2500]
gi|398050062|gb|EJL42452.1| pseudouridine synthase, RluA family [Brevibacillus sp. CF112]
gi|432183045|gb|ELK40596.1| pseudouridine synthase [Brevibacillus agri BAB-2500]
Length = 309
Score = 127 bits (320), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 99/313 (31%), Positives = 151/313 (48%), Gaps = 55/313 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I+ G++TV+G + N L A E+ P KE + P LE++YED D
Sbjct: 39 VQAW---IKEGRVTVNGEPIKS-NYKLQAEDEVTLRVPPPKEMAIKPEPMPLEIVYEDSD 94
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP GL V P T++N L A + S + P VHR+ + TSG+L+
Sbjct: 95 VVVVNKPRGLVVHPAPGHYSGTLVNGL--LAHCKDLSGINGVLRPGIVHRIDKDTSGLLM 152
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK A +A +L + +T+ Y A+VHG++ + I PIG
Sbjct: 153 VAKNDKAHVGLAE----------------QLKEHSVTRTYVAIVHGVIPHEMGTIDAPIG 196
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R P + + V + KPA++ VLER + TLV++++++GR HQIR+H+ ++G+
Sbjct: 197 --RDPKNRQQMAVVFENSKPAVTHFIVLER--FKEYTLVELKLETGRTHQIRVHMKYIGY 252
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y P N + D G LHA L +HP T
Sbjct: 253 PLAGDPKY-------------------------GPKNTLEID-GQALHAKTLGFTHPRTQ 286
Query: 314 EVIKITAPLPSVL 326
E ++ AP+P L
Sbjct: 287 ERLEFEAPMPKDL 299
>gi|357238999|ref|ZP_09126335.1| pseudouridine synthase, RluA family [Streptococcus ictaluri 707-05]
gi|356752721|gb|EHI69846.1| pseudouridine synthase, RluA family [Streptococcus ictaluri 707-05]
Length = 299
Score = 127 bits (320), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 99/322 (30%), Positives = 158/322 (49%), Gaps = 58/322 (18%)
Query: 23 RIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIAL 77
+I+ G + V+G+ + G ++ Y L +K D+P L+++YEDD L +
Sbjct: 30 QIKQGLVLVNGQA-KKAKYTVQLGDKITYQIPQEEVLEYKAEDIP--LDIIYEDDALAIV 86
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AKT
Sbjct: 87 NKPQGMVVHPSAGHASGTMVNALMYHI-KNLSSING-VVRPGIVHRIDKDTSGLLMVAKT 144
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A EL +K + Y A+VHG + D+ +I+ PIG
Sbjct: 145 DKAHHHLA----------------EELKAKKSLRKYLAIVHGNLPNDRGVIEAPIGRSEK 188
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + V GK AL++ VLER + TL+++++++GR HQIR+H+A++GHP+ G
Sbjct: 189 DRKKQAVTV---KGKEALTRFTVLER--FGDYTLLELQLETGRTHQIRVHMAYIGHPIAG 243
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DPLY G K+ + G +LHA L L+HP + E ++
Sbjct: 244 DPLY---GPRKTLKGQ-----------------------GQFLHAQTLGLTHPDSGEELR 277
Query: 318 ITAPLPSVL-KTREEGREVDKS 338
T P + KT R+ +KS
Sbjct: 278 FTVEAPQLFQKTLARLRQDNKS 299
>gi|307709119|ref|ZP_07645578.1| pseudouridine synthase, RluA family protein [Streptococcus mitis
SK564]
gi|307620065|gb|EFN99182.1| pseudouridine synthase, RluA family protein [Streptococcus mitis
SK564]
Length = 295
Score = 127 bits (320), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 96/311 (30%), Positives = 155/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+ +V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNDQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDIP--LEIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGETL 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|433449188|ref|ZP_20412052.1| 23S rRNA-specific pseudouridylate synthase [Weissella ceti NC36]
gi|429538702|gb|ELA06740.1| 23S rRNA-specific pseudouridylate synthase [Weissella ceti NC36]
Length = 304
Score = 127 bits (320), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 99/316 (31%), Positives = 149/316 (47%), Gaps = 62/316 (19%)
Query: 21 LQRIQNGQITVDGRV-VNDPN----IILSAGSELVYH-----RLPWKEPDVPYLLEVLYE 70
L R Q G + DG + VN N + G E+V L K ++P LE++YE
Sbjct: 26 LTRSQVGTLNTDGNILVNGENKKQKYSVKPGDEIVVTIPEPVELDVKPENIP--LEIVYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
DDD+I +NKP G+ V P T++N L + + S + P VHR+ + TSG
Sbjct: 84 DDDVIVVNKPQGMVVHPALGHPSGTLVNALMYHTTLSSIN---GVIRPGIVHRIDKDTSG 140
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A ++ DK ++ + Y ALVHG E+ IK
Sbjct: 141 LLMVAKNDAAHENLSAQLKDKKNL----------------RQYYALVHGEFVENTGTIKA 184
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + +G+ G+ A+S +V+ER V TL++V +++GR HQIR+H+ +
Sbjct: 185 PIGRSKADRKKQGIVA---DGREAVSHFEVVERFV--GYTLLKVNLETGRTHQIRVHMQY 239
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHP+ GDPLY G K+ G +LHA L L+ P
Sbjct: 240 IGHPVAGDPLY---GPSKTLKGN-----------------------GQFLHAATLGLTQP 273
Query: 311 TTNEVIKITAPLPSVL 326
TT E ++ + P+P V
Sbjct: 274 TTGEELEFSVPVPEVF 289
>gi|421488498|ref|ZP_15935886.1| pseudouridine synthase, RluA family [Streptococcus oralis SK304]
gi|400367715|gb|EJP20730.1| pseudouridine synthase, RluA family [Streptococcus oralis SK304]
Length = 299
Score = 127 bits (320), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 92/311 (29%), Positives = 155/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G+ + G + YH L + D+P L+++Y+D+D++
Sbjct: 29 EQIKAGQVLVNGQA-KKAKYTVQEGDIVTYHVPEPEVLEYVAEDIP--LDIIYQDEDVVV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +L+++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLLELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ + G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGQ-----------------------GQFLHAKTLGFTHPRTGETL 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|357639813|ref|ZP_09137686.1| pseudouridine synthase, RluA family [Streptococcus urinalis
2285-97]
gi|418416276|ref|ZP_12989475.1| RluA family pseudouridine synthase [Streptococcus urinalis
FB127-CNA-2]
gi|357588267|gb|EHJ57675.1| pseudouridine synthase, RluA family [Streptococcus urinalis
2285-97]
gi|410874094|gb|EKS22025.1| RluA family pseudouridine synthase [Streptococcus urinalis
FB127-CNA-2]
Length = 300
Score = 127 bits (320), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 98/312 (31%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLI 75
+ I+ GQ+ VDG++ I ++ +++V LP +E ++P LE++YED D+
Sbjct: 29 EMIKKGQVLVDGQLKKAKYI--TSKNQIVEFELPEEESLDYEAEEMP--LELIYEDSDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P + T++N L + K SS++ P VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSAGYSSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL +K + Y A+VHG + D +I+ PIG
Sbjct: 143 KNNEAHHALA----------------QELKAKKSLRKYIAIVHGNLPNDLGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V S GK AL++ VLER + TLV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTS-KGKDALTRFKVLER--FGDYTLVELSLETGRTHQIRVHMAYIGHPI 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G+ G +LHA L +HP + E+
Sbjct: 242 AGDPLY-------------------------GPRKTLKGN-GQFLHAETLGFTHPISQEL 275
Query: 316 IKITAPLPSVLK 327
+ + P + K
Sbjct: 276 MTFSVEPPQIFK 287
>gi|365904068|ref|ZP_09441827.1| pseudouridine synthase [Lactobacillus versmoldensis KCTC 3814]
Length = 297
Score = 127 bits (320), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 86/310 (27%), Positives = 154/310 (49%), Gaps = 60/310 (19%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I++ +ITV+ +V+ L G E+ + +P ++P D+P L+++YEDDD++ +
Sbjct: 34 IKDSEITVNNQVITKTGYKLVNGDEVSF-TIPAEKPIEAIPQDIP--LDIVYEDDDVLVV 90
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P + T++N + + + L P VHR+ + TSG+L+ AK
Sbjct: 91 NKPQGMVVHPAAGHRDGTLVNAILYHSKINDDDLIR----PGIVHRIDKDTSGLLMVAKN 146
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
LAK + +K+++ + Y A+VHG E K II P+G +
Sbjct: 147 NLAKQSLMNQLKEKSNL----------------REYVAIVHGNFKERKGIINAPLGRAKN 190
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + G+ A++ +V+E+ +LV++++++GR HQIR+H+ ++GHP+ G
Sbjct: 191 NRKKQAIV---DDGRKAVTHFEVIEQ--FEGYSLVKLKLETGRTHQIRVHMQYIGHPVAG 245
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DPLY P + +PG+ G +LHA L HP T+E ++
Sbjct: 246 DPLY-------------------------GPKHTLPGN-GQFLHAETLGFEHPRTHEWLE 279
Query: 318 ITAPLPSVLK 327
+ P + +
Sbjct: 280 FSVDSPKIFQ 289
>gi|319939285|ref|ZP_08013648.1| pseudouridine synthase [Streptococcus anginosus 1_2_62CV]
gi|319811681|gb|EFW07957.1| pseudouridine synthase [Streptococcus anginosus 1_2_62CV]
Length = 298
Score = 127 bits (320), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 98/311 (31%), Positives = 156/311 (50%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I+NGQI V+G+V + AG + Y L + ++P L+++Y+D+D+
Sbjct: 29 EQIKNGQILVNGQV-KKAKYAVKAGDVITYELPEPEALEYVAENLP--LDIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NK G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKAQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHIKLAEELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T EV+
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPKTAEVM 276
Query: 317 KITAPLPSVLK 327
+ TA P++ +
Sbjct: 277 EFTAEAPAIFQ 287
>gi|67459733|ref|YP_247357.1| ribosomal large subunit pseudouridine synthase D [Rickettsia felis
URRWXCal2]
gi|67005266|gb|AAY62192.1| Ribosomal large subunit pseudouridine synthases, RluD subfamily
[Rickettsia felis URRWXCal2]
Length = 385
Score = 127 bits (320), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 85/306 (27%), Positives = 156/306 (50%), Gaps = 42/306 (13%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD------VPYLLEVLYEDDDLIAL 77
I+N Q+ V+ +++DP++++ +++ +KEP+ L+++YEDDDLI +
Sbjct: 77 IKNSQVLVNDVIISDPDVLVKENDVILF---SFKEPEELKIAAANIALDIIYEDDDLIVI 133
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK +G+ V PG T++N L + +K S + S A P VHRL + T+G+++ AK
Sbjct: 134 NKAAGMTVHPGAGHHDDTLVNALLYH-TKNLSDIGS-AERPGIVHRLDKDTTGLMVVAKN 191
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ QR++ + Y+ALV G+++ + +IK IG R
Sbjct: 192 NKAHMLLAN----------------QIEQRQVIRKYKALVWGVINPLEGVIKNNIGRSRV 235
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + + GK A++ LE + ++V+ ++ +GR HQIR+ L+ L H ++G
Sbjct: 236 D--RQKMTILKYGGKEAVTHYKTLELFHKGTISMVECKLSTGRTHQIRVQLSHLKHSVVG 293
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
D Y G + + A+ ++R LH++ L +HPT+NE++K
Sbjct: 294 DQTY--GNNDRKIAHSLPELK-AKLIDFKRQA----------LHSWYLSFTHPTSNEIMK 340
Query: 318 ITAPLP 323
+ LP
Sbjct: 341 FSCELP 346
>gi|291550385|emb|CBL26647.1| ribosomal large subunit pseudouridine synthase D [Ruminococcus
torques L2-14]
Length = 304
Score = 127 bits (320), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 88/294 (29%), Positives = 141/294 (47%), Gaps = 55/294 (18%)
Query: 40 NIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQ 93
N L+ G ++ ++P EP ++P L++LYEDDD++ +NKP G+ V P
Sbjct: 50 NYKLTTGDTIIL-QIPDPEPLDIQPENIP--LDILYEDDDILVVNKPKGMVVHPAPGHYS 106
Query: 94 RTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTS 153
T++N + + + S ++ P VHR+ T+G LL K A +A
Sbjct: 107 HTLVNAVLYHCGENLSGING-VIRPGIVHRIDMNTTGSLLICKNDKAHQILA-------- 157
Query: 154 VIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKP 213
+L + IT+ Y ++VHG + ED + PIG R+P K + +P+G+
Sbjct: 158 --------EQLKEHSITRKYHSIVHGNLKEDTGTVNAPIG--RHPTDRKKMSTKAPNGRH 207
Query: 214 ALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSE 273
A++ VLER N T ++ ++++GR HQIR+H++ +GHP+LGD +Y P
Sbjct: 208 AVTHYRVLER--FGNFTYIECQLETGRTHQIRVHMSSIGHPILGDEIYGPAKCPYKLQ-- 263
Query: 274 FADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G LHA L ++HP+T E I+ APLP K
Sbjct: 264 -----------------------GQTLHAKILGITHPSTGEYIEFDAPLPEYFK 294
>gi|167758164|ref|ZP_02430291.1| hypothetical protein CLOSCI_00502 [Clostridium scindens ATCC 35704]
gi|167664061|gb|EDS08191.1| pseudouridine synthase, RluA family [Clostridium scindens ATCC
35704]
Length = 304
Score = 127 bits (320), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 96/313 (30%), Positives = 151/313 (48%), Gaps = 50/313 (15%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+ ++Q+ I+ +TV+ + V N LS G + KEPD+ L++LYED D
Sbjct: 28 RSYIQKLIKENYVTVNQKPVK-ANYRLSLGDRVEIDLPEAKEPDIRPEDIPLDILYEDKD 86
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
+I +NKP + V P +T++N L + S ++ P VHR+ T+G L+
Sbjct: 87 IIIVNKPKQMVVHPAPGHYSQTLVNALMYHCGSDLSGINGTMR-PGIVHRIDMDTTGSLV 145
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
K +A ++ +L + I +IY A+VHG + E+ + PIG
Sbjct: 146 ACKNDMAHQSLS----------------RQLKEHSIRRIYVAIVHGNIKEEYGTVNAPIG 189
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P K + + S +G+ A++ VLER + T ++ E+++GR HQIR+H+A LGH
Sbjct: 190 --RHPTERKKMSIHSRNGREAVTHYQVLER--FGDYTYIRCELETGRTHQIRVHMASLGH 245
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PLLGD +Y PK P P G LHA L + HP T
Sbjct: 246 PLLGDGVY----GPKKC--------------------PFPPLQGQTLHARTLGIIHPRTG 281
Query: 314 EVIKITAPLPSVL 326
E +++ APLP+
Sbjct: 282 EYLEVNAPLPAYF 294
>gi|157150916|ref|YP_001450379.1| RluA family pseudouridine synthase [Streptococcus gordonii str.
Challis substr. CH1]
gi|157075710|gb|ABV10393.1| pseudouridine synthase, RluA family [Streptococcus gordonii str.
Challis substr. CH1]
Length = 296
Score = 127 bits (320), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 160/311 (51%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL-----LEVLYEDDDLIA 76
++I+ G+I V+G +V + G +++ + LP E ++ Y+ LE++Y+D+D+
Sbjct: 29 EQIKTGKILVNG-LVKKAKYTVKEG-DVISYELPEIE-EIEYVTENIPLEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDQAHVALADELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPAL++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPALTRFQVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T EV+
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEVL 276
Query: 317 KITAPLPSVLK 327
+ TA +P++ +
Sbjct: 277 EFTAGVPAIFQ 287
>gi|332981610|ref|YP_004463051.1| ribosomal large subunit pseudouridine synthase D [Mahella
australiensis 50-1 BON]
gi|332699288|gb|AEE96229.1| ribosomal large subunit pseudouridine synthase D [Mahella
australiensis 50-1 BON]
Length = 304
Score = 127 bits (320), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 99/307 (32%), Positives = 151/307 (49%), Gaps = 58/307 (18%)
Query: 24 IQNGQITVDGRVVN------DPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIAL 77
I+NG ITV+G+ + D +II EL + + D+P L +LYED+D+I +
Sbjct: 37 IKNGNITVNGQHIKSGYKLKDGDIIKVEVPEL--RPIDIQPEDIP--LNILYEDEDIIVI 92
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L K S ++ + P VHR+ + TSG+L+ AK
Sbjct: 93 NKPQGMVVHPAAGNYSATLVNAL-LAHCKDLSGINGEIR-PGIVHRIDKDTSGVLVVAKN 150
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+A +A +KT++ RK Y AL+ G + ED +I PI R+
Sbjct: 151 DMAHVALAQQIKEKTAI------------RK----YVALLEGDIKEDTGVINAPIA--RH 192
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P K + V S G+ A++ VLER + TL++ +++GR HQIR+H+A++GHP++G
Sbjct: 193 PTDRKKMAVVS-GGRSAVTHFKVLERFGR--YTLIEARLETGRTHQIRVHMAYIGHPVVG 249
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP+Y GY + + G LHA L HP T ++
Sbjct: 250 DPVY----------------------GYRKQAFALKGQL---LHAQYLGFVHPRTGRYME 284
Query: 318 ITAPLPS 324
APLP
Sbjct: 285 FCAPLPD 291
>gi|313665289|ref|YP_004047160.1| RluA family pseudouridine synthase [Mycoplasma leachii PG50]
gi|392388723|ref|YP_005907132.1| pseudouridine synthase [Mycoplasma leachii 99/014/6]
gi|312949430|gb|ADR24026.1| pseudouridine synthase, RluA family [Mycoplasma leachii PG50]
gi|339276368|emb|CBV66947.1| Pseudouridine synthase [Mycoplasma leachii 99/014/6]
Length = 310
Score = 127 bits (319), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 89/315 (28%), Positives = 160/315 (50%), Gaps = 59/315 (18%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--DVPYL------LEVL 68
+ ++Q+ I+ I+V+ +++ + N ++ SE+V + K+P D + L+++
Sbjct: 30 RSYIQKLIKEKCISVNDQIIINNNFLVKPNSEIV---ITIKDPILDTNLVKNKDIDLDII 86
Query: 69 YEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGT 128
Y+DDDL+ +NK + + V P T++N L + + SS++ + P VHR+ + T
Sbjct: 87 YQDDDLLVINKQNNITVHPSLNNTNNTIVNAL-LASDVELSSINGEL-RPGIVHRIDKQT 144
Query: 129 SGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVII 188
+G+L+ AK ++ F +I K Y A+V G++ +K +I
Sbjct: 145 TGLLIIAKNDKTHKLLSEMFK----------------SHRIYKEYLAIVTGVIKPNKGLI 188
Query: 189 KQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHL 248
PIG R K + V + + K A++ +++ER ++ TLV+ +IQ+GR HQIR+H
Sbjct: 189 DAPIG--RSQTDRKKMSVTAKNSKQAITTFELVERFLKN--TLVKCQIQTGRTHQIRVHF 244
Query: 249 AFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
++ HP+L DP+Y G + + F D G YLHAY+L +
Sbjct: 245 NYINHPVLNDPVY--GKKHQEF-----------------------TDFGQYLHAYKLKFT 279
Query: 309 HPTTNEVIKITAPLP 323
HP T + I++ +PLP
Sbjct: 280 HPITKKEIELISPLP 294
>gi|331091117|ref|ZP_08339959.1| hypothetical protein HMPREF9477_00602 [Lachnospiraceae bacterium
2_1_46FAA]
gi|330405339|gb|EGG84875.1| hypothetical protein HMPREF9477_00602 [Lachnospiraceae bacterium
2_1_46FAA]
Length = 307
Score = 127 bits (319), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 99/324 (30%), Positives = 157/324 (48%), Gaps = 55/324 (16%)
Query: 6 FYSTKHKNSAPLQGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLP-WKEPDV-- 61
F S K N + + ++Q+ I+ +I+V+G V N +SA +++V +P EPD+
Sbjct: 20 FLSKKMDNVS--RSYIQKLIKEKEISVNGMAVK-ANYKVSA-NDIVQLTIPDLSEPDILP 75
Query: 62 -PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP 120
L++LYED D++ +NKP G+ V P T++N L + S ++ P
Sbjct: 76 ENIPLDILYEDADILIVNKPKGMVVHPSPSHYTGTLVNALMYYCKDDLSGING-VMRPGI 134
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
VHR+ T+G LL K A +A +L I +IY A+VHG+
Sbjct: 135 VHRIDMDTTGSLLVCKNDFAHQKLAE----------------DLKVHNIKRIYHAIVHGV 178
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
+ ED+ ++ PIG R+P K + + +GKPA++ VL+R N T ++ ++++GR
Sbjct: 179 IKEDEGTVEGPIG--RHPIDRKKMSINYKNGKPAVTHYRVLKR--FSNYTYIECQLETGR 234
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYL 300
HQIR+H+A + H L+GD +Y P G L
Sbjct: 235 THQIRVHMASIHHALVGDTVYGPAKSPFHLQ-------------------------GQTL 269
Query: 301 HAYQLFLSHPTTNEVIKITAPLPS 324
HA L + HP TNE ++I APLP
Sbjct: 270 HAKILGIHHPRTNEYLEIDAPLPE 293
>gi|419767492|ref|ZP_14293645.1| pseudouridine synthase, RluA family [Streptococcus mitis SK579]
gi|383353035|gb|EID30662.1| pseudouridine synthase, RluA family [Streptococcus mitis SK579]
Length = 296
Score = 127 bits (319), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 99/312 (31%), Positives = 160/312 (51%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYL-----LEVLYEDDDLI 75
++I++GQ+ V+G+V + G + YH +P EP+V Y+ LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYH-VP--EPEVLEYVAENLPLEIIYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ RK Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDEAHLALAQELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFYVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T E+
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGEI 275
Query: 316 IKITAPLPSVLK 327
++ TA +P + K
Sbjct: 276 LEFTADIPELFK 287
>gi|22537512|ref|NP_688363.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
agalactiae 2603V/R]
gi|76797703|ref|ZP_00779971.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Streptococcus agalactiae 18RS21]
gi|77414617|ref|ZP_00790757.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Streptococcus agalactiae 515]
gi|22534392|gb|AAN00236.1|AE014254_16 ribosomal large subunit pseudouridine synthase, RluD subfamily
[Streptococcus agalactiae 2603V/R]
gi|76586927|gb|EAO63417.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Streptococcus agalactiae 18RS21]
gi|77159330|gb|EAO70501.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Streptococcus agalactiae 515]
Length = 296
Score = 127 bits (319), Expect = 8e-27, Method: Compositional matrix adjust.
Identities = 96/315 (30%), Positives = 155/315 (49%), Gaps = 57/315 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIA 76
+ I+ G + V+G+V + G + + L ++ ++P L+++Y+DDD+
Sbjct: 29 EEIKKGIVLVNGQV-KKAKYTVQEGDRITFDIPKEEVLDYQAENIP--LDIIYQDDDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHSSGTLVNALMYHI-KDLSSING-VVRPGIVHRIDKDTSGLLMVAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDRAHQVLAEELKDKKSL------------RK----YLAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + TLV++ +++GR HQIR+H+A++GHPL
Sbjct: 186 SDKDRKKQAVTA-KGKPAITRFHVLER--FGDYTLVELSLETGRTHQIRVHMAYIGHPLA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDP+Y G K+ G G +LHA L +HP+ E +
Sbjct: 243 GDPVY---GPRKTL-----------------------GGKGQFLHAQTLGFTHPSNGENL 276
Query: 317 KITAPLPSVLKTREE 331
+ +P + +T E
Sbjct: 277 IFSVEVPEIFQTTLE 291
>gi|410594777|ref|YP_006951504.1| RNA pseudouridine synthase ylyB [Streptococcus agalactiae SA20-06]
gi|410518416|gb|AFV72560.1| RNA pseudouridine synthase ylyB [Streptococcus agalactiae SA20-06]
Length = 296
Score = 127 bits (319), Expect = 8e-27, Method: Compositional matrix adjust.
Identities = 95/312 (30%), Positives = 154/312 (49%), Gaps = 57/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIA 76
+ I+ G + V+G+V + G + + L ++ ++P L+++Y+DDD+
Sbjct: 29 EEIKKGIVLVNGQV-KKAKYTVQEGDRITFDIPKEEVLDYQAENIP--LDIIYQDDDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHSSGTLVNALMYHI-KDLSSING-VVRPGIVHRIDKDTSGLLMVAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDRAHQVLAEELKDKKSL------------RK----YLAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + TLV++ +++GR HQIR+H+A++GHPL
Sbjct: 186 SDKDRKKQAVTA-KGKPAITRFHVLER--FGDYTLVELSLETGRTHQIRVHMAYIGHPLA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDP+Y G K+ G G +LHA L +HP+ E +
Sbjct: 243 GDPVY---GPRKTL-----------------------GGKGQFLHAQTLGFTHPSNGENL 276
Query: 317 KITAPLPSVLKT 328
+ +P + +T
Sbjct: 277 IFSVEVPEIFQT 288
>gi|76787790|ref|YP_330006.1| ribosomal large subunit pseudouridine synthase A [Streptococcus
agalactiae A909]
gi|77408235|ref|ZP_00784979.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Streptococcus agalactiae COH1]
gi|77412105|ref|ZP_00788430.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Streptococcus agalactiae CJB111]
gi|406709758|ref|YP_006764484.1| ribosomal large subunit pseudouridine synthase A [Streptococcus
agalactiae GD201008-001]
gi|421148189|ref|ZP_15607855.1| ribosomal large subunit pseudouridine synthase A [Streptococcus
agalactiae GB00112]
gi|421531897|ref|ZP_15978273.1| ribosomal large subunit pseudouridine synthase A [Streptococcus
agalactiae STIR-CD-17]
gi|424049180|ref|ZP_17786731.1| ribosomal large subunit pseudouridine synthase A [Streptococcus
agalactiae ZQ0910]
gi|76562847|gb|ABA45431.1| ribosomal large subunit pseudouridine synthase, RluA family
[Streptococcus agalactiae A909]
gi|77161861|gb|EAO72847.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Streptococcus agalactiae CJB111]
gi|77173176|gb|EAO76301.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Streptococcus agalactiae COH1]
gi|389649380|gb|EIM70862.1| ribosomal large subunit pseudouridine synthase A [Streptococcus
agalactiae ZQ0910]
gi|401685165|gb|EJS81179.1| ribosomal large subunit pseudouridine synthase A [Streptococcus
agalactiae GB00112]
gi|403642920|gb|EJZ03723.1| ribosomal large subunit pseudouridine synthase A [Streptococcus
agalactiae STIR-CD-17]
gi|406650643|gb|AFS46044.1| ribosomal large subunit pseudouridine synthase A [Streptococcus
agalactiae GD201008-001]
Length = 296
Score = 127 bits (319), Expect = 8e-27, Method: Compositional matrix adjust.
Identities = 95/312 (30%), Positives = 154/312 (49%), Gaps = 57/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIA 76
+ I+ G + V+G+V + G + + L ++ ++P L+++Y+DDD+
Sbjct: 29 EEIKKGIVLVNGQV-KKAKYTVQEGDRITFDIPKEEVLDYQAENIP--LDIIYQDDDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHSSGTLVNALMYHI-KDLSSING-VVRPGIVHRIDKDTSGLLMVAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDRAHQVLAEELKDKKSL------------RK----YLAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + TLV++ +++GR HQIR+H+A++GHPL
Sbjct: 186 SDKDRKKQAVTA-KGKPAITRFHVLER--FGDYTLVELSLETGRTHQIRVHMAYIGHPLA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDP+Y G K+ G G +LHA L +HP+ E +
Sbjct: 243 GDPVY---GPRKTL-----------------------GGKGQFLHAQTLGFTHPSNGENL 276
Query: 317 KITAPLPSVLKT 328
+ +P + +T
Sbjct: 277 IFSVEVPEIFQT 288
>gi|229162828|ref|ZP_04290785.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
R309803]
gi|228620710|gb|EEK77579.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
R309803]
Length = 302
Score = 127 bits (319), Expect = 8e-27, Method: Compositional matrix adjust.
Identities = 98/314 (31%), Positives = 151/314 (48%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+VV N + A E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDAVVTVNGKVVKG-NYKVKANDEITVTIPEPEELDIQPEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PIG
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIQFEAPIPEVFE 294
>gi|401683181|ref|ZP_10815070.1| pseudouridine synthase, RluA family [Streptococcus sp. AS14]
gi|400183863|gb|EJO18114.1| pseudouridine synthase, RluA family [Streptococcus sp. AS14]
Length = 298
Score = 127 bits (319), Expect = 8e-27, Method: Compositional matrix adjust.
Identities = 93/312 (29%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I++G+I V+G+ + +++ + LP E D+P LE++Y+D+D+
Sbjct: 31 EQIKDGRILVNGQAKKAKYAVKEG--DIISYELPEPEVVEYVAEDIP--LEIVYQDEDVA 86
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + + S + P VHR+ + TSG+L+ A
Sbjct: 87 VVNKPQGMVVHPSAGHTSGTLVNALMYHINDLSGI--NGVLRPGIVHRIDKDTSGLLMIA 144
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 145 KNDQAHVALADELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPAL++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 187 RSEKDRKKQAVTA-KGKPALTRFQVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 243
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T EV
Sbjct: 244 AGDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEV 277
Query: 316 IKITAPLPSVLK 327
++ TA +P + +
Sbjct: 278 LEFTAEVPVIFQ 289
>gi|419466373|ref|ZP_14006256.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA05248]
gi|379544496|gb|EHZ09640.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA05248]
Length = 295
Score = 127 bits (319), Expect = 8e-27, Method: Compositional matrix adjust.
Identities = 99/312 (31%), Positives = 159/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYL-----LEVLYEDDDLI 75
++I++GQ+ V+G+V + G + YH +P EP+V Y+ LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYH-VP--EPEVLEYVAENLPLEIIYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHISGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ RK Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDEAHLALAQELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T E
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGET 275
Query: 316 IKITAPLPSVLK 327
++ TA +P + K
Sbjct: 276 MEFTADIPDIFK 287
>gi|417937499|ref|ZP_12580799.1| pseudouridine synthase, RluA family [Streptococcus infantis SK970]
gi|343391763|gb|EGV04336.1| pseudouridine synthase, RluA family [Streptococcus infantis SK970]
Length = 297
Score = 127 bits (319), Expect = 9e-27, Method: Compositional matrix adjust.
Identities = 95/311 (30%), Positives = 155/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + Y L + ++P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVITYQVPEPEVLEYVAENIP--LEIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHMALAQELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + TL+++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFQVLER--FGDYTLLELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGETL 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|422865589|ref|ZP_16912214.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK1058]
gi|327489656|gb|EGF21448.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK1058]
Length = 298
Score = 127 bits (319), Expect = 9e-27, Method: Compositional matrix adjust.
Identities = 94/311 (30%), Positives = 155/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++G+I V+G+ + G + Y + + + D+P LE++Y+D+D+
Sbjct: 31 EQIKDGRILVNGQA-KKAKYAVKEGDVISYEQPEPEVVEYVPEDIP--LEIVYQDEDVAV 87
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 88 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 145
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 146 NDQAHVALADELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 187
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPAL++ VLER + TLV++++++GR HQIR+H+A++GHP+
Sbjct: 188 SEKDRKKQAVTA-KGKPALTRFQVLER--FGDYTLVELQLETGRTHQIRVHMAYIGHPVA 244
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T EV+
Sbjct: 245 GDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEVL 278
Query: 317 KITAPLPSVLK 327
+ TA +P + +
Sbjct: 279 EFTAEVPVIFQ 289
>gi|160914264|ref|ZP_02076485.1| hypothetical protein EUBDOL_00274 [Eubacterium dolichum DSM 3991]
gi|158433891|gb|EDP12180.1| pseudouridine synthase, RluA family [Eubacterium dolichum DSM 3991]
Length = 303
Score = 127 bits (319), Expect = 9e-27, Method: Compositional matrix adjust.
Identities = 92/307 (29%), Positives = 145/307 (47%), Gaps = 60/307 (19%)
Query: 24 IQNGQITVDGRVVNDP-------NIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIA 76
I+ G I V+G V+ +I + E+ P K L++ YED D+I
Sbjct: 37 IEEGSILVNGEVIRAKYKVKPADHITAAFEDEMALEAAPEKME-----LDIRYEDHDVIV 91
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P Q T++N L + K S ++ P VHR+ + T+G+L+ AK
Sbjct: 92 INKPKGIVVHPANGNQSGTLVNGLLYHC-KDLSGING-VLRPGIVHRIDKDTTGLLIVAK 149
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A ++ +L + + ++Y ALVHG+++ + I PIG R
Sbjct: 150 NDKAHASLSK----------------QLQNKSVNRLYYALVHGVIEHEFGTIDAPIG--R 191
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
P + + V + + KPA + V+ER + TLV+ +++GR HQIR+H+ ++GHP++
Sbjct: 192 DPKDRQKMAVIATNSKPARTHFRVVERFAK--YTLVECRLETGRTHQIRVHMQYIGHPVV 249
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD Y Y + + G LHA+QL HPTTNE I
Sbjct: 250 GDEKY----------------------SYRKTMKT----NGQLLHAHQLTFLHPTTNERI 283
Query: 317 KITAPLP 323
+ APLP
Sbjct: 284 TVEAPLP 290
>gi|163782801|ref|ZP_02177797.1| hypothetical protein HG1285_15736 [Hydrogenivirga sp. 128-5-R1-1]
gi|159881922|gb|EDP75430.1| hypothetical protein HG1285_15736 [Hydrogenivirga sp. 128-5-R1-1]
Length = 322
Score = 127 bits (318), Expect = 9e-27, Method: Compositional matrix adjust.
Identities = 107/334 (32%), Positives = 165/334 (49%), Gaps = 56/334 (16%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+ +++R I+ G V+G+V P+ + G + +P EP D+P +EV+YE
Sbjct: 34 RSYIKRLIEEGFALVEGKV-RKPSYRVKEGDRVTLS-VPEPEPLEVKPEDIP--IEVVYE 89
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D++ + KP GL V P + T++N L + SS P VHRL + T+G
Sbjct: 90 DRDVVVIVKPCGLVVHPSPGYTSGTLVNALLYHIKDLSSI--GGVERPGIVHRLDKETAG 147
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+++ AK + + FA R+ K+YRALV G V E+ I++
Sbjct: 148 LMVVAKNDTSHRNLVEQFAS----------------RRTEKLYRALVKGTVKEEHGILEL 191
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R+P K +SP KPA S+ VLER TL++V+I +GR HQIR+HL+
Sbjct: 192 PIG--RHPFHRKKFSTSSPRSKPAKSEFWVLERFPGLELTLLKVKIYTGRTHQIRVHLSS 249
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHP++GD Y G +S E +N + G+C L AY+L HP
Sbjct: 250 IGHPIVGDTTY---GFKRSSVPE--------------AINRLLGECN-MLVAYKLGFYHP 291
Query: 311 TTNEVIKIT----APLPSVLKTREEGREVDKSVG 340
++ ++ P SVLK E +E++ S+G
Sbjct: 292 SSGRWLEFEIDDPEPFGSVLK---EVKELEGSLG 322
>gi|331266599|ref|YP_004326229.1| 23S rluA family pseudouridine synthase [Streptococcus oralis Uo5]
gi|419783245|ref|ZP_14309036.1| pseudouridine synthase, RluA family [Streptococcus oralis SK610]
gi|326683271|emb|CBZ00889.1| 23S rluA family pseudouridine synthase [Streptococcus oralis Uo5]
gi|383182399|gb|EIC74954.1| pseudouridine synthase, RluA family [Streptococcus oralis SK610]
Length = 299
Score = 127 bits (318), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 153/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G+ + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKAGQVLVNGQA-KKAKYTVQEGDIVTYHVPEPEVLEYVAEDIP--LEIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +L+++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFQVLER--FGDYSLLELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGETL 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|423592111|ref|ZP_17568142.1| RluA family pseudouridine synthase [Bacillus cereus VD048]
gi|401232244|gb|EJR38746.1| RluA family pseudouridine synthase [Bacillus cereus VD048]
Length = 302
Score = 127 bits (318), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 98/314 (31%), Positives = 152/314 (48%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LEV YED D
Sbjct: 34 VQQW---IKDAVVTVNGKSVKG-NYKVKGNDEITVTIPEPEELDIQPEDMNLEVYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P + T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK II PIG
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGIIDAPIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L +HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFNHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIEFEAPIPEVFE 294
>gi|116333479|ref|YP_795006.1| pseudouridylate synthase [Lactobacillus brevis ATCC 367]
gi|116098826|gb|ABJ63975.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
brevis ATCC 367]
Length = 307
Score = 127 bits (318), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 104/330 (31%), Positives = 160/330 (48%), Gaps = 70/330 (21%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I+ GQITVDG V P G+ + LP EP D+P LE++YED D++ +
Sbjct: 34 IEAGQITVDGATVK-PKDKPKVGATIRV-SLPDPEPLDLTPEDIP--LEIVYEDADVLVV 89
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRA--SKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
NKP G+ V P T++N L + + S+ + +L P VHR+ + TSG+L+ A
Sbjct: 90 NKPQGMVVHPAPGHPNHTLVNALLYHSPLSQINGTLR-----PGIVHRIDKDTSGLLMVA 144
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A ++ KT++ + Y A+VHG + E+ +I+ P+G
Sbjct: 145 KNDHAHQSLSAQLQAKTNL----------------REYVAIVHGNIKEEDGVIRAPLG-- 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R P K + + G+PA++ VLER TL+ +++GR HQIR+H+A++ HP+
Sbjct: 187 RSPKDRKKQAIVA-DGRPAVTHFRVLER--YGTYTLIACRLETGRTHQIRVHMAYINHPV 243
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY G K+ G +LHA +L PTT E
Sbjct: 244 AGDPLY---GPKKTLKG-----------------------AGQFLHARELGFKQPTTGEE 277
Query: 316 IKITAPLP-----SVLKTREE-GREVDKSV 339
+ TAP+P +V R++ G VDK++
Sbjct: 278 LVFTAPVPENFAKAVRHLRQQAGLPVDKAI 307
>gi|390630849|ref|ZP_10258823.1| Pseudouridine synthase [Weissella confusa LBAE C39-2]
gi|390483904|emb|CCF31171.1| Pseudouridine synthase [Weissella confusa LBAE C39-2]
Length = 305
Score = 127 bits (318), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 98/313 (31%), Positives = 150/313 (47%), Gaps = 61/313 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
+ GW I +G + V+G + G E+ + + K D+P L+++YED
Sbjct: 31 VTGW---INDGVLKVNG-AEKKAKYSVKPGDEITFTVPEPVEIDLKPEDIP--LDIVYED 84
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DDL+ +NKP G+ V P + T++N L + S + P VHR+ + TSG+
Sbjct: 85 DDLLVVNKPQGMVVHPALGHESGTLVNALMFHTP---LSTINGVVRPGIVHRIDKDTSGL 141
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK A ++ DK ++ + Y ALVHG E++ IK P
Sbjct: 142 LMVAKNDKAHEALSAQLKDKKNL----------------RQYYALVHGEFIENEGTIKAP 185
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
+G R K V + G+ A++ V++R V TL+QV +++GR HQIR+H+A++
Sbjct: 186 LG--RSSADRKKQAVVA-GGRDAVTHFKVVKRFV--GYTLLQVTLETGRTHQIRVHMAYI 240
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHP+ GDPLY P +PG+ G YLHA L L+ PT
Sbjct: 241 GHPVAGDPLY-------------------------GPKKTLPGN-GQYLHAATLGLTQPT 274
Query: 312 TNEVIKITAPLPS 324
T E + APLP+
Sbjct: 275 TGEEMTFEAPLPA 287
>gi|195978250|ref|YP_002123494.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
equi subsp. zooepidemicus MGCS10565]
gi|195974955|gb|ACG62481.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
equi subsp. zooepidemicus MGCS10565]
Length = 296
Score = 127 bits (318), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 100/299 (33%), Positives = 153/299 (51%), Gaps = 57/299 (19%)
Query: 42 ILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTV 96
I+ G + YH L ++ D+P L+++Y+DD L+ +NKP G+ V P T+
Sbjct: 48 IVQVGDCISYHIPEESSLDYQAQDIP--LDIVYQDDVLVIINKPQGMVVHPSAGHSTGTL 105
Query: 97 LNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVID 156
+N L + K SS++ P VHR+ + TSG+L+ AKT DK +
Sbjct: 106 VNALLYHV-KDLSSING-VIRPGIVHRIDKDTSGLLMVAKT------------DKAHQLL 151
Query: 157 ADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALS 216
AD EL +K + Y A+VHG + +D+ +I+ PIG R K V + GK AL+
Sbjct: 152 AD----ELKAKKSLRKYVAIVHGNLPKDRGVIEAPIG--RSDKDRKKQTVTA-KGKEALT 204
Query: 217 KVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFAD 276
+ VLER + +LV++++++GR HQIR+H+A++GHPL GDPLY G K+ D
Sbjct: 205 RFKVLERFGR--YSLVELQLETGRTHQIRVHMAYIGHPLAGDPLY---GPRKTLDGN--- 256
Query: 277 GTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVL-KTREEGRE 334
G +LHA L L+HP T E + T P + +T E+ R+
Sbjct: 257 --------------------GQFLHAQTLGLTHPVTGEELVFTVEPPEIFQRTLEQLRQ 295
>gi|421277207|ref|ZP_15728027.1| pseudouridine synthase [Streptococcus mitis SPAR10]
gi|395876488|gb|EJG87564.1| pseudouridine synthase [Streptococcus mitis SPAR10]
Length = 297
Score = 127 bits (318), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 92/311 (29%), Positives = 155/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + Y L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDMITYQIPEPEVLEYVAEDIP--LEIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHMALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +L+++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFQVLER--FGDYSLLELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGEAL 276
Query: 317 KITAPLPSVLK 327
+ T+ +P++ K
Sbjct: 277 EFTSNIPTIFK 287
>gi|315226968|ref|ZP_07868756.1| pseudouridylate synthase [Parascardovia denticolens DSM 10105 = JCM
12538]
gi|315121100|gb|EFT84232.1| pseudouridylate synthase [Parascardovia denticolens DSM 10105 = JCM
12538]
Length = 337
Score = 127 bits (318), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 85/262 (32%), Positives = 129/262 (49%), Gaps = 44/262 (16%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L ++YEDDDL+ ++KP+G+ P + TV+ LQ A + S P V RL
Sbjct: 103 LPIVYEDDDLVVVDKPAGMASHPAAGWAGPTVVEALQ--ALDKDLSRVDSDIRPGIVSRL 160
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
GTSG++L K+ A + FA + ++ K Y+ LV G + +D
Sbjct: 161 DAGTSGLMLVCKSDRAFVAMKEQFA----------------RHQVKKTYQTLVQGHIAQD 204
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ ++ PI R G + + SP GKPA++ DVLER TL+ + +++GR HQI
Sbjct: 205 RATVEAPI--ARQTGASSFRFAISPDGKPAITHWDVLER--LPGATLLSINLETGRTHQI 260
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+HL+ LGHPL+GD LY G P+ A++ G R +LH+ +
Sbjct: 261 RVHLSSLGHPLIGDTLY--GANPR----------LAEELGLNR----------QWLHSIR 298
Query: 305 LFLSHPTTNEVIKITAPLPSVL 326
L +HP I + +PLP L
Sbjct: 299 LEFTHPVGGRTIHLESPLPDDL 320
>gi|325570254|ref|ZP_08146120.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
casseliflavus ATCC 12755]
gi|325156737|gb|EGC68911.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
casseliflavus ATCC 12755]
Length = 302
Score = 127 bits (318), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 101/316 (31%), Positives = 152/316 (48%), Gaps = 62/316 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL------LEVLYE 70
+Q WL+ +T++G V N + AG LV ++P EP+V L L ++Y+
Sbjct: 32 VQQWLKE---DAVTLEGETVR-ANYKVKAGDHLVI-QVP--EPEVVGLEPENIPLTIVYQ 84
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+ +NKP G+ V P T++N L + S+ + P VHR+ + TSG
Sbjct: 85 DADVAVINKPQGMVVHPSAGHPNGTLVNALLYHMDDLSTI--NDVVRPGIVHRIDKDTSG 142
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A DKTS+ RK Y ALVHG + +K I
Sbjct: 143 LLMIAKNDQAHESLAKQLKDKTSL------------RK----YVALVHGNISHEKGTINA 186
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG + V + + +GKPA++ VLER Q TLV++++++GR HQIR+H+ +
Sbjct: 187 PIGRSK---VNRKMQAVIENGKPAVTHFTVLERFDQ--FTLVELQLETGRTHQIRVHMQY 241
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G PL GDP+Y P + G+ G +LHA L +HP
Sbjct: 242 IGFPLAGDPIY-------------------------GPKRTLKGN-GQFLHAKLLGFAHP 275
Query: 311 TTNEVIKITAPLPSVL 326
T E + APLP +
Sbjct: 276 ATGESMVFEAPLPELF 291
>gi|229086457|ref|ZP_04218629.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock3-44]
gi|228696774|gb|EEL49587.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock3-44]
Length = 302
Score = 127 bits (318), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 97/314 (30%), Positives = 154/314 (49%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++G +TV+G + N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDGVVTVNGNDIKG-NYKVKENDEIAVAIPEPEELDIRAEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMYHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L ++ +T+ Y+A+VHG++ DK I PIG
Sbjct: 148 VAKNDMAH----------------ESLVNQLVEKTVTRRYKAIVHGVIPHDKGTIDAPIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMAV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D +N G LHA L HP T+
Sbjct: 247 PLAGDPKY---GPKKTLD-----------------IN------GQALHAGILGFDHPRTD 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIEFEAPIPEVFE 294
>gi|172057958|ref|YP_001814418.1| RluA family pseudouridine synthase [Exiguobacterium sibiricum
255-15]
gi|171990479|gb|ACB61401.1| pseudouridine synthase, RluA family [Exiguobacterium sibiricum
255-15]
Length = 307
Score = 127 bits (318), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 100/316 (31%), Positives = 148/316 (46%), Gaps = 61/316 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWK------EPDVPYLLEVLYE 70
+Q WL+ G + VDGR+V PN +S G+E + R+P D+P L+V+YE
Sbjct: 33 VQDWLK---AGHVEVDGRIVK-PNYKMS-GTEEILVRIPEAVELEVLPEDIP--LDVVYE 85
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+I +NKP G+ V P T++N L Q S + P VHR+ + TSG
Sbjct: 86 DSDVIVINKPKGMVVHPAAGHVSGTLVNALLHHC--QDLSGINGVKRPGIVHRIDKDTSG 143
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK LA +A DKT+ ++Y ALVHG + + I+
Sbjct: 144 LLMVAKNDLAHESLAQQLKDKTT----------------ERLYIALVHGEIPHELGTIEA 187
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
P+G R + + V + K A++ VLER T+V+ ++++GR HQIR+H+ +
Sbjct: 188 PVG--RDKNDRQRMTVTDKNSKAAVTHFRVLER--YEGFTVVECKLETGRTHQIRVHMRY 243
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G PL GDP Y G K+ G LHA L HP
Sbjct: 244 IGFPLAGDPKY---GPRKTMKMN-----------------------GQALHAAVLGFKHP 277
Query: 311 TTNEVIKITAPLPSVL 326
T E++ APLP +
Sbjct: 278 RTGEMLHFEAPLPEEM 293
>gi|154496189|ref|ZP_02034885.1| hypothetical protein BACCAP_00473 [Bacteroides capillosus ATCC
29799]
gi|150274744|gb|EDN01808.1| pseudouridine synthase, RluA family [Pseudoflavonifractor
capillosus ATCC 29799]
Length = 304
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 97/308 (31%), Positives = 144/308 (46%), Gaps = 60/308 (19%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--------DVPYLLEVLYEDDDLI 75
++ G +T+ G V N + G ELV L +P D+P L+V+YED D+I
Sbjct: 35 LEEGAVTLKGLPVKK-NYKTAEGDELV---LSLPDPVEVDVVPQDIP--LDVVYEDGDVI 88
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ + P VHR+ R TSG+++ A
Sbjct: 89 VINKPVGMVVHPAAGHPDGTLVNALLYHCGKSLSGINGELR-PGIVHRIDRDTSGLIIAA 147
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K+ A +A D + + + Y A+ G ED+ ++ PI
Sbjct: 148 KSDFAHLALAEQLQDHS----------------LYREYEAVAVGGFKEDEGTVRAPIA-- 189
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R+P K + V G+ A++ VLER CT +Q +++GR HQIR+H+A +GHPL
Sbjct: 190 RHPTDRKKMAVNFLQGREAVTHYTVLER--FSGCTHLQCRLETGRTHQIRVHMAHIGHPL 247
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
LGD +Y G K P PG G LHA +L HP T E
Sbjct: 248 LGDTVY---GSKK----------------------PYPGLAGQCLHARRLSFVHPRTGER 282
Query: 316 IKITAPLP 323
+ + PLP
Sbjct: 283 MTVECPLP 290
>gi|347534401|ref|YP_004841071.1| RNA pseudouridine synthase ylyB [Lactobacillus sanfranciscensis TMW
1.1304]
gi|345504457|gb|AEN99139.1| Uncharacterized RNA pseudouridine synthase ylyB [Lactobacillus
sanfranciscensis TMW 1.1304]
Length = 306
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 85/263 (32%), Positives = 134/263 (50%), Gaps = 49/263 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+++YED D++ +NKP G+ V P T++N L + + + + + + P VHR+
Sbjct: 78 LDIIYEDKDVLVVNKPQGMVVHPAPGHPNHTLVNALLYHTNLPNINGTFR---PGIVHRI 134
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK+++A ++ +KTS +RK Y ALVHG + ED
Sbjct: 135 DKDTSGLLMVAKSEVALKSLSQQLKNKTS------------RRK----YIALVHGSIKED 178
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
I P+G R P K + S G+ A++ VLER + TL+Q ++++GR HQI
Sbjct: 179 TGTIDAPLG--RSPKDRKKQAIVS-DGRNAVTHFKVLER-FGNDYTLIQCQLETGRTHQI 234
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++ HPL+GDPLY G K+ + G +LHA +
Sbjct: 235 RVHMKYINHPLVGDPLY---GPRKTIKGK-----------------------GQFLHAAE 268
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HPTT E + PLP + K
Sbjct: 269 LGFKHPTTGEEVNFETPLPEIFK 291
>gi|417936057|ref|ZP_12579374.1| pseudouridine synthase, RluA family [Streptococcus infantis X]
gi|343402966|gb|EGV15471.1| pseudouridine synthase, RluA family [Streptococcus infantis X]
Length = 297
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + Y L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDMITYQIPEPEVLEYVAEDIP--LEIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMVAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + TL+++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFQVLER--FGDYTLLELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T + +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTAKTL 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|259503429|ref|ZP_05746331.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
antri DSM 16041]
gi|259168507|gb|EEW53002.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
antri DSM 16041]
Length = 303
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 104/314 (33%), Positives = 149/314 (47%), Gaps = 57/314 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-RLPWKEPDVPYL--LEVLYEDDD 73
LQ W I +G + V+G V L+ G ++V P K VP L+++YEDDD
Sbjct: 32 LQKW---IADGNVQVNGEAVK-AKAKLAVGDQVVIKPEAPQKIDLVPEKIPLDIVYEDDD 87
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
+I +NKP G+ V P T++N L + S+++ + P VHR+ + TSG+L+
Sbjct: 88 VIVVNKPQGMVVHPAPGHPDHTLVNALLYHCP--LSTINGEFR-PGIVHRIDKDTSGLLM 144
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK LA +A KT+ QR+ Y ALVHG++ +D + PIG
Sbjct: 145 VAKNDLAHRSLAAQLKAKTN------------QRE----YVALVHGVIKQDAGTVDAPIG 188
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R K + S G+ A++ VLER R+ TLV +++GR HQIR+H+ +GH
Sbjct: 189 --RSKKDRKKQAIVS-DGRHAVTHFKVLER--FRHYTLVSCRLETGRTHQIRVHMKSIGH 243
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDPLY P +PG G YLHA L HP T
Sbjct: 244 PLAGDPLY-------------------------GPRKTLPGR-GQYLHARLLGFKHPRTG 277
Query: 314 EVIKITAPLPSVLK 327
+ + T PLP +
Sbjct: 278 QELVFTVPLPDYFQ 291
>gi|294787462|ref|ZP_06752715.1| ribosomal large subunit pseudouridine synthase D [Parascardovia
denticolens F0305]
gi|294484818|gb|EFG32453.1| ribosomal large subunit pseudouridine synthase D [Parascardovia
denticolens F0305]
Length = 325
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 85/262 (32%), Positives = 129/262 (49%), Gaps = 44/262 (16%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L ++YEDDDL+ ++KP+G+ P + TV+ LQ A + S P V RL
Sbjct: 91 LPIVYEDDDLVVVDKPAGMASHPAAGWAGPTVVEALQ--ALDKDLSRVDSDIRPGIVSRL 148
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
GTSG++L K+ A + FA + ++ K Y+ LV G + +D
Sbjct: 149 DAGTSGLMLVCKSDRAFVAMKEQFA----------------RHQVKKTYQTLVQGHIAQD 192
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ ++ PI R G + + SP GKPA++ DVLER TL+ + +++GR HQI
Sbjct: 193 RATVEAPI--ARQTGASSFRFAISPDGKPAITHWDVLER--LPGATLLSINLETGRTHQI 248
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+HL+ LGHPL+GD LY G P+ A++ G R +LH+ +
Sbjct: 249 RVHLSSLGHPLIGDTLY--GANPR----------LAEELGLNR----------QWLHSIR 286
Query: 305 LFLSHPTTNEVIKITAPLPSVL 326
L +HP I + +PLP L
Sbjct: 287 LEFTHPVGGRTIHLESPLPDDL 308
>gi|91227645|ref|ZP_01261922.1| ribosomal large subunit pseudouridine synthase D [Vibrio
alginolyticus 12G01]
gi|91188424|gb|EAS74718.1| ribosomal large subunit pseudouridine synthase D [Vibrio
alginolyticus 12G01]
Length = 325
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 99/313 (31%), Positives = 152/313 (48%), Gaps = 50/313 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL +G++ VDG VV P + G E+ W+ D+P L+++YED
Sbjct: 36 LKEWLL---DGKVQVDGEVVTKPRTKVMGGEEITLQAELEDEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
+D+I +NKP V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 EDIIVINKPRDFVVHPGAGTPDGTVLNALLHHYPD-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R IT+ Y A+ G + + QP
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRNITREYEAIAIGRMTAGGKV-DQP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L +P GKPA++ V ER R T +++ +++GR HQIR+H+++L
Sbjct: 189 IG--RH-STKRTLMAVAPMGKPAVTHYRVAER--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD Y GG+ + + ++ A G++R LHA L HP
Sbjct: 244 QHPLLGDIAY--GGRAR-IPTGASEELTAMIRGFDRQA----------LHAVMLRFEHPI 290
Query: 312 TNEVIKITAPLPS 324
T EV++ AP+P
Sbjct: 291 TGEVLEFHAPVPD 303
>gi|307708571|ref|ZP_07645035.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
mitis NCTC 12261]
gi|307615320|gb|EFN94529.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
mitis NCTC 12261]
Length = 295
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 96/312 (30%), Positives = 158/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYL-----LEVLYEDDDLI 75
++I++GQ+ V+G+V + G + YH +P EP+V Y+ L+++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDIVTYH-VP--EPEVLEYVAENLPLDIIYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T E
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGET 275
Query: 316 IKITAPLPSVLK 327
++ TA +P + K
Sbjct: 276 MEFTADIPEIFK 287
>gi|424780438|ref|ZP_18207311.1| Ribosomal large subunit pseudouridine synthase D [Catellicoccus
marimammalium M35/04/3]
gi|422842840|gb|EKU27287.1| Ribosomal large subunit pseudouridine synthase D [Catellicoccus
marimammalium M35/04/3]
Length = 301
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 96/316 (30%), Positives = 153/316 (48%), Gaps = 60/316 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYED 71
LQ W ++ G +TV+G+ N ++ G ++ + L + ++P L+++YED
Sbjct: 31 LQTW---VKEGIVTVNGKPTKS-NYKVATGDQISFTPQEDKPLTAEPQNIP--LDIIYED 84
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
+D+I +NKP G+ V P T++N L + Q S + P VHR+ + TSG+
Sbjct: 85 EDVIVINKPQGMVVHPSPGHPDGTLVNGLLYHT--QLSEMEEGTIRPGIVHRIDKDTSGL 142
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK + +A ++KTS + Y A+VHG +D K I P
Sbjct: 143 LMVAKNNQSHESLAKQLSEKTS----------------HRRYLAIVHGDIDHAKGKIDAP 186
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R P K V G+PA++ +VLER + TL+ ++++GR HQIR+H+ ++
Sbjct: 187 IG--RDPKDRKKQAVIK-EGRPAVTHFEVLERFGR--YTLIACQLETGRTHQIRVHMNYI 241
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPL GDPLY G K+ E G +LHA +L HPT
Sbjct: 242 GHPLAGDPLY---GPKKTLAGE-----------------------GQFLHAQELGFEHPT 275
Query: 312 TNEVIKITAPLPSVLK 327
T E ++ + P + +
Sbjct: 276 TGEWMQFSVEPPKLFQ 291
>gi|256847299|ref|ZP_05552745.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
coleohominis 101-4-CHN]
gi|256715963|gb|EEU30938.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
coleohominis 101-4-CHN]
Length = 308
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 103/306 (33%), Positives = 153/306 (50%), Gaps = 58/306 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSEL-VYHRLPWK---EPD-VPYLLEVLYEDDDLIALN 78
I++G +TV+ + V P L AG + V P K EP+ +P LE++YEDDD++ +N
Sbjct: 38 IEDGNVTVNKQSVK-PKYHLQAGDIVQVIPEQPQKIDLEPENIP--LEIVYEDDDVLVVN 94
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S ++ + P VHR+ + TSG+L+ AK
Sbjct: 95 KPQGMVVHPSAGHPNHTLVNALLYHCP--LSHINGEYR-PGIVHRIDKDTSGLLMVAKND 151
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A KT+ QR+ Y ALVHG++ ED+ I P+G R P
Sbjct: 152 RAHRSLAAQLKAKTN------------QRE----YVALVHGVIKEDQGTIDAPLG--RSP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K V + G+PA++ VL+R + + TLV ++++GR HQIR+H+ ++GHPL GD
Sbjct: 194 KDRKKQAVVA-DGRPAVTHFRVLKRYL--HYTLVACKLETGRTHQIRVHMKYIGHPLAGD 250
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY G K+ G YLHA L HP T + +
Sbjct: 251 PLY---GPRKTLKGN-----------------------GQYLHARLLGFKHPVTGKEMVF 284
Query: 319 TAPLPS 324
APLP+
Sbjct: 285 EAPLPT 290
>gi|421860326|ref|ZP_16292457.1| pseudouridylate synthase [Paenibacillus popilliae ATCC 14706]
gi|410830074|dbj|GAC42894.1| pseudouridylate synthase [Paenibacillus popilliae ATCC 14706]
Length = 324
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 99/315 (31%), Positives = 149/315 (47%), Gaps = 56/315 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD--VPYL--LEVLYEDD 72
+Q W I++ + V+GR V PN + AG E+ R+P VP L V YED
Sbjct: 53 VQLW---IRDAYLLVNGRSVK-PNYKIGAGDEMEL-RIPAPTATDIVPEAIPLHVYYEDA 107
Query: 73 DLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGIL 132
D+I +NKP G+ V P TV+N L S S + P VHR+ + TSG+L
Sbjct: 108 DVIVINKPRGMVVHPAPGHLSETVVNALMHHCSDLSGI--NGELRPGIVHRIDKDTSGLL 165
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPI 192
+ AK A T +A +L + + Y+ALVHG + D+ I PI
Sbjct: 166 MAAKNDRAHTELAA----------------QLKAHTVLRKYKALVHGNLAHDQGTIDAPI 209
Query: 193 GIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
G R P K V + K A++ V ER + TLV++++++GR HQIR+H+ ++G
Sbjct: 210 G--RDPHDRKMFAVTDRNSKRAVTHFQVAER--FGDVTLVELQLETGRTHQIRVHMKYIG 265
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
HPL+GDP+Y G + + + G LHA L HP +
Sbjct: 266 HPLVGDPMYTRGIRGITMN-------------------------GQALHAATLGFIHPVS 300
Query: 313 NEVIKITAPLPSVLK 327
++++ APLP ++
Sbjct: 301 GQLLQFEAPLPDDME 315
>gi|229134702|ref|ZP_04263511.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BDRD-ST196]
gi|423518584|ref|ZP_17495065.1| RluA family pseudouridine synthase [Bacillus cereus HuA2-4]
gi|228648748|gb|EEL04774.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BDRD-ST196]
gi|401160792|gb|EJQ68167.1| RluA family pseudouridine synthase [Bacillus cereus HuA2-4]
Length = 302
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 98/314 (31%), Positives = 151/314 (48%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LEV YED D
Sbjct: 34 VQQW---IKDAVVTVNGKSVKG-NYKVKGNDEITVTIPEPEELDIQPEDMNLEVYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P + T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK II PIG
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGIIDAPIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIEFEAPIPEVFE 294
>gi|163941632|ref|YP_001646516.1| RluA family pseudouridine synthase [Bacillus weihenstephanensis
KBAB4]
gi|229013077|ref|ZP_04170242.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides
DSM 2048]
gi|423489069|ref|ZP_17465751.1| RluA family pseudouridine synthase [Bacillus cereus BtB2-4]
gi|423494794|ref|ZP_17471438.1| RluA family pseudouridine synthase [Bacillus cereus CER057]
gi|423498414|ref|ZP_17475031.1| RluA family pseudouridine synthase [Bacillus cereus CER074]
gi|423598796|ref|ZP_17574796.1| RluA family pseudouridine synthase [Bacillus cereus VD078]
gi|423661268|ref|ZP_17636437.1| RluA family pseudouridine synthase [Bacillus cereus VDM022]
gi|423669467|ref|ZP_17644496.1| RluA family pseudouridine synthase [Bacillus cereus VDM034]
gi|423674354|ref|ZP_17649293.1| RluA family pseudouridine synthase [Bacillus cereus VDM062]
gi|163863829|gb|ABY44888.1| pseudouridine synthase, RluA family [Bacillus weihenstephanensis
KBAB4]
gi|228748331|gb|EEL98191.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides
DSM 2048]
gi|401150887|gb|EJQ58339.1| RluA family pseudouridine synthase [Bacillus cereus CER057]
gi|401160463|gb|EJQ67841.1| RluA family pseudouridine synthase [Bacillus cereus CER074]
gi|401237066|gb|EJR43523.1| RluA family pseudouridine synthase [Bacillus cereus VD078]
gi|401298594|gb|EJS04194.1| RluA family pseudouridine synthase [Bacillus cereus VDM034]
gi|401301309|gb|EJS06898.1| RluA family pseudouridine synthase [Bacillus cereus VDM022]
gi|401309905|gb|EJS15238.1| RluA family pseudouridine synthase [Bacillus cereus VDM062]
gi|402432317|gb|EJV64376.1| RluA family pseudouridine synthase [Bacillus cereus BtB2-4]
Length = 302
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 98/314 (31%), Positives = 151/314 (48%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LEV YED D
Sbjct: 34 VQQW---IKDAVVTVNGKSVKG-NYKVKGNDEITVTIPEPEELDIQPEDMNLEVYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P + T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK II PIG
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGIIDAPIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIEFEAPIPEVFE 294
>gi|389575752|ref|ZP_10165780.1| pseudouridine synthase, RluA family [Eubacterium cellulosolvens 6]
gi|389311237|gb|EIM56170.1| pseudouridine synthase, RluA family [Eubacterium cellulosolvens 6]
Length = 311
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 96/317 (30%), Positives = 151/317 (47%), Gaps = 55/317 (17%)
Query: 18 QGWLQRI-QNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYED 71
+ ++Q+I + G + V+G+ V PN + + L + D+P L++LYED
Sbjct: 30 RSYIQKILKQGGVLVNGKAVK-PNYKVCEDDRIEIEIPENEELDIEAEDIP--LDILYED 86
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD++ +NKP + V P + T++N L + + S ++ P VHR+ + T+G
Sbjct: 87 DDVLIVNKPKDMVVHPAAGHYEHTLVNALLFHCRDRLSGING-VMRPGIVHRIDKDTTGA 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ K A +A +L+ IT+ YRA+V G ++ ++
Sbjct: 146 LVICKNDAAHQSLAA----------------QLAVHSITRRYRAIVAGNFKDETFTVEGN 189
Query: 192 IGIVRYPGVAKGLYVASPS-GKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
IG R K + V SP GK A++ V VL+ + V+ E+++GR HQIR+H+A
Sbjct: 190 IG--RSANDRKKMAVVSPDKGKHAVTHVKVLQN--LKGYAYVECELETGRTHQIRVHMAH 245
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHPLLGD +Y PK PV G G LHA L HP
Sbjct: 246 IGHPLLGDEIY----GPKKC--------------------PVKGLQGQTLHAMVLGFQHP 281
Query: 311 TTNEVIKITAPLPSVLK 327
+TNE ++ TAPLP +
Sbjct: 282 STNEYVEFTAPLPEYFE 298
>gi|239826543|ref|YP_002949167.1| pseudouridine synthase [Geobacillus sp. WCH70]
gi|239806836|gb|ACS23901.1| pseudouridine synthase, RluA family [Geobacillus sp. WCH70]
Length = 304
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 100/308 (32%), Positives = 153/308 (49%), Gaps = 58/308 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLI 75
Q I++G +TV+ + V N SAG +V RLP EP ++P L++ YED D++
Sbjct: 35 QWIKDGLVTVNDQHVK-ANYKSSAGDVVVV-RLPEPEPLHVVPENIP--LDIYYEDADVL 90
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P + T++N L + S + P VHR+ + TSG+L+ A
Sbjct: 91 VVNKPRGMVVHPAPGHMRGTLVNALLAHCTDLSGI--NGVLRPGIVHRIDKDTSGLLMVA 148
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K +A S V +L ++ +T+ Y+A+VHG++ D I PIG
Sbjct: 149 KNDMAHQ----------------SLVDQLVKKTVTRKYKAIVHGVIPHDYGTIDAPIG-- 190
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K + V +GK A++ VLER R+ T V+ ++++GR HQIR+H+ ++G+PL
Sbjct: 191 RDKRDRKKMTVTEENGKEAVTHFRVLER--FRHYTFVECQLETGRTHQIRVHMKYIGYPL 248
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDP Y G K+ P+ G LHA L +HP T E
Sbjct: 249 AGDPQY---GPKKTL--------------------PIDGQA---LHAGVLGFTHPRTGEY 282
Query: 316 IKITAPLP 323
++ APLP
Sbjct: 283 LEFEAPLP 290
>gi|260663035|ref|ZP_05863928.1| pseudouridine synthase [Lactobacillus fermentum 28-3-CHN]
gi|260552656|gb|EEX25656.1| pseudouridine synthase [Lactobacillus fermentum 28-3-CHN]
Length = 304
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 100/320 (31%), Positives = 151/320 (47%), Gaps = 69/320 (21%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL---------LEV 67
L+ W I +G +TV+G+ V L AG +V EP+ P L++
Sbjct: 34 LKRW---IDDGTVTVNGQTVK-AKYQLQAGDRVVI------EPETPVEIDLEPENIPLDI 83
Query: 68 LYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRG 127
+YEDDD++ +NKP G+ V P T++N L + A SS++ + P VHR+ +
Sbjct: 84 VYEDDDVLVVNKPQGMVVHPAPGHPNHTLVNALMYHAP--LSSINGELR-PGIVHRIDKD 140
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
TSG+L+ AKT A + +K+++ + Y ALVHG++ E++
Sbjct: 141 TSGLLMVAKTDRAHRSLTAQLKEKSNL----------------REYVALVHGVIKENEGT 184
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
I P+ R P K V G+ A++ VL+R ++ TLV +++GR HQIR+H
Sbjct: 185 IDAPLA--RSPKDRKKQAVVV-GGRHAITHFRVLKR--YQHYTLVACRLETGRTHQIRVH 239
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
+ ++ HPL GDPLY P +PG G YLHA L
Sbjct: 240 MKYINHPLAGDPLY-------------------------GPRKTLPGH-GQYLHARLLGF 273
Query: 308 SHPTTNEVIKITAPLPSVLK 327
HP T E + TAPLP +
Sbjct: 274 EHPVTGEEMVFTAPLPDYFE 293
>gi|417837540|ref|ZP_12483778.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
johnsonii pf01]
gi|338761083|gb|EGP12352.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
johnsonii pf01]
Length = 304
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 98/331 (29%), Positives = 161/331 (48%), Gaps = 68/331 (20%)
Query: 18 QGWLQRIQNGQITVDGR-----VVNDPNIILSAGSELVYHRLPWKE-------PDVPYLL 65
+G L ++ +IT R +VND NI+++ +E V +++ + P P L
Sbjct: 13 KGRLDKVIAEKITDLSRTKIKELVNDKNILVNNKAEKVSYKVQSGDVIDVTIPPVKPLSL 72
Query: 66 E-------VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
E ++YED D+I +NKP G+ V P T++N L + + S + P
Sbjct: 73 EAENLHLDIVYEDSDVIVVNKPQGMVVHPSAGHPDHTLVNGLLYHTRDLADS--PERFRP 130
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHR+ + TSG+L+ AK A+ + A+K +++R+ Y A+VH
Sbjct: 131 GIVHRIDKDTSGLLMIAKNDKARESLEKQLAEK------------INKRE----YLAIVH 174
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G + +I PIG R P K + V +P GK A++ VLE+ +N +LV+ +++
Sbjct: 175 GNFEVKNGVINAPIG--RNPNNRKQMAV-NPKGKAAVTHFTVLEQ--FKNYSLVKCVLET 229
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+ ++GHPL GDPLY G ++ G
Sbjct: 230 GRTHQIRVHMKYIGHPLAGDPLY---GPKRTLSGH-----------------------GQ 263
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKTR 329
+LHA L P+TNE ++ +APLP++ + +
Sbjct: 264 FLHAKTLGFYQPSTNEWLEFSAPLPTIFEKQ 294
>gi|110004584|emb|CAK98921.1| probable pseudouridine synthase d protein [Spiroplasma citri]
Length = 306
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 97/309 (31%), Positives = 147/309 (47%), Gaps = 51/309 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL---LEVLYEDDDLIALNKP 80
I+ ++ V+G+VV N + G ++ K ++ L L +LYED L+ ++KP
Sbjct: 38 IKQEKVQVNGQVVR-ANYVSQIGDHVIIEFPSAKASELTPLAIPLTILYEDSYLMVIDKP 96
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
+ L V P Q T++N L R + S++ Q P VHR+ R T+G L+ AK +
Sbjct: 97 NNLVVHPAPGHQNDTLVNALLARGVQWSTASGEQ--RPGIVHRIDRQTTGTLIIAKNDVV 154
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGV 200
++ +++ + Y ALVHG + E++ I PIG R P
Sbjct: 155 H----------------HQLQQQIQTKQLQRRYLALVHGQIIENRAKIDAPIG--RDPNN 196
Query: 201 AKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPL 260
K + V + + K AL+ + V+ER + T ++ E++SGR HQIR HL ++ HP++GDPL
Sbjct: 197 RKKMVVTAKNSKKALTNIVVIERF--NDYTYIECELESGRTHQIRAHLKYINHPIVGDPL 254
Query: 261 YVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITA 320
Y GT A G YLHAYQL HP T E + ITA
Sbjct: 255 Y---------------GTVADK----------KESFGQYLHAYQLRFIHPVTKESLTITA 289
Query: 321 PLPSVLKTR 329
LP + R
Sbjct: 290 ALPQEFEQR 298
>gi|84393596|ref|ZP_00992349.1| ribosomal large subunit pseudouridine synthase D [Vibrio splendidus
12B01]
gi|84375805|gb|EAP92699.1| ribosomal large subunit pseudouridine synthase D [Vibrio splendidus
12B01]
Length = 324
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 99/331 (29%), Positives = 156/331 (47%), Gaps = 50/331 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
++ WL +G+I VDG V+ P I+ G ++ W+ D+P L+++YED
Sbjct: 36 IKEWLL---DGKIQVDGEVITKPRTIVLGGEAIILQAELADEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DDL+ +NKP L V PG T+LN L + + ++ VHRL + T+G+
Sbjct: 91 DDLLVINKPRDLVVHPGAGTPDGTILNALLFHYPQ-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L++R+IT+ Y A+ G + V+ K
Sbjct: 146 MVVAKTVPAQTRL----------------VRALAKRRITREYEAIAIGKMTAGGVVEK-- 187
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
GI R+ + L + GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 188 -GISRH-ATKRTLMDVNELGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD Y GG+ + G E + LHA L HP
Sbjct: 244 QHPLLGDIAY--GGRAR-----------IPKGASEELTTMIRSFDRQALHAVMLKFVHPI 290
Query: 312 TNEVIKITAPLPSVLKTREEGREVDKSVGSE 342
T E ++ AP+P+ + E VD E
Sbjct: 291 TGEEVEFHAPVPNDMVVMAEALRVDARENHE 321
>gi|77406381|ref|ZP_00783442.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Streptococcus agalactiae H36B]
gi|77175005|gb|EAO77813.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Streptococcus agalactiae H36B]
Length = 296
Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 95/312 (30%), Positives = 154/312 (49%), Gaps = 57/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIA 76
+ I+ G + V+G+V + G + + L ++ ++P L+++Y+DDD+
Sbjct: 29 EEIKKGIVLVNGQV-KKAKYTVQEGDRITFDIPKKEVLDYQAENIP--LDIIYQDDDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHSSGTLVNALMYHI-KDLSSING-VVRPGIVHRIDKDTSGLLMVAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDRAHQVLAEELKDKKSL------------RK----YLAIVHGNLPNDQGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + TLV++ +++GR HQIR+H+A++GHPL
Sbjct: 186 SDKDRKKQAVTA-KGKPAVTRFHVLER--FGDYTLVELSLETGRTHQIRVHMAYIGHPLA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDP+Y G K+ G G +LHA L +HP+ E +
Sbjct: 243 GDPVY---GPRKTL-----------------------GGKGQFLHAQTLGFTHPSNGENL 276
Query: 317 KITAPLPSVLKT 328
+ +P + +T
Sbjct: 277 IFSVEVPEIFQT 288
>gi|323339837|ref|ZP_08080106.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
ruminis ATCC 25644]
gi|417974093|ref|ZP_12614917.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
ruminis ATCC 25644]
gi|323092710|gb|EFZ35313.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
ruminis ATCC 25644]
gi|346329548|gb|EGX97843.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
ruminis ATCC 25644]
Length = 301
Score = 126 bits (316), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 95/310 (30%), Positives = 148/310 (47%), Gaps = 56/310 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAG----SELVYHRLPWKEPDVPYLLEVLYEDDDLIAL 77
Q + G ITV+G+ + S E L + ++P L+++YEDDD+I +
Sbjct: 31 QLLDGGNITVNGKTEKAKYKVKSGDVIRLEEPETKTLELRPENIP--LDIVYEDDDVIVI 88
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P + T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 89 NKPQGMVVHPAPGHDEHTLVNALLYHCP---LSTINGTFRPGIVHRIDKDTSGLLMVAKN 145
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A DKT++ + Y ALVHG + ED+ I PIG R
Sbjct: 146 DKAHRSLAKQLKDKTNI----------------REYVALVHGRIAEDEGTINAPIG--RS 187
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
K V G+ A++ +VL++ R+ T V+ +++GR HQIR+H+ ++GHPL+G
Sbjct: 188 LKDRKKQAVVK-DGRNAVTHFEVLKK--YRDYTFVKCILETGRTHQIRVHMKYIGHPLVG 244
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DPLY P + G+ G +LHA +L HPTT +++
Sbjct: 245 DPLY-------------------------GPKKTIKGN-GQFLHAGKLGFVHPTTGKLLI 278
Query: 318 ITAPLPSVLK 327
APLP + +
Sbjct: 279 FEAPLPKIFQ 288
>gi|253576153|ref|ZP_04853485.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14]
gi|251844496|gb|EES72512.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14]
Length = 315
Score = 126 bits (316), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 98/318 (30%), Positives = 153/318 (48%), Gaps = 61/318 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+Q W I+ G + V+G V N L+ G +V +P EP D+P LE+ YE
Sbjct: 45 IQLW---IEAGNLVVNGAPVK-ANYKLAEGDRIVL-VIPEAEPTEIVPEDIP--LEIYYE 97
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+I +NKP G+ V P T++N L + K S ++ + P VHR+ + TSG
Sbjct: 98 DSDVIVVNKPRGMVVHPAPGHTSGTLVNALMFHC-KDLSGINGELR-PGIVHRIDKDTSG 155
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+++ AK A +A +L +T+ Y ALVHG V D+ +
Sbjct: 156 LIMAAKNDKAHASLAA----------------QLKAHTVTRKYYALVHGNVSHDQGTVDA 199
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R P K V + K A++ V+ER + TL+++++++GR HQIR+H+ F
Sbjct: 200 PIG--RDPHDRKMYTVIERNSKHAVTHFQVVER--FGDYTLLELKLETGRTHQIRVHMKF 255
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHPL+GDPLY G+ K + G LHA L HP
Sbjct: 256 IGHPLVGDPLY---GRSKGIKMD-----------------------GQALHAAVLGFDHP 289
Query: 311 TTNEVIKITAPLPSVLKT 328
+ ++ +AP+P+ ++
Sbjct: 290 EDGQYLEFSAPIPADMEN 307
>gi|86148440|ref|ZP_01066731.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp.
MED222]
gi|218708594|ref|YP_002416215.1| 23S rRNA pseudouridine synthase D [Vibrio splendidus LGP32]
gi|85833794|gb|EAQ51961.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp.
MED222]
gi|218321613|emb|CAV17565.1| ribosomal large subunit pseudouridine synthase D [Vibrio splendidus
LGP32]
Length = 324
Score = 126 bits (316), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 98/325 (30%), Positives = 155/325 (47%), Gaps = 50/325 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
++ WL +G+I VDG V+ P I+ G ++ W+ D+P L+++YED
Sbjct: 36 IKEWLL---DGKIQVDGEVITKPRTIVLGGEAIILQAELADEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DDL+ +NKP L V PG T+LN L + + ++ VHRL + T+G+
Sbjct: 91 DDLLVINKPRDLVVHPGAGTPDGTILNALLFHYPQ-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L++R+IT+ Y A+ G + V+ K
Sbjct: 146 MVVAKTVPAQTRL----------------VRALAKRRITREYEAIAIGKMTAGGVVEK-- 187
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
GI R+ + L + GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 188 -GISRH-ATKRTLMDVNELGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD Y GG+ + G E + LHA L HP
Sbjct: 244 QHPLLGDIAY--GGRAR-----------IPKGASEELTTMIRSFDRQALHAVMLKFVHPI 290
Query: 312 TNEVIKITAPLPSVLKTREEGREVD 336
T E ++ AP+P+ + E VD
Sbjct: 291 TGEEVEFHAPVPNDMVVMAEALRVD 315
>gi|408500747|ref|YP_006864666.1| ribosomal large subunit pseudouridine synthase D [Bifidobacterium
asteroides PRL2011]
gi|408465571|gb|AFU71100.1| ribosomal large subunit pseudouridine synthase D [Bifidobacterium
asteroides PRL2011]
Length = 309
Score = 126 bits (316), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 97/307 (31%), Positives = 150/307 (48%), Gaps = 50/307 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLE---VLYEDDDLIALNKP 80
+ G + + GR VN ++S +L+ P + V + E V+YED+D++ ++KP
Sbjct: 35 VAQGHVRIMGRRVNKATTLMSG--DLIELDEPEQAKQVEPVAEDMPVVYEDEDVVIVDKP 92
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
G+ P + TVL L R + +S+ +Q + V RL GTSG++L K+ LA
Sbjct: 93 VGVAAHPSIGWTGPTVLGSLLQRGT-HITSMGAQGRQGI-VSRLDAGTSGLMLVCKSDLA 150
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGV 200
+ FA + ++ KIY ALV G + EDK I+ PIG R V
Sbjct: 151 YKEMRRQFA----------------RHEVVKIYHALVQGNLTEDKATIEAPIGRAR---V 191
Query: 201 AKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPL 260
+ + +P+GK A++ DVLER + TLV V +++GR HQIR+H + +GHPL+GD +
Sbjct: 192 SDFRFTVTPAGKEAITHWDVLER--FGSATLVSVNLETGRTHQIRVHFSSIGHPLVGDHM 249
Query: 261 YVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITA 320
Y G P A G +R +LHA +L HP T K+ +
Sbjct: 250 Y--GANPD----------LADRLGLKR----------QWLHAMRLEFRHPRTKIWTKVVS 287
Query: 321 PLPSVLK 327
P+ L+
Sbjct: 288 SYPADLR 294
>gi|373464369|ref|ZP_09555908.1| pseudouridine synthase, RluA family [Lactobacillus kisonensis
F0435]
gi|371762571|gb|EHO51100.1| pseudouridine synthase, RluA family [Lactobacillus kisonensis
F0435]
Length = 302
Score = 126 bits (316), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 92/310 (29%), Positives = 153/310 (49%), Gaps = 60/310 (19%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL------LEVLYEDDDLIAL 77
I +G ITV+G V P + G ++ + EP L L+++YEDDD+I +
Sbjct: 33 IDDGDITVNGEV-KKPKYPVEIGDKI---SISNPEPQAINLEPENIPLDIVYEDDDVIVV 88
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + + S+++ + P VHR+ + TSG+L+ AK
Sbjct: 89 NKPQGMVVHPSAGHPNHTLVNALLFHSP--LSTINGEYR-PGIVHRIDKDTSGLLMVAKN 145
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A ++ +L ++K + Y ALVHG + E+ ++ PIG
Sbjct: 146 DAAHKFLSS----------------QLKKQKNLRRYVALVHGRITENSGVVNAPIGRSLN 189
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + + G+PA++ +VLER Q TLV +++GR HQIR+H+ ++ HP++G
Sbjct: 190 DRKKQAVII---DGRPAVTHFEVLERFQQ--YTLVSCRLETGRTHQIRVHMKYIEHPIVG 244
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DPLY P + G+ G +LHA +L HPTT+E++
Sbjct: 245 DPLY-------------------------GPRKTIKGN-GQFLHAQELGFEHPTTHELMT 278
Query: 318 ITAPLPSVLK 327
+AP+P + +
Sbjct: 279 FSAPIPPIFE 288
>gi|358464702|ref|ZP_09174663.1| pseudouridine synthase, RluA family [Streptococcus sp. oral taxon
058 str. F0407]
gi|357066669|gb|EHI76811.1| pseudouridine synthase, RluA family [Streptococcus sp. oral taxon
058 str. F0407]
Length = 299
Score = 126 bits (316), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 96/312 (30%), Positives = 157/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYL-----LEVLYEDDDLI 75
++I+ GQ+ V+G+V + G + YH +P EP+V Y+ LE++Y+D+D+
Sbjct: 29 EQIKAGQVLVNGQV-KKAKYTVQEGDIVTYH-VP--EPEVLEYVAEELPLEIIYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + +L+++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFQVLER--FGDYSLLELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T E
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGET 275
Query: 316 IKITAPLPSVLK 327
++ TA +P + K
Sbjct: 276 LEFTADIPEIFK 287
>gi|386713209|ref|YP_006179532.1| pseudouridine synthase [Halobacillus halophilus DSM 2266]
gi|384072765|emb|CCG44255.1| pseudouridine synthase [Halobacillus halophilus DSM 2266]
Length = 310
Score = 126 bits (316), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 77/205 (37%), Positives = 112/205 (54%), Gaps = 26/205 (12%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
++V+YEDD L+ +NKP+GL P T++N + + ++ + P VHRL
Sbjct: 86 IDVVYEDDHLLVVNKPAGLFTHPNTPDDHHTLVNGVAF-----YFQMNGIEATPKYVHRL 140
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG +L AK LA + EL R I + Y A HG +
Sbjct: 141 DKDTSGAILFAKHDLAIAMLGK----------------ELQDRNIKRTYIAWAHGRLKPK 184
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I QPIG R+ V + + SP+G+PA++ +VLE D R +LV + +QSGR HQI
Sbjct: 185 KATIDQPIGKDRHHPVRRRV---SPNGQPAITTYEVLEYDKARKASLVTLNLQSGRTHQI 241
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKS 269
R+H+++LGHPLLGD LY GG+ K+
Sbjct: 242 RVHMSYLGHPLLGDELY--GGEEKN 264
>gi|81428560|ref|YP_395560.1| pseudouridylate synthase [Lactobacillus sakei subsp. sakei 23K]
gi|78610202|emb|CAI55251.1| Pseudouridylate synthase, 23S rRNA-specific [Lactobacillus sakei
subsp. sakei 23K]
Length = 301
Score = 126 bits (316), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 98/323 (30%), Positives = 159/323 (49%), Gaps = 60/323 (18%)
Query: 17 LQGWLQRIQ---NGQITV-DGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDD 72
+Q WL++ NGQ + + +VV D I ++ + +P D+P L+++YEDD
Sbjct: 32 IQQWLKKDLVEINGQTSKGNHKVVADEKISVTIPDPVSLDLVPE---DIP--LDIVYEDD 86
Query: 73 DLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGIL 132
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L
Sbjct: 87 QVLVVNKPQGMVVHPSPGHPNGTLVNAL---LAHTPLSEINGVFRPGIVHRIDKDTSGLL 143
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPI 192
+ AKT A ++ K+++ + Y ALVHG ++ED+ I PI
Sbjct: 144 MVAKTNEAHESLSEQLKAKSNL----------------REYLALVHGNIEEDEGTIDAPI 187
Query: 193 GIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
G + + + + P G+PA++ +V+ER + TL++ +++GR HQIR+HLA++
Sbjct: 188 GRSKLDRMKQAIV---PDGRPAVTHFEVVERFT--DYTLIRCRLETGRTHQIRVHLAYIN 242
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
P+ GDP Y P +PG G +LHA L HPTT
Sbjct: 243 RPVAGDPTY-------------------------GPRKTLPGK-GQFLHAAVLGFKHPTT 276
Query: 313 NEVIKITAPLPSVL-KTREEGRE 334
E ++ APLP++ KT +E RE
Sbjct: 277 GENMRFEAPLPAIFEKTLQELRE 299
>gi|335357350|ref|ZP_08549220.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
animalis KCTC 3501]
Length = 301
Score = 126 bits (316), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 89/283 (31%), Positives = 136/283 (48%), Gaps = 58/283 (20%)
Query: 53 RLPWKEPDVPYL--------LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRA 104
++ EP++ L L+++YEDDD+I ++KP G+ V P + T++N L +
Sbjct: 56 KISLTEPEIKELVVEPENIALDIVYEDDDVIVVDKPQGMVVHPAPGHEDHTLVNALLYHC 115
Query: 105 SKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMEL 164
S + P VHR+ + TSG+L+ AK A +A DKT++
Sbjct: 116 P---LSTINGTYRPGIVHRIDKDTSGLLMVAKNDQAHRSLAKQLKDKTNL---------- 162
Query: 165 SQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERD 224
+ Y ALVHG + ED IK P+ R P K V S G+ A++ VL+R
Sbjct: 163 ------REYIALVHGRIKEDSGTIKAPLA--RSPKDRKKQAVVS-GGRDAVTHFKVLKR- 212
Query: 225 VQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGG 284
++ TLV +++GR HQIR+H+ + GHPL+GDPLY G K+ +
Sbjct: 213 -YQDYTLVSCRLETGRTHQIRVHMKYTGHPLVGDPLY---GPKKTLKGK----------- 257
Query: 285 YERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G +LHA +L +HP T E + APLP + +
Sbjct: 258 ------------GQFLHAAKLGFAHPKTGEFLTFEAPLPEIFE 288
>gi|420237527|ref|ZP_14741992.1| pseudouridine synthase, RluA family protein [Parascardovia
denticolens IPLA 20019]
gi|391879149|gb|EIT87661.1| pseudouridine synthase, RluA family protein [Parascardovia
denticolens IPLA 20019]
Length = 337
Score = 126 bits (316), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 84/262 (32%), Positives = 129/262 (49%), Gaps = 44/262 (16%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L ++YEDDDL+ ++KP+G+ P + TV+ LQ A + S P V RL
Sbjct: 103 LPIVYEDDDLVVVDKPAGMASHPAAGWAGPTVVEALQ--ALDKDLSRVDSDIRPGIVSRL 160
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
GTSG++L K+ A + FA + ++ K Y+ LV G + +D
Sbjct: 161 DAGTSGLMLVCKSDRAFVAMKEQFA----------------RHQVKKTYQTLVQGHIAQD 204
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ ++ PI R G + + SP GKPA++ DVLER TL+ + +++GR HQI
Sbjct: 205 RATVEAPI--ARQTGASSFRFAISPDGKPAITHWDVLER--LPGATLLSINLETGRTHQI 260
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+HL+ LGHPL+GD LY G P+ ++ G R +LH+ +
Sbjct: 261 RVHLSSLGHPLIGDTLY--GANPR----------LEEELGLNR----------QWLHSIR 298
Query: 305 LFLSHPTTNEVIKITAPLPSVL 326
L +HP + I + +PLP L
Sbjct: 299 LEFTHPVSGRTIHLESPLPDDL 320
>gi|331084859|ref|ZP_08333947.1| hypothetical protein HMPREF0987_00250 [Lachnospiraceae bacterium
9_1_43BFAA]
gi|330410953|gb|EGG90375.1| hypothetical protein HMPREF0987_00250 [Lachnospiraceae bacterium
9_1_43BFAA]
Length = 301
Score = 126 bits (316), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 95/314 (30%), Positives = 145/314 (46%), Gaps = 51/314 (16%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+ +LQ+ I+ ++ V+G+ V N LS + KEPD+ L++LYED+D
Sbjct: 29 RSYLQKLIKEKEVLVNGQPVK-ANYKLSLEDHISVMIPELKEPDILPEQIPLDILYEDED 87
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + Q S ++ P VHR+ T+G L+
Sbjct: 88 ILVVNKPKGMVVHPSAGHYSGTLVNALMFHCKDQLSGING-VMRPGIVHRIDMDTTGSLI 146
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
K A +A D T IT+ Y A+VHG++ ED I PIG
Sbjct: 147 VCKNDFAHQSLAEQLKDHT----------------ITRKYHAIVHGVLKEDNGTIDAPIG 190
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P K + V +GK A++ VL+R T V+ ++++GR HQIR+H+A + H
Sbjct: 191 --RHPVERKKMSVNYKNGKHAVTHYRVLKR--FEKFTYVECQLETGRTHQIRVHMASIRH 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PLLGD +Y P G LHA L + HP T+
Sbjct: 247 PLLGDAIYGPAKSPMKLQ-------------------------GQTLHAKILGIIHPRTS 281
Query: 314 EVIKITAPLPSVLK 327
+ ++ A LP K
Sbjct: 282 QYMEFNAELPDYFK 295
>gi|406878758|gb|EKD27579.1| hypothetical protein ACD_79C00669G0005 [uncultured bacterium]
Length = 317
Score = 126 bits (316), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 98/323 (30%), Positives = 154/323 (47%), Gaps = 49/323 (15%)
Query: 20 WLQRIQNGQITVDGRVVNDPNIILSAGS-ELVYHR---LPWKEPDVPYLLEVLYEDDDLI 75
+ I++ +IT++G++ + + S E +Y + L K ++P LE+L+EDDDLI
Sbjct: 38 LINNIKDKKITINGKLKSVSQHVFSGDVIEFIYCKPPALEIKPQNIP--LEILHEDDDLI 95
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NK GL V GG ++ T++N + + S S P VHRL + TSG+++ A
Sbjct: 96 IINKQPGLVVHAGGGTRENTLVNAIAYHFSDMDDFTDS--IRPGIVHRLDKDTSGVMIIA 153
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K I F QR I K Y A+V + ED I +PIG
Sbjct: 154 KKNSTMEIIQNQF----------------KQRIIEKEYHAIVFSNISEDITNIDKPIG-- 195
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R P K + V + A++K++V+ER +N V+ ++GR HQIR+HL+++ HP+
Sbjct: 196 RDPYDRKKMKVDGIKSRNAITKIEVIER--FKNYCYVRAFPKTGRTHQIRVHLSYIKHPI 253
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y GG K+F S LHA+++ +HPT N
Sbjct: 254 TGDSIY--GG--KNFSSVLNTNI-----------------SRIMLHAHKISFTHPTLNIP 292
Query: 316 IKITAPLPSVLKTREEGREVDKS 338
+ TAP+P+ E DK+
Sbjct: 293 VSYTAPIPNDFNALLEILRKDKA 315
>gi|418964654|ref|ZP_13516445.1| pseudouridine synthase, RluA family [Streptococcus constellatus
subsp. constellatus SK53]
gi|383344668|gb|EID22825.1| pseudouridine synthase, RluA family [Streptococcus constellatus
subsp. constellatus SK53]
Length = 298
Score = 126 bits (316), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 101/312 (32%), Positives = 156/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLI 75
++I+NGQI V+G+V + AG + Y LP E D+P L+++Y+D+D+
Sbjct: 29 EQIKNGQILVNGQV-KKAKYAVKAGDVITY-ELPEPEAMEYVAEDLP--LDIVYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NK G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKAQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ RK Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDDAHIKLADELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GK A+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RNEKDRKKQAVTA-KGKSAVTRFHVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T EV
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPKTAEV 275
Query: 316 IKITAPLPSVLK 327
++ TA +P V +
Sbjct: 276 MEFTAEVPIVFQ 287
>gi|392303781|emb|CCI70144.1| ribosomal large subunit pseudouridine synthase D [Paenibacillus
polymyxa M1]
Length = 334
Score = 126 bits (316), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 100/322 (31%), Positives = 151/322 (46%), Gaps = 65/322 (20%)
Query: 10 KHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD--------V 61
K + + +Q W I NG++ V+G V N L+ G +V L EP+ +
Sbjct: 57 KEVSRSQIQLW---IGNGRVLVNGTAVK-ANYKLAEGDHIV---LSVPEPESVDIMPENI 109
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+V+YED D+I +NK GL V P T++N L + S + P V
Sbjct: 110 P--LDVVYEDSDVIVINKQRGLVVHPAPGHSSGTLVNALMYHCHDLSGI--NGELRPGIV 165
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HR+ + TSG+L+ AK A +A D + +T+ Y ALVHG +
Sbjct: 166 HRIDKDTSGLLMAAKNDQAHASLAAQLKDHS----------------VTRKYIALVHGHL 209
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D+ + PIG R G K V + K A++ V+ER + TL+++++++GR
Sbjct: 210 SHDQGTVDAPIG--RDSGDRKMFTVTERNSKHAVTHFLVIER--LGDYTLLELQLETGRT 265
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ F+GHPL+GDP+Y G+ K E G LH
Sbjct: 266 HQIRVHMKFIGHPLVGDPMY---GRSKGVRME-----------------------GQALH 299
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
A L HPTT E ++ + P+P
Sbjct: 300 AAVLGFKHPTTGEYLEFSRPIP 321
>gi|291614496|ref|YP_003524653.1| pseudouridine synthase, RluA family [Sideroxydans lithotrophicus
ES-1]
gi|291584608|gb|ADE12266.1| pseudouridine synthase, RluA family [Sideroxydans lithotrophicus
ES-1]
Length = 331
Score = 126 bits (316), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 102/321 (31%), Positives = 158/321 (49%), Gaps = 63/321 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNII-----LSAGSELVYHRLPWKEPDVPYLLEVLYED 71
LQ W ++ G +TV+G+ + + +S ++ P+ D+P L+++YED
Sbjct: 50 LQDW---VEQGLVTVNGKAGSVKQKVWGGEHISVSPQIHPSEQPYHAEDIP--LDIVYED 104
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRG 127
D ++ +NKP GL V PG Q T+LN L A + + VP VHRL +
Sbjct: 105 DAMLIINKPVGLVVHPGSGNWQGTLLNALLHHAPQLAD---------VPRAGIVHRLDKD 155
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
TSG+++ AK+ +A+T + V ++ R + + Y ALV G +D D
Sbjct: 156 TSGLMVVAKSLVAQTAL----------------VRQMQARSVKREYLALVWGELDRD-YT 198
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
I PIG R+P + + SGK A++ V + ER CTLV+ +++GR HQIR+H
Sbjct: 199 INVPIG--RHPS-QRVKMATTESGKEAITHVGIEERFP--YCTLVRCRLETGRTHQIRVH 253
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFD-SEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLF 306
+ +GHPL+GD +Y G Q S E +G Q LHA QL
Sbjct: 254 MTHIGHPLIGDAVYQRGTQKCSPQLRELLNGFPRQ-----------------ALHATQLA 296
Query: 307 LSHPTTNEVIKITAPLPSVLK 327
L+HP T E ++ +PLP ++
Sbjct: 297 LNHPVTGERMEFHSPLPEDME 317
>gi|322374526|ref|ZP_08049040.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp.
C300]
gi|321280026|gb|EFX57065.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp.
C300]
Length = 299
Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 96/312 (30%), Positives = 156/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYL-----LEVLYEDDDLI 75
++I+ GQ+ V+G+ + G + YH +P EP+V Y+ LE++Y+D+D+
Sbjct: 29 EQIKAGQVLVNGQA-KKAKYTVQEGDIVTYH-VP--EPEVLEYVAENLPLEIIYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNSLMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T E
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGET 275
Query: 316 IKITAPLPSVLK 327
++ TA +P + K
Sbjct: 276 LEFTADIPEIFK 287
>gi|418974939|ref|ZP_13522848.1| pseudouridine synthase, RluA family [Streptococcus oralis SK1074]
gi|383348310|gb|EID26269.1| pseudouridine synthase, RluA family [Streptococcus oralis SK1074]
Length = 299
Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 96/312 (30%), Positives = 156/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYL-----LEVLYEDDDLI 75
++I+ GQ+ V+G+ + G + YH +P EP+V Y+ LE++Y+D+D+
Sbjct: 29 EQIKAGQVLVNGQA-KKAKYTVQEGDIVTYH-VP--EPEVLEYVAENLPLEIIYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T E
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGET 275
Query: 316 IKITAPLPSVLK 327
++ TA +P + K
Sbjct: 276 LEFTADIPEIFK 287
>gi|357236775|ref|ZP_09124118.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
criceti HS-6]
gi|356884757|gb|EHI74957.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
criceti HS-6]
Length = 299
Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 94/311 (30%), Positives = 149/311 (47%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
Q I++G + V+ +V + AG + Y L + D+P LE++YED D+
Sbjct: 29 QAIKDGTVLVNSQV-KKAKYSVKAGDIITYEEPEEEVLDYVAQDLP--LEIVYEDQDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S+++ P VHR+ + TSG+L+ AK
Sbjct: 86 INKPQGMVVHPSAGHPSGTLVNALLYHI-KDLSTING-VVRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 144 NDQAHQALADELKDKKSL----------------RKYLAIVHGNLPNDRGLIEAPIG--- 184
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
+ + GKPA++ VLER N TLV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSAKDRKKQAVTAKGKPAVTHFHVLER--FGNYTLVELRLETGRTHQIRVHMAYIGHPIA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDPLY G K+ G +LHA L +HPTT E++
Sbjct: 243 GDPLY---GPRKTLKGH-----------------------GQFLHAQTLGFTHPTTGELL 276
Query: 317 KITAPLPSVLK 327
+ + P + +
Sbjct: 277 EFSVRPPKLFQ 287
>gi|335029985|ref|ZP_08523484.1| pseudouridine synthase, RluA family [Streptococcus infantis SK1076]
gi|334267447|gb|EGL85907.1| pseudouridine synthase, RluA family [Streptococcus infantis SK1076]
Length = 296
Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 94/311 (30%), Positives = 156/311 (50%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + Y L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYSVQEGDVITYQVPEPEVLEYVAEDIP--LEIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHMALAQELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +L+++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFQVLER--FGDYSLLELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGETM 276
Query: 317 KITAPLPSVLK 327
+ T+ +P++ K
Sbjct: 277 EFTSDIPAIFK 287
>gi|310642966|ref|YP_003947724.1| RNA pseudouridine synthase ylyb [Paenibacillus polymyxa SC2]
gi|309247916|gb|ADO57483.1| Uncharacterized RNA pseudouridine synthase ylyB [Paenibacillus
polymyxa SC2]
Length = 323
Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 100/322 (31%), Positives = 151/322 (46%), Gaps = 65/322 (20%)
Query: 10 KHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--------DV 61
K + + +Q W I NG++ V+G V N L+ G +V L EP ++
Sbjct: 46 KEVSRSQIQLW---IGNGRVLVNGTAVK-ANYKLAEGDHIV---LSVPEPESVDIMPENI 98
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+V+YED D+I +NK GL V P T++N L + S + P V
Sbjct: 99 P--LDVVYEDSDVIVINKQRGLVVHPAPGHSSGTLVNALMYHCHDLSGI--NGELRPGIV 154
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HR+ + TSG+L+ AK A +A D + +T+ Y ALVHG +
Sbjct: 155 HRIDKDTSGLLMAAKNDQAHASLAAQLKDHS----------------VTRKYIALVHGHL 198
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D+ + PIG R G K V + K A++ V+ER + TL+++++++GR
Sbjct: 199 SHDQGTVDAPIG--RDSGDRKMFTVTERNSKHAVTHFLVIER--LGDYTLLELQLETGRT 254
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ F+GHPL+GDP+Y G+ K E G LH
Sbjct: 255 HQIRVHMKFIGHPLVGDPMY---GRSKGVRME-----------------------GQALH 288
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
A L HPTT E ++ + P+P
Sbjct: 289 AAVLGFKHPTTGEYLEFSRPIP 310
>gi|303245339|ref|ZP_07331623.1| pseudouridine synthase, RluA family [Desulfovibrio fructosovorans
JJ]
gi|302493188|gb|EFL53050.1| pseudouridine synthase, RluA family [Desulfovibrio fructosovorans
JJ]
Length = 551
Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 98/303 (32%), Positives = 145/303 (47%), Gaps = 40/303 (13%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPY---LLEVLYEDDDLIALNKP 80
I+ G+ TVDG V P L G E + RLP + L++L+ D D+I L+KP
Sbjct: 46 IEEGRATVDGAVCRKPGTKLR-GGEALGLRLPALSSETEAEAGALKLLHADTDVIVLDKP 104
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
+GL V P + T++N+L +R Q ++ + P VHRL + TSG+LL A T+ A
Sbjct: 105 AGLTVHPAPGLPEGTLVNRLLYR-FPQLRDMAGE--RPGIVHRLDKDTSGLLLVALTESA 161
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGV 200
+ +A FA R++ K Y ALVHG + D I+ PIG R P
Sbjct: 162 RQALAADFA----------------ARRVRKTYLALVHGRPERDGGDIRLPIG--RDPKH 203
Query: 201 AKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPL 260
+ V + G+ A S+ ++ +L++V+I +GR HQIR+HLA +GHP++GD +
Sbjct: 204 RAKMAVVAKGGREARSRWRLVWSAPDAAASLLEVDIFTGRTHQIRVHLAAIGHPIVGDAV 263
Query: 261 YVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITA 320
Y G Q+ RP LHA++L +HP T E
Sbjct: 264 Y---------------GASRQNDWKRRPGVLSGLATRQMLHAWKLSFTHPGTGETCAYRC 308
Query: 321 PLP 323
P P
Sbjct: 309 PPP 311
>gi|27363948|ref|NP_759476.1| 23S rRNA pseudouridine synthase D [Vibrio vulnificus CMCP6]
gi|320157325|ref|YP_004189704.1| ribosomal large subunit pseudouridine synthase D [Vibrio vulnificus
MO6-24/O]
gi|34395776|sp|Q8DEV0.1|RLUD_VIBVU RecName: Full=Ribosomal large subunit pseudouridine synthase D;
AltName: Full=23S rRNA pseudouridine(1911/1915/1917)
synthase; AltName: Full=rRNA pseudouridylate synthase D;
AltName: Full=rRNA-uridine isomerase D
gi|27360065|gb|AAO09003.1| Ribosomal large subunit pseudouridine synthase D [Vibrio vulnificus
CMCP6]
gi|319932637|gb|ADV87501.1| ribosomal large subunit pseudouridine synthase D [Vibrio vulnificus
MO6-24/O]
Length = 325
Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 99/313 (31%), Positives = 152/313 (48%), Gaps = 50/313 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYED 71
L+ WL +G++TVDG VV P + G + + + W+ D+P L+++YED
Sbjct: 36 LKEWLL---DGKVTVDGNVVTKPRTKVMGGEVITVLAELEDEVRWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD++ +NKP V PG TVLN L + + ++ VHRL + T+G+
Sbjct: 91 DDILVINKPRDFVVHPGAGTPDGTVLNALLFHCPE-----VAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R IT+ Y A+ G + + K P
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRNITREYEAIAIGRMTAGGKVDK-P 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 189 IG--RH-ATKRTLMAVSPMGKPAVTHFRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD Y GG+ + D T A ++R LHA L HP
Sbjct: 244 QHPLLGDAAY--GGRARIPAGASEDVT-AMIRNFDRQA----------LHAVMLRFEHPI 290
Query: 312 TNEVIKITAPLPS 324
T E ++ AP+P
Sbjct: 291 TGEEMEFHAPVPD 303
>gi|395240816|ref|ZP_10417840.1| Pseudouridine synthase [Lactobacillus gigeriorum CRBIP 24.85]
gi|394475598|emb|CCI87817.1| Pseudouridine synthase [Lactobacillus gigeriorum CRBIP 24.85]
Length = 311
Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 96/310 (30%), Positives = 160/310 (51%), Gaps = 61/310 (19%)
Query: 24 IQNGQITVDGRVVNDP-NIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIA 76
I++G+ITV+ + +IL+ E+ H +P +P ++P L+++YEDDD+I
Sbjct: 45 IKDGEITVNNKKEKASYKVILN--DEVKVH-VPALKPLSLEPENIP--LDIIYEDDDVIV 99
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + +SS + P VHR+ + TSG+L+ AK
Sbjct: 100 VNKPQGMVVHPSAGHPDHTLVNALLYHTKDLASS--PEGFRPGIVHRIDKDTSGLLMIAK 157
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
T A+ + A+K + ++Y A+VHG E+ I PIG R
Sbjct: 158 TPTARESLEYQLANKIN----------------KRLYLAIVHGNFGEEAGKIDAPIG--R 199
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
P K + V +GK A++ VLE+ + +L+Q ++++GR HQIR+HL+++GHP+
Sbjct: 200 NPLDRKKMAVVE-NGKHAVTHFKVLEQ--YQGFSLIQCQLETGRTHQIRVHLSYIGHPVA 256
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDPLY G + N + G+ G +LHA L + PTTN+ +
Sbjct: 257 GDPLY----------------------GLK---NTLKGN-GQFLHAQVLGFNQPTTNDWL 290
Query: 317 KITAPLPSVL 326
+ + P+P++
Sbjct: 291 EFSTPVPTIF 300
>gi|288871585|ref|ZP_06410236.1| ribosomal large subunit pseudouridine synthase D [Clostridium
hathewayi DSM 13479]
gi|288862917|gb|EFC95215.1| ribosomal large subunit pseudouridine synthase D [Clostridium
hathewayi DSM 13479]
Length = 304
Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 84/263 (31%), Positives = 124/263 (47%), Gaps = 46/263 (17%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L++LYED D+I +NKP G+ V P T++N L S ++ P VHR+
Sbjct: 79 LDILYEDSDIILINKPKGMVVHPAAGHYSGTLVNGLMAHCRADLSGING-VMRPGIVHRI 137
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
T+G+L+ K +A IA +L IT+ Y A+VHG++ ED
Sbjct: 138 DMDTTGVLIVCKNDMAHNSIAE----------------QLKVHSITRKYYAVVHGVMKED 181
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ + PIG R+P K + + +G+ A++ VLER R T V+ +++GR HQI
Sbjct: 182 EGTVSGPIG--RHPVDRKKMCINEKNGRDAVTHYRVLER--FRQFTYVECRLETGRTHQI 237
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+A +GHPLLGD +Y P G LHA
Sbjct: 238 RVHMASIGHPLLGDAVYGPAKCPYKL-------------------------TGQTLHAGV 272
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L + HP T E ++ TAPLP +
Sbjct: 273 LGIVHPRTGEYMEFTAPLPEYFE 295
>gi|83319260|ref|YP_424375.1| ribosomal large subunit pseudouridine synthase A [Mycoplasma
capricolum subsp. capricolum ATCC 27343]
gi|83283146|gb|ABC01078.1| ribosomal large subunit pseudouridine synthase, RluA family
[Mycoplasma capricolum subsp. capricolum ATCC 27343]
Length = 322
Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 89/324 (27%), Positives = 160/324 (49%), Gaps = 65/324 (20%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYH-RLPWKEPDV-----PYL------ 64
+ ++Q+ I+ I+V+ +++ N ++ S+++ + P +P++ P L
Sbjct: 30 RSYIQKLIKEECISVNNQIITSNNFLVKPNSQIIITIKDPVLDPNITKNKDPVLDPNITK 89
Query: 65 -----LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
L ++Y+DDDL+ +NK + + V P T++N L + + SS++ + P
Sbjct: 90 NKDIDLNIIYQDDDLLVINKQNNITVHPSLNNTNNTIVNAL-LASDVELSSINGEL-RPG 147
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + T+G+L+ AK ++ F + +I K Y A+V G
Sbjct: 148 IVHRIDKQTTGLLIVAKNDKTHKLLSEMFKN----------------HQIYKEYLAIVTG 191
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
++ +K +I PIG R K + V + + K A++ +V+ER ++ TL++ +IQ+G
Sbjct: 192 VIKPNKGLIDAPIG--RSQTDRKKMSVTAKNSKHAITTFEVVERFLKN--TLIKCQIQTG 247
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H ++ HP+L DP+Y Q EF D G Y
Sbjct: 248 RTHQIRVHFNYINHPVLNDPIYGKKHQ------EFT-------------------DFGQY 282
Query: 300 LHAYQLFLSHPTTNEVIKITAPLP 323
LHAY+L +HP T + I++ +PLP
Sbjct: 283 LHAYKLKFTHPITKKEIELISPLP 306
>gi|418966478|ref|ZP_13518213.1| pseudouridine synthase, RluA family [Streptococcus mitis SK616]
gi|383347283|gb|EID25273.1| pseudouridine synthase, RluA family [Streptococcus mitis SK616]
Length = 295
Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 97/312 (31%), Positives = 157/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYL-----LEVLYEDDDLI 75
++I+ GQ+ V+G+V + G + YH +P EP+V Y+ LE++Y+D+D+
Sbjct: 29 EQIKLGQVLVNGQV-KKAKYTVQEGDIVTYH-VP--EPEVLEYVAENLPLEIIYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMVA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T E
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGET 275
Query: 316 IKITAPLPSVLK 327
++ TA +P + K
Sbjct: 276 LEFTADIPELFK 287
>gi|332638853|ref|ZP_08417716.1| pseudouridine synthase [Weissella cibaria KACC 11862]
Length = 304
Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 98/313 (31%), Positives = 150/313 (47%), Gaps = 61/313 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
+ GW I +G +TV+G V + E+ + + + D+P L+++YED
Sbjct: 31 VTGW---INDGILTVNG-AVKKAKYSVKPNDEIKFTVPEAVEIDLQPEDIP--LDIVYED 84
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DDL+ +NKP G+ V P + T++N L + S + P VHR+ + TSG+
Sbjct: 85 DDLLVVNKPQGMVVHPALGHESGTLVNALMFHTP---LSTINGVVRPGIVHRIDKDTSGL 141
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK A ++ DK ++ + Y ALVHG E++ IK P
Sbjct: 142 LMVAKNDKAHESLSAQLKDKKNL----------------RQYYALVHGEFVENEGTIKAP 185
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
+G R K V + G+ A++ V++R V TL+QV +++GR HQIR+H+A++
Sbjct: 186 LG--RSSADRKKQAVVA-GGRDAVTHFKVVKRFV--GYTLLQVTLETGRTHQIRVHMAYI 240
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHP+ GDPLY P +PG+ G YLHA L L+ PT
Sbjct: 241 GHPVAGDPLY-------------------------GPKKTLPGN-GQYLHAATLGLTQPT 274
Query: 312 TNEVIKITAPLPS 324
T E + APLP
Sbjct: 275 TGEDMTFEAPLPD 287
>gi|300361720|ref|ZP_07057897.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
gasseri JV-V03]
gi|300354339|gb|EFJ70210.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
gasseri JV-V03]
Length = 304
Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 95/325 (29%), Positives = 160/325 (49%), Gaps = 63/325 (19%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE-------PDVPYLLE-------V 67
++I++ T +VND NI+++ +E V +++ + P P LE +
Sbjct: 22 EKIKDLSRTKIKELVNDKNILVNNKAEKVSYKVQAGDLIDITVPPAKPLSLEAQNLNLDI 81
Query: 68 LYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRG 127
+YED D+I +NKP G+ V P T++N L + K + S + P VHR+ +
Sbjct: 82 VYEDADVIVVNKPQGMVVHPSAGHPDHTLVNGLLYHTHKLADS--PEGFRPGIVHRIDKD 139
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
TSG+L+ AK A+ + A+K +++R+ Y A+VHG + +
Sbjct: 140 TSGLLMVAKNDKARESLEKQLAEK------------INKRE----YLAIVHGNFETKNGV 183
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
I PIG R P K + V +P GK A++ VLE+ ++ +LV+ +++GR HQIR+H
Sbjct: 184 IDAPIG--RNPNNRKQMAV-NPKGKAAVTHFTVLEQ--FKDYSLVKCVLETGRTHQIRVH 238
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
+ ++GHPL GDPLY G K+ G +LHA L
Sbjct: 239 MKYIGHPLAGDPLY---GPKKTLTGH-----------------------GQFLHAETLGF 272
Query: 308 SHPTTNEVIKITAPLPSVLKTREEG 332
P+T++ ++ +APLP++ + + E
Sbjct: 273 YQPSTHKWLEFSAPLPAIFEKQLEN 297
>gi|224541418|ref|ZP_03681957.1| hypothetical protein CATMIT_00580 [Catenibacterium mitsuokai DSM
15897]
gi|224525664|gb|EEF94769.1| pseudouridine synthase, RluA family [Catenibacterium mitsuokai DSM
15897]
Length = 306
Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 83/270 (30%), Positives = 132/270 (48%), Gaps = 50/270 (18%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P L+++YED+D+I +NKP+G+ V P T++N L + S+ + + P
Sbjct: 77 DIP--LDIIYEDEDVIVVNKPTGMIVHPSAGIYSGTLVNALLYHCHDLSAI--NGITRPG 132
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + TSG+L+ AK A ++ +L + + + Y ALVHG
Sbjct: 133 IVHRIDKETSGLLMVAKNDNAHRSLSK----------------QLEEHSVVRRYVALVHG 176
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
+++ + I+ PIG R K + V S + K A++ VLER + TL++ +++G
Sbjct: 177 VINHNVGRIEAPIG--RDSKDRKKMAVTSKNAKDAITNFKVLER--YDDMTLIECRLETG 232
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H+ ++GHP+ GDP Y G+ N G Y
Sbjct: 233 RTHQIRVHMQYIGHPVYGDPQY----------------------GFRNDDNT----NGQY 266
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLKTR 329
LHA L HP TNE + APLP + +
Sbjct: 267 LHARVLGFVHPRTNEHMYFEAPLPDFFEEK 296
>gi|306829292|ref|ZP_07462482.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
mitis ATCC 6249]
gi|304428378|gb|EFM31468.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
mitis ATCC 6249]
Length = 299
Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 153/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G+ + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKVGQVLVNGQA-KKAKYTVQEGDIVTYHVPEPEVLEYVAEDLP--LEIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +L+++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFQVLER--FGDYSLLELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGETL 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|297171550|gb|ADI22548.1| pseudouridylate synthases, 23S RNA-specific [uncultured
Oceanospirillales bacterium HF0500_09M11]
Length = 519
Score = 125 bits (315), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 105/324 (32%), Positives = 156/324 (48%), Gaps = 44/324 (13%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLE--VLYEDDDL 74
LQ W I+ G +TVDGR + +L + + L + D P +E V+Y+D DL
Sbjct: 236 LQNW---IKEGVLTVDGRAARPKDKLLGGEALTLAVELAPEIDDQPEAIELPVIYQDQDL 292
Query: 75 IALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLC 134
I +NKP+GL V P T+LN L + SSL VHRL R T+G+++
Sbjct: 293 IVINKPAGLVVHPAAGHADGTLLNGL-LHLDDRLSSLPRAGI----VHRLDRDTTGLMVV 347
Query: 135 AKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGI 194
A++ A T + DK+ + + Y+A+ G++ + P+G
Sbjct: 348 ARSVEAHTGLVAQLQDKS----------------LYREYQAIAMGVMTGGGTV-DAPMG- 389
Query: 195 VRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHP 254
R+P K V + GKPA++ VL+R R T VQV +++GR HQIR+HLA +P
Sbjct: 390 -RHPVDRKRQAVVTHGGKPAVTHYRVLDR--YRAHTRVQVRLETGRTHQIRVHLAHRRYP 446
Query: 255 LLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNE 314
L+GDPLY GG+ K G E + G LHA++L L HP + E
Sbjct: 447 LVGDPLY--GGRLKQ-----------PAGATEALREALRGFRRQALHAFKLGLVHPASGE 493
Query: 315 VIKITAPLPSVLKTREEGREVDKS 338
++ APLP +T + E D+
Sbjct: 494 YMEFEAPLPEDFQTLVQVLEADRE 517
>gi|422860241|ref|ZP_16906885.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK330]
gi|327470139|gb|EGF15603.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK330]
Length = 298
Score = 125 bits (315), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 96/312 (30%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I++G I V+G+ + +++ + LP E D+P LE++Y+D+D+
Sbjct: 31 EQIKDGLILVNGQAKKAKYAVKEG--DVISYELPESEVVEYVAEDIP--LEIVYQDEDVA 86
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 87 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 144
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ RK Y A+VHG + D+ +I+ PIG
Sbjct: 145 KNDQAHVALADELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG-- 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPAL++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 187 RSEKDRKKQAVTA-KGKPALTRFQVLER--FGDFSLVELQLETGRTHQIRVHMAYIGHPV 243
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T EV
Sbjct: 244 AGDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEV 277
Query: 316 IKITAPLPSVLK 327
++ TA P + +
Sbjct: 278 LEFTAEAPVIFQ 289
>gi|116511823|ref|YP_809039.1| ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. cremoris SK11]
gi|116107477|gb|ABJ72617.1| ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. cremoris SK11]
Length = 301
Score = 125 bits (315), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 92/278 (33%), Positives = 136/278 (48%), Gaps = 55/278 (19%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P LE++YED D+ +NKP G+ V P T++N + + K SS++ P
Sbjct: 74 DLP--LEIIYEDSDVAVVNKPQGMVVHPAAGHASGTLVNAIMYHI-KDLSSING-VIRPG 129
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + TSG+L+ AK A +A DKTS + Y A+VHG
Sbjct: 130 IVHRIDKDTSGLLMIAKNDKAHESLAAQLKDKTS----------------KRRYLAIVHG 173
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
+ DK I+ PIG R K V S GKPA++ +VLER V TL+ + +++G
Sbjct: 174 ELANDKGTIEAPIG--RNLKDRKKQAVVS-GGKPAVTHFEVLERFV--GYTLIALRLETG 228
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H+ ++GHP+ GDPLY G + + P + G +
Sbjct: 229 RTHQIRVHMHYIGHPVAGDPLY----------------------GPNKTLTP---NKGQF 263
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLKT-----REEG 332
LHA L HPT+ E+++ P + K RE+G
Sbjct: 264 LHAETLGFEHPTSGELMEFQVDAPDLFKEQLEKLREQG 301
>gi|423483483|ref|ZP_17460173.1| RluA family pseudouridine synthase [Bacillus cereus BAG6X1-2]
gi|401141034|gb|EJQ48589.1| RluA family pseudouridine synthase [Bacillus cereus BAG6X1-2]
Length = 302
Score = 125 bits (315), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 98/314 (31%), Positives = 150/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LEV YED D
Sbjct: 34 VQQW---IKDDVVTVNGKSVKG-NYKVKENDEITVTIPEPEELDIQPEDMNLEVYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P + T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PIG
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER +N TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKNAVTHFQVLER--FKNFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIEFEAPIPEVFE 294
>gi|417848519|ref|ZP_12494462.1| pseudouridine synthase, RluA family [Streptococcus mitis SK1073]
gi|339452553|gb|EGP65179.1| pseudouridine synthase, RluA family [Streptococcus mitis SK1073]
Length = 295
Score = 125 bits (315), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 96/312 (30%), Positives = 156/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYL-----LEVLYEDDDLI 75
++I++G + V+G+V + G + YH +P EP+V Y+ LE++Y+D+D+
Sbjct: 29 EQIKSGHVLVNGQV-KKAKYTVQEGDVVTYH-VP--EPEVLEYVAENLPLEIIYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNSLMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T E
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGET 275
Query: 316 IKITAPLPSVLK 327
++ TA P + K
Sbjct: 276 LEFTADTPEIFK 287
>gi|312111747|ref|YP_003990063.1| pseudouridine synthase [Geobacillus sp. Y4.1MC1]
gi|311216848|gb|ADP75452.1| pseudouridine synthase, RluA family [Geobacillus sp. Y4.1MC1]
Length = 304
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 101/313 (32%), Positives = 153/313 (48%), Gaps = 61/313 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+Q W I+N +TV+ + V N SAG ++V RLP EP ++P L++ YE
Sbjct: 33 VQQW---IKNQLVTVNDQHVK-ANYKCSAG-DIVVVRLPEPEPLYVEPENIP--LDIYYE 85
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D++ +NKP G+ V P + T++N L A S + P VHR+ + TSG
Sbjct: 86 DADVLVVNKPRGMVVHPAPGHMRGTLVNALL--AHCHDLSGINGVLRPGIVHRIDKDTSG 143
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK +A + V +L ++ +T+ Y+A+VHG++ D I
Sbjct: 144 LLMVAKNDMAHQAL----------------VDQLVKKTVTRKYKAIVHGVIPHDYGTIDA 187
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R K + V +GK A++ VLER R T ++ ++++GR HQIR+H+ +
Sbjct: 188 PIG--RDKRDRKKMAVTEENGKEAVTHFRVLER--FRQYTFIECQLETGRTHQIRVHMKY 243
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDP Y P +P D G LHA L SHP
Sbjct: 244 IGYPLAGDPQY-------------------------GPKKTLPID-GQALHAGVLGFSHP 277
Query: 311 TTNEVIKITAPLP 323
T E ++ APLP
Sbjct: 278 RTGEYLEFEAPLP 290
>gi|312622398|ref|YP_004024011.1| pseudouridine synthase, rlua family [Caldicellulosiruptor
kronotskyensis 2002]
gi|312202865|gb|ADQ46192.1| pseudouridine synthase, RluA family [Caldicellulosiruptor
kronotskyensis 2002]
Length = 299
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 88/260 (33%), Positives = 136/260 (52%), Gaps = 47/260 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
+EVLYED+ L +NKP G+ V PG + T++N L + S + SS++ P VHRL
Sbjct: 73 IEVLYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFSGRLSSING-VIRPGIVHRL 131
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AKT A ++ L +I +IY A+ G++ ED
Sbjct: 132 DKDTSGLLVVAKTDEAHIKLS----------------EALKSHQIKRIYYAICEGVLKED 175
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+I PIG R+P V + P+GK A++ +VLER T +++ +++GR HQI
Sbjct: 176 SGVINAPIG--RHP-VNRLKMAVVPNGKEAVTYFEVLERF--DKYTFIKLRLKTGRTHQI 230
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H++++G+PLLGD +Y G+ K +EF G G LHA +
Sbjct: 231 RVHISYIGYPLLGDGIY---GRAK---NEF-------------------GVEGQVLHAGE 265
Query: 305 LFLSHPTTNEVIKITAPLPS 324
+ HP T+EV+ +A LP
Sbjct: 266 IEFVHPITSEVLHFSAELPE 285
>gi|154504404|ref|ZP_02041142.1| hypothetical protein RUMGNA_01908 [Ruminococcus gnavus ATCC 29149]
gi|336432355|ref|ZP_08612190.1| hypothetical protein HMPREF0991_01309 [Lachnospiraceae bacterium
2_1_58FAA]
gi|153795333|gb|EDN77753.1| pseudouridine synthase, RluA family [Ruminococcus gnavus ATCC
29149]
gi|336018692|gb|EGN48429.1| hypothetical protein HMPREF0991_01309 [Lachnospiraceae bacterium
2_1_58FAA]
Length = 309
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 96/317 (30%), Positives = 149/317 (47%), Gaps = 57/317 (17%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLL------EVLYE 70
+ ++Q+ I++G + V+G+ V N L + E+ +L E +VP +L ++LYE
Sbjct: 31 RSYIQKLIKDGLVEVNGKQVKT-NYKLGSEDEV---KLQIPELEVPDILPEEIPLDILYE 86
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D DL+ +NKP G+ V P T++N L + + S ++ P VHR+ T+G
Sbjct: 87 DTDLLVVNKPKGMVVHPAPGHYTGTLVNALMYHCRENLSGING-VMRPGIVHRIDMDTTG 145
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
LL K A +A D + IT+ Y A+VHG + ED +
Sbjct: 146 SLLVCKNDRAHQILAEQLKDHS----------------ITRRYEAIVHGNLKEDSGTVNA 189
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R+P K + V +P G+ A++ VLER N T ++ E+++GR HQIR+H+A
Sbjct: 190 PIG--RHPTDRKKMSVHAPHGREAVTHYRVLER--FGNYTHIECELETGRTHQIRVHMAS 245
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHP+LGD +Y P G LHA L HP
Sbjct: 246 IGHPILGDLVYGPTKCPFRLQ-------------------------GQTLHARILGFVHP 280
Query: 311 TTNEVIKITAPLPSVLK 327
+T ++ APLP +
Sbjct: 281 STGAYVQFDAPLPEYFE 297
>gi|343518248|ref|ZP_08755242.1| ribosomal large subunit pseudouridine synthase D [Haemophilus
pittmaniae HK 85]
gi|343394044|gb|EGV06594.1| ribosomal large subunit pseudouridine synthase D [Haemophilus
pittmaniae HK 85]
Length = 324
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 100/331 (30%), Positives = 167/331 (50%), Gaps = 58/331 (17%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ G+++++G++ N P + G + + +
Sbjct: 22 TLAELFPDYSRSR--LKVW---IEEGKVSLNGQLANVPRAKVFGGETVEINVEIEDENRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L+++YEDDD++ +NKP L V PG TVLN L + + +
Sbjct: 77 EAQNIP--LDIVYEDDDILVINKPKDLVVHPGAGNPSGTVLNALLYHYPAIAEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTQL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + +QP+ R+P + L P GKPA++ V+E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-EQPMA--RHP-TKRTLMAVHPLGKPAVTHYRVMEH--FRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVP 293
++GR HQIR+H+A + HPLLGD Y GG+ PK D +F ++R
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKDADEQF----LTVLRNFKRQA---- 277
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L HP + E+++ APLP+
Sbjct: 278 ------LHAVMLRLHHPISGELMEWYAPLPA 302
>gi|421766135|ref|ZP_16202913.1| Ribosomal large subunit pseudouridine synthase D [Lactococcus
garvieae DCC43]
gi|407625505|gb|EKF52209.1| Ribosomal large subunit pseudouridine synthase D [Lactococcus
garvieae DCC43]
Length = 302
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 99/314 (31%), Positives = 149/314 (47%), Gaps = 58/314 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLIAL 77
++ G+++VDG + AG + Y LP E D+P L+++YED D+ +
Sbjct: 34 VREGKVSVDGET-KKAKYKVKAGESVTY-ELPEVEVLDIQAEDIP--LDIVYEDADVAVI 89
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N + + SS + P VHR+ + TSG+L+ AK
Sbjct: 90 NKPQGMVVHPSAGHASGTLVNAIMYHIQDLSSI--NGVIRPGIVHRIDKDTSGLLMIAKN 147
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A KT+ +R+ Y ALVHG + +K I+ PIG R
Sbjct: 148 DRAHESLAAQLKAKTN------------KRR----YIALVHGEIPNEKGTIEAPIG--RN 189
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P K V S GKPA + VLER TL+ +E+++GR HQIR+HLA++G P+ G
Sbjct: 190 PKERKKQAVVS-GGKPAKTHFTVLERFA--GYTLLSLELETGRTHQIRVHLAYIGFPIAG 246
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DPLY G + + P + G +LHA L HPTT E+++
Sbjct: 247 DPLY----------------------GPSKTLTP---NKGQFLHAETLGFEHPTTGELME 281
Query: 318 ITAPLPSVLKTREE 331
+P + + E
Sbjct: 282 FQIDIPELFAQQLE 295
>gi|325661581|ref|ZP_08150205.1| hypothetical protein HMPREF0490_00939 [Lachnospiraceae bacterium
4_1_37FAA]
gi|325472108|gb|EGC75322.1| hypothetical protein HMPREF0490_00939 [Lachnospiraceae bacterium
4_1_37FAA]
Length = 310
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 95/314 (30%), Positives = 145/314 (46%), Gaps = 51/314 (16%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+ +LQ+ I+ ++ V+G+ V N LS + KEPD+ L++LYED+D
Sbjct: 29 RSYLQKLIKEKEVLVNGQPVK-ANYKLSLEDHISVTIPELKEPDILPEQIPLDILYEDED 87
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + Q S ++ P VHR+ T+G L+
Sbjct: 88 ILVVNKPKGMVVHPSAGHYSGTLVNALMFHCKDQLSGING-VMRPGIVHRIDMDTTGSLI 146
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
K A +A D T IT+ Y A+VHG++ ED I PIG
Sbjct: 147 VCKNDFAHQSLAEQLKDHT----------------ITRKYHAIVHGVLKEDNGTIDAPIG 190
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P K + V +GK A++ VL+R T V+ ++++GR HQIR+H+A + H
Sbjct: 191 --RHPVERKKMSVNYKNGKHAVTHYRVLKR--FEKFTYVECQLETGRTHQIRVHMASIRH 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PLLGD +Y P G LHA L + HP T+
Sbjct: 247 PLLGDAVYGPAKSPMKLQ-------------------------GQTLHAKILGIIHPRTS 281
Query: 314 EVIKITAPLPSVLK 327
+ ++ A LP K
Sbjct: 282 QYMEFNAELPDYFK 295
>gi|375147652|ref|YP_005010093.1| ribosomal large subunit pseudouridine synthase D [Niastella
koreensis GR20-10]
gi|361061698|gb|AEW00690.1| ribosomal large subunit pseudouridine synthase D [Niastella
koreensis GR20-10]
Length = 358
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 100/323 (30%), Positives = 161/323 (49%), Gaps = 63/323 (19%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR---------LPWKEPDVPYLLEVLYEDD 72
Q I++G++TV+G+ V N + G E++ + +P + P L +++EDD
Sbjct: 60 QSIESGRVTVNGKTVQ-ANHKIKPGEEIIVYSDKEMHGEEIIPEQMP-----LNIVFEDD 113
Query: 73 DLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRGT 128
D++ +NKP GL V P + T++N + W +Q+S++S+ +P VHR+ + T
Sbjct: 114 DILIINKPVGLVVHPASGNPRGTLINGVAWYLQQQNSNISADN---LPRFGLVHRIDKNT 170
Query: 129 SGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVII 188
SG+++ AKT+ A T +A F D T I + Y ALV G V ED+ I
Sbjct: 171 SGLMVLAKTEKAVTSLAKEFFDHT----------------IHRQYVALVWGDVAEDEGTI 214
Query: 189 KQPIGIVRYPGVAKGLYVASPSG---KPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIR 245
++ IG R+ K ++ A P G K A++ VLER T+VQ E+++GR HQIR
Sbjct: 215 RKHIG--RHQRFRK-IFDAYPDGEVGKDAVTHYKVLER--LGYVTIVQCELETGRTHQIR 269
Query: 246 IHLAFLGHPLLGDPLY----VAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
+H+ +GHPL D LY + G + +F D FA + P + LH
Sbjct: 270 VHMKSIGHPLFNDELYGGDRIVKGTVFTKYKQFVDNCFA--------ICP-----RHALH 316
Query: 302 AYQLFLSHPTTNEVIKITAPLPS 324
A + HP T + + + +P
Sbjct: 317 AKTIGFIHPRTRKEVVFNSEMPE 339
>gi|225858727|ref|YP_002740237.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae 70585]
gi|225722071|gb|ACO17925.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae 70585]
Length = 295
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDLP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T + +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGKTL 276
Query: 317 KITAPLPSVLK 327
+ A +P + K
Sbjct: 277 EFKADIPEIFK 287
>gi|148996979|ref|ZP_01824633.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP11-BS70]
gi|168491017|ref|ZP_02715160.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D) (rRNA pseudouridylate synthase D)
[Streptococcus pneumoniae CDC0288-04]
gi|168575592|ref|ZP_02721528.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D) (rRNA pseudouridylate synthase D)
[Streptococcus pneumoniae MLV-016]
gi|237651118|ref|ZP_04525370.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae CCRI 1974]
gi|237821884|ref|ZP_04597729.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae CCRI 1974M2]
gi|307067586|ref|YP_003876552.1| 23S RNA-specific pseudouridylate synthase [Streptococcus pneumoniae
AP200]
gi|405761056|ref|YP_006701652.1| RNA pseudouridylate synthase [Streptococcus pneumoniae SPNA45]
gi|418143738|ref|ZP_12780538.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA13494]
gi|418193557|ref|ZP_12830049.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47439]
gi|419457307|ref|ZP_13997252.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA02254]
gi|419470884|ref|ZP_14010743.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA07914]
gi|419481952|ref|ZP_14021745.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA40563]
gi|419503742|ref|ZP_14043411.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47760]
gi|421238560|ref|ZP_15695129.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2071247]
gi|421244751|ref|ZP_15701253.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2081685]
gi|421314096|ref|ZP_15764686.1| pseudouridine synthase [Streptococcus pneumoniae GA47562]
gi|147756679|gb|EDK63719.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP11-BS70]
gi|183574680|gb|EDT95208.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D) (rRNA pseudouridylate synthase D)
[Streptococcus pneumoniae CDC0288-04]
gi|183578513|gb|EDT99041.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D) (rRNA pseudouridylate synthase D)
[Streptococcus pneumoniae MLV-016]
gi|306409123|gb|ADM84550.1| Pseudouridylate synthase, 23S RNA-specific [Streptococcus
pneumoniae AP200]
gi|353809479|gb|EHD89739.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA13494]
gi|353859537|gb|EHE39487.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47439]
gi|379532305|gb|EHY97534.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA02254]
gi|379545600|gb|EHZ10739.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA07914]
gi|379580826|gb|EHZ45715.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA40563]
gi|379606419|gb|EHZ71166.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47760]
gi|395603147|gb|EJG63288.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2071247]
gi|395609928|gb|EJG70012.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2081685]
gi|395914596|gb|EJH25440.1| pseudouridine synthase [Streptococcus pneumoniae GA47562]
gi|404277945|emb|CCM08515.1| putative RNA pseudouridylate synthase [Streptococcus pneumoniae
SPNA45]
Length = 295
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDLP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T + +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGKTL 276
Query: 317 KITAPLPSVLK 327
+ A +P + K
Sbjct: 277 EFKADIPEIFK 287
>gi|385838116|ref|YP_005875746.1| Ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. cremoris A76]
gi|358749344|gb|AEU40323.1| Ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. cremoris A76]
Length = 301
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 90/273 (32%), Positives = 133/273 (48%), Gaps = 53/273 (19%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
LE++YED D+ +NKP G+ V P T++N + + K SS++ P VHR+
Sbjct: 77 LEIIYEDSDVAVVNKPQGMVVHPAAGHASGTLVNAIMYHI-KDLSSING-VIRPGIVHRI 134
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A +A DKTS + Y A+VHG + D
Sbjct: 135 DKDTSGLLMIAKNDKAHESLAAQLKDKTS----------------KRRYLAIVHGELAND 178
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I+ PIG R K V S GKPA++ +VLER V TL+ + +++GR HQI
Sbjct: 179 KGTIEAPIG--RNLKDRKKQAVVS-GGKPAVTHFEVLERFV--GYTLIALRLETGRTHQI 233
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++GHP+ GDPLY G + + P + G +LHA
Sbjct: 234 RVHMHYIGHPVAGDPLY----------------------GPNKTLTP---NKGQFLHAET 268
Query: 305 LFLSHPTTNEVIKITAPLPSVLKT-----REEG 332
L HPT+ E+++ P + K RE+G
Sbjct: 269 LGFEHPTSGELMEFQVDAPDLFKEQLEKLREQG 301
>gi|422851716|ref|ZP_16898386.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK150]
gi|325694604|gb|EGD36513.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK150]
Length = 298
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 93/312 (29%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I++G+I V+G+ + +++ + LP E D+P LE++Y+D+D+
Sbjct: 31 EQIKDGRILVNGQAKKAKYAVKEG--DVISYELPEPEVVEYVAEDIP--LEIVYQDEDVA 86
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 87 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 144
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 145 KNDQAHVALADELKDKKSL----------------RKYWAIVHGNLSNDRGVIEAPIG-- 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPAL++ VLER + +LV++++++GR HQIR+H+A++ HP+
Sbjct: 187 RSEKDRKKQAVTA-KGKPALTRFQVLER--FGDYSLVELQLETGRTHQIRVHMAYIEHPV 243
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T EV
Sbjct: 244 AGDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEV 277
Query: 316 IKITAPLPSVLK 327
++ TA +P + +
Sbjct: 278 LEFTAEVPDIFQ 289
>gi|15900809|ref|NP_345413.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae TIGR4]
gi|111658131|ref|ZP_01408829.1| hypothetical protein SpneT_02000697 [Streptococcus pneumoniae
TIGR4]
gi|148992939|ref|ZP_01822558.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP9-BS68]
gi|149010429|ref|ZP_01831800.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP19-BS75]
gi|168485879|ref|ZP_02710387.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae CDC1087-00]
gi|168490255|ref|ZP_02714454.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP195]
gi|169834331|ref|YP_001694382.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae Hungary19A-6]
gi|182683874|ref|YP_001835621.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae CGSP14]
gi|194398681|ref|YP_002037566.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae G54]
gi|303259840|ref|ZP_07345815.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP-BS293]
gi|303262254|ref|ZP_07348198.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP14-BS292]
gi|303264676|ref|ZP_07350594.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae BS397]
gi|303267177|ref|ZP_07353044.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae BS457]
gi|303269425|ref|ZP_07355194.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae BS458]
gi|387759186|ref|YP_006066164.1| putative RNA pseudouridylate synthase [Streptococcus pneumoniae
INV200]
gi|417678882|ref|ZP_12328279.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17570]
gi|417686371|ref|ZP_12335649.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA41301]
gi|417693847|ref|ZP_12343036.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47901]
gi|418121000|ref|ZP_12757946.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA44194]
gi|418125537|ref|ZP_12762448.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA44511]
gi|418130094|ref|ZP_12766978.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA07643]
gi|418139276|ref|ZP_12776106.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA13338]
gi|418159604|ref|ZP_12796303.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17227]
gi|418180384|ref|ZP_12816955.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA41688]
gi|418184744|ref|ZP_12821291.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47283]
gi|418186941|ref|ZP_12823470.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47360]
gi|418189160|ref|ZP_12825675.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47373]
gi|418191474|ref|ZP_12827978.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47388]
gi|418200243|ref|ZP_12836688.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47976]
gi|418214101|ref|ZP_12840836.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA54644]
gi|418229675|ref|ZP_12856281.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae EU-NP01]
gi|418234127|ref|ZP_12860706.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA08780]
gi|419477594|ref|ZP_14017419.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA18068]
gi|419484207|ref|ZP_14023983.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA43257]
gi|419490848|ref|ZP_14030588.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47179]
gi|419510550|ref|ZP_14050194.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae NP141]
gi|419514486|ref|ZP_14054113.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae England14-9]
gi|419520864|ref|ZP_14060460.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA05245]
gi|419523187|ref|ZP_14062767.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA13723]
gi|419530255|ref|ZP_14069785.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA40028]
gi|419532159|ref|ZP_14071676.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47794]
gi|421206376|ref|ZP_15663437.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2090008]
gi|421212985|ref|ZP_15669946.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2070108]
gi|421215158|ref|ZP_15672086.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2070109]
gi|421220079|ref|ZP_15676929.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2070425]
gi|421222406|ref|ZP_15679197.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2070531]
gi|421229571|ref|ZP_15686244.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2061376]
gi|421247189|ref|ZP_15703676.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2082170]
gi|421268130|ref|ZP_15719002.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae SPAR95]
gi|421270609|ref|ZP_15721465.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae SPAR48]
gi|421274831|ref|ZP_15725663.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA52612]
gi|421278704|ref|ZP_15729512.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17301]
gi|421291800|ref|ZP_15742538.1| pseudouridine synthase [Streptococcus pneumoniae GA56348]
gi|421294236|ref|ZP_15744959.1| pseudouridine synthase [Streptococcus pneumoniae GA56113]
gi|421296078|ref|ZP_15746790.1| pseudouridine synthase [Streptococcus pneumoniae GA58581]
gi|421300778|ref|ZP_15751449.1| pseudouridine synthase [Streptococcus pneumoniae GA19998]
gi|421311669|ref|ZP_15762276.1| pseudouridine synthase [Streptococcus pneumoniae GA58981]
gi|14972404|gb|AAK75053.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae TIGR4]
gi|147764910|gb|EDK71839.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP19-BS75]
gi|147928391|gb|EDK79407.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP9-BS68]
gi|168996833|gb|ACA37445.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae Hungary19A-6]
gi|182629208|gb|ACB90156.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae CGSP14]
gi|183571050|gb|EDT91578.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae CDC1087-00]
gi|183571388|gb|EDT91916.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP195]
gi|194358348|gb|ACF56796.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae G54]
gi|301801775|emb|CBW34486.1| putative RNA pseudouridylate synthase [Streptococcus pneumoniae
INV200]
gi|302636577|gb|EFL67068.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP14-BS292]
gi|302639045|gb|EFL69505.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP-BS293]
gi|302641044|gb|EFL71422.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae BS458]
gi|302643292|gb|EFL73572.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae BS457]
gi|302645763|gb|EFL75992.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae BS397]
gi|332073261|gb|EGI83740.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17570]
gi|332076208|gb|EGI86674.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA41301]
gi|332204930|gb|EGJ18995.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47901]
gi|353793827|gb|EHD74186.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA44194]
gi|353797791|gb|EHD78122.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA44511]
gi|353803386|gb|EHD83678.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA07643]
gi|353821337|gb|EHE01513.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17227]
gi|353845996|gb|EHE26034.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA41688]
gi|353851280|gb|EHE31276.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47283]
gi|353852766|gb|EHE32752.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47360]
gi|353856302|gb|EHE36271.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47373]
gi|353857375|gb|EHE37338.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47388]
gi|353865290|gb|EHE45199.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47976]
gi|353871384|gb|EHE51255.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA54644]
gi|353888372|gb|EHE68146.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA08780]
gi|353889581|gb|EHE69351.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae EU-NP01]
gi|353905519|gb|EHE80942.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA13338]
gi|379539878|gb|EHZ05055.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA05245]
gi|379557918|gb|EHZ22955.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA13723]
gi|379566976|gb|EHZ31963.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA18068]
gi|379574254|gb|EHZ39198.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA40028]
gi|379583718|gb|EHZ48595.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA43257]
gi|379594427|gb|EHZ59237.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47179]
gi|379606329|gb|EHZ71077.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47794]
gi|379633743|gb|EHZ98312.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae NP141]
gi|379637582|gb|EIA02135.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae England14-9]
gi|395576290|gb|EJG36846.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2090008]
gi|395580572|gb|EJG41053.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2070108]
gi|395581291|gb|EJG41763.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2070109]
gi|395588356|gb|EJG48686.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2070425]
gi|395588574|gb|EJG48902.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2070531]
gi|395596383|gb|EJG56601.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2061376]
gi|395614825|gb|EJG74843.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2082170]
gi|395868404|gb|EJG79522.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae SPAR48]
gi|395871554|gb|EJG82660.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae SPAR95]
gi|395875559|gb|EJG86640.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA52612]
gi|395880137|gb|EJG91190.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17301]
gi|395894017|gb|EJH04998.1| pseudouridine synthase [Streptococcus pneumoniae GA56348]
gi|395894526|gb|EJH05506.1| pseudouridine synthase [Streptococcus pneumoniae GA56113]
gi|395897291|gb|EJH08255.1| pseudouridine synthase [Streptococcus pneumoniae GA58581]
gi|395900202|gb|EJH11141.1| pseudouridine synthase [Streptococcus pneumoniae GA19998]
gi|395912247|gb|EJH23110.1| pseudouridine synthase [Streptococcus pneumoniae GA58981]
Length = 295
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDLP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T + +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGKTL 276
Query: 317 KITAPLPSVLK 327
+ A +P + K
Sbjct: 277 EFKADIPEIFK 287
>gi|37678897|ref|NP_933506.1| 23S rRNA pseudouridine synthase D [Vibrio vulnificus YJ016]
gi|37197638|dbj|BAC93477.1| pseudouridylate synthase, 23S RNA-specific [Vibrio vulnificus
YJ016]
Length = 325
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 99/313 (31%), Positives = 152/313 (48%), Gaps = 50/313 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYED 71
L+ WL +G++TVDG VV P + G + + + W+ D+P L+++YED
Sbjct: 36 LKEWLL---DGKVTVDGNVVTKPRTKVMGGEVITVLAELEDEVRWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD++ +NKP V PG TVLN L + + ++ VHRL + T+G+
Sbjct: 91 DDILVINKPRDFVVHPGAGTPDGTVLNALLFHCPE-----VAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R IT+ Y A+ G + + K P
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRHITREYEAIAIGRMTAGGKVDK-P 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 189 IG--RH-ATKRTLMAVSPMGKPAVTHFRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD Y GG+ + D T A ++R LHA L HP
Sbjct: 244 QHPLLGDAAY--GGRARIPAGASEDVT-AMIRNFDRQA----------LHAVMLRFEHPI 290
Query: 312 TNEVIKITAPLPS 324
T E ++ AP+P
Sbjct: 291 TGEEMEFHAPVPD 303
>gi|417939828|ref|ZP_12583116.1| pseudouridine synthase, RluA family [Streptococcus oralis SK313]
gi|343388709|gb|EGV01294.1| pseudouridine synthase, RluA family [Streptococcus oralis SK313]
Length = 299
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 96/312 (30%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYL-----LEVLYEDDDLI 75
++I+ GQ+ V+G+ + G + YH +P EP+V Y+ LE++Y+D+D+
Sbjct: 29 EQIKAGQVLVNGQA-KKAKYTVQEGDVVTYH-VP--EPEVLEYVAENLPLEIIYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + TLV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYTLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP E
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRIGET 275
Query: 316 IKITAPLPSVLK 327
++ TA +P + K
Sbjct: 276 LEFTADIPEIFK 287
>gi|406669473|ref|ZP_11076743.1| RluA family pseudouridine synthase [Facklamia ignava CCUG 37419]
gi|405583169|gb|EKB57137.1| RluA family pseudouridine synthase [Facklamia ignava CCUG 37419]
Length = 315
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 99/335 (29%), Positives = 161/335 (48%), Gaps = 62/335 (18%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP 62
L+ ++ + +++ +Q W I++ Q+TV+G+ V + + G E V ++P D
Sbjct: 22 LLNYFPKESRST--IQKW---IKDQQVTVNGKQVKANYV--TNGDETVTIQIPIDNEDPI 74
Query: 63 YL------LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ L++++ED +LI +NKP GL V P T++N+L + ++LS +A
Sbjct: 75 EITPDKSPLDIIFEDSELIIINKPKGLVVHPSKGHPNGTLVNRLVYHFQ---NTLSDEAG 131
Query: 117 --HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYR 174
P VHR+ + TSG++ AK A +A D+T + +IY
Sbjct: 132 SFRPGIVHRIDKDTSGLIAIAKNNSAHRVLAQQLMDRT----------------MGRIYT 175
Query: 175 ALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQV 234
ALV G + II P+ R + Y +GK A++ V+ER V TLV+
Sbjct: 176 ALVLGEIGPQSGIIDIPL---RRDSKNRLKYTGDAAGKEAITHFKVIERYV--GATLVEA 230
Query: 235 EIQSGRPHQIRIHLAFLGHPLLGDPLYVAG--GQPKSFDSEFADGTFAQDGGYERPVNPV 292
++ +GR HQIR H ++GHP++GDPLY + G S +S DG
Sbjct: 231 KLDTGRTHQIRAHFDYIGHPIVGDPLYRSAIHGSATSLNS-LKDGQ-------------- 275
Query: 293 PGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
YLHA +L L HP T + +K AP+P ++
Sbjct: 276 ------YLHASKLHLIHPVTQQEMKFEAPMPDSMR 304
>gi|322391774|ref|ZP_08065239.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
peroris ATCC 700780]
gi|321145254|gb|EFX40650.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
peroris ATCC 700780]
Length = 297
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 92/311 (29%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G++ + G + Y L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQL-KKAKYSVQEGDVITYQVPEPEVLEYVAEDIP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL----------------RKYWAIVHGNIPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + TL+++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFRVLER--FGDYTLLELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGETM 276
Query: 317 KITAPLPSVLK 327
+ T+ +P + K
Sbjct: 277 EFTSDIPEIFK 287
>gi|402833548|ref|ZP_10882161.1| pseudouridine synthase, RluA family [Selenomonas sp. CM52]
gi|402280041|gb|EJU28811.1| pseudouridine synthase, RluA family [Selenomonas sp. CM52]
Length = 301
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 98/311 (31%), Positives = 143/311 (45%), Gaps = 60/311 (19%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I++G + V+GR N L G + V LP + D+P L++LYED D+I +
Sbjct: 36 IESGCVLVNGRTAK-ANAKLREG-DAVETELPEAQELEILPEDIP--LDILYEDSDVIVI 91
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK G+ V P T++N L S + P VHRL + TSG+++ AK
Sbjct: 92 NKARGMVVHPAAGAADGTLVNALLHHCEDLSGI--NGVIRPGIVHRLDKDTSGVMVAAKN 149
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A +KT+ +IYRA+V G + ED+ I+ PIG R+
Sbjct: 150 DRAHVDLAEQIREKTA----------------QRIYRAIVCGTIAEDRGEIRAPIG--RH 191
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P K + V P GK A + V+ER TLV+ +++GR HQIR+H+A++GHPLLG
Sbjct: 192 PTERKKMAVV-PGGKEATTLFRVVERFPAH--TLVECRLKTGRTHQIRVHMAYIGHPLLG 248
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP Y P G LH+ +L +HP T E +
Sbjct: 249 DPKYG---------------------------RKTPDIAGQALHSCELSFTHPRTKERMT 281
Query: 318 ITAPLPSVLKT 328
A +P +K
Sbjct: 282 FAAEMPEDMKA 292
>gi|359402668|ref|ZP_09195575.1| 23S rRNA/tRNA pseudouridine synthase [Spiroplasma melliferum KC3]
gi|438117280|ref|ZP_20871051.1| ribosomal large subunit pseudouridylate synthase D [Spiroplasma
melliferum IPMB4A]
gi|357967885|gb|EHJ90394.1| 23S rRNA/tRNA pseudouridine synthase [Spiroplasma melliferum KC3]
gi|434156122|gb|ELL45009.1| ribosomal large subunit pseudouridylate synthase D [Spiroplasma
melliferum IPMB4A]
Length = 306
Score = 125 bits (314), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 96/309 (31%), Positives = 147/309 (47%), Gaps = 51/309 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL---LEVLYEDDDLIALNKP 80
I+ ++ V+G+VV N + G ++ K ++ L L +LYED L+ ++KP
Sbjct: 38 IKQEKVQVNGQVVR-ANYVSQIGDHVIIEFPSAKASELTPLAIPLTILYEDSYLMVIDKP 96
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
+ L V P Q T++N L R + S++ Q P VHR+ R T+G L+ AK +
Sbjct: 97 NNLVVHPAPGHQNDTLVNALLARGVQWSTASGEQ--RPGIVHRIDRQTTGTLIIAKNDVV 154
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGV 200
++ +++ + Y ALVHG + E++ I PIG R P
Sbjct: 155 H----------------HQLQQQIQTKQLQRRYLALVHGQIIENRAKIDAPIG--RDPNN 196
Query: 201 AKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPL 260
K + V + + K A++ + V+ER + T ++ E++SGR HQIR HL ++ HP++GDPL
Sbjct: 197 RKKMLVTAKNSKKAVTNIVVIERF--NDYTYIECELESGRTHQIRAHLKYINHPIVGDPL 254
Query: 261 YVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITA 320
Y GT A G YLHAYQL HP T E + ITA
Sbjct: 255 Y---------------GTVADK----------KESFGQYLHAYQLRFIHPVTKESLTITA 289
Query: 321 PLPSVLKTR 329
LP + R
Sbjct: 290 ALPQEFEQR 298
>gi|359299521|ref|ZP_09185360.1| 23S rRNA pseudouridine synthase D [Haemophilus [parainfluenzae]
CCUG 13788]
gi|402304305|ref|ZP_10823375.1| pseudouridine synthase, RluA family [Haemophilus sputorum HK 2154]
gi|400377893|gb|EJP30758.1| pseudouridine synthase, RluA family [Haemophilus sputorum HK 2154]
Length = 325
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 95/313 (30%), Positives = 158/313 (50%), Gaps = 50/313 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYED 71
L+ W I + ++ V+G++VN + G ++ + + + ++P L ++YED
Sbjct: 36 LKVW---IDDSRVKVNGKIVNKAREKVFGGEQIEVNAEIEEEIRFDPQNIP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
+D+I +NKP L V PG TVLN L + ++ VHRL + T+G+
Sbjct: 91 EDIIVINKPKNLVVHPGAGNPDGTVLNALLYHYPP-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AK A+T + V L +R+IT+ Y A+ GI+ + + +P
Sbjct: 146 MVVAKNIPAQTHL----------------VTALQKRQITREYEAVASGIMTQGGKV-DEP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
+ R+P + V P GKPA++ ++ER RN T +++ +++GR HQIR+H+A +
Sbjct: 189 MA--RHPTKRTAMAV-HPMGKPAVTHYRIMERF--RNYTRLRLRLETGRTHQIRVHMAHI 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD LY GG+P+ G E ++ + G LHA L L+HP
Sbjct: 244 AHPLLGDQLY--GGRPRP-----------PKGASEELLSVLRGFQRQALHAAMLRLAHPI 290
Query: 312 TNEVIKITAPLPS 324
T E+++ APLP
Sbjct: 291 TGEMMEWHAPLPE 303
>gi|254230257|ref|ZP_04923648.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. Ex25]
gi|262395163|ref|YP_003287017.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. Ex25]
gi|269966583|ref|ZP_06180664.1| Pseudouridylate synthase, 23S RNA-specific [Vibrio alginolyticus
40B]
gi|451977395|ref|ZP_21927480.1| ribosomal large subunit pseudouridine synthase D [Vibrio
alginolyticus E0666]
gi|151937237|gb|EDN56104.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. Ex25]
gi|262338757|gb|ACY52552.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. Ex25]
gi|269828768|gb|EEZ83021.1| Pseudouridylate synthase, 23S RNA-specific [Vibrio alginolyticus
40B]
gi|451929727|gb|EMD77459.1| ribosomal large subunit pseudouridine synthase D [Vibrio
alginolyticus E0666]
Length = 325
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 98/313 (31%), Positives = 152/313 (48%), Gaps = 50/313 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL +G++ V+G VV P + G E+ W+ D+P L++++ED
Sbjct: 36 LKEWLL---DGKVQVNGEVVTKPRTKVMGGEEITLQAELEDEERWEAQDIP--LDIVFED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 DDIIVINKPRDFVVHPGAGTPDGTVLNALLHHYPD-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R IT+ Y A+ G + + QP
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRNITREYEAIAIGRMTAGGKV-DQP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L +P GKPA++ V ER R T +++ +++GR HQIR+H+++L
Sbjct: 189 IG--RH-STKRTLMAVAPMGKPAVTHYRVAER--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD Y GG+ + + ++ A G++R LHA L HP
Sbjct: 244 QHPLLGDIAY--GGRAR-IPTGASEELTAMIRGFDRQA----------LHAVMLRFEHPI 290
Query: 312 TNEVIKITAPLPS 324
T EV++ AP+P
Sbjct: 291 TGEVLEFHAPVPD 303
>gi|395244673|ref|ZP_10421628.1| Pseudouridine synthase [Lactobacillus hominis CRBIP 24.179]
gi|394483026|emb|CCI82636.1| Pseudouridine synthase [Lactobacillus hominis CRBIP 24.179]
Length = 305
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 83/265 (31%), Positives = 133/265 (50%), Gaps = 49/265 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+V+YED D+I +NKP G+ V P T++N L + Q + S + P VHR+
Sbjct: 79 LDVVYEDQDVIVVNKPQGVVVHPSAGHPDHTLVNGLLYHT--QDLAKSPEGFRPGIVHRI 136
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A+ + A KT+ + Y A+VHG +
Sbjct: 137 DKDTSGLLMIAKNDKARESLEDQLAHKTN----------------KREYLAIVHGNFEAK 180
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+I PIG R P K + V +P GK A++ +VLE+ +N LV+ +++GR HQI
Sbjct: 181 IGVINAPIG--RNPNNRKQMAV-NPKGKKAITHFEVLEQ--FKNYALVKCVLETGRTHQI 235
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++GHP+ GDPLY P + G+ G +LHA
Sbjct: 236 RVHMRYIGHPIAGDPLY-------------------------GPKKTLKGN-GQFLHAAT 269
Query: 305 LFLSHPTTNEVIKITAPLPSVLKTR 329
L HP T++ ++ +AP+P++ + +
Sbjct: 270 LGFEHPATHKWLEFSAPVPAIFQEQ 294
>gi|15902874|ref|NP_358424.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae R6]
gi|116515398|ref|YP_816303.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae D39]
gi|148988365|ref|ZP_01819812.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP6-BS73]
gi|168482999|ref|ZP_02707951.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D) (rRNA pseudouridylate synthase D)
[Streptococcus pneumoniae CDC1873-00]
gi|387626289|ref|YP_006062462.1| putative RNA pseudouridylate synthase [Streptococcus pneumoniae
INV104]
gi|417696119|ref|ZP_12345298.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47368]
gi|418091674|ref|ZP_12728816.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA44452]
gi|418107319|ref|ZP_12744357.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA41410]
gi|418109895|ref|ZP_12746920.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA49447]
gi|418148354|ref|ZP_12785119.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA13856]
gi|418161981|ref|ZP_12798668.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17328]
gi|418169030|ref|ZP_12805674.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA19077]
gi|418175745|ref|ZP_12812342.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA41437]
gi|418218673|ref|ZP_12845340.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae NP127]
gi|418220982|ref|ZP_12847636.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47751]
gi|418238506|ref|ZP_12865061.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae NorthCarolina6A-23]
gi|419422829|ref|ZP_13963045.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA43264]
gi|419459773|ref|ZP_13999706.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA02270]
gi|419462091|ref|ZP_14002001.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA02714]
gi|419488867|ref|ZP_14028617.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA44386]
gi|419495244|ref|ZP_14034962.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47461]
gi|419525679|ref|ZP_14065243.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA14373]
gi|421231698|ref|ZP_15688343.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2080076]
gi|421265954|ref|ZP_15716837.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae SPAR27]
gi|421272583|ref|ZP_15723427.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae SPAR55]
gi|421303146|ref|ZP_15753810.1| pseudouridine synthase [Streptococcus pneumoniae GA17484]
gi|421307199|ref|ZP_15757844.1| pseudouridine synthase [Streptococcus pneumoniae GA60132]
gi|444382206|ref|ZP_21180410.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PCS8106]
gi|444384766|ref|ZP_21182857.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PCS8203]
gi|15458431|gb|AAK99634.1| 23S rRNA pseudouridine synthase (supresses ftsH(ts) mutants)
[Streptococcus pneumoniae R6]
gi|116075974|gb|ABJ53694.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae D39]
gi|147926046|gb|EDK77120.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP6-BS73]
gi|172043419|gb|EDT51465.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D) (rRNA pseudouridylate synthase D)
[Streptococcus pneumoniae CDC1873-00]
gi|301794072|emb|CBW36476.1| putative RNA pseudouridylate synthase [Streptococcus pneumoniae
INV104]
gi|332201394|gb|EGJ15464.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47368]
gi|353763774|gb|EHD44324.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA44452]
gi|353779502|gb|EHD59966.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA41410]
gi|353782807|gb|EHD63237.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA49447]
gi|353813029|gb|EHD93262.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA13856]
gi|353828364|gb|EHE08504.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17328]
gi|353834872|gb|EHE14968.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA19077]
gi|353842313|gb|EHE22360.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA41437]
gi|353875328|gb|EHE55180.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae NP127]
gi|353875905|gb|EHE55755.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47751]
gi|353894256|gb|EHE73998.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae NorthCarolina6A-23]
gi|379532799|gb|EHY98023.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA02270]
gi|379532937|gb|EHY98160.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA02714]
gi|379559153|gb|EHZ24183.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA14373]
gi|379587760|gb|EHZ52607.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA44386]
gi|379588287|gb|EHZ53132.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA43264]
gi|379595326|gb|EHZ60134.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47461]
gi|395596188|gb|EJG56410.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2080076]
gi|395868690|gb|EJG79807.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae SPAR27]
gi|395875692|gb|EJG86770.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae SPAR55]
gi|395901768|gb|EJH12704.1| pseudouridine synthase [Streptococcus pneumoniae GA17484]
gi|395908300|gb|EJH19182.1| pseudouridine synthase [Streptococcus pneumoniae GA60132]
gi|444251526|gb|ELU57995.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PCS8203]
gi|444253166|gb|ELU59625.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PCS8106]
Length = 295
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDLP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHLVLAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T + +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGKTL 276
Query: 317 KITAPLPSVLK 327
+ A +P + K
Sbjct: 277 EFKADIPEIFK 287
>gi|421242879|ref|ZP_15699400.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2081074]
gi|395609578|gb|EJG69664.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2081074]
Length = 295
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDLP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T + +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGKTL 276
Query: 317 KITAPLPSVLK 327
+ A +P + K
Sbjct: 277 EFKADIPEIFK 287
>gi|392394868|ref|YP_006431470.1| ribosomal large subunit pseudouridine synthase D
[Desulfitobacterium dehalogenans ATCC 51507]
gi|390525946|gb|AFM01677.1| ribosomal large subunit pseudouridine synthase D
[Desulfitobacterium dehalogenans ATCC 51507]
Length = 344
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 90/273 (32%), Positives = 135/273 (49%), Gaps = 49/273 (17%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P LE+LYED+D++ +NKP G+ V P +T++N L + S + P
Sbjct: 113 DIP--LEILYEDEDVLVVNKPQGMVVHPAPGAWTKTLVNALLYHCRNLSGI--NGVLRPG 168
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + TSG+L+ AK LA +A ++ + + Y A+VHG
Sbjct: 169 IVHRIDKDTSGLLVVAKNDLAHQGLA----------------EQIKAHSMARRYLAIVHG 212
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
+V E ++ PIG R P K + V + K A++ VLER R+ TL++ +++G
Sbjct: 213 VVFEPSGTVEAPIG--RDPADRKKMAVVFQNAKEAVTHYKVLER--FRDFTLIEARLETG 268
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H+A+L HP+LGDPLY P+ NP G G
Sbjct: 269 RTHQIRVHMAYLKHPVLGDPLY----GPRK--------------------NPF-GLQGQM 303
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLKTREEG 332
LHA L HP T E ++ +AP +L+ EG
Sbjct: 304 LHAQLLGFQHPRTGEYMEFSAPPSELLQKVLEG 336
>gi|325263923|ref|ZP_08130656.1| ribosomal large subunit pseudouridine synthase D [Clostridium sp.
D5]
gi|324030961|gb|EGB92243.1| ribosomal large subunit pseudouridine synthase D [Clostridium sp.
D5]
Length = 305
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 91/307 (29%), Positives = 145/307 (47%), Gaps = 56/307 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL------LEVLYEDDDLIAL 77
I G +TV + V N + E+ R+P EP++P + L++LYED+D++ +
Sbjct: 37 ISTGLVTVGQKAVK-ANYKTALNDEIAV-RIP--EPEIPDIQPEDIPLDILYEDNDILIV 92
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N + + S ++ A P VHR+ T+G L+ K
Sbjct: 93 NKPKGMVVHPAPGHYSNTLVNAVMYHCRDNLSGINGVAR-PGIVHRIDMDTTGSLIICKN 151
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A +L + IT+ Y A+VHG + ED + PIG R+
Sbjct: 152 DTAHQALAE----------------QLKEHHITRKYHAVVHGNLKEDSQTVDAPIG--RH 193
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P K + +P G+ A++ VLER + T ++ E+++GR HQIR+H+A +GHP++G
Sbjct: 194 PVDRKKMSTRAPHGRQAVTHYKVLERFGEY--TYIECELETGRTHQIRVHMASIGHPIVG 251
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
D +Y P G LHA L ++HP+T E ++
Sbjct: 252 DTVYGPAKCPFKLQ-------------------------GQTLHAKILGITHPSTGEYME 286
Query: 318 ITAPLPS 324
APLP
Sbjct: 287 FDAPLPE 293
>gi|427412643|ref|ZP_18902835.1| RluA family pseudouridine synthase [Veillonella ratti
ACS-216-V-Col6b]
gi|425716450|gb|EKU79434.1| RluA family pseudouridine synthase [Veillonella ratti
ACS-216-V-Col6b]
Length = 328
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 93/306 (30%), Positives = 149/306 (48%), Gaps = 55/306 (17%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIA 76
Q I++G +TV+ + N+ L+ GS ++ + K D+P L++L+ED D+I
Sbjct: 57 QLIKSGAVTVNQKT-GKSNLKLTVGSTIMVVVPKPQAVEVKPEDIP--LDILFEDHDIII 113
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + + S ++ + P VHRL + TSG+++ AK
Sbjct: 114 INKPRGMVVHPAVGNYTGTLVNALLFHC-RDLSGINGEIR-PGIVHRLDKDTSGVMMAAK 171
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
LA +A ++ T+ Y ALVHG + E++ IK PIG R
Sbjct: 172 NDLAHIGLAE----------------QVKAHSATRTYYALVHGNIVEERGTIKAPIG--R 213
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
+P + V + K A++ V+ER + TLVQ +++GR HQIR+H A +GHP++
Sbjct: 214 HPKDRMKMAVVFENSKEAVTHFTVVERFGKH--TLVQCVLETGRTHQIRVHFAHIGHPVV 271
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
DP Y GY + P+ G LH++ L L HP + + +
Sbjct: 272 NDPFY----------------------GYRKMDFPIEGQA---LHSFSLALKHPISGQDL 306
Query: 317 KITAPL 322
APL
Sbjct: 307 YFEAPL 312
>gi|414074219|ref|YP_006999436.1| ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. cremoris UC509.9]
gi|413974139|gb|AFW91603.1| ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. cremoris UC509.9]
Length = 301
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 92/278 (33%), Positives = 136/278 (48%), Gaps = 55/278 (19%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P LE++YED D+ +NKP G+ V P T++N + + K SS++ P
Sbjct: 74 DLP--LEIIYEDSDVAVVNKPQGMVVHPAAGHASGTLVNAIMYHI-KDLSSING-VIRPG 129
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + TSG+L+ AK A +A DKTS + Y A+VHG
Sbjct: 130 IVHRIDKDTSGLLMIAKNDKAHESLADQLKDKTS----------------KRRYLAIVHG 173
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
+ DK I+ PIG R K V S GKPA++ +VLER V TL+ + +++G
Sbjct: 174 ELANDKGTIEAPIG--RNLKDRKKQAVVS-GGKPAVTHFEVLERFV--GYTLIALRLETG 228
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H+ ++GHP+ GDPLY G + + P + G +
Sbjct: 229 RTHQIRVHMHYIGHPVAGDPLY----------------------GPNKTLTP---NKGQF 263
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLKT-----REEG 332
LHA L HPT+ E+++ P + K RE+G
Sbjct: 264 LHAETLGFEHPTSGELMEFQVDAPDLFKEQLEKLREQG 301
>gi|385260600|ref|ZP_10038744.1| pseudouridine synthase, RluA family [Streptococcus sp. SK140]
gi|385191150|gb|EIF38574.1| pseudouridine synthase, RluA family [Streptococcus sp. SK140]
Length = 296
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 94/312 (30%), Positives = 157/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I++GQ+ V+G+V + ++V +++P E D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQVKKAKYTVQEG--DIVTYQVPEPEVLEYVAEDIP--LEIIYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ RK Y +VHG + D+ +I+ PIG
Sbjct: 143 KNDDAHLALAQELKDKKSL------------RK----YWTIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + TL+++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFQVLER--FGDYTLLELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T E
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGET 275
Query: 316 IKITAPLPSVLK 327
++ T+ +P + K
Sbjct: 276 MEFTSEIPDIFK 287
>gi|254556664|ref|YP_003063081.1| pseudouridylate synthase [Lactobacillus plantarum JDM1]
gi|254045591|gb|ACT62384.1| pseudouridylate synthase [Lactobacillus plantarum JDM1]
Length = 307
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 96/324 (29%), Positives = 158/324 (48%), Gaps = 60/324 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIALN 78
I+ Q+TV+G++ + G E+V + + ++P L+++YEDDD++ +N
Sbjct: 39 IKTDQVTVNGQL-EASKYHVKPGDEIVVAAQTVQQTTIEPENIP--LDIVYEDDDVLVVN 95
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + + S+++ + P VHR+ + TSG+L+ AK
Sbjct: 96 KPQGMVVHPAPGHPNHTLVNALLYHSP--LSTINGEFR-PGIVHRIDKDTSGLLMVAKND 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A KT++ + Y ALVHG++ ED I P+G R P
Sbjct: 153 RAHQSLAAQLKAKTNL----------------REYVALVHGVIKEDTGTINAPLG--RSP 194
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K + +G+PA++ VL+R ++ TL+ +++GR HQIR+HL +GHPL+GD
Sbjct: 195 KDRKKQAIVK-TGRPAITHFKVLKR--YQHYTLISCRLETGRTHQIRVHLQSIGHPLVGD 251
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY G K+ G +LHA L HP T +++
Sbjct: 252 PLY---GPKKTIKGH-----------------------GQFLHAKLLGFKHPVTGDLLTF 285
Query: 319 TAPLPSVLKTREEGREVDKSVGSE 342
APLP + T ++DK+ G+
Sbjct: 286 EAPLPPIFTTTLA--KLDKTDGNH 307
>gi|251797854|ref|YP_003012585.1| pseudouridine synthase [Paenibacillus sp. JDR-2]
gi|247545480|gb|ACT02499.1| pseudouridine synthase, RluA family [Paenibacillus sp. JDR-2]
Length = 315
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 99/317 (31%), Positives = 155/317 (48%), Gaps = 60/317 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYE 70
+Q W I++G + V+ V PN LS+G V R+P E D+P L+++YE
Sbjct: 44 VQEW---IKSGAVLVNQNTVK-PNYKLSSGDH-VGIRVPEPEDAAIVAEDIP--LDIVYE 96
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+I +NKP G+ V P TV+N L + K S ++ P VHR+ + TSG
Sbjct: 97 DADVIVINKPRGMVVHPAPGHSSGTVVNALMYHC-KDLSGING-VLRPGIVHRIDKDTSG 154
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK LA +A D + +++ Y ALVHG + D+ I
Sbjct: 155 LLMAAKNDLAHVSLAEQLKDHS----------------VSRKYIALVHGNLPHDQGTIDA 198
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R K V + K A++ VLER + + T+V++++++GR HQIR+H+ +
Sbjct: 199 PIG--RDQNDRKLFTVTDRNSKHAVTHFAVLER-IADDYTIVELQLETGRTHQIRVHMKY 255
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDP+Y G+ K+ + G LHA L HP
Sbjct: 256 IGYPLAGDPMY---GRNKTVALK-----------------------GQALHAAVLGFKHP 289
Query: 311 TTNEVIKITAPLPSVLK 327
T E ++ AP+P+ ++
Sbjct: 290 RTGEFLEFEAPIPADME 306
>gi|422858571|ref|ZP_16905221.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK1057]
gi|327460457|gb|EGF06794.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK1057]
Length = 298
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 93/312 (29%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I++ +I V+G+ + +++ + LP E D+P LE++Y+D+D+
Sbjct: 31 EQIKDSRILVNGQAKKAKYAVKEG--DVISYELPEPEVVEYVAEDIP--LEIVYQDEDVA 86
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 87 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 144
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 145 KNDQAHVALADELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPAL++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 187 RSEKDRKKQAVTA-KGKPALTRFQVLERFA--DYSLVELQLETGRTHQIRVHMAYIGHPV 243
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T EV
Sbjct: 244 AGDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEV 277
Query: 316 IKITAPLPSVLK 327
++ TA +P + +
Sbjct: 278 LEFTAEVPVIFQ 289
>gi|419779021|ref|ZP_14304902.1| pseudouridine synthase, RluA family [Streptococcus oralis SK10]
gi|383186785|gb|EIC79250.1| pseudouridine synthase, RluA family [Streptococcus oralis SK10]
Length = 299
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 92/311 (29%), Positives = 153/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G+ + G + YH L + D+P L+++Y+D+D+
Sbjct: 29 EQIKAGQVLVNGQA-KKAKYTVQEGDIITYHVPEPEVLEYVAEDIP--LDIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +L+++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFQVLER--FGDYSLLELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGENL 276
Query: 317 KITAPLPSVLK 327
+ TA +P + K
Sbjct: 277 EFTADIPEIFK 287
>gi|419442415|ref|ZP_13982446.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA13224]
gi|379554382|gb|EHZ19462.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA13224]
Length = 295
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDLP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ +GTSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKGTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHLVLAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GH +
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHSVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T + +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGKTL 276
Query: 317 KITAPLPSVLK 327
+ A +P + K
Sbjct: 277 EFKADIPEIFK 287
>gi|387769192|ref|ZP_10125458.1| pseudouridine synthase, RluA family [Pasteurella bettyae CCUG 2042]
gi|386907148|gb|EIJ71863.1| pseudouridine synthase, RluA family [Pasteurella bettyae CCUG 2042]
Length = 324
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 99/331 (29%), Positives = 166/331 (50%), Gaps = 58/331 (17%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ ++V+G+++N P + G ++ + +
Sbjct: 22 TLAELFPDYSRSR--LKTW---IEEDLVSVNGKIINVPREKMFGGEQIEITVEIEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD++ +NKP V PG TVLN L + + + +
Sbjct: 77 EPQNLP--LNIVYEDDDILVINKPKDFVVHPGAGNPNGTVLNALLYHYPQIAEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTQL----------------VRALQKRKITREYEAI 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + +P+ R+P + L P GKPA++ ++E RN T +++ +
Sbjct: 174 AFGIMTKGGTV-DEPMA--RHP-TKRTLMAVHPMGKPAITHYRIMEH--FRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVP 293
++GR HQIR+H+A + HPLLGD Y GG+ PK+ EF T ++ ++R
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEEFM--TVMRN--FQRQA---- 277
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L HP T E+++ APLP
Sbjct: 278 ------LHAVMLRLEHPITGELMEWHAPLPD 302
>gi|374296459|ref|YP_005046650.1| RluA family pseudouridine synthase [Clostridium clariflavum DSM
19732]
gi|359825953|gb|AEV68726.1| pseudouridine synthase, RluA family [Clostridium clariflavum DSM
19732]
Length = 311
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 86/275 (31%), Positives = 140/275 (50%), Gaps = 51/275 (18%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
DVP +LYED+ +I ++KP G+ V P T++N L SS++ P
Sbjct: 85 DVP----ILYEDEHIIVVDKPKGMVVHPAAGNYSGTLVNALMKHCGDNLSSING-VIRPG 139
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + TSG+L+ AK+ A ++ M L + I ++Y ALVHG
Sbjct: 140 IVHRIDKDTSGVLVVAKSNEAHEKLS----------------MMLKEHDINRVYIALVHG 183
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
I+ E+ I PIG R+P K + V + +G+ A++ VLER ++ T+++V++++G
Sbjct: 184 IIREEAGKIDAPIG--RHPVDRKKMAVNTKNGRRAVTHFKVLER--FKDATMLEVKLETG 239
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H++++G+P++GD +Y G + ++ E G
Sbjct: 240 RTHQIRVHMSYIGYPIIGDTVY--GRKKDKYNIE-----------------------GQA 274
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPS-VLKTREEGR 333
LHA L HP TNE ++ + LP +K EE R
Sbjct: 275 LHAKLLGFVHPITNEYMEFESELPEYFVKLLEELR 309
>gi|386586165|ref|YP_006082567.1| RluA family pseudouridine synthase [Streptococcus suis D12]
gi|353738311|gb|AER19319.1| pseudouridine synthase, RluA family [Streptococcus suis D12]
Length = 297
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 94/311 (30%), Positives = 152/311 (48%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I+NGQ+ V+G+ + G L Y + + D+P LE++++D+D+
Sbjct: 29 EQIKNGQVLVNGQP-KKAKYSVQVGDVLTYQIPEVEEIDYVAEDIP--LEIVFQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALLYHV-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A T +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHTKLAAELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GK A+++ VLER + TLV++ +++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKEAVTRFQVLER--FGDYTLVELTLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD Y G K+ G +LHA L +HP T EV+
Sbjct: 243 GDEAY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEVV 276
Query: 317 KITAPLPSVLK 327
+ TA P++ +
Sbjct: 277 EFTAEAPAIFQ 287
>gi|400290128|ref|ZP_10792155.1| putative pseudouridylate synthase [Streptococcus ratti FA-1 = DSM
20564]
gi|399920919|gb|EJN93736.1| putative pseudouridylate synthase [Streptococcus ratti FA-1 = DSM
20564]
Length = 298
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 97/312 (31%), Positives = 158/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+GR + AG ++V + LP +E D+P L+++YED D+
Sbjct: 29 EQIKAGLVLVNGRA-QKSKYAVKAG-DIVTYELPQEEILDCPPQDLP--LDIIYEDADVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S+++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHPSGTLVNALLFHI-KDLSTING-VVRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A + AD EL ++K + Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDRAHQ----FLAD------------ELKEKKSLRQYLAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPAL+ V+E + TLV++ +++GR HQIR+H+A++GHPL
Sbjct: 185 RSDKDRKKQAVTA-KGKPALTHFQVVEH--LGDYTLVKLTLETGRTHQIRVHMAYIGHPL 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T ++
Sbjct: 242 AGDPLYA-------------------------PKKTLKGQ-GQFLHAETLAFTHPVTGQL 275
Query: 316 IKITAPLPSVLK 327
++ +A +P++ +
Sbjct: 276 MRFSAEVPAIFQ 287
>gi|397649548|ref|YP_006490075.1| pseudouridylate synthase [Streptococcus mutans GS-5]
gi|392603117|gb|AFM81281.1| pseudouridylate synthase [Streptococcus mutans GS-5]
Length = 296
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 95/312 (30%), Positives = 156/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+G+ + +++++ P +E ++P LE++YED+D+
Sbjct: 29 EQIKAGLVWVNGKTQKAKYAVKEG--DIIHYERPQEEVLDCVAQNIP--LEIVYEDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL ++K + Y ALVHG + D+ +I+ PIG
Sbjct: 143 KNDQAHQALA----------------KELKEKKSLRQYVALVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R V K V + GKPA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKVRKKQTVTA-KGKPAVTHFKVLERFGQ--YSLVELTLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T E+
Sbjct: 242 AGDPLYA-------------------------PKKTLKGK-GQFLHAKTLGFTHPKTGEL 275
Query: 316 IKITAPLPSVLK 327
++ T +P + +
Sbjct: 276 MQFTTEVPVIFQ 287
>gi|78185673|ref|YP_378107.1| pseudouridine synthase [Synechococcus sp. CC9902]
gi|78169967|gb|ABB27064.1| probable pseudouridine synthase [Synechococcus sp. CC9902]
Length = 315
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 96/328 (29%), Positives = 164/328 (50%), Gaps = 60/328 (18%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP 62
L ++ + +H++SA WL+RI G++ +G + ++ L++G ++ + R PW E +P
Sbjct: 36 LSQWMANRHQHSAAAV-WLERIAAGEMHRNGEPLAG-DMQLTSGDDICWQRPPWLEEAIP 93
Query: 63 YLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVH 122
+ +++D DL+ +NKPSGL V+PGG F + T+ L +K PVH
Sbjct: 94 DQWDTIHDDGDLLVINKPSGLPVMPGGGFLEHTLTALLASTGAK-------------PVH 140
Query: 123 RLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVD 182
RLGR TSG+ +CA+T + ++ F ++ +KI + + V G+
Sbjct: 141 RLGRFTSGLQVCARTAATRAALSKQFRPESRC------------QKIYQAWARRVEGLEP 188
Query: 183 EDKVIIKQPIGIVRYPGVAKGLYVASPSGKP-------ALSKVDVLERDVQRNCTLVQVE 235
+++ + ++P + ++ P + A S V +L+R + ++V
Sbjct: 189 GQSLVVSTDVVERQHP-LLGWIWGPEPLDQEPTRKRLTAHSTVRLLDRCAAGD--RLEVT 245
Query: 236 IQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGD 295
I++GRPHQIRIHLA LG PLLGDPLY+ + + ++ PGD
Sbjct: 246 IRTGRPHQIRIHLAQLGSPLLGDPLYL-------LNRKISE-------------TATPGD 285
Query: 296 CGYYLHAYQLFLSHPTTNEVIKITAPLP 323
GY LH+++L + T + TAPLP
Sbjct: 286 GGYGLHSWRL---NALTAAGLSFTAPLP 310
>gi|308180606|ref|YP_003924734.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum
ST-III]
gi|380032591|ref|YP_004889582.1| RNA pseudouridylate synthase [Lactobacillus plantarum WCFS1]
gi|448821292|ref|YP_007414454.1| Pseudouridine synthase [Lactobacillus plantarum ZJ316]
gi|308046097|gb|ADN98640.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum
ST-III]
gi|342241834|emb|CCC79068.1| RNA pseudouridylate synthase [Lactobacillus plantarum WCFS1]
gi|448274789|gb|AGE39308.1| Pseudouridine synthase [Lactobacillus plantarum ZJ316]
Length = 307
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 96/324 (29%), Positives = 158/324 (48%), Gaps = 60/324 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIALN 78
I+ Q+TV+G++ + G E+V + + ++P L+++YEDDD++ +N
Sbjct: 39 IKTDQVTVNGQL-EASKYHVKPGDEIVVAAQTVQQTTIEPENIP--LDIVYEDDDVLVVN 95
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + + S+++ + P VHR+ + TSG+L+ AK
Sbjct: 96 KPQGMVVHPAPGHPNHTLVNALLYHSP--LSTINGEFR-PGIVHRIDKDTSGLLMVAKND 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A KT++ + Y ALVHG++ ED I P+G R P
Sbjct: 153 RAHQSLAAQLKAKTNL----------------REYVALVHGVIKEDTGTINAPLG--RSP 194
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K + +G+PA++ VL+R ++ TL+ +++GR HQIR+HL +GHPL+GD
Sbjct: 195 KDRKKQAIVK-TGRPAVTHFKVLKR--YQHYTLISCRLETGRTHQIRVHLQSIGHPLVGD 251
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY G K+ G +LHA L HP T +++
Sbjct: 252 PLY---GPKKTIKGH-----------------------GQFLHAKLLGFKHPVTGDLLTF 285
Query: 319 TAPLPSVLKTREEGREVDKSVGSE 342
APLP + T ++DK+ G+
Sbjct: 286 EAPLPPIFTTTLA--KLDKTDGNH 307
>gi|417915153|ref|ZP_12558774.1| pseudouridine synthase, RluA family [Streptococcus mitis bv. 2 str.
SK95]
gi|342835267|gb|EGU69518.1| pseudouridine synthase, RluA family [Streptococcus mitis bv. 2 str.
SK95]
Length = 299
Score = 125 bits (313), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 92/310 (29%), Positives = 152/310 (49%), Gaps = 57/310 (18%)
Query: 23 RIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIAL 77
+I+ GQ+ V+G+ + G + YH L + D+P L+++Y+D+D+ +
Sbjct: 30 QIKAGQVLVNGQA-KKAKYTVQEGDIVTYHVPEPEVLEYVAEDIP--LDIIYQDEDVAVV 86
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 87 NKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAKN 144
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 145 DEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--RS 186
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
K V + GKPA+++ VLER + +L+++++++GR HQIR+H+A++GHP+ G
Sbjct: 187 EKDRKKQAVTA-KGKPAVTRFQVLER--FGDYSLLELQLETGRTHQIRVHMAYIGHPVAG 243
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
D +Y G K+ G +LHA L +HP T E ++
Sbjct: 244 DEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGETLE 277
Query: 318 ITAPLPSVLK 327
TA +P + K
Sbjct: 278 FTADIPEIFK 287
>gi|449897855|ref|ZP_21790252.1| putative pseudouridylate synthase [Streptococcus mutans R221]
gi|449979617|ref|ZP_21816789.1| putative pseudouridylate synthase [Streptococcus mutans 5SM3]
gi|450005865|ref|ZP_21826908.1| putative pseudouridylate synthase [Streptococcus mutans NMT4863]
gi|449177713|gb|EMB80002.1| putative pseudouridylate synthase [Streptococcus mutans 5SM3]
gi|449188085|gb|EMB89816.1| putative pseudouridylate synthase [Streptococcus mutans NMT4863]
gi|449260781|gb|EMC58275.1| putative pseudouridylate synthase [Streptococcus mutans R221]
Length = 296
Score = 124 bits (312), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 95/312 (30%), Positives = 156/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+G+ + +++++ P +E ++P LE++YED+D+
Sbjct: 29 EQIKAGLVWVNGKTQKAKYAVKEG--DIIHYERPQEEVLDCVAQNIP--LEIVYEDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL ++K + Y ALVHG + D+ +I+ PIG
Sbjct: 143 KNDQAHQALA----------------KELKEKKSLRQYIALVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R V K V + GKPA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKVRKKQTVTA-KGKPAVTHFKVLERFGQ--YSLVELTLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T E+
Sbjct: 242 AGDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGEL 275
Query: 316 IKITAPLPSVLK 327
++ T +P + +
Sbjct: 276 MQFTTEVPVIFQ 287
>gi|339301239|ref|ZP_08650348.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
agalactiae ATCC 13813]
gi|417005689|ref|ZP_11944282.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
agalactiae FSL S3-026]
gi|319745315|gb|EFV97632.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
agalactiae ATCC 13813]
gi|341577502|gb|EGS27910.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
agalactiae FSL S3-026]
Length = 296
Score = 124 bits (312), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 95/315 (30%), Positives = 154/315 (48%), Gaps = 57/315 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIA 76
+ I+ G + V+G+V + G + + L ++ ++P L+++Y+DDD+
Sbjct: 29 EEIKKGIVLVNGQV-KKAKYTVQEGDRITFDIPKEEVLDYQAENIP--LDIIYQDDDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHSSAGHSSGTLVNALMYHI-KDLSSING-VVRPGIVHRIDKDTSGLLMVAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDRAHQVLAEELKDKKSL------------RK----YLAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + TLV++ +++GR HQIR+H+A++GHPL
Sbjct: 186 SDKDRKKQAVTA-KGKPAITRFHVLER--FGDYTLVELSLETGRTHQIRVHMAYIGHPLA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDP+Y G K+ G G +LHA L +HP+ E +
Sbjct: 243 GDPVY---GPRKTL-----------------------GGKGQFLHAQTLGFTHPSNGENL 276
Query: 317 KITAPLPSVLKTREE 331
+ +P + +T E
Sbjct: 277 IFSVEVPEIFQTTLE 291
>gi|333394895|ref|ZP_08476714.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
coryniformis subsp. coryniformis KCTC 3167]
Length = 304
Score = 124 bits (312), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 89/263 (33%), Positives = 128/263 (48%), Gaps = 50/263 (19%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+++YEDDD++ +NKP G+ V P Q T++N L + + S + P VHR+
Sbjct: 80 LDIVYEDDDVLVVNKPQGMVVHPAPGHPQDTLVNALLYHSP---LSTINGVIRPGIVHRI 136
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A +A KTS QR+ Y ALVHG++ ED
Sbjct: 137 DKDTSGLLMVAKNDQAHISLAAQLQAKTS------------QRE----YLALVHGVIKED 180
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PI R K V + GK A++ +VLER TL++ +++GR HQI
Sbjct: 181 KGTIDAPIA--RAKNDRKKQAVVA-GGKHAVTHFEVLERF--NEYTLIKCILETGRTHQI 235
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++GHP+ GDPLY G K+ G +LHA
Sbjct: 236 RVHMKYIGHPVAGDPLY---GPKKTLKGH-----------------------GQFLHAAL 269
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T E + T PLPS+ +
Sbjct: 270 LGFKHPRTGEQMTFTTPLPSIFE 292
>gi|383501144|ref|YP_005414503.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
protein [Rickettsia australis str. Cutlack]
gi|378932155|gb|AFC70660.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
protein [Rickettsia australis str. Cutlack]
Length = 329
Score = 124 bits (312), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 84/306 (27%), Positives = 155/306 (50%), Gaps = 42/306 (13%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD------VPYLLEVLYEDDDLIAL 77
I+N Q+ V+ +++DP++++ +++ +KEP+ L+++YEDDDLI +
Sbjct: 35 IKNSQVLVNDVIISDPDVLVKENDVILF---SFKEPEELKIAAANIALDIIYEDDDLIVI 91
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK +G+ V PG T++N L + +K S + S A+ P VHRL + T+G+++ AK
Sbjct: 92 NKAAGMTVHPGAGHHDDTLVNALLYH-TKNLSDIGS-AARPGIVHRLDKDTTGLMVVAKN 149
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ QR++ + Y+ALV G+++ + +IK IG R
Sbjct: 150 NKAHMLLAN----------------QIEQRQVIRKYKALVWGVINPLEGVIKNNIGRSRV 193
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + + GK A++ LE ++V+ + +GR HQIR+ L+ L H ++G
Sbjct: 194 D--RQKMTILKYGGKEAVTHYKTLELFYGGTISMVECRLSTGRTHQIRVQLSHLKHSVVG 251
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
D Y G + A A+ ++R LH++ L +HPT+N++++
Sbjct: 252 DQTY---GNNNRKIAHSAPELKAKLIDFKRQA----------LHSWYLSFTHPTSNKIME 298
Query: 318 ITAPLP 323
+ LP
Sbjct: 299 FSCELP 304
>gi|422821336|ref|ZP_16869529.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK353]
gi|324991250|gb|EGC23184.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
sanguinis SK353]
Length = 298
Score = 124 bits (312), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 93/312 (29%), Positives = 154/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I++G I V+G+ + +++ + LP E D+P LE++Y+D+D+
Sbjct: 31 EQIKDGWILVNGQAKKAKYAVKEG--DVISYELPEPEVVEYVAEDIP--LEIVYQDEDVA 86
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + Q S + P VHR+ + TSG+L+ A
Sbjct: 87 VVNKPQGMVVHPSAGHTSGTLVNALMYHI--QDLSGINGVLRPGIVHRIDKDTSGLLMIA 144
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 145 KNDQAHVALADELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 186
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GK AL++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 187 RSEKDRKKQAVTA-KGKSALTRFQVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 243
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T EV
Sbjct: 244 AGDEVY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEV 277
Query: 316 IKITAPLPSVLK 327
++ TA +P++ +
Sbjct: 278 LEFTAEVPAIFQ 289
>gi|240949469|ref|ZP_04753809.1| 23S rRNA pseudouridine synthase D [Actinobacillus minor NM305]
gi|240296042|gb|EER46703.1| 23S rRNA pseudouridine synthase D [Actinobacillus minor NM305]
Length = 325
Score = 124 bits (312), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 100/314 (31%), Positives = 158/314 (50%), Gaps = 52/314 (16%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLP------WKEPDVPYLLEVLYE 70
L+ W I+N Q+ V+G++VN + G EL+ + ++ ++P L ++YE
Sbjct: 36 LKVW---IENDQVWVNGKIVNKAREKVFGG-ELIEVQAEVEEEVRFEPQNIP--LNIVYE 89
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
DDD+I +NKP L V PG TVLN L + + + VHRL + T+G
Sbjct: 90 DDDIIVINKPKDLVVHPGAGNPDGTVLNALLYHYPPIAEVPRAGI-----VHRLDKDTTG 144
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+++ AK A+T + V L +R IT+ Y A+ GI+ + + +
Sbjct: 145 LMVVAKNIPAQTHL----------------VTALQKRHITREYEAIASGIMTQGGKV-DE 187
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
P+ R+P + V P GKPA++ ++ER RN T +++ +++GR HQIR+H+A
Sbjct: 188 PMA--RHPTKRTAMAV-HPMGKPAVTHYRIMER--FRNYTRLRLRLETGRTHQIRVHMAH 242
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+ HPLLGD LY GG+P+ G E ++ + G LHA L L HP
Sbjct: 243 IAHPLLGDQLY--GGRPRP-----------PKGASEEFLSVLRGFQRQALHATMLRLEHP 289
Query: 311 TTNEVIKITAPLPS 324
T E+++ APLP
Sbjct: 290 ITGELMEWHAPLPD 303
>gi|423452804|ref|ZP_17429657.1| RluA family pseudouridine synthase [Bacillus cereus BAG5X1-1]
gi|423511927|ref|ZP_17488458.1| RluA family pseudouridine synthase [Bacillus cereus HuA2-1]
gi|401139363|gb|EJQ46925.1| RluA family pseudouridine synthase [Bacillus cereus BAG5X1-1]
gi|402450188|gb|EJV82022.1| RluA family pseudouridine synthase [Bacillus cereus HuA2-1]
Length = 302
Score = 124 bits (312), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 97/314 (30%), Positives = 150/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LEV YED D
Sbjct: 34 VQQW---IKDAVVTVNGKSVKG-NYKVKGNDEITVTIPEPEELDIQPEDMNLEVYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P + T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PIG
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIEFEAPIPEVFE 294
>gi|418275350|ref|ZP_12890673.1| RNA pseudouridylate synthase [Lactobacillus plantarum subsp.
plantarum NC8]
gi|376008901|gb|EHS82230.1| RNA pseudouridylate synthase [Lactobacillus plantarum subsp.
plantarum NC8]
Length = 307
Score = 124 bits (312), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 96/324 (29%), Positives = 158/324 (48%), Gaps = 60/324 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIALN 78
I+ Q+TV+G++ + G E+V + + ++P L+++YEDDD++ +N
Sbjct: 39 IKTDQVTVNGQL-EASKYHVKPGDEIVVDAQTVQQTTIEPENIP--LDIVYEDDDVLVVN 95
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + + S+++ + P VHR+ + TSG+L+ AK
Sbjct: 96 KPQGMVVHPAPGHPNHTLVNALLYHSP--LSTINGEFR-PGIVHRIDKDTSGLLMVAKND 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A KT++ + Y ALVHG++ ED I P+G R P
Sbjct: 153 RAHQSLAAQLKAKTNL----------------REYVALVHGVIKEDTGTINAPLG--RSP 194
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K + +G+PA++ VL+R ++ TL+ +++GR HQIR+HL +GHPL+GD
Sbjct: 195 KDRKKQAIVK-TGRPAVTHFKVLKR--YQHYTLISCRLETGRTHQIRVHLQSIGHPLVGD 251
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY G K+ G +LHA L HP T +++
Sbjct: 252 PLY---GPKKTIKGH-----------------------GQFLHAKLLGFKHPVTGDLLTF 285
Query: 319 TAPLPSVLKTREEGREVDKSVGSE 342
APLP + T ++DK+ G+
Sbjct: 286 EAPLPPIFTTTLA--KLDKTDGNH 307
>gi|328542559|ref|YP_004302668.1| RNA-pseudouridylate synthase, ribosomal large subunit D
[Polymorphum gilvum SL003B-26A1]
gi|326412305|gb|ADZ69368.1| RNA-pseudouridylate synthase protein, ribosomal large subunit D
[Polymorphum gilvum SL003B-26A1]
Length = 346
Score = 124 bits (312), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 100/310 (32%), Positives = 152/310 (49%), Gaps = 40/310 (12%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I++G++TVDG + +P ++ G+ L LP E D+P L V+YEDDDLI +
Sbjct: 54 IRSGEVTVDGGKIVEPKYRVNEGATLALG-LPEPEEAEPKGEDIP--LVVVYEDDDLIVI 110
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
+KP+GL V PG T++N L R S S P VHRL + TSG+L+ AKT
Sbjct: 111 DKPAGLVVHPGAGNWTGTLVNAL-IRHCGDSLSGIGGVRRPGIVHRLDKETSGLLVVAKT 169
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A ++ FAD S +E + + A + G VD + + R
Sbjct: 170 DAAHKGLSEQFADH-----GRSGPLERAYAALVWGAPATLRGTVDAN---------LARS 215
Query: 198 PGVAKGLYVASPSGKPALSKVDVLER----DVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
+ + V G+ A++ VLER D +L++ +++GR HQIR+H+A +GH
Sbjct: 216 DANRQKISVVRNGGRHAVTHWQVLERFGPADQPAVASLLECRLETGRTHQIRVHMAHIGH 275
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL+GD +Y AG + K+ + F + GG+ R LHA L +HP T
Sbjct: 276 PLIGDQIYGAGFRTKA--NRFPEPIRTHVGGFPRQA----------LHAGLLAFAHPRTG 323
Query: 314 EVIKITAPLP 323
E ++ +P P
Sbjct: 324 ETLRFESPYP 333
>gi|418069718|ref|ZP_12706995.1| pseudouridylate synthase, 23S RNA-specific [Pediococcus
acidilactici MA18/5M]
gi|357536249|gb|EHJ20280.1| pseudouridylate synthase, 23S RNA-specific [Pediococcus
acidilactici MA18/5M]
Length = 292
Score = 124 bits (312), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 103/328 (31%), Positives = 160/328 (48%), Gaps = 73/328 (22%)
Query: 18 QGWLQRIQNGQ-----ITVDGRVVNDPNIILSAGSELVYHRLPWKE-------PDVPYL- 64
Q LQR+ Q I DGR+V++ ++ +++ W E P VP
Sbjct: 16 QKVLQRLGASQRLMQKIRQDGRLVDENERTVALKDKVMPFEPFWIELPDEDSDPAVPVSD 75
Query: 65 --LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQ--WRASKQSSSLSSQASHPVP 120
L+V+YEDD+ + +NKP+GL +PG + T++N+++ W+A+ + + P
Sbjct: 76 QPLDVIYEDDNWLVVNKPAGLTAVPGPSNRTDTLVNRIKGHWQANGAVNLV------PHL 129
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+ RL R TSGI L A+ ++A + ++ ++ RKI K Y ALV G+
Sbjct: 130 ITRLDRFTSGITLVARHQVANSLLS----------------EQVRHRKIKKTYLALVDGV 173
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLY-VASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
V +K QP+G+ A G++ G+ A + V++R N TLVQV +++G
Sbjct: 174 VSAEKGTFNQPLGLA-----ADGIHREVQEGGQSATTSFKVVQRFA--NQTLVQVHLKTG 226
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H A GHPL+GD LY G P D G ER
Sbjct: 227 RTHQIRVHFANAGHPLVGDQLY---GGP-------------MDRGIERQA---------- 260
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLK 327
LHA+ + P TN+ ++ TAPLP+ L+
Sbjct: 261 LHAHSIRFFDPFTNQKLEFTAPLPADLQ 288
>gi|163790406|ref|ZP_02184837.1| Pseudouridylate synthase, 23S rRNA-specific [Carnobacterium sp.
AT7]
gi|159874310|gb|EDP68383.1| Pseudouridylate synthase, 23S rRNA-specific [Carnobacterium sp.
AT7]
Length = 301
Score = 124 bits (312), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 95/317 (29%), Positives = 153/317 (48%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGR------VVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYE 70
+Q W I+ G +TV+G V + I+ ELV L D+P +E++Y+
Sbjct: 32 IQQW---IKEGNVTVNGENLKANYKVQPSDEIVIIEPELV--SLEVLAEDIP--IEIVYQ 84
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D++ +NK G+ V P Q T++N L + K S ++ P VHR+ + TSG
Sbjct: 85 DEDVVVVNKAQGMVVHPSAGHQTGTLVNALMYHI-KDLSGINGTIR-PGIVHRIDKDTSG 142
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A DKTS+ + Y ALVHG++ +K I
Sbjct: 143 LLMVAKNDSAHEKLAAQLKDKTSL----------------REYIALVHGVIPHEKGTIDA 186
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
P+G + + + G+ A++ VLER ++ TLV +++++GR HQIR+H+ +
Sbjct: 187 PLGRSKVDRKKQDII---DGGREAVTHFTVLER--FKDFTLVSLKLETGRTHQIRVHMKY 241
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDP+Y G K+ + + G +LHA L HP
Sbjct: 242 IGYPLAGDPIY---GPRKTLEGK-----------------------GQFLHAQTLGFKHP 275
Query: 311 TTNEVIKITAPLPSVLK 327
TT E + APLP + +
Sbjct: 276 TTGEFVTFEAPLPQLFE 292
>gi|15672980|ref|NP_267154.1| ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. lactis Il1403]
gi|281491492|ref|YP_003353472.1| ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. lactis KF147]
gi|385830534|ref|YP_005868347.1| ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. lactis CV56]
gi|418038114|ref|ZP_12676463.1| tRNA pseudouridine(38-40) synthase [Lactococcus lactis subsp.
cremoris CNCM I-1631]
gi|12723945|gb|AAK05096.1|AE006334_2 pseudouridine synthase [Lactococcus lactis subsp. lactis Il1403]
gi|281375210|gb|ADA64723.1| Ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. lactis KF147]
gi|326406542|gb|ADZ63613.1| ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. lactis CV56]
gi|354693792|gb|EHE93525.1| tRNA pseudouridine(38-40) synthase [Lactococcus lactis subsp.
cremoris CNCM I-1631]
gi|374673048|dbj|BAL50939.1| pseudouridine synthase [Lactococcus lactis subsp. lactis IO-1]
Length = 301
Score = 124 bits (312), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 90/272 (33%), Positives = 133/272 (48%), Gaps = 50/272 (18%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P LE++YED D+ +NKP G+ V P T++N + + K SS++ P
Sbjct: 74 DLP--LEIIYEDSDVAVVNKPQGMVVHPAAGHASGTLVNAIMYHI-KDLSSING-VIRPG 129
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + TSG+L+ AK A +A DKTS +R+ Y A+VHG
Sbjct: 130 IVHRIDKDTSGLLMIAKNDKAHESLAAQLKDKTS------------KRR----YLAIVHG 173
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
+ DK I+ PIG R K V S GKPA++ +VLER TL+ + +++G
Sbjct: 174 EIANDKGTIEAPIG--RNLKDRKKQAVVS-GGKPAVTHFEVLERFY--GYTLIALRLETG 228
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H+ ++GHP+ GDPLY G + + P + G +
Sbjct: 229 RTHQIRVHMNYIGHPVAGDPLY----------------------GPNKTLTP---NKGQF 263
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLKTREE 331
LHA L HPTT E ++ P + + E
Sbjct: 264 LHAETLGFDHPTTGEFMEFQVDAPEIFNEQLE 295
>gi|401683612|ref|ZP_10815498.1| pseudouridine synthase, RluA family [Streptococcus sp. BS35b]
gi|400187690|gb|EJO21884.1| pseudouridine synthase, RluA family [Streptococcus sp. BS35b]
Length = 299
Score = 124 bits (311), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 95/312 (30%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYL-----LEVLYEDDDLI 75
++I+ GQ+ V+G+ + G + YH +P EP+V Y+ LE++Y+D+D+
Sbjct: 29 EQIKAGQVLVNGQA-KKAKYTVQEGDIVTYH-VP--EPEVLEYVAENLPLEIIYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVAHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T E
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGET 275
Query: 316 IKITAPLPSVLK 327
++ TA +P + K
Sbjct: 276 LEFTADIPEIFK 287
>gi|303254977|ref|ZP_07341056.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae BS455]
gi|302598057|gb|EFL65124.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae BS455]
Length = 295
Score = 124 bits (311), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 153/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDLP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T + +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGKTL 276
Query: 317 KITAPLPSVLK 327
A +P + K
Sbjct: 277 GFKADIPEIFK 287
>gi|418977644|ref|ZP_13525458.1| pseudouridine synthase, RluA family [Streptococcus mitis SK575]
gi|383349612|gb|EID27541.1| pseudouridine synthase, RluA family [Streptococcus mitis SK575]
Length = 295
Score = 124 bits (311), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 97/312 (31%), Positives = 156/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV------PYLLEVLYEDDDLI 75
++I+ GQ+ V+G+V + G + YH +P EP+V LL+++Y+D+D+
Sbjct: 29 EQIKLGQVLVNGQV-KKAKYTVQEGDIVTYH-VP--EPEVLEYVAENLLLDIIYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ RK Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDEAHLALAQELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GK A+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKTAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T E
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGET 275
Query: 316 IKITAPLPSVLK 327
++ TA +P + K
Sbjct: 276 LEFTADIPEIFK 287
>gi|407070076|ref|ZP_11100914.1| 23S rRNA pseudouridine synthase D [Vibrio cyclitrophicus ZF14]
Length = 324
Score = 124 bits (311), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 97/325 (29%), Positives = 154/325 (47%), Gaps = 50/325 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
++ WL +G+I VDG V+ P + G ++ W+ D+P L+++YED
Sbjct: 36 IKEWLL---DGKIQVDGEVITKPRTTVLGGEAIILQAELADEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DDL+ +NKP L V PG T+LN L + + ++ VHRL + T+G+
Sbjct: 91 DDLLVINKPRDLVVHPGAGTPDGTILNALLFHYPQ-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L++R+IT+ Y A+ G + V+ K
Sbjct: 146 MVVAKTVPAQTRL----------------VRALAKRRITREYEAIAIGKMTAGGVVEK-- 187
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
GI R+ + L + GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 188 -GISRH-ATKRTLMDVNELGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD Y GG+ + G E + LHA L HP
Sbjct: 244 QHPLLGDIAY--GGRAR-----------IPKGASEELTTMIRSFDRQALHAVMLKFVHPI 290
Query: 312 TNEVIKITAPLPSVLKTREEGREVD 336
T E ++ AP+P+ + E VD
Sbjct: 291 TGEEVEFHAPVPNDMVVMAEALRVD 315
>gi|377557237|ref|ZP_09786893.1| Pseudouridine synthase [Lactobacillus gastricus PS3]
gi|376166109|gb|EHS85030.1| Pseudouridine synthase [Lactobacillus gastricus PS3]
Length = 304
Score = 124 bits (311), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 86/259 (33%), Positives = 132/259 (50%), Gaps = 50/259 (19%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+++YEDDD+I +NKP G+ V P T++N L + + S+++ + P VHR+
Sbjct: 79 LDIVYEDDDVIVVNKPQGMVVHPSAGHPNHTLVNGLLYHSP--LSTINGEFR-PGIVHRI 135
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A +A KT+ + Y ALVHG++ ED
Sbjct: 136 DKDTSGLLMVAKNDHAHQSLAAQLKAKTN----------------EREYLALVHGVIKED 179
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ I PIG R K V + +GK A++ VL+R ++ TL+ +++GR HQI
Sbjct: 180 EGKIDAPIG--RSLKDRKQQAVVA-NGKSAVTHFKVLKR--YQHYTLISCHLETGRTHQI 234
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++ HPL GDPLY P +PG+ G YLHA
Sbjct: 235 RVHMKYINHPLAGDPLY-------------------------GPRKTLPGN-GQYLHART 268
Query: 305 LFLSHPTTNEVIKITAPLP 323
L HPTT ++++ +APLP
Sbjct: 269 LGFVHPTTGKLMRFSAPLP 287
>gi|293365185|ref|ZP_06611902.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
oralis ATCC 35037]
gi|307703723|ref|ZP_07640664.1| pseudouridine synthase, RluA family protein [Streptococcus oralis
ATCC 35037]
gi|291316635|gb|EFE57071.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
oralis ATCC 35037]
gi|307622558|gb|EFO01554.1| pseudouridine synthase, RluA family protein [Streptococcus oralis
ATCC 35037]
Length = 299
Score = 124 bits (311), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 95/312 (30%), Positives = 156/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYL-----LEVLYEDDDLI 75
++I+ GQ+ V+G+ + G + YH +P EP+V Y+ LE++Y+D+D+
Sbjct: 29 EQIKAGQVLVNGQA-KKAKYTVQDGDIVTYH-VP--EPEVLEYVAENLPLEIIYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDEAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + +L+++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFQVLER--FGDYSLLELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T E
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGET 275
Query: 316 IKITAPLPSVLK 327
++ TA +P + K
Sbjct: 276 LEFTADIPEIFK 287
>gi|418086666|ref|ZP_12723836.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47033]
gi|418202207|ref|ZP_12838637.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA52306]
gi|419455331|ref|ZP_13995291.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae EU-NP04]
gi|421284859|ref|ZP_15735636.1| pseudouridine synthase [Streptococcus pneumoniae GA60190]
gi|353758927|gb|EHD39513.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47033]
gi|353868010|gb|EHE47900.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA52306]
gi|379629788|gb|EHZ94382.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae EU-NP04]
gi|395886838|gb|EJG97853.1| pseudouridine synthase [Streptococcus pneumoniae GA60190]
Length = 295
Score = 124 bits (311), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDLP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHISGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHLVLAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T + +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGKTL 276
Query: 317 KITAPLPSVLK 327
+ A +P + K
Sbjct: 277 EFKADIPEIFK 287
>gi|227514877|ref|ZP_03944926.1| pseudouridylate synthase [Lactobacillus fermentum ATCC 14931]
gi|227086724|gb|EEI22036.1| pseudouridylate synthase [Lactobacillus fermentum ATCC 14931]
Length = 291
Score = 124 bits (311), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 98/316 (31%), Positives = 152/316 (48%), Gaps = 61/316 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ W I +G +TV+G+ V L AG +V + + ++P L+++YED
Sbjct: 21 LKRW---IDDGTVTVNGQTVK-AKYQLQAGDRVVIKPETPVEIDLEPENIP--LDIVYED 74
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD++ +NKP G+ V P T++N L + A SS++ + P VHR+ + TSG+
Sbjct: 75 DDVLVVNKPQGMVVHPAPGHPNHTLVNALMYYAP--LSSINGELR-PGIVHRIDKDTSGL 131
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AKT A + +K+++ + Y ALVHG++ E++ I P
Sbjct: 132 LMVAKTDRAHRSLTAQLKEKSNL----------------REYVALVHGVIKENEGTIDAP 175
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
+ R P K V G+ A++ VL+R ++ TLV +++GR HQIR+H+ ++
Sbjct: 176 LA--RSPKDRKKQAVVV-GGRHAVTHFRVLKR--YQHYTLVACRLETGRTHQIRVHMKYI 230
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPL GDPLY P +PG G YLHA L HP
Sbjct: 231 NHPLAGDPLY-------------------------GPRKTLPGH-GQYLHARLLGFEHPV 264
Query: 312 TNEVIKITAPLPSVLK 327
T E + TAPLP +
Sbjct: 265 TGEEMVFTAPLPDYFE 280
>gi|371776249|ref|ZP_09482571.1| ribosomal large subunit pseudouridine synthase D [Anaerophaga sp.
HS1]
Length = 361
Score = 124 bits (311), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 91/266 (34%), Positives = 133/266 (50%), Gaps = 40/266 (15%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L++++ED++LI +NKP G+ V PG T++N L W K S+ P VHR+
Sbjct: 111 LDIVFEDNELIVVNKPPGMVVHPGYGNYTGTLVNALAWHL-KDHPWFQSKDPRPGLVHRI 169
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AKT+ AKT +A F +KT+ ++ Y+ALV GIV ED
Sbjct: 170 DKDTSGLLVVAKTENAKTHLAQQFFNKTT----------------SRTYQALVWGIVKED 213
Query: 185 KVIIKQPIGIVRYPGVAKGLYV--ASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPH 242
+ I IG R P K + V GKPA++ VLER TL++ +++GR H
Sbjct: 214 EGTIVGNIG--RNPRDRKQMTVFPDDTQGKPAVTHYKVLER--LGYVTLLECRLETGRTH 269
Query: 243 QIRIHLAFLGHPLLGDPLY----VAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
QIR+HL +GH L D Y + G + +F F+ +P
Sbjct: 270 QIRVHLKHIGHTLFNDERYGGNQILKGTTFTKYRQFVKNCFS----------ILPRQA-- 317
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L HPTT E+++ +PLP
Sbjct: 318 -LHAKTLGFQHPTTGEMMEFDSPLPD 342
>gi|358063934|ref|ZP_09150531.1| hypothetical protein HMPREF9473_02594 [Clostridium hathewayi
WAL-18680]
gi|356697882|gb|EHI59445.1| hypothetical protein HMPREF9473_02594 [Clostridium hathewayi
WAL-18680]
Length = 304
Score = 124 bits (311), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 91/314 (28%), Positives = 146/314 (46%), Gaps = 51/314 (16%)
Query: 18 QGWLQRIQNGQ-ITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+ +LQ++ + + V+G+ V N ++AG + EP++ L+++YED D
Sbjct: 29 RSYLQKLLKSECVLVNGKPVKS-NYRVNAGDSVELEVPEAVEPEIVPEKMDLDIVYEDKD 87
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S ++ P VHR+ T+G+L+
Sbjct: 88 VVIVNKPKGMVVHPAAGHYSGTLVNGLMEHCKDELSGING-VMRPGIVHRIDMDTTGLLI 146
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
K A IA +L + IT+ YRA+VHG+V ED+ + PIG
Sbjct: 147 VCKNDKAHNEIA----------------RQLKEHSITRRYRAIVHGVVKEDEGTVDAPIG 190
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P K + + +G+ A++ VLER R T ++ +++GR HQIR+H+A + H
Sbjct: 191 --RHPVDRKKMSINEKNGREAVTHYRVLER--FRQFTYIECRLETGRTHQIRVHMASIHH 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PLLGD +Y P G LHA L HP T
Sbjct: 247 PLLGDAVYGPAKCPYKLQ-------------------------GQTLHAGVLGFVHPETG 281
Query: 314 EVIKITAPLPSVLK 327
E ++ APLP +
Sbjct: 282 EYMEFEAPLPEYFE 295
>gi|153814897|ref|ZP_01967565.1| hypothetical protein RUMTOR_01112 [Ruminococcus torques ATCC 27756]
gi|317500410|ref|ZP_07958634.1| pseudouridine synthase [Lachnospiraceae bacterium 8_1_57FAA]
gi|331089583|ref|ZP_08338482.1| hypothetical protein HMPREF1025_02065 [Lachnospiraceae bacterium
3_1_46FAA]
gi|336438899|ref|ZP_08618520.1| hypothetical protein HMPREF0990_00914 [Lachnospiraceae bacterium
1_1_57FAA]
gi|145847928|gb|EDK24846.1| pseudouridine synthase, RluA family [Ruminococcus torques ATCC
27756]
gi|316898165|gb|EFV20212.1| pseudouridine synthase [Lachnospiraceae bacterium 8_1_57FAA]
gi|330404951|gb|EGG84489.1| hypothetical protein HMPREF1025_02065 [Lachnospiraceae bacterium
3_1_46FAA]
gi|336017389|gb|EGN47151.1| hypothetical protein HMPREF0990_00914 [Lachnospiraceae bacterium
1_1_57FAA]
Length = 303
Score = 124 bits (311), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 95/327 (29%), Positives = 155/327 (47%), Gaps = 65/327 (19%)
Query: 18 QGWLQRI-QNGQITVDGRVVNDPNIILSAGSEL--------VYHRLPWKEPDVPYLLEVL 68
+ ++Q++ ++G+I+V+ V PN +S ++ V LP P L++L
Sbjct: 28 RSYIQKLLKDGKISVNQSSVK-PNYKISENDKIEVFIPDPEVLDILPENIP-----LDIL 81
Query: 69 YEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGT 128
YED D++ +NKP + V P + T++N + + S ++ P VHR+ T
Sbjct: 82 YEDSDILIVNKPKNMVVHPAPGHYEHTLVNAVMYHCKDNLSGING-ILRPGIVHRIDMDT 140
Query: 129 SGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVII 188
+G LL K A IA +L + IT+ Y A+VHG + ED ++
Sbjct: 141 TGSLLICKNDKAHQIIAE----------------QLKEHSITRRYHAIVHGKIKEDNGVV 184
Query: 189 KQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHL 248
PIG R+P K + + +GK A++ VL R ++ T ++ E+++GR HQIR+H+
Sbjct: 185 NAPIG--RHPIDRKKMSTKAKNGKHAVTHYTVLRR--FKDYTYIECELETGRTHQIRVHM 240
Query: 249 AFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
A +GHP+LGD +Y P G LHA L ++
Sbjct: 241 ASIGHPILGDSMYGPSKCPFKLQ-------------------------GQTLHAKVLGIT 275
Query: 309 HPTTNEVIKITAPLPS----VLKTREE 331
HP+T + I++ APLP +LK EE
Sbjct: 276 HPSTGKYIEVDAPLPEYFNKLLKQLEE 302
>gi|300767399|ref|ZP_07077311.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum
ATCC 14917]
gi|300495218|gb|EFK30374.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum
ATCC 14917]
Length = 320
Score = 124 bits (311), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 96/324 (29%), Positives = 158/324 (48%), Gaps = 60/324 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIALN 78
I+ Q+TV+G++ + G E+V + + ++P L+++YEDDD++ +N
Sbjct: 52 IKTDQVTVNGQL-EASKYHVKPGDEIVVAAQTVQQTTIEPENIP--LDIVYEDDDVLVVN 108
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + + S+++ + P VHR+ + TSG+L+ AK
Sbjct: 109 KPQGMVVHPAPGHPNHTLVNALLYHSP--LSTINGEFR-PGIVHRIDKDTSGLLMVAKND 165
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A KT++ + Y ALVHG++ ED I P+G R P
Sbjct: 166 RAHQSLAAQLKAKTNL----------------REYVALVHGVIKEDTGTINAPLG--RSP 207
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K + +G+PA++ VL+R ++ TL+ +++GR HQIR+HL +GHPL+GD
Sbjct: 208 KDRKKQAIIK-TGRPAVTHFKVLKR--YQHYTLISCRLETGRTHQIRVHLQSIGHPLVGD 264
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY G K+ G +LHA L HP T +++
Sbjct: 265 PLY---GPKKTIKGH-----------------------GQFLHAKLLGFKHPVTGDLLTF 298
Query: 319 TAPLPSVLKTREEGREVDKSVGSE 342
APLP + T ++DK+ G+
Sbjct: 299 EAPLPPIFTTTLA--KLDKTDGNH 320
>gi|423612107|ref|ZP_17587968.1| RluA family pseudouridine synthase [Bacillus cereus VD107]
gi|401247114|gb|EJR53458.1| RluA family pseudouridine synthase [Bacillus cereus VD107]
Length = 302
Score = 124 bits (311), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 96/314 (30%), Positives = 149/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDAVVTVNGKAVKG-NYKVKENDEITVTIPEPEELDIQPEDMSLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PIG
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFEHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIEFEAPIPKVFE 294
>gi|442805040|ref|YP_007373189.1| pseudouridine synthase RluA [Clostridium stercorarium subsp.
stercorarium DSM 8532]
gi|442740890|gb|AGC68579.1| pseudouridine synthase RluA [Clostridium stercorarium subsp.
stercorarium DSM 8532]
Length = 306
Score = 124 bits (311), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 79/260 (30%), Positives = 127/260 (48%), Gaps = 47/260 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+++YED D++ +NKP + V P + T++N + + S ++ P VHR+
Sbjct: 83 LDIVYEDSDILIINKPRNMVVHPAPGNEDNTLVNAVLYHCGDSLSDING-IIRPGIVHRI 141
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ T+G++ AK A +A ++L + + ++Y A+V GI+ ED
Sbjct: 142 DKDTTGLIAVAKNNKAHQSLA----------------LQLKEHSMKRVYDAIVEGIIRED 185
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ +I PIG R+P K + V GK A++ +VLER + T V++ +++GR HQI
Sbjct: 186 RGVIDAPIG--RHPVDRKKMAVVPGKGKEAITHFEVLER--LKGATYVRLRLETGRTHQI 241
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+A++ HP+ GDPLY G K G LHA
Sbjct: 242 RVHMAYINHPVYGDPLY--GRSTKKLTG------------------------GQMLHARF 275
Query: 305 LFLSHPTTNEVIKITAPLPS 324
L L HPTT E ++ A LP
Sbjct: 276 LRLKHPTTGEYMEFEAELPE 295
>gi|397905194|ref|ZP_10506065.1| Ribosomal large subunit pseudouridine synthase D [Caloramator
australicus RC3]
gi|397161843|emb|CCJ33399.1| Ribosomal large subunit pseudouridine synthase D [Caloramator
australicus RC3]
Length = 305
Score = 124 bits (311), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 81/264 (30%), Positives = 136/264 (51%), Gaps = 48/264 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
+++LYEDDD++ +NKP G+ V P T++N L + + SS++ P VHR+
Sbjct: 81 IDILYEDDDIVVVNKPQGMVVHPAAGNYTGTLVNAL-LKKCRTLSSING-VIRPGIVHRI 138
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A +A ++ + + ++Y AL G++ +D
Sbjct: 139 DKDTSGVLVVAKNDYAHQHLAE----------------QIKEHTVKRVYIALTEGVIKQD 182
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ I +PIG R+P K + V +GK A++ VLER + TLV+ +++GR HQI
Sbjct: 183 QGTIDKPIG--RHPIHRKKMAVIE-NGKRAVTHFKVLER--YKENTLVEARLETGRTHQI 237
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+A++G+PL+GDP+Y G + + F+ + G LHA
Sbjct: 238 RVHMAYIGYPLVGDPVY--GFKKQKFNLK-----------------------GQALHAMV 272
Query: 305 LFLSHPTTNEVIKITAPLPSVLKT 328
L HP T E ++ ++PLP +
Sbjct: 273 LGFIHPRTGEYMEFSSPLPDYFQN 296
>gi|22299081|ref|NP_682328.1| ribosomal large subunit pseudouridine synthase D
[Thermosynechococcus elongatus BP-1]
gi|22295263|dbj|BAC09090.1| ribosomal large subunit pseudouridine synthase D
[Thermosynechococcus elongatus BP-1]
Length = 308
Score = 124 bits (311), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 105/313 (33%), Positives = 152/313 (48%), Gaps = 52/313 (16%)
Query: 20 WLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-DV---PYLLEVLYEDDDLI 75
W Q IQ G + ++G+V + N LS G E++ LP EP D+ P L +LYED++L+
Sbjct: 32 WQQLIQQGHVRLNGQVCDRKNQPLSGG-EVLEVVLPTPEPLDLVPEPLPLSILYEDEELL 90
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
LNKP L V P T+++ L + Q P VHRL + TSG+++ A
Sbjct: 91 ILNKPVDLVVHPAPGHSHGTLVHGLLAHCPDLTGIGGVQR--PGIVHRLDKDTSGVMVVA 148
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
KT+ A + +L R++ + Y +V+G ED+ + P+G
Sbjct: 149 KTEFALHHLQ----------------QQLKTRQMQRHYLGVVYGQPREDRGTVITPLG-- 190
Query: 196 RYPGVAKGLYVASPS-GKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHP 254
R+P K + V P G+ A++ V ER R+C LV+ +++GR HQIR+H A LG P
Sbjct: 191 RHPVDRKKMAVVPPEKGRTAITHWYVKERF--RHCALVEFRLETGRTHQIRVHAAHLGWP 248
Query: 255 LLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNE 314
LLGDPLY G K +PG LHAY+L L HP + +
Sbjct: 249 LLGDPLYGRGSPLKV---------------------KLPGQA---LHAYRLQLQHPRSGQ 284
Query: 315 VIKITAPLPSVLK 327
I APLP L+
Sbjct: 285 EIVAIAPLPDHLE 297
>gi|184155639|ref|YP_001843979.1| pseudouridine synthase [Lactobacillus fermentum IFO 3956]
gi|183226983|dbj|BAG27499.1| pseudouridine synthase [Lactobacillus fermentum IFO 3956]
Length = 304
Score = 124 bits (311), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 99/320 (30%), Positives = 150/320 (46%), Gaps = 69/320 (21%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL---------LEV 67
L+ W I +G +TV+G+ V L AG +V EP+ P L++
Sbjct: 34 LKRW---IDDGTVTVNGQTVK-AKYQLQAGDRVVI------EPETPVEIDLEPENIPLDI 83
Query: 68 LYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRG 127
+YEDDD++ +NKP G+ V P T++N L + A SS++ + P VHR+ +
Sbjct: 84 VYEDDDVLVVNKPQGMVVHPAPGHPNHTLVNALMYHAP--LSSINGELR-PGIVHRIDKD 140
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
TSG+L+ AKT A + +K+++ + Y ALVHG++ E++
Sbjct: 141 TSGLLMVAKTDRAHRSLTAQLKEKSNL----------------REYVALVHGVIKENEGT 184
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
I P+ R P K V G+ A++ VL+R ++ TLV +++GR HQIR+H
Sbjct: 185 IDAPLA--RSPKDRKKQAVVV-GGRHAVTHFRVLKR--YQHYTLVACRLETGRTHQIRVH 239
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
+ ++ HPL GDPLY P +PG G YLHA L
Sbjct: 240 MKYINHPLAGDPLY-------------------------GPRKTLPGH-GQYLHARLLGF 273
Query: 308 SHPTTNEVIKITAPLPSVLK 327
HP T E + TAP P +
Sbjct: 274 EHPVTGEEMVFTAPWPDYFE 293
>gi|409386178|ref|ZP_11238635.1| Ribosomal large subunit pseudouridine synthase D [Lactococcus
raffinolactis 4877]
gi|399206541|emb|CCK19550.1| Ribosomal large subunit pseudouridine synthase D [Lactococcus
raffinolactis 4877]
Length = 299
Score = 124 bits (311), Expect = 8e-26, Method: Compositional matrix adjust.
Identities = 84/264 (31%), Positives = 130/264 (49%), Gaps = 48/264 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
LE++YEDDD+ +NKP G+ V P Q T++N L + + SS + P VHR+
Sbjct: 76 LEIVYEDDDVAVINKPQGMVVHPSAGHQTGTLVNALMYHMTNLSSI--NGVIRPGIVHRI 133
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A +A + TS + Y A++HG + D
Sbjct: 134 DKDTSGLLMVAKNDQAHEFLATQLKEHTS----------------KRRYVAIIHGNLLND 177
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ +I+ PIG R K V + GKPAL+ +VLER + TLV + +++GR HQI
Sbjct: 178 RGVIEAPIG--RNAKDRKKQAVIA-GGKPALTHFEVLER--FGDFTLVSLTLETGRTHQI 232
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+A++GHP+ GDPLY P N + + G +LHA
Sbjct: 233 RVHMAYIGHPVAGDPLY-------------------------GPKNALKPNHGQFLHAQM 267
Query: 305 LFLSHPTTNEVIKITAPLPSVLKT 328
L HPT+++ ++ P + +
Sbjct: 268 LGFEHPTSHQWLEFELDPPKLFQA 291
>gi|157826322|ref|YP_001494042.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
protein [Rickettsia akari str. Hartford]
gi|157800280|gb|ABV75534.1| Ribosomal large subunit pseudouridine synthase, RluD subfamily
protein [Rickettsia akari str. Hartford]
Length = 329
Score = 124 bits (311), Expect = 8e-26, Method: Compositional matrix adjust.
Identities = 83/306 (27%), Positives = 156/306 (50%), Gaps = 42/306 (13%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD------VPYLLEVLYEDDDLIAL 77
I+N Q+ V+ +++DP++++ +++ +KEP+ V L+++YEDDDLI +
Sbjct: 35 IKNSQVLVNDVIISDPDVLVKENDVILF---AFKEPEELKIAAVNIALDIIYEDDDLIVI 91
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK +G+ V PG T++N L + +K S + S A+ P VHRL + T+G+++ AK
Sbjct: 92 NKAAGMTVHPGAGHHDDTLVNALLYH-TKNLSDIGS-AARPGIVHRLDKDTTGLMVVAKN 149
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ QR++ + Y+ALV G+++ +IK IG R
Sbjct: 150 NKAHMLLAN----------------QIEQRQVIRKYKALVWGVINPLAGVIKNNIGRSRV 193
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + + GK A++ LE ++V+ + +GR HQIR+ L+ + H ++G
Sbjct: 194 E--RQKMSILKYGGKEAVTHYKTLELFYGGTISMVECRLNTGRTHQIRVQLSHVKHSVVG 251
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
D Y G + + + A+ ++R LH++ L +HPT+N++++
Sbjct: 252 DQTY--GNNDRKI-AHSSPALKAKLIDFKRQA----------LHSWYLSFTHPTSNKIME 298
Query: 318 ITAPLP 323
+ LP
Sbjct: 299 FSCELP 304
>gi|449950633|ref|ZP_21808315.1| putative pseudouridylate synthase [Streptococcus mutans 11SSST2]
gi|449167101|gb|EMB70007.1| putative pseudouridylate synthase [Streptococcus mutans 11SSST2]
Length = 296
Score = 124 bits (310), Expect = 8e-26, Method: Compositional matrix adjust.
Identities = 94/312 (30%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+G+ + +++++ P +E ++P LE++YED+D+
Sbjct: 29 EQIKAGLVLVNGKTQKAKYAVKEG--DIIHYERPQEEVLDCVAQNIP--LEIVYEDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL ++K + Y ALVHG + D+ +I+ PIG
Sbjct: 143 KNDQAHQALA----------------KELKEKKSLRQYIALVHGNLSNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQTVTA-KGKPAVTHFKVLERFGQ--YSLVELTLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T E+
Sbjct: 242 AGDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGEL 275
Query: 316 IKITAPLPSVLK 327
++ T +P + +
Sbjct: 276 MQFTTEVPVIFQ 287
>gi|423522277|ref|ZP_17498750.1| RluA family pseudouridine synthase [Bacillus cereus HuA4-10]
gi|401174971|gb|EJQ82174.1| RluA family pseudouridine synthase [Bacillus cereus HuA4-10]
Length = 302
Score = 124 bits (310), Expect = 8e-26, Method: Compositional matrix adjust.
Identities = 97/314 (30%), Positives = 150/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LEV YED D
Sbjct: 34 VQQW---IKDAVVTVNGKSVK-VNYKVKENDEITVTIPEPEELDIQPEDMNLEVYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P + T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PIG
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIEFEAPIPEVFE 294
>gi|183602394|ref|ZP_02963760.1| hypothetical protein BIFLAC_05095 [Bifidobacterium animalis subsp.
lactis HN019]
gi|219683291|ref|YP_002469674.1| pseudouridine synthase RluD [Bifidobacterium animalis subsp. lactis
AD011]
gi|241191252|ref|YP_002968646.1| hypothetical protein Balac_1228 [Bifidobacterium animalis subsp.
lactis Bl-04]
gi|241196658|ref|YP_002970213.1| hypothetical protein Balat_1228 [Bifidobacterium animalis subsp.
lactis DSM 10140]
gi|384189875|ref|YP_005575623.1| Ribosomal large subunit pseudouridine synthase D [Bifidobacterium
animalis subsp. lactis BB-12]
gi|384192665|ref|YP_005578412.1| tRNA pseudouridine(38-40) synthase [Bifidobacterium animalis subsp.
lactis CNCM I-2494]
gi|384194249|ref|YP_005579995.1| 23S RNA-specific pseudouridylate synthase [Bifidobacterium animalis
subsp. lactis BLC1]
gi|384195814|ref|YP_005581559.1| hypothetical protein BalV_1192 [Bifidobacterium animalis subsp.
lactis V9]
gi|387821121|ref|YP_006301164.1| ribosomal large subunit pseudouridine synthase D [Bifidobacterium
animalis subsp. lactis B420]
gi|387822802|ref|YP_006302751.1| ribosomal large subunit pseudouridine synthase D [Bifidobacterium
animalis subsp. lactis Bi-07]
gi|423679781|ref|ZP_17654657.1| hypothetical protein FEM_14423 [Bifidobacterium animalis subsp.
lactis BS 01]
gi|183218313|gb|EDT88958.1| hypothetical protein BIFLAC_05095 [Bifidobacterium animalis subsp.
lactis HN019]
gi|219620941|gb|ACL29098.1| pseudouridine synthase RluD [Bifidobacterium animalis subsp. lactis
AD011]
gi|240249644|gb|ACS46584.1| hypothetical protein Balac_1228 [Bifidobacterium animalis subsp.
lactis Bl-04]
gi|240251212|gb|ACS48151.1| hypothetical protein Balat_1228 [Bifidobacterium animalis subsp.
lactis DSM 10140]
gi|289177367|gb|ADC84613.1| Ribosomal large subunit pseudouridine synthase D [Bifidobacterium
animalis subsp. lactis BB-12]
gi|295794245|gb|ADG33780.1| hypothetical protein BalV_1192 [Bifidobacterium animalis subsp.
lactis V9]
gi|340365402|gb|AEK30693.1| tRNA pseudouridine(38-40) synthase [Bifidobacterium animalis subsp.
lactis CNCM I-2494]
gi|345283108|gb|AEN76962.1| 23S RNA-specific pseudouridylate synthase [Bifidobacterium animalis
subsp. lactis BLC1]
gi|366040780|gb|EHN17293.1| hypothetical protein FEM_14423 [Bifidobacterium animalis subsp.
lactis BS 01]
gi|386653822|gb|AFJ16952.1| Ribosomal large subunit pseudouridine synthase D [Bifidobacterium
animalis subsp. lactis B420]
gi|386655410|gb|AFJ18539.1| Ribosomal large subunit pseudouridine synthase D [Bifidobacterium
animalis subsp. lactis Bi-07]
Length = 317
Score = 124 bits (310), Expect = 8e-26, Method: Compositional matrix adjust.
Identities = 92/305 (30%), Positives = 149/305 (48%), Gaps = 46/305 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD-VPYLLEVLYEDDDLIALNKPSG 82
I+ GQ V GR ++ + + + + R +EP+ V + + YEDDD++ ++KP G
Sbjct: 35 IETGQARVIGRDIHKSATLQAGDTVEIDVREERREPEPVSNEMTIAYEDDDIVVVDKPVG 94
Query: 83 LQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKT 142
+ + TVL L R +S+ + + V RL GTSG++L K+ LA
Sbjct: 95 VAAHASVGWTGPTVLGSLIQRGV-HITSMGAAGRQGI-VSRLDVGTSGLMLVCKSDLAYK 152
Query: 143 CIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAK 202
+ F S+ ++ K Y ALV G + EDK I+ PIG + V+
Sbjct: 153 EMRRQF----------------SEHEVKKTYHALVQGNLKEDKATIEAPIGRAK---VSD 193
Query: 203 GLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYV 262
+ +P+GK A++ DV+ER + TL + +++GR HQIR+H + +GHPL+GDP+Y
Sbjct: 194 FRFTVTPAGKEAVTHWDVMERFGE--ATLASINLETGRTHQIRVHFSSIGHPLVGDPMY- 250
Query: 263 AGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPL 322
G P+ +Q G ER +LHA +L HP T+ +T+
Sbjct: 251 -GANPR----------LSQALGLER----------QWLHAMELEFRHPRTHINTVVTSRY 289
Query: 323 PSVLK 327
P+ L+
Sbjct: 290 PTDLQ 294
>gi|209694254|ref|YP_002262182.1| 23S rRNA pseudouridine synthase D [Aliivibrio salmonicida LFI1238]
gi|208008205|emb|CAQ78349.1| ribosomal large subunit pseudouridine synthase D [Aliivibrio
salmonicida LFI1238]
Length = 324
Score = 124 bits (310), Expect = 8e-26, Method: Compositional matrix adjust.
Identities = 98/304 (32%), Positives = 149/304 (49%), Gaps = 51/304 (16%)
Query: 27 GQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIALNKPS 81
G I+V+G V+ + + G E+V W D+P LE++YEDDD++ +NKP
Sbjct: 43 GSISVNGEVITKARVKMMGGEEIVVKAELEDEERWLAQDIP--LEIVYEDDDILVINKPR 100
Query: 82 GLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP--VHRLGRGTSGILLCAKTKL 139
L V PG T+LN L + S A P VHRL + T+G+++ AKT
Sbjct: 101 DLVVHPGAGTPDGTILNALLF-------HYPSIAEVPRAGIVHRLDKDTTGLMVVAKTVP 153
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPG 199
A+T + V L +RKIT+ Y A+V G + +I++PIG R+P
Sbjct: 154 AQTRL----------------VRALQKRKITREYEAIVLGRMTAGG-MIEKPIG--RHPQ 194
Query: 200 VAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDP 259
+ L GK A++ V E R T +++ +++GR HQIR+H++FL HPL+GD
Sbjct: 195 -KRTLMAVHELGKDAVTHYRVAEH--FRIHTRLRLRLETGRTHQIRVHMSFLQHPLVGDT 251
Query: 260 LYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKIT 319
Y GG+ + G + ++ + G LHA L HP T EV++
Sbjct: 252 AY--GGRAR-----------IPKGASQELIDMIRGFNRQALHAAMLRFDHPITGEVMEFH 298
Query: 320 APLP 323
AP+P
Sbjct: 299 APIP 302
>gi|417851818|ref|ZP_12497499.1| 23S rRNA pseudouridine synthase D [Pasteurella multocida subsp.
gallicida str. Anand1_poultry]
gi|338218428|gb|EGP04196.1| 23S rRNA pseudouridine synthase D [Pasteurella multocida subsp.
gallicida str. Anand1_poultry]
Length = 324
Score = 124 bits (310), Expect = 8e-26, Method: Compositional matrix adjust.
Identities = 101/317 (31%), Positives = 157/317 (49%), Gaps = 58/317 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYED 71
L+ W I+ + V+G VVN P + G ++ + ++ ++P L ++YED
Sbjct: 35 LKTW---IEQDLVHVNGDVVNVPRAKVYGGEQIEIVVEIEDDTRFEPENLP--LNIVYED 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRG 127
DD++ +NKP V PG TVLN L + A VP VHRL +
Sbjct: 90 DDILVINKPKDFVVHPGAGNASGTVLNALLYHYP---------AIAEVPRAGIVHRLDKD 140
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
T+G+++ AKT A+T + V +L +RKIT+ Y A+V GI+ + +
Sbjct: 141 TTGLMVIAKTIPAQTKL----------------VRDLQKRKITREYEAIVCGIMTKGG-M 183
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
+ QP+ R+P + V P GKPA++ ++ER RN T +++ +++GR HQIR+H
Sbjct: 184 VDQPMA--RHPTKRTHMAV-HPMGKPAVTHYRIMER--FRNYTRLRLRLETGRTHQIRVH 238
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
+A + HPLLGD Y +P SE T ++R LHA L L
Sbjct: 239 MAHIAHPLLGDQTYGGRPRPPKNASEELMQTLRD---FKRQA----------LHAIMLRL 285
Query: 308 SHPTTNEVIKITAPLPS 324
HP T E+++ APLP+
Sbjct: 286 EHPITGELMEWHAPLPT 302
>gi|308069860|ref|YP_003871465.1| RNA pseudouridine synthase (RNA-uridine isomerase) [Paenibacillus
polymyxa E681]
gi|305859139|gb|ADM70927.1| Hypothetical RNA pseudouridine synthase (RNA-uridine isomerase)
[Paenibacillus polymyxa E681]
Length = 334
Score = 124 bits (310), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 99/320 (30%), Positives = 151/320 (47%), Gaps = 61/320 (19%)
Query: 10 KHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD----VPYL- 64
K + + +Q W I NG++ V+G + N L+ G +V L EP+ VP
Sbjct: 57 KEVSRSQIQMW---IGNGRVLVNGTAIK-ANYKLAEGDRIV---LSVPEPESVDIVPENI 109
Query: 65 -LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHR 123
L+V+YED D+I +NK GL V P T++N L + S + P VHR
Sbjct: 110 PLDVVYEDSDVIVINKQRGLVVHPAPGHSSGTLVNALMYHCHDLSGI--NGELRPGIVHR 167
Query: 124 LGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDE 183
+ + TSG+L+ AK A +A D + +T+ Y ALVHG +
Sbjct: 168 IDKDTSGLLMAAKNDQAHASLAAQLKDHS----------------VTRKYIALVHGHLSH 211
Query: 184 DKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQ 243
D+ + PIG R G K V + K A++ V+ER + TL+++++++GR HQ
Sbjct: 212 DQGTVDAPIG--RDSGDRKLFTVTERNSKHAVTHFLVIER--LGDYTLLELQLETGRTHQ 267
Query: 244 IRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAY 303
IR+H+ F+GHPL+GDP+Y G+ K E G LHA
Sbjct: 268 IRVHMKFIGHPLVGDPMY---GRSKGVRME-----------------------GQALHAA 301
Query: 304 QLFLSHPTTNEVIKITAPLP 323
L HP+T E ++ + P+P
Sbjct: 302 VLGFKHPSTGEYMEFSRPIP 321
>gi|210622438|ref|ZP_03293170.1| hypothetical protein CLOHIR_01118 [Clostridium hiranonis DSM 13275]
gi|210154254|gb|EEA85260.1| hypothetical protein CLOHIR_01118 [Clostridium hiranonis DSM 13275]
Length = 309
Score = 124 bits (310), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 92/318 (28%), Positives = 152/318 (47%), Gaps = 60/318 (18%)
Query: 18 QGWLQRI-QNGQITVDGRV-------VNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLY 69
+ ++Q+I ++ ++TV+G+V + I++ V +P D+P +E++Y
Sbjct: 36 RSYIQKIIKDKKVTVNGKVEKAKYLVKEEDKIVIEIPKPKVLEVVPQ---DIP--IEIVY 90
Query: 70 EDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTS 129
EDDD+I +NKP G+ V P + T++N + + SS++ P VHR+ + TS
Sbjct: 91 EDDDIIIVNKPQGMVVHPAPGNYEGTLVNAILYHCKGNLSSING-VIRPGIVHRIDKDTS 149
Query: 130 GILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIK 189
GIL+ AK A C+A D + IT+ Y + H + ED V +
Sbjct: 150 GILMIAKNNNAHNCLAEQLKDHS----------------ITREYEFICHSVFKEDNVTVD 193
Query: 190 QPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLA 249
+PIG R P + + P+GK A++ +V+ER T V+ +++GR HQIR+H
Sbjct: 194 RPIG--RNPKDRLKMAIV-PNGKRAVTHFEVIER--FNGYTHVRARLETGRTHQIRVHAM 248
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
+ HPL+GDP+Y PK+ + G LHA +L H
Sbjct: 249 SINHPLVGDPVY----GPKNSKIKLN---------------------GQALHAKKLGFIH 283
Query: 310 PTTNEVIKITAPLPSVLK 327
PTT E ++ + LP +
Sbjct: 284 PTTKEYVEFDSELPDYFQ 301
>gi|338813367|ref|ZP_08625496.1| pseudouridine synthase, RluA family protein [Acetonema longum DSM
6540]
gi|337274726|gb|EGO63234.1| pseudouridine synthase, RluA family protein [Acetonema longum DSM
6540]
Length = 308
Score = 124 bits (310), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 81/259 (31%), Positives = 127/259 (49%), Gaps = 47/259 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L++LYEDD +I +NKP G+ V P Q T++N L S + P VHRL
Sbjct: 83 LDILYEDDSVIVINKPRGMVVHPAAGNFQGTLVNALLDHCRDLSGI--NGVVRPGIVHRL 140
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+++ AK A +A ++ +R + Y A+V G + E+
Sbjct: 141 DKDTSGVMVAAKNDTAHLDLAD----------------QIQKRIAGRKYFAVVWGNIKEE 184
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ ++ PIG R+P K + V + KPA++ +LER RN TL++ ++++GR HQI
Sbjct: 185 QGVVNAPIG--RHPADRKKMAVVPINSKPAVTHFRILER--FRNFTLIECKLETGRTHQI 240
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+A++G+P++GDP Y P + G LH+ +
Sbjct: 241 RVHMAYIGYPVVGDPKYGPKQNPFAI-------------------------AGQALHSAE 275
Query: 305 LFLSHPTTNEVIKITAPLP 323
L HP T E + TAPLP
Sbjct: 276 LTFVHPMTKETLHFTAPLP 294
>gi|114566812|ref|YP_753966.1| pseudouridylate synthase [Syntrophomonas wolfei subsp. wolfei str.
Goettingen]
gi|114337747|gb|ABI68595.1| ribosomal large subunit pseudouridine synthase D [Syntrophomonas
wolfei subsp. wolfei str. Goettingen]
Length = 305
Score = 124 bits (310), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 94/305 (30%), Positives = 148/305 (48%), Gaps = 56/305 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIALN 78
I+NG+I VD + P+ L AG E++ L K D+P L +Y+D D+ ++
Sbjct: 38 IENGEIRVDSKQ-QKPSYRLKAGEEIIVEIPAVRELKLKAQDIP--LSFIYQDKDIAVID 94
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ P + T++N L + K S ++ + P VHRL + TSG+++ AK
Sbjct: 95 KPKGMVAHPAHGNWENTLVNALLFHL-KDLSGINGELR-PGIVHRLDKDTSGVMVIAKND 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
+A +A D + I + Y LVHGI+ E+ I+ PIG R
Sbjct: 153 MAHRQLAAQIKDHS----------------INREYITLVHGIIKENLGSIEAPIG--RSK 194
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K + V + G+PA+S VLER N TL++V++ +GR HQIR+H A++ HP++GD
Sbjct: 195 QDRKKMAVIA-GGRPAVSNYQVLER--LGNYTLLKVKLLTGRTHQIRVHFAYIKHPVVGD 251
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY +G + D++ LHA+ L HP++ E +
Sbjct: 252 PLYGSGKKQLGLDTQ-------------------------ALHAHLLGFKHPSSGEYREF 286
Query: 319 TAPLP 323
+ LP
Sbjct: 287 KSELP 291
>gi|423470106|ref|ZP_17446850.1| RluA family pseudouridine synthase [Bacillus cereus BAG6O-2]
gi|423558545|ref|ZP_17534847.1| RluA family pseudouridine synthase [Bacillus cereus MC67]
gi|401191813|gb|EJQ98835.1| RluA family pseudouridine synthase [Bacillus cereus MC67]
gi|402437358|gb|EJV69382.1| RluA family pseudouridine synthase [Bacillus cereus BAG6O-2]
Length = 302
Score = 124 bits (310), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 97/314 (30%), Positives = 150/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LEV YED D
Sbjct: 34 VQQW---IKDAVVTVNGKSVKG-NYKVKGNDEITVTIPEPEELDIQPEDMNLEVYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P + T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PIG
Sbjct: 148 VAKNDVAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIEFEAPIPEVFE 294
>gi|228998673|ref|ZP_04158260.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides
Rock3-17]
gi|228761141|gb|EEM10100.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides
Rock3-17]
Length = 302
Score = 124 bits (310), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 96/309 (31%), Positives = 150/309 (48%), Gaps = 53/309 (17%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDDLIALN 78
Q I++G +TV+G + N + E+ +E D+ LE+ YED D++ +N
Sbjct: 36 QWIKDGVVTVNGNAIKG-NYKVKVNDEIAVAIPDPEELDILPEDMNLEIYYEDADVLVVN 94
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 95 KPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLMVAKND 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
+A +S V +L + +T+ Y+A+VHG++ DK I PIG R
Sbjct: 153 MAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIG--RDK 194
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+PL GD
Sbjct: 195 KDRQSMTV-DENGKHAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGYPLAGD 251
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y G K+ D +N G LHA L HP T E I+
Sbjct: 252 PKY---GPKKTLD-----------------IN------GQALHAGILGFDHPRTGEYIEF 285
Query: 319 TAPLPSVLK 327
AP+P+V +
Sbjct: 286 EAPVPAVFE 294
>gi|383311915|ref|YP_005364716.1| ribosomal large subunit pseudouridine synthase D [Candidatus
Rickettsia amblyommii str. GAT-30V]
gi|378930575|gb|AFC69084.1| ribosomal large subunit pseudouridine synthase D [Candidatus
Rickettsia amblyommii str. GAT-30V]
Length = 313
Score = 124 bits (310), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 83/311 (26%), Positives = 156/311 (50%), Gaps = 52/311 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD------VPYLLEVLYEDDDLIAL 77
I++ Q+ V+ +++DP++++ +++ +KEP+ L+++YEDDDLI +
Sbjct: 35 IKDSQVLVNDVIISDPDVLVKENDIILF---SFKEPEELKIAAANVALDIIYEDDDLIVI 91
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK +G+ V PG T++N L +K S + S A P VHRL + T+G+++ AK
Sbjct: 92 NKAAGMTVYPGAGHHDDTLVNAL-LHHTKNLSDIGSSAR-PGIVHRLDKDTTGLMVVAKN 149
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ QR++ + Y+ALV G+++ + +IK IG R
Sbjct: 150 NKAHMLLAN----------------QIEQRQVIRKYKALVWGVINPLEGVIKNNIG--RS 191
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + + GK A++ LE + + ++V+ ++ +GR HQIR+ L+ L H ++G
Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKTLELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSVVG 251
Query: 258 DPLYVAGGQ-----PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
D Y + P ++ D ++R LH++ L +HPT+
Sbjct: 252 DQTYGNNDRKIAHSPPELKAKLID--------FKRQA----------LHSWYLSFTHPTS 293
Query: 313 NEVIKITAPLP 323
NE+++ + LP
Sbjct: 294 NEIMEFSCELP 304
>gi|157692226|ref|YP_001486688.1| pseudouridylate synthase [Bacillus pumilus SAFR-032]
gi|157680984|gb|ABV62128.1| pseudouridylate synthase [Bacillus pumilus SAFR-032]
Length = 304
Score = 124 bits (310), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 95/317 (29%), Positives = 151/317 (47%), Gaps = 61/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV------PYLLEVLYE 70
+Q W +++G I V+G+ V N + AG ++ ++ EP+ L++ YE
Sbjct: 33 VQQW---VKDGLIEVNGKQVK-ANYKVQAGDQI---KVEIPEPEALDVEAEAMDLDIYYE 85
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D++ +NKP G+ V P T++N L + S + P VHR+ + TSG
Sbjct: 86 DADVLVVNKPRGMVVHPAPGHVSGTLVNGLMAHCTDLSGI--NGVMRPGIVHRIDKDTSG 143
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK +A +S V +L + +T+ Y A+VHGI+ D I
Sbjct: 144 LLMVAKNDMAH----------------ESLVNQLVAKTVTRKYTAVVHGIIQHDTGTIDA 187
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R + + V S K A++ DV+ER + T+V+ +++GR HQIR+H+ +
Sbjct: 188 PIG--RDKKDRQSMTVTKESSKQAVTHFDVIER--FDDFTVVECRLETGRTHQIRVHMKY 243
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDP Y G K+ D G LHA L HP
Sbjct: 244 IGYPLAGDPKY---GPRKTVDFN-----------------------GQLLHAGVLGFDHP 277
Query: 311 TTNEVIKITAPLPSVLK 327
T E I+ TAP+P+ ++
Sbjct: 278 RTGEYIEFTAPVPADMR 294
>gi|331701446|ref|YP_004398405.1| RluA family pseudouridine synthase [Lactobacillus buchneri NRRL
B-30929]
gi|329128789|gb|AEB73342.1| pseudouridine synthase, RluA family [Lactobacillus buchneri NRRL
B-30929]
Length = 302
Score = 124 bits (310), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 84/263 (31%), Positives = 135/263 (51%), Gaps = 50/263 (19%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+++YEDDD+I +NKP G+ V P T++N L + + S+++ + P VHR+
Sbjct: 76 LDIVYEDDDVIVVNKPQGMVVHPSPGHPDHTLVNALLYHSP--LSTINGEFR-PGIVHRI 132
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A ++ +L +K + Y ALVHG + ED
Sbjct: 133 DKDTSGLLMVAKNDKAHQFLS----------------QQLQAQKNLRKYVALVHGRIKED 176
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
++ PIG R P K V S G+ A++ +VLER + TLV +++GR HQI
Sbjct: 177 SGVVNAPIG--RSPKDRKKQAVVS-DGRSAVTHFEVLERFA--DYTLVACRLETGRTHQI 231
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++GHP++GDPLY P + G+ G +LHA +
Sbjct: 232 RVHMKYIGHPIVGDPLY-------------------------GPRKTIRGN-GQFLHAQE 265
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T++++ +APLP + +
Sbjct: 266 LGFEHPRTHQLMIFSAPLPPIFE 288
>gi|304437216|ref|ZP_07397176.1| ribosomal large subunit pseudouridine synthase D [Selenomonas sp.
oral taxon 149 str. 67H29BP]
gi|304369708|gb|EFM23373.1| ribosomal large subunit pseudouridine synthase D [Selenomonas sp.
oral taxon 149 str. 67H29BP]
Length = 300
Score = 124 bits (310), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 99/314 (31%), Positives = 143/314 (45%), Gaps = 58/314 (18%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+ + QR + G +TVDG N LS G E V +P E ++P L VLYE
Sbjct: 26 RSYAQRLVAEGHVTVDGER-RKANFKLSGG-ESVACTIPPAEAVEIRAENIP--LNVLYE 81
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+I +NKP G+ V P T++N L S S + P VHRL + TSG
Sbjct: 82 DADIIVINKPRGMVVHPAAGVYTGTLVNALLHHCSDLSGI--NGDLRPGIVHRLDKDTSG 139
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+++ AK +A +A DK + + YRA+V+G + E +I
Sbjct: 140 VMVAAKNDMAHHFLARQIRDKEA----------------RREYRAIVYGNIVERAGVITG 183
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
IG R+P K + + +GKPA + +VLER + T V +++GR HQIR+H+
Sbjct: 184 DIG--RHPTDRKKMAIVRENGKPATTHFEVLER--FGDYTFVACRLETGRTHQIRVHMTS 239
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHPL+GD Y A P + G LH+ L L+HP
Sbjct: 240 IGHPLVGDTKYTAKKNPFAI-------------------------AGQALHSLTLTLTHP 274
Query: 311 TTNEVIKITAPLPS 324
T + TAPL +
Sbjct: 275 RTQAEMTFTAPLSA 288
>gi|116629656|ref|YP_814828.1| pseudouridylate synthase, 23S RNA-specific [Lactobacillus gasseri
ATCC 33323]
gi|238854259|ref|ZP_04644603.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
gasseri 202-4]
gi|311110701|ref|ZP_07712098.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
gasseri MV-22]
gi|420147157|ref|ZP_14654433.1| Pseudouridine synthase [Lactobacillus gasseri CECT 5714]
gi|116095238|gb|ABJ60390.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
gasseri ATCC 33323]
gi|238833070|gb|EEQ25363.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
gasseri 202-4]
gi|311065855|gb|EFQ46195.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
gasseri MV-22]
gi|398401158|gb|EJN54660.1| Pseudouridine synthase [Lactobacillus gasseri CECT 5714]
Length = 304
Score = 124 bits (310), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 96/317 (30%), Positives = 159/317 (50%), Gaps = 65/317 (20%)
Query: 35 VVNDPNIILSAGSELVYHRLPWKE-------PDVPYLLE-------VLYEDDDLIALNKP 80
+VND NI+++ +E V +++ + P P LE ++YED D+I +NKP
Sbjct: 35 LVNDKNILVNHKAEKVSYKVQAGDSIDITVPPAKPLSLEAQNLNLDIVYEDADVIVVNKP 94
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
G+ V P T++N L + + + S + P VHR+ + TSG+L+ AK A
Sbjct: 95 QGMVVHPSAGHPDHTLVNGLLYHTHELADS--PEGFRPGIVHRIDKDTSGLLMVAKNDKA 152
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGV 200
+ + A+K +++R+ Y A+VHG + +I PIG R P
Sbjct: 153 RESLEKQLAEK------------INKRE----YLAIVHGNFETKNGVIDAPIG--RNPNN 194
Query: 201 AKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPL 260
K + V +P GK A++ VLE+ ++ +LV+ +++GR HQIR+H+ ++GHPL GDPL
Sbjct: 195 RKQMAV-NPKGKAAVTHFTVLEQ--FKDYSLVKCILETGRTHQIRVHMKYIGHPLAGDPL 251
Query: 261 YVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITA 320
Y G K+ G+ G +LHA L P+T++ ++ +A
Sbjct: 252 Y---GPKKTL------------AGH-----------GQFLHAKTLGFYQPSTHKWLEFSA 285
Query: 321 PLPSVLKTREEG--REV 335
PLP++ + + E REV
Sbjct: 286 PLPAIFEKQLENLRREV 302
>gi|406027009|ref|YP_006725841.1| pseudouridine synthase D [Lactobacillus buchneri CD034]
gi|405125498|gb|AFS00259.1| pseudouridine synthase D [Lactobacillus buchneri CD034]
Length = 302
Score = 124 bits (310), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 84/263 (31%), Positives = 135/263 (51%), Gaps = 50/263 (19%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+++YEDDD+I +NKP G+ V P T++N L + + S+++ + P VHR+
Sbjct: 76 LDIVYEDDDVIVVNKPQGMVVHPSPGHPDHTLVNALLYHSP--LSTINGEFR-PGIVHRI 132
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A ++ +L +K + Y ALVHG + ED
Sbjct: 133 DKDTSGLLMVAKNDKAHQFLS----------------QQLKAQKNLRKYVALVHGRIKED 176
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
++ PIG R P K V S G+ A++ +VLER + TLV +++GR HQI
Sbjct: 177 SGVVNAPIG--RSPKDRKKQAVVS-DGRSAVTHFEVLERFA--DYTLVACRLETGRTHQI 231
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++GHP++GDPLY P + G+ G +LHA +
Sbjct: 232 RVHMKYIGHPIVGDPLY-------------------------GPRKTIRGN-GQFLHAQE 265
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T++++ +APLP + +
Sbjct: 266 LGFEHPRTHQLMIFSAPLPPIFE 288
>gi|295109999|emb|CBL23952.1| ribosomal large subunit pseudouridine synthase D [Ruminococcus
obeum A2-162]
Length = 304
Score = 123 bits (309), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 91/314 (28%), Positives = 149/314 (47%), Gaps = 57/314 (18%)
Query: 18 QGWLQRI-QNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLL------EVLYE 70
+ ++Q++ + Q+ V+GRV+ N +G + +H +P +P+VP +L ++LYE
Sbjct: 30 RSYIQKLLKEEQVLVNGRVIK-ANYKTQSGDYIEFH-IP--DPEVPDILPENIPLDILYE 85
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
DD ++ +NKP + V P T++N + + S ++ P VHR+ + T+G
Sbjct: 86 DDYVLVVNKPKDMVVHPSAGHTSGTLVNAVMAHCGEHLSGING-VLRPGIVHRIDKDTTG 144
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
LL K + +A +L + I + YRA+V G + ED+ +
Sbjct: 145 ALLICKDDVVHRDLAE----------------QLKEHSIKRRYRAVVQGNLKEDEGTVNA 188
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
P+G R+P K + + +GK A++ VLER Q T ++ +++GR HQIR+H+A
Sbjct: 189 PVG--RHPTDRKKMAINHKNGKEAITHYKVLERFGQ--ATYIECRLETGRTHQIRVHMAS 244
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
LGHPLLGD +Y + P G LHA L HP
Sbjct: 245 LGHPLLGDTVYGSSKNPYHLQ-------------------------GQALHAMILGFVHP 279
Query: 311 TTNEVIKITAPLPS 324
T E ++ APLP
Sbjct: 280 ITGEYLEFEAPLPE 293
>gi|389573333|ref|ZP_10163408.1| pseudouridylate synthase [Bacillus sp. M 2-6]
gi|388427030|gb|EIL84840.1| pseudouridylate synthase [Bacillus sp. M 2-6]
Length = 304
Score = 123 bits (309), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 92/317 (29%), Positives = 153/317 (48%), Gaps = 61/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV------PYLLEVLYE 70
+Q W +++G I V+G+ V N + AG ++ ++ +P+ L++ YE
Sbjct: 33 VQQW---VKDGLIEVNGKQVK-ANYKVQAGDQI---KVEIPDPEALDVEAESMDLDIYYE 85
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D++ +NKP G+ V P T++N L + S + P VHR+ + TSG
Sbjct: 86 DEDVLVVNKPRGMVVHPAPGHVTGTLVNGLMAHCNDLSGI--NGVMRPGIVHRIDKDTSG 143
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK +A +S V +L + +T+ Y A+VHGI+ D I
Sbjct: 144 LLMVAKNDMAH----------------ESLVNQLVAKTVTRKYTAVVHGIIQHDTGTIDA 187
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R + + V + K A++ DV+ER ++ T+V+ +++GR HQIR+H+ +
Sbjct: 188 PIG--RDKKDRQSMTVTKENAKQAVTHFDVMER--FKDFTVVECRLETGRTHQIRVHMKY 243
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDP Y G K+ D G LHA L HP
Sbjct: 244 IGYPLAGDPKY---GPRKTVDFN-----------------------GQLLHAGVLGFDHP 277
Query: 311 TTNEVIKITAPLPSVLK 327
T E ++ TAP+P+ ++
Sbjct: 278 RTGEYMEFTAPIPADMR 294
>gi|288800657|ref|ZP_06406114.1| ribosomal large subunit pseudouridine synthase D [Prevotella sp.
oral taxon 299 str. F0039]
gi|288332118|gb|EFC70599.1| ribosomal large subunit pseudouridine synthase D [Prevotella sp.
oral taxon 299 str. F0039]
Length = 358
Score = 123 bits (309), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 97/294 (32%), Positives = 147/294 (50%), Gaps = 37/294 (12%)
Query: 39 PNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLN 98
PN +++ + H + ++P L+++YED +L+ +NKP+GL V PG T++N
Sbjct: 79 PNDVVTLMLDRPRHDNTIEAENIP--LDIVYEDAELLVVNKPAGLVVHPGVGNFHGTLIN 136
Query: 99 QLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDAD 158
+ W K + + + VHR+ + TSG+L+ AKT AKT + F +KT+
Sbjct: 137 AVAWHM-KDDKNFDANSPEVGLVHRIDKDTSGLLVVAKTPNAKTKLGVQFFNKTT----- 190
Query: 159 STVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPS---GKPAL 215
T+ Y+ALV G + ED+ I+ IG R P + + V SP GKPA+
Sbjct: 191 -----------TRSYKALVWGHIAEDEGRIEGNIG--RDPKDRQRMTVFSPDSGIGKPAV 237
Query: 216 SKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFA 275
+ V+ER TL++ +++GR HQIR H+ +GHPL GD Y GG+ E
Sbjct: 238 THYKVIERFGY--TTLIECILETGRTHQIRAHMKHIGHPLFGDERY--GGK------EIL 287
Query: 276 DGTFAQDGGYERPVNPVPGDCGYY-LHAYQLFLSHPTTNEVIKITAPLPSVLKT 328
G + Y+ V C LHA L HPTT + T+PLP+ L T
Sbjct: 288 RGN--RSSSYKSFVQNCFNICDRQALHAQTLGFVHPTTQKECHFTSPLPNDLDT 339
>gi|450033910|ref|ZP_21834034.1| putative pseudouridylate synthase [Streptococcus mutans M21]
gi|450111613|ref|ZP_21862784.1| putative pseudouridylate synthase [Streptococcus mutans SM6]
gi|449196826|gb|EMB98063.1| putative pseudouridylate synthase [Streptococcus mutans M21]
gi|449223469|gb|EMC23153.1| putative pseudouridylate synthase [Streptococcus mutans SM6]
Length = 296
Score = 123 bits (309), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 96/311 (30%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ G + V+G++ I+ G + Y R L D+P ++++YED+D+
Sbjct: 29 EQIKAGLVLVNGKM-QKAKYIVKVGDIIRYERPQEAILDCVAQDLP--IDIVYEDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A EL ++K + Y ALVHG + D+ +I+ PIG R
Sbjct: 144 NDQAHQALAK----------------ELKEKKSLRQYIALVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQTVTA-KGKPAVTHFKVLERFDQ--YSLVELTLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDPLY P + G G +LHA L +HP T E++
Sbjct: 243 GDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGELM 276
Query: 317 KITAPLPSVLK 327
+ T +P + +
Sbjct: 277 QFTTEVPVIFQ 287
>gi|261250364|ref|ZP_05942940.1| ribosomal large subunit pseudouridine synthase D [Vibrio orientalis
CIP 102891 = ATCC 33934]
gi|417954663|ref|ZP_12597695.1| 23S rRNA pseudouridine synthase D [Vibrio orientalis CIP 102891 =
ATCC 33934]
gi|260939480|gb|EEX95466.1| ribosomal large subunit pseudouridine synthase D [Vibrio orientalis
CIP 102891 = ATCC 33934]
gi|342814939|gb|EGU49870.1| 23S rRNA pseudouridine synthase D [Vibrio orientalis CIP 102891 =
ATCC 33934]
Length = 326
Score = 123 bits (309), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 94/312 (30%), Positives = 147/312 (47%), Gaps = 49/312 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL +G++ V+G V++ P + G E++ W+ D+P L+++YED
Sbjct: 36 LKEWLL---DGKVKVNGEVISKPRTKVMGGEEIILQAELEDEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DDL+ +NKP G V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 DDLLVINKPRGFVVHPGAGTPDGTVLNALLHHYPN-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + K R + Y A+ G + + +QP
Sbjct: 146 MVVAKTVPAQTRLVRALQKK---------------RNFVREYEAIAIGRMTAGGRV-EQP 189
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L +P+GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 190 IG--RH-STKRTLMAVTPTGKPAITHYRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 244
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD Y GG+ + G E N + LHA L HP
Sbjct: 245 QHPLLGDTAY--GGRAR-----------IPSGASEELANHIRSFDRQALHAVMLKFEHPI 291
Query: 312 TNEVIKITAPLP 323
T E ++ AP+P
Sbjct: 292 TGEEVEFHAPVP 303
>gi|449915303|ref|ZP_21796193.1| putative pseudouridylate synthase [Streptococcus mutans 15JP3]
gi|449156769|gb|EMB60228.1| putative pseudouridylate synthase [Streptococcus mutans 15JP3]
Length = 296
Score = 123 bits (309), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 94/312 (30%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+G+ + +++++ P +E ++P LE++YED+D+
Sbjct: 29 EQIKAGLVWVNGKTQKAKYAVKEG--DIIHYERPQEEVLDCVAQNIP--LEIVYEDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSVGHHSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL ++K + Y ALVHG + D+ +I+ PIG
Sbjct: 143 KNDQAHQALA----------------KELKEKKSLRQYIALVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQTVTA-KGKPAVTHFKVLERFGQ--YSLVELTLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T E+
Sbjct: 242 AGDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGEL 275
Query: 316 IKITAPLPSVLK 327
++ T +P + +
Sbjct: 276 MQFTTEVPVIFQ 287
>gi|56419681|ref|YP_146999.1| hypothetical protein GK1146 [Geobacillus kaustophilus HTA426]
gi|261419335|ref|YP_003253017.1| pseudouridine synthase [Geobacillus sp. Y412MC61]
gi|297530695|ref|YP_003671970.1| pseudouridine synthase [Geobacillus sp. C56-T3]
gi|319766151|ref|YP_004131652.1| pseudouridine synthase [Geobacillus sp. Y412MC52]
gi|56379523|dbj|BAD75431.1| hypothetical conserved protein [Geobacillus kaustophilus HTA426]
gi|261375792|gb|ACX78535.1| pseudouridine synthase, RluA family [Geobacillus sp. Y412MC61]
gi|297253947|gb|ADI27393.1| pseudouridine synthase, RluA family [Geobacillus sp. C56-T3]
gi|317111017|gb|ADU93509.1| pseudouridine synthase, RluA family [Geobacillus sp. Y412MC52]
Length = 304
Score = 123 bits (309), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 100/306 (32%), Positives = 147/306 (48%), Gaps = 54/306 (17%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP----DVPYLLEVLYEDDDLIAL 77
Q I+NG +TV+G+ V N AG + P EP P L++ YED+D++ +
Sbjct: 35 QWIKNGLVTVNGQTVK-ANYKCEAGDSVAV-SPPEPEPLHVEPEPIPLDIYYEDEDVLVV 92
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P + T++N L A + S + P VHR+ + TSG+L+ AK
Sbjct: 93 NKPRGMVVHPAPGHMRGTLVNALL--AHCRDLSGINGVLRPGIVHRIDKDTSGLLMVAKN 150
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A S V +L + +T+ Y+A+VHG++ D I PIG R
Sbjct: 151 DAAHR----------------SLVEQLVNKTVTRRYKAIVHGVIPHDYGTIDAPIG--RD 192
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
K + V +GK A++ VLER R+ T V+ ++++GR HQIR+H+ ++G+PL G
Sbjct: 193 KRDRKKMAVTEENGKEAVTHFRVLER--FRHYTYVECQLETGRTHQIRVHMKYIGYPLAG 250
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP Y PK T A D G LHA L HP + E ++
Sbjct: 251 DPQY----GPKK--------TLAID--------------GQALHAGVLGFRHPRSGEYLE 284
Query: 318 ITAPLP 323
APLP
Sbjct: 285 FEAPLP 290
>gi|56460291|ref|YP_155572.1| 23S rRNA pseudouridine synthase D [Idiomarina loihiensis L2TR]
gi|56179301|gb|AAV82023.1| Pseudouridylate synthase [Idiomarina loihiensis L2TR]
Length = 322
Score = 123 bits (309), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 101/323 (31%), Positives = 162/323 (50%), Gaps = 46/323 (14%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-VYHRLPWKEPDV--PYLLEVLYEDDD 73
L+ W I +G++T+D +V+ P + AG+ + V + +E P L+++YEDDD
Sbjct: 36 LKSW---ITDGKVTIDTKVIEKPREKVVAGALVAVDAEIEGEERHAAQPVELDIVYEDDD 92
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP+GL V PG RT+LN L + L +A +HRL + T+G+++
Sbjct: 93 ILVINKPAGLVVHPGAGAPDRTLLNGLLHYDPQ--LDLVPRAG---IIHRLDKDTTGLMV 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
A+ A+T + D R IT+ Y A+ +G++ ++ QPIG
Sbjct: 148 VARNVPAQTQLVSMMQD----------------RDITREYEAVCNGVMTAGG-MVDQPIG 190
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P + V SGKPA++ VL+R R TL+++ ++SGR HQIR+H+A + H
Sbjct: 191 --RHPTKRTHMAVVQ-SGKPAVTHYRVLDR--YRAHTLLRLRLESGRTHQIRVHMAHIRH 245
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL+GD Y GG+P+ + D G+ R LHA L L HP T
Sbjct: 246 PLVGDLTY--GGRPRP-PKQAEDRLLQTLRGFNRQA----------LHAASLGLHHPITG 292
Query: 314 EVIKITAPLPSVLKTREEGREVD 336
+ ++ P P+ + E VD
Sbjct: 293 DWLEFNVPRPTDFQYLIEELRVD 315
>gi|15828769|ref|NP_326129.1| pseudouridylate synthase [Mycoplasma pulmonis UAB CTIP]
gi|14089712|emb|CAC13471.1| RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE D (PSEUDOURIDYLATE
SYNTHASE) (URACIL HYDROLYASE) [Mycoplasma pulmonis]
Length = 296
Score = 123 bits (309), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 89/301 (29%), Positives = 144/301 (47%), Gaps = 53/301 (17%)
Query: 29 ITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP---YLLEVLYEDDDLIALNKPSGLQV 85
+ V+G+V+ PN IL +E+ ++ K D+ L+++YED+ LI +NKPSGL V
Sbjct: 36 VFVNGKVIQKPNFILKPDAEIEVIKVIDKTIDLKPEKMDLDIVYEDEHLIVINKPSGLVV 95
Query: 86 LPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIA 145
P +T++N L + S+ + P VHR+ + TSG+L+ AKT +A
Sbjct: 96 HPAPGHYSQTLVNGLIYHFKNLSNE--NGLLRPGIVHRIDKDTSGLLIIAKTNQVHQLLA 153
Query: 146 GYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLY 205
L +I + Y A+V G + V + PIG R K +
Sbjct: 154 KM----------------LKNHEIKRSYIAIVEGFFENKIVHLNLPIG--RSQKDRKKME 195
Query: 206 VASPSGKPALSKVDVLERDV--QRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVA 263
+ + + K A++ V ++++ ++ +LV+ ++++GR HQIR+HL + HP+ DPLY
Sbjct: 196 ITNNNSKNAITHVYLIKQFYYEKQPLSLVECQLETGRTHQIRVHLNYFKHPVWNDPLY-- 253
Query: 264 GGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLP 323
KSF D G YLHAY+LF HP TN+ + P+P
Sbjct: 254 ---GKSF-----------------------SDYGQYLHAYKLFFVHPITNQELTFEIPMP 287
Query: 324 S 324
Sbjct: 288 E 288
>gi|418182557|ref|ZP_12819118.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA43380]
gi|353850794|gb|EHE30798.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA43380]
Length = 295
Score = 123 bits (309), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 95/312 (30%), Positives = 157/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYL-----LEVLYEDDDLI 75
++I++GQ+ V+G+V + G + YH +P EP+V Y+ LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDIVTYH-VP--EPEVLEYVAEDLSLEIVYQDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ + Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDDAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L +HP T +
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGKT 275
Query: 316 IKITAPLPSVLK 327
++ A +P + K
Sbjct: 276 LEFKADIPEIFK 287
>gi|302670833|ref|YP_003830793.1| pseudouridine synthase [Butyrivibrio proteoclasticus B316]
gi|302395306|gb|ADL34211.1| pseudouridine synthase RluA family [Butyrivibrio proteoclasticus
B316]
Length = 309
Score = 123 bits (309), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 88/305 (28%), Positives = 147/305 (48%), Gaps = 52/305 (17%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-----DVPYLLEVLYEDDDLIALN 78
I + +++ +G+VV + +S E+V P + P D+P L+++YED+D++ +N
Sbjct: 41 IDDKKVSCNGKVVK-ASFHVSENDEIVMEIPPIEIPQILPQDIP--LDIIYEDNDVVVVN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP + V P + T++N + + S ++ P VHR+ + T+G ++ K
Sbjct: 98 KPKDMVVHPAAGHYKDTLVNAIMYHCKDNLSGING-VMRPGIVHRIDKDTTGSVIICKND 156
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A IA +L + I ++Y A+ +G++ ED+ + PIG R
Sbjct: 157 NAHQSIAE----------------QLKEHSINRVYHAICYGVIKEDEGDVTAPIG--RSV 198
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K + V P GK A + VL+R + T ++ ++Q+GR HQIR+H++ +GHPLLGD
Sbjct: 199 NDRKKMAVV-PGGKYASTHYRVLKRFPEDGFTYIECKLQTGRTHQIRVHMSHIGHPLLGD 257
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
+Y +G K F + G C LHA L HP + E I+
Sbjct: 258 EVYASGRHSK----------FKTN-----------GQC---LHAKTLGFIHPVSGEYIET 293
Query: 319 TAPLP 323
APLP
Sbjct: 294 DAPLP 298
>gi|395765671|ref|ZP_10446265.1| RluA family pseudouridine synthase [Bartonella sp. DB5-6]
gi|395411225|gb|EJF77759.1| RluA family pseudouridine synthase [Bartonella sp. DB5-6]
Length = 334
Score = 123 bits (309), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 91/313 (29%), Positives = 151/313 (48%), Gaps = 42/313 (13%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGS--ELVYHRLPWKEPDVPYL-LEVLYEDDDLIALNKP 80
I+ G + VDG+++ +P L EL L EP + L++L+EDD +I +NKP
Sbjct: 37 IREGYLKVDGQLIKEPKTKLKPNQIIELTMPTLRDAEPSGEAIALDILFEDDHVIVINKP 96
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
+GL V PG T++N L + + S + P VHRL + T+G+++ AK LA
Sbjct: 97 AGLVVHPGNGNWSGTLVNALIYHCGESLSGIGG-IKRPGIVHRLDKNTTGVMVVAKNDLA 155
Query: 141 KTCIAGYFAD--KTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
++ F+D +TS +D + Y AL+ G + + I +G +
Sbjct: 156 HKSLSAQFSDHGRTSALD--------------RRYHALIWGSPNRNVWTIDAALGRSPHN 201
Query: 199 GVAKGL-YVASPSGKPALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
+ + + SP + A++ +LE+ D +L++ +++GR HQIR+H+A +G
Sbjct: 202 RTKQAVVHNKSPHARHAITHFSLLEKYGTFTDTTSFASLLECRLETGRTHQIRVHMAHIG 261
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPV--NPVPGDCGYYLHAYQLFLSHP 310
HPL+GD +Y + KS TF P+ N + LHA L HP
Sbjct: 262 HPLVGDTVYGNAFKTKS-------NTF-------NPIIKNAIDQLNRQALHATSLTFEHP 307
Query: 311 TTNEVIKITAPLP 323
T E++ ++PLP
Sbjct: 308 ATGEIMSFSSPLP 320
>gi|238021276|ref|ZP_04601702.1| hypothetical protein GCWU000324_01175 [Kingella oralis ATCC 51147]
gi|237868256|gb|EEP69262.1| hypothetical protein GCWU000324_01175 [Kingella oralis ATCC 51147]
Length = 371
Score = 123 bits (309), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 99/311 (31%), Positives = 146/311 (46%), Gaps = 50/311 (16%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV----PYLLEVLYEDD 72
+ GW I++G++ +G+ + P L G +L + P +E L+++YEDD
Sbjct: 55 IAGW---IKDGEVLCNGQPAS-PKTKLIGGEQLAVNIQPSQETQAYTPEAMPLDIVYEDD 110
Query: 73 DLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGIL 132
++ LNKP+GL V P T+LN L AS+ S Q VHRL + TSG++
Sbjct: 111 SVLVLNKPAGLVVHPAAGNWTGTLLNGLLAHASELS-----QVPRAGIVHRLDKDTSGLM 165
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPI 192
+ AKT A+ + V +L R + +IYRA+ GIV D I Q
Sbjct: 166 VVAKTLPAQNHL----------------VQQLQSRSVKRIYRAIADGIVPFDGKIETQ-- 207
Query: 193 GIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
I R P + V GK A++ V VLER + + ++ +++GR HQIR+HL
Sbjct: 208 -IGRDPHNRLKMAVVKFGGKEAITHVKVLER--YQAHSYIECSLETGRTHQIRVHLREAR 264
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
HPL GDP+Y P S + + A+ LHAY+L HP T
Sbjct: 265 HPLAGDPVYGNPRHPCSPEVKAEVKALARQA----------------LHAYRLSFVHPKT 308
Query: 313 NEVIKITAPLP 323
NE + AP+P
Sbjct: 309 NETLSFEAPMP 319
>gi|406947170|gb|EKD78148.1| hypothetical protein ACD_42C00024G0001 [uncultured bacterium]
Length = 315
Score = 123 bits (308), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 101/313 (32%), Positives = 148/313 (47%), Gaps = 51/313 (16%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAG------SELVYHRLPWKEPDVPYLLEVLYE 70
+Q W I+NG + V+ ++ P + AG +ELV W P L V++E
Sbjct: 35 IQQW---IKNGSVRVNDHLIQKPRCTVQAGQVVQVNAELV-ENTEWNAQ--PISLSVIFE 88
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
DD L+ +NKP GL V PG TV+N L S SS + +HRL + TSG
Sbjct: 89 DDYLMVINKPIGLVVHPGAGNPDNTVVNALLHHCSDLSSIPRAGI-----IHRLDKDTSG 143
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AKT + + ++ R I + YRA+VHG + I
Sbjct: 144 LLIVAKTLPVHNAL----------------IKQMQARDIHREYRAIVHGHIISGGTI-DL 186
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
P+G R+P + + GKPA++ VLE + TL+ V++++GR HQIR+H A
Sbjct: 187 PMG--RHP-MHRTKMAVRELGKPAVTHYRVLEHFPKH--TLLSVQLETGRTHQIRVHFAH 241
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
HPL+GDP Y GQ +S + A T + ++ LHAY+L L HP
Sbjct: 242 YHHPLVGDPTYGKRGQYQSPELSLATQTALNNFKHQA------------LHAYKLKLIHP 289
Query: 311 TTNEVIKITAPLP 323
T + + APLP
Sbjct: 290 ITKKQCEWKAPLP 302
>gi|330446994|ref|ZP_08310645.1| 23S rRNA pseudouridine synthase [Photobacterium leiognathi subsp.
mandapamensis svers.1.1.]
gi|328491185|dbj|GAA05142.1| 23S rRNA pseudouridine synthase [Photobacterium leiognathi subsp.
mandapamensis svers.1.1.]
Length = 324
Score = 123 bits (308), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 101/316 (31%), Positives = 152/316 (48%), Gaps = 56/316 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYED 71
++ W I NG ++V+G+VV P + G EL + + W D+P L+++YED
Sbjct: 36 IKDW---ILNGMVSVNGKVVKKPREKMMGGEELFIQAEIEDEVRWVAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD++ +NKP V PG TVLN L SL+ + VHRL + T+G+
Sbjct: 91 DDILVINKPRDFVVHPGAGTPDGTVLNAL----LHHCPSLAEVPRAGI-VHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +RKIT+ Y AL G + + ++P
Sbjct: 146 MVVAKTIQAQTRL----------------VRALQKRKITREYEALAIGQMTGGGTV-EKP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + GK A++ V ER R T + + +++GR HQIR+H+++L
Sbjct: 189 IG--RH-STKRTCMAVHEMGKDAITHYRVAER--FREHTRIVLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPL+GD Y GG+ P++ EF A D LHA L L
Sbjct: 244 SHPLIGDVTY--GGRPRPPRNASPEFIQALRAFD--------------RQALHARMLRLD 287
Query: 309 HPTTNEVIKITAPLPS 324
HP T E ++ APLP+
Sbjct: 288 HPITGEKMEWHAPLPN 303
>gi|304385442|ref|ZP_07367787.1| RluA family pseudouridine synthase [Pediococcus acidilactici DSM
20284]
gi|304328649|gb|EFL95870.1| RluA family pseudouridine synthase [Pediococcus acidilactici DSM
20284]
Length = 292
Score = 123 bits (308), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 103/328 (31%), Positives = 159/328 (48%), Gaps = 73/328 (22%)
Query: 18 QGWLQRIQNGQ-----ITVDGRVVNDPNIILSAGSELVYHRLPWKE-------PDVPYL- 64
Q LQR+ Q I DGR+V++ ++ +++ W E P VP
Sbjct: 16 QKVLQRLGASQRLMQKIRQDGRLVDENERTVALKDKVMPFEPFWVELPDEDSDPAVPVSD 75
Query: 65 --LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQ--WRASKQSSSLSSQASHPVP 120
L+V+YEDD+ + +NKP+GL +PG + T++N+++ W+A+ + + P
Sbjct: 76 QPLDVIYEDDNWLVVNKPAGLTAVPGPSNRTDTLVNRIKGHWQANGAVNLV------PHL 129
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+ RL R TSGI L A+ ++A + ++ ++ RKI K Y ALV G+
Sbjct: 130 ITRLDRFTSGITLVARHQVANSLLS----------------EQVRHRKIKKTYLALVDGV 173
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLY-VASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
V +K QP+G+ A G++ G+ A + V++R N TLVQV +++G
Sbjct: 174 VSAEKGTFNQPLGLA-----ADGIHREVQEGGQSATTSFKVVQRFA--NQTLVQVHLKTG 226
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H A GHPL+GD LY G P D G ER
Sbjct: 227 RTHQIRVHFANAGHPLVGDQLY---GGP-------------MDRGIERQA---------- 260
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLK 327
LHA + P TN+ ++ TAPLP+ L+
Sbjct: 261 LHAQSIRFFDPFTNQKLEFTAPLPADLQ 288
>gi|403234869|ref|ZP_10913455.1| hypothetical protein B1040_03715 [Bacillus sp. 10403023]
Length = 302
Score = 123 bits (308), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 96/317 (30%), Positives = 156/317 (49%), Gaps = 61/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD----VPYL--LEVLYE 70
+Q W I++G ITV+G + PN ++ G ++ ++ EP VP L++ YE
Sbjct: 33 VQFW---IKDGNITVNGSRIK-PNYKVNIGDKI---QIEIPEPQTLDVVPEEIDLDIYYE 85
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D++ +NKP G+ V P T++N L A + S + P VHR+ + TSG
Sbjct: 86 DADVLVVNKPKGMVVHPAPGHITGTLVNGLM--AHCKDLSGINGVLRPGIVHRIDKDTSG 143
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK +A +S V +L ++ +T+ Y+A+VHG++ D+ I
Sbjct: 144 LLMVAKNDVAH----------------ESLVNQLVEKTVTRKYKAIVHGVIPHDQGTIDA 187
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R + + V + K A++ +VLER + T ++ ++++GR HQIR+H+ +
Sbjct: 188 PIG--RDKKDRQSMTVTDENSKVAVTHFNVLER--FKEFTFIECQLETGRTHQIRVHMKY 243
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDP Y G K+ D G LHA L HP
Sbjct: 244 IGYPLAGDPKY---GPKKTLDL-----------------------GGQALHAGLLGFVHP 277
Query: 311 TTNEVIKITAPLPSVLK 327
TNE ++ APLP+ +
Sbjct: 278 RTNEYLEFEAPLPAYFE 294
>gi|222149596|ref|YP_002550553.1| ribosomal large subunit pseudouridine synthase RluD subfamily
[Agrobacterium vitis S4]
gi|221736578|gb|ACM37541.1| ribosomal large subunit pseudouridine synthase RluD subfamily
[Agrobacterium vitis S4]
Length = 342
Score = 123 bits (308), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 102/331 (30%), Positives = 151/331 (45%), Gaps = 43/331 (12%)
Query: 14 SAPLQGWLQR------IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-----DVP 62
+A L G L R I+ G + V+G V +P + G +LV ++P D+P
Sbjct: 30 AASLGGDLSRNRVKALIEQGAVFVNGTAVTEPKRKIKPGDQLVIAMPEPEDPEPKGEDIP 89
Query: 63 YLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVH 122
L VLYED DLI L+KP+GL V PG T++N L S + P VH
Sbjct: 90 --LTVLYEDKDLIVLSKPAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGG-VKRPGIVH 146
Query: 123 RLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVD 182
RL + TSG+++ AK +A +A FAD + + Y+ALV G
Sbjct: 147 RLDKETSGVMVVAKNDIAHRHLADQFADHGR------------SGPLERAYQALVWGRPR 194
Query: 183 EDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLER-----DVQRNCTLVQVEIQ 237
+ I +G + + A++ V+ER D +LV+ ++
Sbjct: 195 GLRGTIDAALGRAGDRTKRTVKREDTDDAREAITHYQVMERYGEKPDATCLASLVECRLE 254
Query: 238 SGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCG 297
+GR HQIR+H+A +GHPL+GDP Y A + K+ + D A + R
Sbjct: 255 TGRTHQIRVHMAHIGHPLIGDPEYGAAFKTKA--NLLPDAAKAIVTNFHRQA-------- 304
Query: 298 YYLHAYQLFLSHPTTNEVIKITAPLPSVLKT 328
LHAY L HPTT +V+ AP+P ++T
Sbjct: 305 --LHAYLLAFEHPTTGDVMHFAAPIPDDMET 333
>gi|419801879|ref|ZP_14327082.1| pseudouridine synthase, RluA family [Haemophilus parainfluenzae
HK262]
gi|385192246|gb|EIF39652.1| pseudouridine synthase, RluA family [Haemophilus parainfluenzae
HK262]
Length = 324
Score = 123 bits (308), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 99/329 (30%), Positives = 163/329 (49%), Gaps = 54/329 (16%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ Q+ ++G + + P + G ++ V +
Sbjct: 22 TLAELFPEYSRSR--LKAW---IEAKQVKMNGEIADIPRAKVYGGEQIEISVEVEDENRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + + +
Sbjct: 77 EPQNIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIAEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--FRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQD-GGYERPVNPVPGD 295
++GR HQIR+H+A + HPLLGD Y GG+P+ + A F + ++R
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRP--PKNASKAFTEVLRNFKRQA------ 277
Query: 296 CGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 ----LHAVMLRLAHPITGEMMEWYAPLPD 302
>gi|15603584|ref|NP_246658.1| 23S rRNA pseudouridine synthase D [Pasteurella multocida subsp.
multocida str. Pm70]
gi|20139708|sp|Q9CKA6.1|RLUD_PASMU RecName: Full=Ribosomal large subunit pseudouridine synthase D;
AltName: Full=23S rRNA pseudouridine(1911/1915/1917)
synthase; AltName: Full=rRNA pseudouridylate synthase D;
AltName: Full=rRNA-uridine isomerase D
gi|12722131|gb|AAK03803.1| SfB [Pasteurella multocida subsp. multocida str. Pm70]
Length = 324
Score = 123 bits (308), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 100/317 (31%), Positives = 157/317 (49%), Gaps = 58/317 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYED 71
L+ W I+ + V+G VVN P + G ++ + ++ ++P L ++YED
Sbjct: 35 LKTW---IEQNLVHVNGDVVNVPRAKVYGGEQIEIVVEIDDDTRFEPENLP--LNIVYED 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRG 127
DD++ +NKP V PG TVLN L + A VP VHRL +
Sbjct: 90 DDILVINKPKDFVVHPGAGNASGTVLNALLYHYP---------AIAEVPRAGIVHRLDKD 140
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
T+G+++ AKT A+T + V +L +RKIT+ Y A+ GI+ + +
Sbjct: 141 TTGLMVIAKTIPAQTKL----------------VRDLQKRKITREYEAIACGIMTKGG-M 183
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
+ QP+ R+P + V P GKPA++ ++ER RN T +++ +++GR HQIR+H
Sbjct: 184 VDQPMA--RHPTKRTHMAV-HPMGKPAVTHYRIMER--FRNYTRLRLRLETGRTHQIRVH 238
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
+A + HPLLGD Y +P SE T ++R LHA L L
Sbjct: 239 MAHIAHPLLGDQTYGGRPRPPKNASEELMQTLRD---FKRQA----------LHAIMLRL 285
Query: 308 SHPTTNEVIKITAPLPS 324
+HP T E+++ APLP+
Sbjct: 286 AHPITGELMEWHAPLPT 302
>gi|392960490|ref|ZP_10325958.1| pseudouridine synthase, RluA family [Pelosinus fermentans DSM
17108]
gi|421054753|ref|ZP_15517718.1| pseudouridine synthase, RluA family [Pelosinus fermentans B4]
gi|421061524|ref|ZP_15523839.1| pseudouridine synthase, RluA family [Pelosinus fermentans B3]
gi|421066823|ref|ZP_15528377.1| pseudouridine synthase, RluA family [Pelosinus fermentans A12]
gi|421071616|ref|ZP_15532732.1| pseudouridine synthase, RluA family [Pelosinus fermentans A11]
gi|392440434|gb|EIW18114.1| pseudouridine synthase, RluA family [Pelosinus fermentans B4]
gi|392446881|gb|EIW24152.1| pseudouridine synthase, RluA family [Pelosinus fermentans A11]
gi|392449275|gb|EIW26404.1| pseudouridine synthase, RluA family [Pelosinus fermentans B3]
gi|392453103|gb|EIW30007.1| pseudouridine synthase, RluA family [Pelosinus fermentans A12]
gi|392455067|gb|EIW31874.1| pseudouridine synthase, RluA family [Pelosinus fermentans DSM
17108]
Length = 308
Score = 123 bits (308), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 83/259 (32%), Positives = 126/259 (48%), Gaps = 47/259 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L +LYED+D+I +NK G+ V P T++N L S + + P VHRL
Sbjct: 81 LAILYEDNDIIIINKSRGMVVHPAPGNYNGTLVNALLEHCEDLSGI--NGVARPGIVHRL 138
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG++ AK+ A +A ++ +R ++ Y A+V+G + ED
Sbjct: 139 DKDTSGVMAVAKSDRAHVSLAK----------------QIKERTASRRYLAIVYGNIKED 182
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+IK PIG R+P K + V + K A +K V+ER + TLV+ ++ +GR HQI
Sbjct: 183 HGVIKAPIG--RHPSERKKMAVTFTNSKEATTKFRVMER--FGDYTLVECKLLTGRTHQI 238
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++GH ++GDP Y G P S G LH+ +
Sbjct: 239 RVHMTYIGHSVVGDPKYGPGRMPFSI-------------------------IGQALHSAE 273
Query: 305 LFLSHPTTNEVIKITAPLP 323
L +SHP T E + TAPLP
Sbjct: 274 LRISHPVTEESMTFTAPLP 292
>gi|339448356|ref|ZP_08651912.1| pseudouridylate synthase, 23S RNA-specific [Lactobacillus
fructivorans KCTC 3543]
Length = 305
Score = 123 bits (308), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 93/276 (33%), Positives = 140/276 (50%), Gaps = 52/276 (18%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P L+++YEDD +I +NKP G+ V P T++N L + + SS++ P
Sbjct: 75 DIP--LDIVYEDDQVIVVNKPQGMVVHPAPGHPDHTLVNALLYHT--KLSSINGTVR-PG 129
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + TSG+L+ AKT +A ++ +KT+ +RK Y ALVHG
Sbjct: 130 IVHRIDKDTSGLLMVAKTDVAHKSLSKQLKEKTN------------RRK----YLALVHG 173
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
+ E I PIG R K V + G+PA++ VLER TLV+ ++++G
Sbjct: 174 NIKESYGTIDAPIG--RSTKDRKKQAVIT-GGRPAITHFHVLER-FGGKYTLVECQLETG 229
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H+ ++ HPL+GDPLY P + G+ G +
Sbjct: 230 RTHQIRVHMKYIDHPLVGDPLY-------------------------GPKKTIKGN-GQF 263
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSV-LKTREEGRE 334
LHA +L HPTT E + P PS+ LKT ++ R+
Sbjct: 264 LHAAELGFKHPTTGEELDFKVPAPSIFLKTIDQLRK 299
>gi|423068401|ref|ZP_17057189.1| hypothetical protein HMPREF9682_00410 [Streptococcus intermedius
F0395]
gi|355366656|gb|EHG14373.1| hypothetical protein HMPREF9682_00410 [Streptococcus intermedius
F0395]
Length = 298
Score = 123 bits (308), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 98/322 (30%), Positives = 159/322 (49%), Gaps = 59/322 (18%)
Query: 13 NSAPLQGWL--QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLL 65
N PL L ++I++GQI V+G+V + AG + Y L + ++P L
Sbjct: 18 NLTPLSRSLANEQIKSGQILVNGQV-KKAKYAVKAGDVITYELPEPETLEYVSENLP--L 74
Query: 66 EVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLG 125
+++Y+D+D+ +NK G+ V P T++N L + K S ++ P VHR+
Sbjct: 75 DIVYQDEDVAVVNKAQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRID 132
Query: 126 RGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDK 185
+ TSG+L+ AK A +A EL +K + Y A+VHG + D+
Sbjct: 133 KDTSGLLMIAKNDDAHIKLAD----------------ELKTKKSLRKYWAIVHGNLPNDR 176
Query: 186 VIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIR 245
+I+ PIG R K V + GKPA+++ VLER N TLV++++++GR HQIR
Sbjct: 177 GVIEAPIG--RSEKDRKKQAVTA-KGKPAITRFHVLER--FGNYTLVELQLETGRTHQIR 231
Query: 246 IHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQL 305
+H+A++GHP+ GD +Y G K+ G +LHA L
Sbjct: 232 VHMAYIGHPVAGDGVY---GPRKTLKGH-----------------------GQFLHARTL 265
Query: 306 FLSHPTTNEVIKITAPLPSVLK 327
+HP T ++++ TA +P V +
Sbjct: 266 GFTHPKTGKIMEFTAEVPIVFQ 287
>gi|336236130|ref|YP_004588746.1| RluA family pseudouridine synthase [Geobacillus thermoglucosidasius
C56-YS93]
gi|423720663|ref|ZP_17694845.1| pseudouridine synthase, rluA family [Geobacillus thermoglucosidans
TNO-09.020]
gi|335362985|gb|AEH48665.1| pseudouridine synthase, RluA family [Geobacillus
thermoglucosidasius C56-YS93]
gi|383366016|gb|EID43307.1| pseudouridine synthase, rluA family [Geobacillus thermoglucosidans
TNO-09.020]
Length = 304
Score = 123 bits (308), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 100/317 (31%), Positives = 154/317 (48%), Gaps = 61/317 (19%)
Query: 13 NSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLE 66
+ + +Q W I+ +TV+ + V N SAG ++V RLP EP ++P L+
Sbjct: 29 SRSKVQQW---IKKQLVTVNDQHVK-ANYKCSAG-DIVVVRLPEPEPLYVEPENIP--LD 81
Query: 67 VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGR 126
+ YED D++ +NKP G+ V P + T++N L A S + P VHR+ +
Sbjct: 82 IYYEDADVLVVNKPRGMVVHPAPGHMRGTLVNALL--AHCHDLSGINGVLRPGIVHRIDK 139
Query: 127 GTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKV 186
TSG+L+ AK +A + V +L ++ +T+ Y+A+VHG++ D
Sbjct: 140 DTSGLLMVAKNDMAHQAL----------------VDQLVKKTVTRKYKAIVHGVIPHDYG 183
Query: 187 IIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRI 246
I PIG R K + V +GK A++ VLER R T ++ ++++GR HQIR+
Sbjct: 184 TIDAPIG--RDKRDRKKMAVTEENGKEAVTHFRVLER--FRQYTFIECQLETGRTHQIRV 239
Query: 247 HLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLF 306
H+ ++G+PL GDP Y P +P D G LHA L
Sbjct: 240 HMKYIGYPLAGDPQY-------------------------GPKKTLPID-GQALHAGVLG 273
Query: 307 LSHPTTNEVIKITAPLP 323
SHP T E ++ APLP
Sbjct: 274 FSHPRTGEYLEFEAPLP 290
>gi|417854570|ref|ZP_12499859.1| 23S rRNA pseudouridine synthase D [Pasteurella multocida subsp.
multocida str. Anand1_goat]
gi|338217690|gb|EGP03532.1| 23S rRNA pseudouridine synthase D [Pasteurella multocida subsp.
multocida str. Anand1_goat]
Length = 324
Score = 123 bits (308), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 100/317 (31%), Positives = 157/317 (49%), Gaps = 58/317 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYED 71
L+ W I+ + V+G VVN P + G ++ + ++ ++P L ++YED
Sbjct: 35 LKTW---IEQDLVHVNGDVVNVPRAKVYGGEQIEIVVEIEDDTRFEPENLP--LNIVYED 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRG 127
DD++ +NKP V PG TVLN L + A VP VHRL +
Sbjct: 90 DDILVINKPKDFVVHPGAGNASGTVLNALLYHYP---------AIAEVPRAGIVHRLDKD 140
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
T+G+++ AKT A+T + V +L +RKIT+ Y A+ GI+ + +
Sbjct: 141 TTGLMVIAKTIPAQTKL----------------VRDLQKRKITREYEAIACGIMTKGG-M 183
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
+ QP+ R+P + V P GKPA++ ++ER RN T +++ +++GR HQIR+H
Sbjct: 184 VDQPMA--RHPTKRTHMAV-HPMGKPAVTHYRIMER--FRNYTRLRLRLETGRTHQIRVH 238
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
+A + HPLLGD Y +P SE T ++R LHA L L
Sbjct: 239 MAHIAHPLLGDQTYGGRPRPPKNASEELMQTLRD---FKRQA----------LHAIMLRL 285
Query: 308 SHPTTNEVIKITAPLPS 324
+HP T E+++ APLP+
Sbjct: 286 AHPITGELMEWHAPLPT 302
>gi|417090374|ref|ZP_11955908.1| pseudouridine synthase, RluA family [Streptococcus suis R61]
gi|353533670|gb|EHC03319.1| pseudouridine synthase, RluA family [Streptococcus suis R61]
Length = 297
Score = 123 bits (308), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 94/311 (30%), Positives = 152/311 (48%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G+ + AG L Y + + D+P LE++++D+D+
Sbjct: 29 EQIKAGQVLVNGQP-KKAKYSVKAGDILTYQVPEVEEIDYVAEDIP--LEIVFQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALLYHV-KDLSGING-ILRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A T +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHTKLAAELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GK A+++ VLER + TLV++ +++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKEAVTRFQVLER--FGDYTLVELTLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD Y G K+ G +LHA L +HP T EV+
Sbjct: 243 GDEAY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEVV 276
Query: 317 KITAPLPSVLK 327
+ TA P++ +
Sbjct: 277 EFTAEAPAIFQ 287
>gi|261212185|ref|ZP_05926471.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. RC341]
gi|262401594|ref|ZP_06078160.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. RC586]
gi|260838793|gb|EEX65444.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. RC341]
gi|262352011|gb|EEZ01141.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. RC586]
Length = 324
Score = 123 bits (308), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 104/331 (31%), Positives = 156/331 (47%), Gaps = 61/331 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL G+I V+G V+ P + + G +V W+ D+P L ++YED
Sbjct: 36 LKEWLL---EGKIAVNGEVITKPRMKVMGGEVIVVQAELEDEQRWEAQDLP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP V PG TVLN L + ++ VHRL + T+G+
Sbjct: 91 DDIIVINKPRDFVVHPGAGQADSTVLNALLFHYPP-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R +T+ Y A+V G + +I K P
Sbjct: 146 MVVAKTVPAQTHL----------------VRALQKRDVTREYEAIVIGTMTAGGMIDK-P 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GK A++ V E R T +++ +++GR HQIR+H+A+L
Sbjct: 189 IG--RH-STKRTLMSVSPMGKHAVTHYRVAEH--FREHTRLRLRLETGRTHQIRVHMAYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ PK E + G++R LHA L
Sbjct: 244 QHPLLGDTAY--GGRARIPKGASEELTEMI----RGFDRQA----------LHAVMLKFE 287
Query: 309 HPTTNEVIKITAPLPS-----VLKTREEGRE 334
HP T E ++ AP+P L RE+ ++
Sbjct: 288 HPITGEELEFHAPVPDDMVEMTLALREDAKQ 318
>gi|225868421|ref|YP_002744369.1| RNA pseudouridylate synthase [Streptococcus equi subsp.
zooepidemicus]
gi|225701697|emb|CAW99033.1| putative RNA pseudouridylate synthase [Streptococcus equi subsp.
zooepidemicus]
Length = 296
Score = 123 bits (308), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 99/299 (33%), Positives = 152/299 (50%), Gaps = 57/299 (19%)
Query: 42 ILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTV 96
I+ G + YH L ++ D+P L+++Y+DD L +NKP G+ V P T+
Sbjct: 48 IVQVGDCISYHIPEESSLDYQAQDIP--LDIVYQDDVLAIINKPQGMVVHPSAGHSTGTL 105
Query: 97 LNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVID 156
+N L + K SS++ P VHR+ + TSG+L+ AKT DK +
Sbjct: 106 VNALLYHV-KDLSSING-VIRPGIVHRIDKDTSGLLMVAKT------------DKAHQLL 151
Query: 157 ADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALS 216
AD EL +K + Y A+VHG + +D+ +I+ PIG R K V + GK AL+
Sbjct: 152 AD----ELKAKKSLRKYVAIVHGNLPKDRGVIEAPIG--RSDKDRKKQTVTA-KGKEALT 204
Query: 217 KVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFAD 276
+ VLER + +LV++++++GR HQIR+H+A++GHPL GDPLY
Sbjct: 205 RFKVLERFGR--YSLVELQLETGRTHQIRVHMAYIGHPLAGDPLY--------------- 247
Query: 277 GTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVL-KTREEGRE 334
P + G+ G +LHA L L+HP T E + T P + +T E+ R+
Sbjct: 248 ----------GPRKTLAGN-GQFLHAQTLGLTHPVTGEELVFTVEPPEIFQRTLEQLRQ 295
>gi|428226934|ref|YP_007111031.1| ribosomal large subunit pseudouridine synthase D [Geitlerinema sp.
PCC 7407]
gi|427986835|gb|AFY67979.1| ribosomal large subunit pseudouridine synthase D [Geitlerinema sp.
PCC 7407]
Length = 323
Score = 123 bits (308), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 102/315 (32%), Positives = 151/315 (47%), Gaps = 61/315 (19%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGS--ELVYHRLPWKEP------DVPYLLEVLYEDDDLI 75
I GQ++V+G V + +L AG E+V +P EP +P L++LYEDD L+
Sbjct: 50 IAQGQVSVNGAVCSSKKAVLQAGDRIEIV---IPAPEPLDLQPEAIP--LDILYEDDSLL 104
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
LNKP+G+ V P + T+++ L A S + P VHRL + T+G L+ A
Sbjct: 105 ILNKPAGMVVHPAPGHSEGTLVHALL--AHCDSLAGIGGVQRPGIVHRLDKETTGALVIA 162
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
KT LA + KT+ + Y A+V+G E+ + QPIG
Sbjct: 163 KTDLAYQHLQAQIQAKTA----------------RREYLAVVYGAPREESGTVDQPIG-- 204
Query: 196 RYPGVAKGLYV--ASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P K + + G+ A++ + ER N TL+ E+++GR HQIR+H FLGH
Sbjct: 205 RHPVDRKKMAILPIEQGGRRAVTHWRIRER--LGNYTLIDFELETGRTHQIRVHSTFLGH 262
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
P++GDPLY +G + G P G LHA++L + HP T
Sbjct: 263 PIVGDPLYGSG----------------RSVGVNLP--------GQALHAWRLRIQHPLTE 298
Query: 314 EVIKITAPLPSVLKT 328
+ I+ APLP T
Sbjct: 299 QWIEAIAPLPDTFTT 313
>gi|68248781|ref|YP_247893.1| 23S rRNA pseudouridine synthase D [Haemophilus influenzae 86-028NP]
gi|145635280|ref|ZP_01790983.1| ribosomal large subunit pseudouridine synthase D [Haemophilus
influenzae PittAA]
gi|68056980|gb|AAX87233.1| ribosomal large subunit pseudouridine synthase D [Haemophilus
influenzae 86-028NP]
gi|145267424|gb|EDK07425.1| ribosomal large subunit pseudouridine synthase D [Haemophilus
influenzae PittAA]
Length = 324
Score = 123 bits (308), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 100/333 (30%), Positives = 160/333 (48%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G + V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRITNIPREKVFGGERIEIIVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + S +
Sbjct: 77 EAENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPISEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLAHPITGEIMEWYAPLPD 302
>gi|433772820|ref|YP_007303287.1| pseudouridine synthase, RluA family [Mesorhizobium australicum
WSM2073]
gi|433664835|gb|AGB43911.1| pseudouridine synthase, RluA family [Mesorhizobium australicum
WSM2073]
Length = 351
Score = 123 bits (308), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 101/317 (31%), Positives = 151/317 (47%), Gaps = 43/317 (13%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP----YLLEVLYEDDDLIALNK 79
I+ G + +DG+ V + + AG E V +P EP P L+VLYEDD+LI +NK
Sbjct: 56 IRQGAVVIDGKPVAETKRKMRAG-ENVSVAMPEPEPAQPQGENIALDVLYEDDELIVINK 114
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
P+GL V PG T++N L S + P VHRL + TSG+++ AKT
Sbjct: 115 PAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGG-VRRPGIVHRLDKETSGVMVVAKTDR 173
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGI----V 195
A ++ FAD D + + Y ALV GI I P+G V
Sbjct: 174 AHKALSEAFADHGLTGD------------LERAYLALVWGIPQRPTGTIDAPLGRASDRV 221
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLER--DVQRN---CTLVQVEIQSGRPHQIRIHLAF 250
R V +G + A+++ V ER + QR +LV+ +++GR HQIR+H+A
Sbjct: 222 RRAVVPEG----RDDARHAVTRFAVQERFGEGQREFAAASLVECRLETGRTHQIRVHMAH 277
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHP++GDP Y + K+ + + Q + R LHA+ L HP
Sbjct: 278 IGHPVIGDPDYGLAFRTKA--NRLPEPLKRQVEAFSR----------QALHAWLLAFRHP 325
Query: 311 TTNEVIKITAPLPSVLK 327
TT+ ++ APLP ++
Sbjct: 326 TTHLTMRFEAPLPGDME 342
>gi|119897309|ref|YP_932522.1| pseudouridylate synthase [Azoarcus sp. BH72]
gi|119669722|emb|CAL93635.1| pseudouridylate synthase [Azoarcus sp. BH72]
Length = 324
Score = 123 bits (308), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 104/315 (33%), Positives = 153/315 (48%), Gaps = 61/315 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLP------WKEPD-VPYLLEVLY 69
LQ WL+ +G I +DG + + G ELV LP EP+ +P L+V+Y
Sbjct: 49 LQAWLK---DGLIRLDG-MERQAKHKVHGGEELVVAGLPPLPEQLAFEPEAIP--LDVVY 102
Query: 70 EDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTS 129
ED ++ ++KP+GL V PG T+LN L A + + VHRL + T+
Sbjct: 103 EDASILVIDKPAGLVVHPGSGNWSGTLLNALLHHAPALAGLPRAGI-----VHRLDKDTT 157
Query: 130 GILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIK 189
G+++ AKT A+T + V +L QR + + Y ALV+G + D I
Sbjct: 158 GLMVVAKTLEAQTDL----------------VRQLQQRTVARHYYALVYGDIASDGEIDA 201
Query: 190 QPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLA 249
I R+P V + P G+PAL++ V +R TLV+ +Q+GR HQIR+H+A
Sbjct: 202 D---IDRHP-VQRTRMAVVPGGRPALTRYAVRQR--LHGLTLVECRLQTGRTHQIRVHMA 255
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
LGHPL+GDP+Y P+ DG Q LHA++L L H
Sbjct: 256 HLGHPLVGDPVY----GPRRVTDSRVDGFSRQ-----------------ALHAFRLGLLH 294
Query: 310 PTTNEVIKITAPLPS 324
P + E + +APLP+
Sbjct: 295 PASGEDMVWSAPLPA 309
>gi|407692779|ref|YP_006817568.1| 23S rRNA pseudouridine synthase D [Actinobacillus suis H91-0380]
gi|407388836|gb|AFU19329.1| 23S rRNA pseudouridine synthase D [Actinobacillus suis H91-0380]
Length = 325
Score = 123 bits (308), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 96/313 (30%), Positives = 155/313 (49%), Gaps = 50/313 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYED 71
L+ W I++ + VDG++VN + G + + + ++ D+P L ++YED
Sbjct: 36 LKVW---IESDLVKVDGKIVNKAREKVFGGELIEVQAEIEEEVRFEPQDIP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD++ +NKP L V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 DDILVINKPKDLVVHPGAGNPDGTVLNALL-----HYYPPIAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AK A+T + V L +R+IT+ Y A+ G++ + + +P
Sbjct: 146 MVVAKNIPAQTHL----------------VTALQKRRITREYEAVASGVMTQGGKV-DEP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
+ R+P + V P GKPA++ ++ER RN T +++ +++GR HQIR+H+A +
Sbjct: 189 MA--RHPTKRTAMAV-HPMGKPAVTHYRIMER--FRNYTRLRLRLETGRTHQIRVHMAHI 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD LY GG+P+ G E + + G LHA L L HP
Sbjct: 244 AHPLLGDQLY--GGRPRP-----------PKGASEAFLTVLRGFQRQALHATMLRLEHPI 290
Query: 312 TNEVIKITAPLPS 324
T E+++ APLP
Sbjct: 291 TGELMEWHAPLPD 303
>gi|386835606|ref|YP_006240925.1| ribosomal large subunit pseudouridine synthase D [Pasteurella
multocida subsp. multocida str. 3480]
gi|385202311|gb|AFI47166.1| ribosomal large subunit pseudouridine synthase D [Pasteurella
multocida subsp. multocida str. 3480]
Length = 324
Score = 123 bits (308), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 100/317 (31%), Positives = 157/317 (49%), Gaps = 58/317 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYED 71
L+ W I+ + V+G VVN P + G ++ + ++ ++P L ++YED
Sbjct: 35 LKTW---IEQDLVHVNGDVVNVPRAKVYGGEQIEIVVEIEDDTRFEPENLP--LNIVYED 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRG 127
DD++ +NKP V PG TVLN L + A VP VHRL +
Sbjct: 90 DDILVINKPKDFVVHPGAGNASGTVLNALLYHYP---------AIAEVPRAGIVHRLDKD 140
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
T+G+++ AKT A+T + V +L +RKIT+ Y A+ GI+ + +
Sbjct: 141 TTGLMVIAKTIPAQTKL----------------VRDLQKRKITREYEAIACGIMTKGG-M 183
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
+ QP+ R+P + V P GKPA++ ++ER RN T +++ +++GR HQIR+H
Sbjct: 184 VDQPMA--RHPTKRTHMAV-HPMGKPAVTHYRIMER--FRNYTRLRLRLETGRTHQIRVH 238
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
+A + HPLLGD Y +P SE T ++R LHA L L
Sbjct: 239 MAHIAHPLLGDQTYGGRPRPPKNASEELMQTLRD---FKRQA----------LHAIMLRL 285
Query: 308 SHPTTNEVIKITAPLPS 324
+HP T E+++ APLP+
Sbjct: 286 AHPITGELMEWHAPLPT 302
>gi|343525010|ref|ZP_08761966.1| pseudouridine synthase, RluA family [Streptococcus constellatus
subsp. pharyngis SK1060 = CCUG 46377]
gi|343396882|gb|EGV09418.1| pseudouridine synthase, RluA family [Streptococcus constellatus
subsp. pharyngis SK1060 = CCUG 46377]
Length = 298
Score = 123 bits (308), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQI V+G+V + AG + Y L + ++P L+++Y+D+D+
Sbjct: 29 EQIKSGQILVNGQV-KKAKYAVKAGDVITYELPEPETLEYVSENLP--LDIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NK G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 86 VNKAQGMVVHPSAGHTSGTLVNALMYHIEDLSGI--NGVLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A EL +K + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHIKLAD----------------ELKTKKSLRKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAITRFHVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y P + G+ G +LHA L +HP T +++
Sbjct: 243 GDGVY-------------------------GPRKTLKGN-GQFLHARTLGFTHPKTGKIM 276
Query: 317 KITAPLPSVLK 327
+ TA +P V +
Sbjct: 277 EFTAEVPIVFQ 287
>gi|418008048|ref|ZP_12647919.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei UW4]
gi|410547807|gb|EKQ22033.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei UW4]
Length = 306
Score = 123 bits (308), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 103/350 (29%), Positives = 167/350 (47%), Gaps = 64/350 (18%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--- 59
+I + T H S +Q WLQ +G +TV+G+ N +++G +++ +P +P
Sbjct: 17 VITAHETTHTRSQ-VQKWLQ---DGLVTVNGQPTK-ANYKVASG-DVIAISIPEAKPLEA 70
Query: 60 -DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
P L+++YEDD +I ++KP G+ V P T++N L + + P
Sbjct: 71 IPEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLPGIN---GVIRP 127
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHR+ + TSG+L+ AKT+ A+ ++ KTSV + Y ALVH
Sbjct: 128 GIVHRIDKDTSGLLMVAKTEKAQLSLSAQLKAKTSV----------------REYLALVH 171
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G ED+ I P+G R P K V + G+ A++ VLER + T ++ +++
Sbjct: 172 GTFKEDEGTIDAPLG--RDPRDRKRQAVVA-DGRHAVTHFQVLER--FEHYTFIKCILET 226
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+A++ HP+ GDPLY P +PG G
Sbjct: 227 GRTHQIRVHMAYIHHPVAGDPLY-------------------------GPKRTLPGK-GQ 260
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKTREEGREVDKSVGSERIRGIQ 348
+LHA +L HPTT +++ AP+P + E D G ++ R ++
Sbjct: 261 FLHAAELGFVHPTTGQLLVFEAPVPPIF----EKTLADLRAGIDKTRNVR 306
>gi|449878731|ref|ZP_21783702.1| putative pseudouridylate synthase [Streptococcus mutans S1B]
gi|449973748|ref|ZP_21814903.1| putative pseudouridylate synthase [Streptococcus mutans 11VS1]
gi|449179237|gb|EMB81459.1| putative pseudouridylate synthase [Streptococcus mutans 11VS1]
gi|449249113|gb|EMC47269.1| putative pseudouridylate synthase [Streptococcus mutans S1B]
Length = 296
Score = 123 bits (308), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 95/311 (30%), Positives = 152/311 (48%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ G + V+G+ + G + Y R L D+P ++++YED+D+
Sbjct: 29 EQIKAGLVLVNGKT-QKAKYAVKVGDIIHYERPQEAILDCMAQDLP--IDIVYEDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 86 INKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A EL ++K + Y ALVHG + D+ +I+ PIG R
Sbjct: 144 NDQAHQALA----------------KELKEKKSLRQYIALVHGNLSNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQTVTA-KGKPAVTHFKVLERFGQ--YSLVELTLETGRTHQIRVHMAYIGHPIA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDPLY P + G G +LHA L +HP T E++
Sbjct: 243 GDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGELM 276
Query: 317 KITAPLPSVLK 327
+ T +P + +
Sbjct: 277 QFTTEVPVIFQ 287
>gi|357008383|ref|ZP_09073382.1| YlyB [Paenibacillus elgii B69]
Length = 317
Score = 123 bits (308), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 103/321 (32%), Positives = 149/321 (46%), Gaps = 63/321 (19%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV------PYLLEVLYEDDDLI 75
Q I++G + V GR V PN LS G + L EP+ P L+V+YED D+I
Sbjct: 47 QWIKDGCVKVGGRAVK-PNYKLSEGDAMT---LVMPEPEELVLTPEPIALDVVYEDSDVI 102
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + S + P VHR+ + TSG+L+ A
Sbjct: 103 VVNKPRGMVVHPAPGHYSGTLVNALLYHCKDLSGI--NGVIRPGIVHRIDKDTSGLLMAA 160
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K LA + +A +L + + Y ALVHG V + + PIG
Sbjct: 161 KNDLAHSGLAA----------------QLKAHTVNRKYFALVHGNVPHENGTVDAPIG-- 202
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R P K V + K A++ VLER + TL+++++++GR HQIR+H+ F+GHPL
Sbjct: 203 RDPKDRKLYTVTERNSKHAVTHFLVLER--FGDYTLLELKLETGRTHQIRVHMKFIGHPL 260
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
+GDP Y G KS G + G LHA L HP +
Sbjct: 261 VGDPAY---GPSKS------KGVLME---------------GQALHAAVLGFEHPRSGAE 296
Query: 316 IKITAPLP-------SVLKTR 329
++ AP+P VL+TR
Sbjct: 297 LQFEAPIPDDMQRLLEVLRTR 317
>gi|347521451|ref|YP_004779022.1| pseudouridine synthase [Lactococcus garvieae ATCC 49156]
gi|385832835|ref|YP_005870610.1| pseudouridine synthase [Lactococcus garvieae Lg2]
gi|343180019|dbj|BAK58358.1| pseudouridine synthase [Lactococcus garvieae ATCC 49156]
gi|343181988|dbj|BAK60326.1| pseudouridine synthase [Lactococcus garvieae Lg2]
Length = 301
Score = 123 bits (308), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 98/309 (31%), Positives = 147/309 (47%), Gaps = 58/309 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLIAL 77
I+ G++TVDG+V E + + LP E D+P L+++YED D+ +
Sbjct: 34 IREGKVTVDGQVKK--AKYKVKVGEAIAYELPEVEVLDIQAEDIP--LDIVYEDSDVAVI 89
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N + + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 90 NKPQGMVVHPSAGHASGTLVNAIMYHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIAKN 147
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A KT+ +R+ Y ALVHG + +K I+ PIG R
Sbjct: 148 DAAHESLAAQLKAKTN------------KRR----YIALVHGELSNEKGTIEAPIG--RN 189
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P K V S GKPA + V+ER TLV +E+++GR HQIR+H+A++G P+ G
Sbjct: 190 PKERKKQAVIS-GGKPAKTHFTVMER--FPGYTLVALELETGRTHQIRVHMAYIGFPIAG 246
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DPLY G + + P + G +LHA L HP T E ++
Sbjct: 247 DPLY----------------------GPSKTLTP---NKGQFLHAETLGFEHPATGEQLE 281
Query: 318 ITAPLPSVL 326
+P +
Sbjct: 282 FQVDIPEIF 290
>gi|424040110|ref|ZP_17778341.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HENC-02]
gi|408892223|gb|EKM29789.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HENC-02]
Length = 325
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 97/313 (30%), Positives = 151/313 (48%), Gaps = 50/313 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL +G++ V+G VV P + G E+ W+ D+P L+++YED
Sbjct: 36 LKEWLL---DGKVQVNGEVVTKPRTKVMGGEEITLQAELEDEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
+D+I +NKP G V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 EDIIVINKPRGFVVHPGAGTPDGTVLNALLHHYPD-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R IT+ Y A+ G + + QP
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRNITREYEAIAIGRMTAGGKV-DQP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L +P GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 189 IG--RH-STKRTLMAVAPLGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD Y GG+ + + ++ A G++R LHA L HP
Sbjct: 244 QHPLLGDTAY--GGRAR-IPTGASEELTAMIRGFDRQA----------LHAVMLRFEHPI 290
Query: 312 TNEVIKITAPLPS 324
T E ++ AP+P
Sbjct: 291 TGEELEFHAPVPD 303
>gi|423395807|ref|ZP_17373008.1| RluA family pseudouridine synthase [Bacillus cereus BAG2X1-1]
gi|423406683|ref|ZP_17383832.1| RluA family pseudouridine synthase [Bacillus cereus BAG2X1-3]
gi|401653549|gb|EJS71093.1| RluA family pseudouridine synthase [Bacillus cereus BAG2X1-1]
gi|401659973|gb|EJS77456.1| RluA family pseudouridine synthase [Bacillus cereus BAG2X1-3]
Length = 302
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 96/317 (30%), Positives = 150/317 (47%), Gaps = 62/317 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL------LEVLYE 70
+Q W I++ +TV+G+ V N + E+ + EP+ + LE+ YE
Sbjct: 34 VQQW---IKDAVVTVNGKAVKG-NYKVKGNDEIT---VTIPEPEALDIQPEDMNLEIYYE 86
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D++ +NKP G+ V P T++N L + S + P VHR+ + TSG
Sbjct: 87 DADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSG 144
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK +A +S V +L + +T+ Y+A+VHG++ DK I
Sbjct: 145 LLMVAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDA 188
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ +
Sbjct: 189 PIG--RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKY 243
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+PL GDP Y G K+ D G LHA L HP
Sbjct: 244 IGYPLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHP 277
Query: 311 TTNEVIKITAPLPSVLK 327
T E I+ AP+P V +
Sbjct: 278 RTGEYIQFEAPIPEVFE 294
>gi|407477639|ref|YP_006791516.1| hypothetical protein Eab7_1800 [Exiguobacterium antarcticum B7]
gi|407061718|gb|AFS70908.1| Hypothetical protein Eab7_1800 [Exiguobacterium antarcticum B7]
Length = 307
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 98/316 (31%), Positives = 148/316 (46%), Gaps = 61/316 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWK------EPDVPYLLEVLYE 70
+Q WL+ G + VDGR+V PN +S G+E + R+P ++P L+V+YE
Sbjct: 33 VQDWLK---AGHVEVDGRIVK-PNYKMS-GTEEILVRIPEAVELEVLPENIP--LDVVYE 85
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+I +NKP G+ V P T++N L Q S + P VHR+ + TSG
Sbjct: 86 DGDVIVINKPKGMVVHPAAGHVSGTLVNALLHHC--QDLSGINGVKRPGIVHRIDKDTSG 143
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK LA +A DKT+ ++Y ALVHG + + I+
Sbjct: 144 LLMVAKNDLAHESLAQQLKDKTT----------------ERLYIALVHGEIPHELGTIEA 187
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
P+G R + + V + K A++ VLER T+V+ ++++GR HQIR+H+ +
Sbjct: 188 PVG--RDKNDRQRMTVTDKNSKAAVTHFRVLER--YEGFTVVECKLETGRTHQIRVHMRY 243
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G PL GDP Y G K+ G LHA L HP
Sbjct: 244 IGFPLAGDPKY---GPRKTMKMN-----------------------GQALHAAVLGFKHP 277
Query: 311 TTNEVIKITAPLPSVL 326
T +++ APLP +
Sbjct: 278 RTGKMLHFEAPLPEEM 293
>gi|228992627|ref|ZP_04152553.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
pseudomycoides DSM 12442]
gi|229006175|ref|ZP_04163861.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides
Rock1-4]
gi|228755016|gb|EEM04375.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides
Rock1-4]
gi|228766959|gb|EEM15596.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
pseudomycoides DSM 12442]
Length = 302
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 96/309 (31%), Positives = 150/309 (48%), Gaps = 53/309 (17%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDDLIALN 78
Q I++G +TV+G + N + E+ +E D+ LE+ YED D++ +N
Sbjct: 36 QWIKDGVVTVNGNDIKG-NYKVKVNDEIAVAIPDPEELDILPEDMNLEIYYEDADVLVVN 94
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 95 KPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLMVAKND 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
+A +S V +L + +T+ Y+A+VHG++ DK I PIG R
Sbjct: 153 MAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIG--RDK 194
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+PL GD
Sbjct: 195 KDRQSMTV-DENGKHAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGYPLAGD 251
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y G K+ D +N G LHA L HP T E I+
Sbjct: 252 PKY---GPKKTLD-----------------IN------GQALHAGILGFDHPRTGEYIEF 285
Query: 319 TAPLPSVLK 327
AP+P+V +
Sbjct: 286 EAPVPAVFE 294
>gi|339443316|ref|YP_004709321.1| hypothetical protein CXIVA_22520 [Clostridium sp. SY8519]
gi|338902717|dbj|BAK48219.1| hypothetical protein CXIVA_22520 [Clostridium sp. SY8519]
Length = 309
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 91/316 (28%), Positives = 157/316 (49%), Gaps = 55/316 (17%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+ +LQ+ I++G++TV+GR V + +L+ G+++ +P P D+P L +LYE
Sbjct: 31 RAFLQKLIRSGEVTVNGRPVTKVSTLLAPGAQVTV-CIPEARPAEILPEDIP--LSILYE 87
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+DL+ ++KP G+ V P T++N + + Q S ++ + P VHR+ + T+G
Sbjct: 88 DEDLLVIDKPKGMVVHPSAGHAGGTLVNAVLYHCRGQLSGINGEIR-PGIVHRIDKDTTG 146
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
L+ K A IA ++ +T+ Y +V+G + ++
Sbjct: 147 ALIVCKNDSAHRKIA----------------EQIKAHSVTRRYVGIVYGNFSDTTGTVEG 190
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R+P + + V +GKPA++ VLE+ R + +Q E+++GR HQIR+H+A
Sbjct: 191 PIG--RHPVHRQKMAVNPKNGKPAVTHYTVLEQF--RGYSYLQFELETGRTHQIRVHMAS 246
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+ HPLLGD +Y EF++ G LHA + HP
Sbjct: 247 IHHPLLGDTVYGPA------RCEFSNLQ------------------GQTLHARTIGFIHP 282
Query: 311 TTNEVIKITAPLPSVL 326
TT + ++ +AP+P L
Sbjct: 283 TTGQYMEFSAPIPEYL 298
>gi|323497826|ref|ZP_08102840.1| 23S rRNA pseudouridine synthase D [Vibrio sinaloensis DSM 21326]
gi|323317173|gb|EGA70170.1| 23S rRNA pseudouridine synthase D [Vibrio sinaloensis DSM 21326]
Length = 326
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 100/317 (31%), Positives = 149/317 (47%), Gaps = 59/317 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL G++ V+G VV P + G E++ W+ D+P L+++YED
Sbjct: 36 LKEWLL---AGKVQVNGEVVTKPRTKVMGGEEIILQAELEDEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP--VHRLGRGTS 129
DD++ +NKP G V PG TVLN L S A P VHRL + T+
Sbjct: 91 DDILVINKPRGFVVHPGAGTPDGTVLNAL-------LHHYPSIAEVPRAGIVHRLDKDTT 143
Query: 130 GILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIK 189
G+++ AKT A+T + K R + Y A+ G + + +
Sbjct: 144 GLMVVAKTVPAQTRLVRALQKK---------------RNFVREYEAIAIGRMTAGGRV-E 187
Query: 190 QPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLA 249
QPIG R+ + L SP GKPA++ V E R T +++ +++GR HQIR+H++
Sbjct: 188 QPIG--RH-STKRTLMAVSPMGKPAITHYRVAEH--FREHTRIRLRLETGRTHQIRVHMS 242
Query: 250 FLGHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLF 306
+L HPLLGD Y GG+ P +E A+ G++R LHA L
Sbjct: 243 YLQHPLLGDSAY--GGRARIPSGASNELAEKI----RGFDRQA----------LHAVMLK 286
Query: 307 LSHPTTNEVIKITAPLP 323
HP T E ++ AP+P
Sbjct: 287 FEHPITGEEVEFHAPVP 303
>gi|260771763|ref|ZP_05880681.1| ribosomal large subunit pseudouridine synthase D [Vibrio
metschnikovii CIP 69.14]
gi|260613055|gb|EEX38256.1| ribosomal large subunit pseudouridine synthase D [Vibrio
metschnikovii CIP 69.14]
Length = 324
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 103/316 (32%), Positives = 151/316 (47%), Gaps = 56/316 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-VYHRLP----WKEPDVPYLLEVLYED 71
L+ WL +G+ITV+G VV P + G + V L W+ D+P L ++YED
Sbjct: 36 LKEWLL---DGKITVNGTVVTKPRTKVMGGECITVLAELEDEQRWEAQDIP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD++ +NKP V PG RTVLN L + ++ VHRL + T+G+
Sbjct: 91 DDILVINKPRDFVVHPGAGTPDRTVLNALLFHYPP-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V +L +R IT+ Y A+ G + +I K P
Sbjct: 146 MVVAKTVPAQTRL----------------VRDLQKRNITREYEAIAIGKMTAGGMIDK-P 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L + GKPA++ V E R T +++ +++GR HQIR+H+A+L
Sbjct: 189 IG--RH-STKRTLMAVNQMGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMAYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ PK E + A D LHA L
Sbjct: 244 QHPLLGDSAY--GGRARIPKGATPELTEMIRAFD--------------RQALHAVMLKFE 287
Query: 309 HPTTNEVIKITAPLPS 324
HP T E ++ AP+P
Sbjct: 288 HPITGEELEFHAPVPD 303
>gi|262046428|ref|ZP_06019390.1| pseudouridine synthase [Lactobacillus crispatus MV-3A-US]
gi|260573299|gb|EEX29857.1| pseudouridine synthase [Lactobacillus crispatus MV-3A-US]
Length = 303
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 98/340 (28%), Positives = 164/340 (48%), Gaps = 71/340 (20%)
Query: 7 YSTKHKNSAPLQGWLQRIQNGQI-----TVDGRVVNDPNIILSAGSELVYHRLPWK---E 58
YS + KN +G L + + QI T +V D NI+++ E V +++ E
Sbjct: 5 YSLEVKNE---KGRLDKFVSEQIPDLSRTRVKELVKDQNILVNGKVEKVSYKIQAGDKIE 61
Query: 59 PDVPYL-----------LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQ 107
++P + L+++YEDDD+I +NKP G+ V P T++N L + + +
Sbjct: 62 VNIPAVKPLDVIPENIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHS--K 119
Query: 108 SSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQR 167
+ + S + P VHR+ + TSG+L+ AKT A+ + A KT+
Sbjct: 120 ALAQSPEGFRPGIVHRIDKDTSGLLMIAKTAKARESLEDQLAHKTN-------------- 165
Query: 168 KITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQR 227
++Y A+VHG E+ +I PIG R P K + V +GK A++ VLE+ +
Sbjct: 166 --KRLYWAIVHGNFAEENGVIDAPIG--RNPYDRKKMAVVE-TGKKAITHFKVLEQ--FK 218
Query: 228 NCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYER 287
+ +L++ ++++GR HQIR+HL ++GHP+ GDPLY G K+
Sbjct: 219 DYSLIECQLETGRTHQIRVHLDYIGHPVAGDPLY---GPRKTLKGH-------------- 261
Query: 288 PVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G +LHA L HP+T E ++ + P + +
Sbjct: 262 ---------GQFLHAKVLGFKHPSTGEWLEFSVEPPQIFQ 292
>gi|450164903|ref|ZP_21881580.1| putative pseudouridylate synthase [Streptococcus mutans B]
gi|449241215|gb|EMC39856.1| putative pseudouridylate synthase [Streptococcus mutans B]
Length = 296
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 94/312 (30%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+G+ + +++++ P +E ++P LE++YED+D+
Sbjct: 29 EQIKAGLVWVNGKTQKAKYAVKEG--DIIHYERPQEEVLDCVAQNIP--LEIVYEDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL ++K + Y ALVHG + D+ +I+ PIG
Sbjct: 143 KNDQAHQALA----------------KELKEKKSVRQYIALVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQTVTA-KGKPAVTHFKVLERFDQ--YSLVELTLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T E+
Sbjct: 242 AGDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGEL 275
Query: 316 IKITAPLPSVLK 327
++ T +P + +
Sbjct: 276 MQFTTEVPVIFQ 287
>gi|395766553|ref|ZP_10447093.1| RluA family pseudouridine synthase [Bartonella doshiae NCTC 12862]
gi|395415887|gb|EJF82311.1| RluA family pseudouridine synthase [Bartonella doshiae NCTC 12862]
Length = 333
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 90/316 (28%), Positives = 150/316 (47%), Gaps = 48/316 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGS--ELVYHRLPWKEPDVPYL-LEVLYEDDDLIALNKP 80
I+ G + +D R++ +P L EL L +P + L++L+EDD +I +NKP
Sbjct: 36 IREGFLKIDNRIIKEPKTKLKQNQIIELTMPVLREAKPSGEAIALDILFEDDHVIVINKP 95
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
+GL V PG T++N L + S + P VHRL + TSG+++ AK LA
Sbjct: 96 AGLVVHPGNGNWTGTLVNALIYHCGNSLSGIGG-IKRPGIVHRLDKNTSGVMVVAKNDLA 154
Query: 141 KTCIAGYFAD--KTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
++ F+D +TS +D + YRAL+ G + + I +G +
Sbjct: 155 HKSLSAQFSDHGRTSALD--------------RRYRALIWGAPSRNVLTIDAFLGRSPHN 200
Query: 199 GVAKGL-YVASPSGKPALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
+ + Y +P + A++ + +LE+ D +L++ +++GR HQIR+H+A +G
Sbjct: 201 RTKQAVVYSQNPHARHAVTHLFLLEKYGACTDATSFASLLECRLETGRTHQIRVHMAHIG 260
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDC-----GYYLHAYQLFL 307
HPL+GD +Y + KS +NP+ + LHA L
Sbjct: 261 HPLIGDAVYGNAFKTKS-----------------NMLNPIIKNVIDQFNRQALHAASLTF 303
Query: 308 SHPTTNEVIKITAPLP 323
HP T EV+ ++PLP
Sbjct: 304 EHPATGEVMSFSSPLP 319
>gi|313884116|ref|ZP_07817882.1| pseudouridine synthase, RluA family [Eremococcus coleocola
ACS-139-V-Col8]
gi|312620563|gb|EFR31986.1| pseudouridine synthase, RluA family [Eremococcus coleocola
ACS-139-V-Col8]
Length = 314
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 95/307 (30%), Positives = 154/307 (50%), Gaps = 55/307 (17%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLIAL 77
I+ G +TV+G+V N LS G EL+ ++P +E +P L+++YEDDDL+ +
Sbjct: 42 IKQGLVTVNGQV-EKANYKLS-GQELIEMQVPEEEVLEIEAQAIP--LDIIYEDDDLLVI 97
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK +G+ V P + T++N L + ++ S + P VHR+ + TSG+L+ AK
Sbjct: 98 NKEAGMVVHPSKGHPRDTLVNALVYHFGNHLAA-GSDSYRPGLVHRIDKDTSGLLVVAKN 156
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+ ++ D T + +IY LV G ++ + I+ P+ R
Sbjct: 157 NESHRYLSQQLMDHT----------------LGRIYYCLVEGQMEVKQGSIEIPLA--RD 198
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P + Y A GKPA + +VLE + +L+Q E+++GR HQIR H +GHP++G
Sbjct: 199 PK-NRLKYHADAQGKPAWTDFEVLES--YPSASLIQAELKTGRTHQIRAHFEHIGHPIIG 255
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP+Y + DS +N P D G +LHA + HP ++E+I+
Sbjct: 256 DPVY-------NRDS----------------LNLWPTDQGQFLHAGHIHFIHPRSHELIE 292
Query: 318 ITAPLPS 324
APLP+
Sbjct: 293 FHAPLPA 299
>gi|407977667|ref|ZP_11158504.1| pseudouridylate synthase [Bacillus sp. HYC-10]
gi|407415920|gb|EKF37501.1| pseudouridylate synthase [Bacillus sp. HYC-10]
Length = 304
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 97/333 (29%), Positives = 160/333 (48%), Gaps = 63/333 (18%)
Query: 3 LIEFYSTKHK--NSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD 60
L +F ST + + +Q W +++G I V+G+ V N + AG ++ ++ +P+
Sbjct: 17 LDKFLSTTEPEWSRSQVQQW---VKDGLIEVNGKHVK-ANYKVQAGDQI---KVEIPDPE 69
Query: 61 VPYL------LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQ 114
+ L++ YED D++ +NKP G+ V P T++N L + S +
Sbjct: 70 ALNVEAESMDLDIYYEDADVLVVNKPRGMVVHPAPGHVSGTLVNGLMAHCNDLSGI--NG 127
Query: 115 ASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYR 174
P VHR+ + TSG+L+ AK LA +S V +L + +T+ Y
Sbjct: 128 VMRPGIVHRIDKDTSGLLMVAKNDLAH----------------ESLVNQLVAKTVTRKYT 171
Query: 175 ALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQV 234
A+VHGI+ D I PIG R + + V + K A++ DV+ER ++ T+V+
Sbjct: 172 AVVHGIIQHDTGTIDAPIG--RDKKDRQSMTVTKENAKQAVTHFDVIER--FKDFTVVEC 227
Query: 235 EIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPG 294
+++GR HQIR+H+ ++G+PL GDP Y G K+ D
Sbjct: 228 RLETGRTHQIRVHMKYIGYPLAGDPKY---GPRKTVDFN--------------------- 263
Query: 295 DCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G LHA L HP T E ++ TAP+P+ ++
Sbjct: 264 --GQLLHAGVLGFDHPRTGEYMEFTAPIPADMR 294
>gi|387813181|ref|YP_005428662.1| pseudouridine synthase [Marinobacter hydrocarbonoclasticus ATCC
49840]
gi|381338192|emb|CCG94239.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA)
[Marinobacter hydrocarbonoclasticus ATCC 49840]
Length = 325
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 107/338 (31%), Positives = 165/338 (48%), Gaps = 70/338 (20%)
Query: 17 LQGWLQRIQNGQITVDGR-------VVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLY 69
LQ W I++G +TV+G+ V+ ++ L A E+ ++ W+ P L+++Y
Sbjct: 38 LQSW---IKSGALTVNGKSRKPRDKVMMGDSLALDAEPEV---QVTWEAE--PISLDIVY 89
Query: 70 EDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTS 129
ED+ L+ +NKP+GL V P T++N L A + + + VHRL + TS
Sbjct: 90 EDEHLLVINKPAGLVVHPAAGHADGTLVNALLNYAPEVENLPRAGI-----VHRLDKDTS 144
Query: 130 GILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIK 189
GI++ A++ +A T S V +L R + + Y A+V G + +
Sbjct: 145 GIMVVARSLIAHT----------------SLVDQLQTRTMGREYEAVVVGALT-GGATVD 187
Query: 190 QPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLA 249
PIG R+P K + V S SGKPA++ +LER TLV+ +++SGR HQIR+H+A
Sbjct: 188 APIG--RHPQDRKRMAVVS-SGKPAVTHYRLLERFAAH--TLVRCKLESGRTHQIRVHMA 242
Query: 250 FLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
+ HPL+GDP Y GG+ PK E D F + LHA Q
Sbjct: 243 HVRHPLVGDPAY--GGRLRLPKGTTEELRDVLAAFTRQA----------------LHARQ 284
Query: 305 LFLSHPTTNEVIKITAPLPS-----VLKTREEGREVDK 337
L L HP T E++ PLP + R+ RE+++
Sbjct: 285 LTLEHPETGEILSWEVPLPEDMVHLIEALRKHARELEE 322
>gi|163802429|ref|ZP_02196322.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. AND4]
gi|159173730|gb|EDP58545.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. AND4]
Length = 325
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 97/313 (30%), Positives = 152/313 (48%), Gaps = 50/313 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL +G++ V+G VV P + G E+ W+ D+P L+++YED
Sbjct: 36 LKEWLL---DGKVHVNGEVVTKPRTRVMGGEEITLQAELEDEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
+D+I +NKP V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 EDIIVINKPRDFVVHPGAGTPDCTVLNALLHHYPD-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R IT+ Y A+ G + + +QP
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRNITREYEAIAIGRMTAGGKV-EQP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L +P GKPA++ V ER R T +++ +++GR HQIR+H+++L
Sbjct: 189 IG--RH-STKRTLMAVAPLGKPAVTHYRVAER--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD Y GG+ + + ++ A G++R LHA L HP
Sbjct: 244 QHPLLGDTAY--GGRAR-IPTGASEELTAMIRGFDRQA----------LHAVMLRFEHPI 290
Query: 312 TNEVIKITAPLPS 324
T E ++ AP+P
Sbjct: 291 TGEELEFHAPIPD 303
>gi|312127570|ref|YP_003992444.1| pseudouridine synthase, rlua family [Caldicellulosiruptor
hydrothermalis 108]
gi|311777589|gb|ADQ07075.1| pseudouridine synthase, RluA family [Caldicellulosiruptor
hydrothermalis 108]
Length = 299
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 88/260 (33%), Positives = 137/260 (52%), Gaps = 47/260 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
+EV+YED+ L +NKP G+ V PG + T++N L + + SS++ P VHRL
Sbjct: 73 IEVVYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFRGRLSSING-VIRPGIVHRL 131
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AKT D+ V +++ L +I +IY A+ G++ ED
Sbjct: 132 DKDTSGLLVVAKT------------DEAHVKLSEA----LKSHQIKRIYYAICEGVLKED 175
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+I PIG R+P V + P+GK A++ +VLER T V++ +++GR HQI
Sbjct: 176 SGVINAPIG--RHP-VNRLKMAVVPNGKEAVTYFEVLERF--DKYTFVKLRLKTGRTHQI 230
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H++++G+PLLGD Y G+ K +EF G G LHA +
Sbjct: 231 RVHMSYIGYPLLGDGTY---GRAK---NEF-------------------GVEGQVLHAGE 265
Query: 305 LFLSHPTTNEVIKITAPLPS 324
+ HP T+EV+ +A LP
Sbjct: 266 IEFVHPITSEVLHFSAELPE 285
>gi|24379309|ref|NP_721264.1| pseudouridylate synthase [Streptococcus mutans UA159]
gi|387786339|ref|YP_006251435.1| putative pseudouridylate synthase [Streptococcus mutans LJ23]
gi|449863215|ref|ZP_21778146.1| putative pseudouridylate synthase [Streptococcus mutans U2B]
gi|449871384|ref|ZP_21781070.1| putative pseudouridylate synthase [Streptococcus mutans 8ID3]
gi|449920362|ref|ZP_21798447.1| putative pseudouridylate synthase [Streptococcus mutans 1SM1]
gi|449985697|ref|ZP_21819818.1| putative pseudouridylate synthase [Streptococcus mutans NFSM2]
gi|449994363|ref|ZP_21822480.1| putative pseudouridylate synthase [Streptococcus mutans A9]
gi|450081774|ref|ZP_21851941.1| putative pseudouridylate synthase [Streptococcus mutans N66]
gi|450103917|ref|ZP_21859425.1| putative pseudouridylate synthase [Streptococcus mutans SF1]
gi|450145679|ref|ZP_21874700.1| putative pseudouridylate synthase [Streptococcus mutans 1ID3]
gi|450171887|ref|ZP_21884263.1| putative pseudouridylate synthase [Streptococcus mutans SM4]
gi|24377230|gb|AAN58570.1|AE014926_13 putative pseudouridylate synthase [Streptococcus mutans UA159]
gi|379132740|dbj|BAL69492.1| putative pseudouridylate synthase [Streptococcus mutans LJ23]
gi|449149057|gb|EMB52877.1| putative pseudouridylate synthase [Streptococcus mutans 1ID3]
gi|449155389|gb|EMB58903.1| putative pseudouridylate synthase [Streptococcus mutans 8ID3]
gi|449158803|gb|EMB62210.1| putative pseudouridylate synthase [Streptococcus mutans 1SM1]
gi|449178899|gb|EMB81137.1| putative pseudouridylate synthase [Streptococcus mutans NFSM2]
gi|449185356|gb|EMB87243.1| putative pseudouridylate synthase [Streptococcus mutans A9]
gi|449214991|gb|EMC15219.1| putative pseudouridylate synthase [Streptococcus mutans N66]
gi|449216710|gb|EMC16807.1| putative pseudouridylate synthase [Streptococcus mutans SF1]
gi|449243382|gb|EMC41820.1| putative pseudouridylate synthase [Streptococcus mutans SM4]
gi|449265198|gb|EMC62525.1| putative pseudouridylate synthase [Streptococcus mutans U2B]
Length = 296
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 94/312 (30%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+G+ + +++++ P +E ++P LE++YED+D+
Sbjct: 29 EQIKAGLVLVNGKTQKAKYAVKEG--DIIHYERPQEEVLDCVAQNIP--LEIVYEDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL ++K + Y ALVHG + D+ +I+ PIG
Sbjct: 143 KNDQAHQALA----------------KELKEKKSLRQYIALVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQTVTA-KGKPAVTHFKVLERFGQ--YSLVELTLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T E+
Sbjct: 242 AGDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGEL 275
Query: 316 IKITAPLPSVLK 327
++ T +P + +
Sbjct: 276 MQFTTEVPVIFQ 287
>gi|239906997|ref|YP_002953738.1| ribosomal large subunit pseudouridine synthase D/dephospho-CoA
kinase [Desulfovibrio magneticus RS-1]
gi|239796863|dbj|BAH75852.1| ribosomal large subunit pseudouridine synthase D/dephospho-CoA
kinase [Desulfovibrio magneticus RS-1]
Length = 554
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 92/304 (30%), Positives = 141/304 (46%), Gaps = 40/304 (13%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL---LEVLYEDDDLIALNKP 80
I+ G VDG + P + L G L RLP + L++LY D D++ LNKP
Sbjct: 50 IEAGLALVDGEICRKPGLKLRGGEALTL-RLPETPSEAKAEDGELKLLYLDGDVLVLNKP 108
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
+GL + P T++N+L + + P VHRL + TSG+LL A+T+ A
Sbjct: 109 AGLTIHPASSQPDGTLVNRLLHHFPDMRAMAGDR---PGIVHRLDKDTSGLLLVAQTESA 165
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGV 200
+ +A FA +R++ K Y ALVHG + +I+ P+G R P
Sbjct: 166 RLALAADFA----------------ERRVAKTYLALVHGRPERSDGVIELPVG--RDPKH 207
Query: 201 AKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPL 260
+ V + G+ A S + +L++V I +GR HQIR+H+A +GHP++GD +
Sbjct: 208 PTKMAVVAKGGREAKSSWKLAWTAPDGTASLLEVAIATGRTHQIRVHMAAMGHPIVGDAV 267
Query: 261 YVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITA 320
Y G + D G A+ + LHA++L SHP T E +
Sbjct: 268 Y---GARQHSDWTRRGGAMARLAKRQ------------MLHAWKLAFSHPGTGEELSFCQ 312
Query: 321 PLPS 324
P P+
Sbjct: 313 PPPA 316
>gi|229061498|ref|ZP_04198842.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH603]
gi|228717732|gb|EEL69382.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH603]
Length = 302
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 96/314 (30%), Positives = 150/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LEV YED D
Sbjct: 34 VQQW---IKDAVVTVNGKSVKG-NYKVKVNDEITVTIPEPEELDIQPEDMNLEVYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P + T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PIG
Sbjct: 148 VAKNDVAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VL+R ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKNAVTHFQVLDR--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIEFEAPIPEVFE 294
>gi|164687826|ref|ZP_02211854.1| hypothetical protein CLOBAR_01470 [Clostridium bartlettii DSM
16795]
gi|164603101|gb|EDQ96566.1| pseudouridine synthase, RluA family [Clostridium bartlettii DSM
16795]
Length = 307
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 82/265 (30%), Positives = 128/265 (48%), Gaps = 49/265 (18%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P ++++YEDDDL+ +NKP + V P + T++N + + SS++ P
Sbjct: 82 DIP--IDIVYEDDDLLIVNKPQDMVVHPAPGNYENTLVNAILYHCKDNLSSING-VIRPG 138
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + TSGIL+ AK A +A D + IT+ Y + HG
Sbjct: 139 IVHRIDKDTSGILMIAKNNNAHNSLAEQLKDHS----------------ITREYEFICHG 182
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
+V EDK+ + +PIG R P + + GK A++ +V++R N T ++ +++G
Sbjct: 183 VVKEDKITVDRPIG--RNPKDRLKMAIVK-DGKRAVTHFEVIKR--YENFTHMKANLETG 237
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H A +GHPLLGDP+Y P N G
Sbjct: 238 RTHQIRVHAASIGHPLLGDPIY-------------------------GPKNSKIKCKGQT 272
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPS 324
LHA +L HPTT + ++ + LP
Sbjct: 273 LHARKLGFIHPTTKQYVEFNSDLPD 297
>gi|120553810|ref|YP_958161.1| RluA family pseudouridine synthase [Marinobacter aquaeolei VT8]
gi|120323659|gb|ABM17974.1| ribosomal large subunit pseudouridine synthase D [Marinobacter
aquaeolei VT8]
Length = 325
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 107/338 (31%), Positives = 165/338 (48%), Gaps = 70/338 (20%)
Query: 17 LQGWLQRIQNGQITVDGR-------VVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLY 69
LQ W I++G +TV+G+ V+ ++ L A E+ ++ W+ P L+++Y
Sbjct: 38 LQSW---IKSGALTVNGKSRKPRDKVMMGDSLALDAEPEV---QVTWEAE--PISLDIVY 89
Query: 70 EDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTS 129
ED+ L+ +NKP+GL V P T++N L A + + + VHRL + TS
Sbjct: 90 EDEHLLVINKPAGLVVHPAAGHTDGTLVNALLNYAPEVENLPRAGI-----VHRLDKDTS 144
Query: 130 GILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIK 189
GI++ A++ +A T S V +L R + + Y A+V G + +
Sbjct: 145 GIMVVARSLIAHT----------------SLVDQLQTRTMGREYEAVVVGALT-GGATVD 187
Query: 190 QPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLA 249
PIG R+P K + V S SGKPA++ +LER TLV+ +++SGR HQIR+H+A
Sbjct: 188 APIG--RHPQDRKRMAVVS-SGKPAVTHYRLLERFAAH--TLVRCKLESGRTHQIRVHMA 242
Query: 250 FLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
+ HPL+GDP Y GG+ PK E D F + LHA Q
Sbjct: 243 HVRHPLVGDPAY--GGRLRLPKGTTEELRDVLAAFTRQA----------------LHARQ 284
Query: 305 LFLSHPTTNEVIKITAPLPS-----VLKTREEGREVDK 337
L L HP T E++ PLP + R+ RE+++
Sbjct: 285 LTLEHPETGEILSWEVPLPEDMVHLIEALRKHARELEE 322
>gi|325273287|ref|ZP_08139564.1| RluA family pseudouridine synthase [Pseudomonas sp. TJI-51]
gi|324101572|gb|EGB99141.1| RluA family pseudouridine synthase [Pseudomonas sp. TJI-51]
Length = 320
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 107/322 (33%), Positives = 161/322 (50%), Gaps = 71/322 (22%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L W I+ G++TVDG VV P ++ GS+L + W D+ L+++YED
Sbjct: 36 LTSW---IKEGRLTVDGAVVR-PRDLVHGGSQLALQAEQEAQGEWVAEDIE--LDIVYED 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----------V 121
D ++ +NKP+GL V P T+LN L H VP V
Sbjct: 90 DHIMVINKPAGLVVHPAAGHASGTLLNALL---------------HHVPDIVNVPRAGIV 134
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + T+G+++ AKT A+T + V ++ RK+++IY +V G+V
Sbjct: 135 HRLDKDTTGLMVVAKTLQAQTKL----------------VEQMQARKVSRIYECIVIGVV 178
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
I PIG R+ G+ + + V + GKPA+S VL+R R+ T V+V++++GR
Sbjct: 179 TAGGKI-DAPIG--RHGGMRQRMAV-TDGGKPAVSHYRVLKRF--RSHTHVRVKLETGRT 232
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+A +G PL+GD Y GG+ + + A T + V P LH
Sbjct: 233 HQIRVHMAHVGFPLVGDQTY--GGRFRIPPA--ASPTMVE------AVKSFPRQA---LH 279
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
A L L+HP T EV+K +PLP
Sbjct: 280 ARFLALAHPITGEVMKWESPLP 301
>gi|229019095|ref|ZP_04175930.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH1273]
gi|229025339|ref|ZP_04181757.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH1272]
gi|423389798|ref|ZP_17367024.1| RluA family pseudouridine synthase [Bacillus cereus BAG1X1-3]
gi|423418199|ref|ZP_17395288.1| RluA family pseudouridine synthase [Bacillus cereus BAG3X2-1]
gi|228735924|gb|EEL86501.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH1272]
gi|228742195|gb|EEL92360.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH1273]
gi|401106472|gb|EJQ14433.1| RluA family pseudouridine synthase [Bacillus cereus BAG3X2-1]
gi|401641889|gb|EJS59606.1| RluA family pseudouridine synthase [Bacillus cereus BAG1X1-3]
Length = 302
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 96/314 (30%), Positives = 149/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDDVVTVNGKSVK-VNYKVKGNDEITVTIPDPEELDIQPEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PIG
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIQFEAPIPEVFE 294
>gi|191638454|ref|YP_001987620.1| pseudouridine synthase [Lactobacillus casei BL23]
gi|385820159|ref|YP_005856546.1| Hypothetical RNA pseudouridine synthase (RNA-uridine isomerase)
[Lactobacillus casei LC2W]
gi|409997315|ref|YP_006751716.1| RNA pseudouridine synthase YlyB [Lactobacillus casei W56]
gi|190712756|emb|CAQ66762.1| Pseudouridine synthase [Lactobacillus casei BL23]
gi|327382486|gb|AEA53962.1| Hypothetical RNA pseudouridine synthase (RNA-uridine isomerase)
[Lactobacillus casei LC2W]
gi|406358327|emb|CCK22597.1| Uncharacterized RNA pseudouridine synthase YlyB [Lactobacillus
casei W56]
Length = 307
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 102/350 (29%), Positives = 168/350 (48%), Gaps = 64/350 (18%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--- 59
+I + T H S +Q WLQ +G +TV+G+ N +++G +++ +P +P
Sbjct: 18 VITAHETTHTRSQ-VQKWLQ---DGLVTVNGQPTK-ANYKVASG-DVIAISIPEAKPLEA 71
Query: 60 -DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
P L+++YEDD +I ++KP G+ V P T++N L + + P
Sbjct: 72 IPEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLPGIN---GVIRP 128
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHR+ + TSG+L+ AKT+ A+ ++ KTS+ + Y ALVH
Sbjct: 129 GIVHRIDKDTSGLLMVAKTEKAQLSLSAQLKAKTSI----------------REYLALVH 172
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G ED+ I P+G R P K V + +G+ A++ VLER + T ++ +++
Sbjct: 173 GTFKEDEGTIDAPLG--RDPRDRKRQAVVA-AGRHAVTHFQVLER--FEHYTFIKCILET 227
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+A++ HP+ GDPLY P +PG G
Sbjct: 228 GRTHQIRVHMAYIHHPVAGDPLY-------------------------GPKRTLPGK-GQ 261
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKTREEGREVDKSVGSERIRGIQ 348
+LHA +L HPTT +++ AP+P + E D G ++ R ++
Sbjct: 262 FLHAAKLGFVHPTTGQLLVFEAPVPPIF----EKTLADLRAGIDKTRNVR 307
>gi|378775631|ref|YP_005177874.1| ribosomal large subunit pseudouridine synthase D [Pasteurella
multocida 36950]
gi|383311713|ref|YP_005364523.1| 23S rRNA pseudouridine synthase D [Pasteurella multocida subsp.
multocida str. HN06]
gi|421264490|ref|ZP_15715469.1| 23S rRNA pseudouridine synthase D [Pasteurella multocida subsp.
multocida str. P52VAC]
gi|425064439|ref|ZP_18467564.1| Ribosomal large subunit pseudouridine synthase D [Pasteurella
multocida subsp. gallicida X73]
gi|425066596|ref|ZP_18469716.1| Ribosomal large subunit pseudouridine synthase D [Pasteurella
multocida subsp. gallicida P1059]
gi|356598179|gb|AET16905.1| ribosomal large subunit pseudouridine synthase D [Pasteurella
multocida 36950]
gi|380872985|gb|AFF25352.1| 23S rRNA pseudouridine synthase D [Pasteurella multocida subsp.
multocida str. HN06]
gi|401688149|gb|EJS83799.1| 23S rRNA pseudouridine synthase D [Pasteurella multocida subsp.
multocida str. P52VAC]
gi|404381189|gb|EJZ77672.1| Ribosomal large subunit pseudouridine synthase D [Pasteurella
multocida subsp. gallicida X73]
gi|404381384|gb|EJZ77861.1| Ribosomal large subunit pseudouridine synthase D [Pasteurella
multocida subsp. gallicida P1059]
Length = 324
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 100/317 (31%), Positives = 156/317 (49%), Gaps = 58/317 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYED 71
L+ W I+ + V+G VVN P + G ++ + ++ ++P L ++YED
Sbjct: 35 LKTW---IEQDLVHVNGDVVNVPRAKVYGGEQIEIVVEIEDDTRFEPENLP--LNIVYED 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRG 127
DD++ +NKP V PG TVLN L + A VP VHRL +
Sbjct: 90 DDILVINKPKDFVVHPGAGNASGTVLNALLYHYP---------AIAEVPRAGIVHRLDKD 140
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
T+G+++ AKT A+T + V +L +RKIT+ Y A+ GI+ + +
Sbjct: 141 TTGLMVIAKTIPAQTKL----------------VRDLQKRKITREYEAIACGIMTKGG-M 183
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
+ QP+ R+P + V P GKPA++ ++ER RN T +++ +++GR HQIR+H
Sbjct: 184 VDQPMA--RHPTKRTHMAV-HPMGKPAVTHYRIMER--FRNYTRLRLRLETGRTHQIRVH 238
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
+A + HPLLGD Y +P SE T ++R LHA L L
Sbjct: 239 MAHIAHPLLGDQTYGGRPRPPKNASEELMQTLRD---FKRQA----------LHAIMLRL 285
Query: 308 SHPTTNEVIKITAPLPS 324
HP T E+++ APLP+
Sbjct: 286 EHPITGELMEWHAPLPT 302
>gi|335040592|ref|ZP_08533718.1| pseudouridine synthase, RluA family [Caldalkalibacillus thermarum
TA2.A1]
gi|334179562|gb|EGL82201.1| pseudouridine synthase, RluA family [Caldalkalibacillus thermarum
TA2.A1]
Length = 302
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 103/321 (32%), Positives = 155/321 (48%), Gaps = 60/321 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP---YLLEVLYEDDD 73
+Q W I+ G++TV+GR V N LS +V P +E + L+++YED+D
Sbjct: 35 IQNW---IKEGRVTVNGRPVK-ANYKLSENDYVVLRVPPPRELSIEPEQMDLDIVYEDED 90
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP GL V P T++N L A Q+ S + P VHR+ + TSG+L+
Sbjct: 91 VLVVNKPRGLVVHPAPGHYSGTLVNGLL--AHCQNLSGINGILRPGIVHRIDKDTSGLLM 148
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK A +A +LS+ ++ + Y ALVHG V + I PIG
Sbjct: 149 VAKNDRAHLSLA----------------KQLSEHRVIRKYVALVHGQVGHNSGTINAPIG 192
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R P + + V S GKPA++ V++R TL++ ++++GR HQIR+HL ++GH
Sbjct: 193 --RNPHNRQQMAVVS-GGKPAVTHFQVIKR--FNRYTLIECQLETGRTHQIRVHLKYIGH 247
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP+Y G K+ P+ G LHA L HP T
Sbjct: 248 PLAGDPVY---GPAKTL--------------------PIKGQA---LHAKVLGFEHPATG 281
Query: 314 EVIKITAPLP----SVLKTRE 330
+ +PLP ++KT E
Sbjct: 282 RQMIFDSPLPEDMEEIIKTLE 302
>gi|414158276|ref|ZP_11414570.1| RluA family pseudouridine synthase [Streptococcus sp. F0441]
gi|410870821|gb|EKS18778.1| RluA family pseudouridine synthase [Streptococcus sp. F0441]
Length = 296
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 98/312 (31%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-PYL-----LEVLYEDDDLI 75
++I+ GQ+ V+G+ + G + YH +P EP+V Y+ LE++Y+D+ +
Sbjct: 29 EQIKAGQVLVNGQA-KKAKYTVQEGDIVTYH-VP--EPEVLEYVAEELPLEIIYQDEHVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 85 VVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A DK S+ RK Y A+VHG + D+ +I+ PIG
Sbjct: 143 KNDEAHLALAQELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA+++ VLER + TLV++++++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYTLVELQLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GD +Y G K+ G +LHA L HP T E
Sbjct: 242 AGDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFIHPKTGET 275
Query: 316 IKITAPLPSVLK 327
++ TA +P + K
Sbjct: 276 LEFTADIPDIFK 287
>gi|387927105|ref|ZP_10129784.1| Pseudouridylate synthase, 23S RNA-specific [Bacillus methanolicus
PB1]
gi|387589249|gb|EIJ81569.1| Pseudouridylate synthase, 23S RNA-specific [Bacillus methanolicus
PB1]
Length = 303
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 95/310 (30%), Positives = 148/310 (47%), Gaps = 56/310 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++GQI V+G+ V N S ++ +E DV L++ YED D
Sbjct: 33 IQQW---IKDGQILVNGQKVK-TNYKCSLNDQIEIFIPEPEELDVIPEEMNLDIYYEDHD 88
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L A + S + P VHR+ + TSG+L+
Sbjct: 89 VLVVNKPKGMVVHPAPGHSSGTLVNGLM--AHCKDLSGINGVLRPGIVHRIDKDTSGLLM 146
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK + + DKT +T+ Y+A+VHG++ D I P+G
Sbjct: 147 IAKNDFSHESLVNQLVDKT----------------VTRKYKAIVHGVIPHDYGTIDAPLG 190
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R P + + V +GK A++ VLER ++ T ++ ++++GR HQIR+H+ ++G+
Sbjct: 191 --RDPKDRQSMAVVD-NGKHAVTHFHVLER--FKDFTFIECQLETGRTHQIRVHMKYIGY 245
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D + G LHA L HP TN
Sbjct: 246 PLAGDPKY---GPKKTLDID-----------------------GQALHAAVLGFHHPRTN 279
Query: 314 EVIKITAPLP 323
E ++ APLP
Sbjct: 280 EYLEFEAPLP 289
>gi|341820394|emb|CCC56664.1| pseudouridylate synthase [Weissella thailandensis fsh4-2]
Length = 304
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 82/259 (31%), Positives = 126/259 (48%), Gaps = 50/259 (19%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+++YEDDDL+ +NKP G+ V P T++N L + S + P VHR+
Sbjct: 78 LDIVYEDDDLLVVNKPQGMVVHPAAGHPNGTLVNALMYHTDLSSIN---GVVRPGIVHRI 134
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A ++ +L +K + Y ALVHG E+
Sbjct: 135 DKDTSGLLMVAKNDQAHEALSS----------------DLKNKKNLRQYYALVHGEFSEN 178
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K IK P+G + + + G+ A++ +V++R V TL++V +++GR HQI
Sbjct: 179 KGTIKAPLGRSKTNRKKQAVIAG---GRDAVTHFEVVKRYV--GYTLLRVTLETGRTHQI 233
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+A++GHP+ GDPLY G K+ G +LHA
Sbjct: 234 RVHMAYIGHPVAGDPLY---GPKKTL-----------------------AGNGQFLHAAT 267
Query: 305 LFLSHPTTNEVIKITAPLP 323
L L+ PTT E + APLP
Sbjct: 268 LGLTQPTTKEALTFEAPLP 286
>gi|398818376|ref|ZP_10576968.1| pseudouridine synthase, RluA family [Brevibacillus sp. BC25]
gi|398028144|gb|EJL21668.1| pseudouridine synthase, RluA family [Brevibacillus sp. BC25]
Length = 309
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 96/313 (30%), Positives = 150/313 (47%), Gaps = 55/313 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W ++ G++TV+G + + N L A E+ P KE + L+++YED D
Sbjct: 39 VQAW---VKEGRVTVNGEPIKN-NYKLQAEDEVTLRVPPPKEMAIQPEEMSLDIVYEDSD 94
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP GL V P T++N L A + S + P VHR+ + TSG+L+
Sbjct: 95 VVVVNKPRGLVVHPAPGHYSGTLVNGL--LAHCKDLSGINGVLRPGIVHRIDKDTSGLLM 152
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK A +A +L + + Y A+VHG++ + I+ PIG
Sbjct: 153 VAKNDKAHMGLAE----------------QLKAHTVNRKYVAIVHGVIPHEMGTIEAPIG 196
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R P + + V + KPA++ VLER + TLV++++++GR HQIR+H+ ++G+
Sbjct: 197 --RDPKNRQQMAVVFENSKPAVTHFIVLER--FKEYTLVELKLETGRTHQIRVHMKYIGY 252
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y P N V D G LHA L SHP T
Sbjct: 253 PLAGDPKY-------------------------GPKNTVELD-GQALHAKTLGFSHPRTG 286
Query: 314 EVIKITAPLPSVL 326
E ++ AP+P +
Sbjct: 287 EQLEFEAPMPKEM 299
>gi|419475322|ref|ZP_14015163.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA14688]
gi|379561660|gb|EHZ26677.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA14688]
Length = 295
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 92/311 (29%), Positives = 154/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQVKKAKHTV-QEGDVVTYHVPEPEVLEYVAEDLP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GH +
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHSVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T + +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGKTL 276
Query: 317 KITAPLPSVLK 327
+ A +P + K
Sbjct: 277 EFKADIPEIFK 287
>gi|450064110|ref|ZP_21845273.1| putative pseudouridylate synthase [Streptococcus mutans NLML5]
gi|449203989|gb|EMC04816.1| putative pseudouridylate synthase [Streptococcus mutans NLML5]
Length = 296
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 94/312 (30%), Positives = 156/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+G++ + +++++ P +E ++P LE++YED+D+
Sbjct: 29 EQIKAGLVWVNGKMQKAKYAVKEG--DIIHYERPQEEVLDCVAQNIP--LEIVYEDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL ++K + Y ALVHG + D+ +I+ PIG
Sbjct: 143 KNDQAHQALA----------------KELKEKKSLRQYIALVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQTVTA-KGKPAVTHFKVLERFGQ--YSLVELTLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T E+
Sbjct: 242 AGDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGEL 275
Query: 316 IKITAPLPSVLK 327
++ T +P + +
Sbjct: 276 MQFTTEVPVIFQ 287
>gi|336392300|ref|ZP_08573699.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
coryniformis subsp. torquens KCTC 3535]
gi|420146122|ref|ZP_14653559.1| Pseudouridine synthase [Lactobacillus coryniformis subsp.
coryniformis CECT 5711]
gi|398402202|gb|EJN55574.1| Pseudouridine synthase [Lactobacillus coryniformis subsp.
coryniformis CECT 5711]
Length = 304
Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 88/263 (33%), Positives = 127/263 (48%), Gaps = 50/263 (19%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+++YEDDD++ +NKP G+ V P Q T++N L + + S + P VHR+
Sbjct: 80 LDIVYEDDDVLVVNKPQGMVVHPAPGHPQDTLVNALLYHSP---LSTINGVIRPGIVHRI 136
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A +A KTS QR+ Y ALVHG++ ED
Sbjct: 137 DKDTSGLLMVAKNDQAHISLAAQLQAKTS------------QRE----YLALVHGVIKED 180
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PI R K V + GK A++ +VLER TL++ +++GR HQI
Sbjct: 181 KGTIDAPIA--RAKNDRKKQAVVA-GGKHAVTHFEVLERF--NEYTLIKCILETGRTHQI 235
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++GHP+ GDPLY G K+ G +LHA
Sbjct: 236 RVHMKYIGHPVAGDPLY---GPKKTLKGH-----------------------GQFLHAAL 269
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T E + T PLP + +
Sbjct: 270 LGFKHPRTGEQMTFTTPLPPIFE 292
>gi|449887546|ref|ZP_21786884.1| putative pseudouridylate synthase [Streptococcus mutans SA41]
gi|449942490|ref|ZP_21806043.1| putative pseudouridylate synthase [Streptococcus mutans 11A1]
gi|450041170|ref|ZP_21837242.1| putative pseudouridylate synthase [Streptococcus mutans T4]
gi|449150487|gb|EMB54250.1| putative pseudouridylate synthase [Streptococcus mutans 11A1]
gi|449197987|gb|EMB99120.1| putative pseudouridylate synthase [Streptococcus mutans T4]
gi|449252494|gb|EMC50471.1| putative pseudouridylate synthase [Streptococcus mutans SA41]
Length = 296
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 94/312 (30%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+G+ + +++++ P +E ++P LE++YED+D+
Sbjct: 29 EQIKAGLVWVNGKTQKAKYAVKEG--DIIHYERPQEEVLDCVAQNIP--LEIVYEDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL ++K + Y ALVHG + D+ +I+ PIG
Sbjct: 143 KNDQAHQALA----------------KELKEKKSLRQYIALVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQTVTA-KGKPAVTHFKVLERFGQ--YSLVELTLETGRTHQIRVHMAYIGHPI 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T E+
Sbjct: 242 AGDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGEL 275
Query: 316 IKITAPLPSVLK 327
++ T +P + +
Sbjct: 276 MQFTTEVPVIFQ 287
>gi|423367937|ref|ZP_17345369.1| RluA family pseudouridine synthase [Bacillus cereus VD142]
gi|401082798|gb|EJP91063.1| RluA family pseudouridine synthase [Bacillus cereus VD142]
Length = 302
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 96/314 (30%), Positives = 149/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LEV YED D
Sbjct: 34 VQQW---IKDAVVTVNGKSVKG-NYKVKGNDEITVTIPEPEELDIQPEDMNLEVYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P + T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PIG
Sbjct: 148 VAKNDVAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ T V+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTFVECRLETGRTHQIRVHMRYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIEFEAPIPEVFE 294
>gi|386389635|ref|ZP_10074449.1| pseudouridine synthase, RluA family [Haemophilus
paraphrohaemolyticus HK411]
gi|385695405|gb|EIG25967.1| pseudouridine synthase, RluA family [Haemophilus
paraphrohaemolyticus HK411]
Length = 325
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 100/316 (31%), Positives = 157/316 (49%), Gaps = 56/316 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYED 71
L+ W I+N + V+G+VVN + G + + + ++ ++P L ++YED
Sbjct: 36 LKVW---IENDLVKVNGKVVNKAREKVFGGELIEVLAEIEEEVRFEPQNIP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP L V PG TVLN L + ++ VHRL + T+G+
Sbjct: 91 DDIIVINKPKDLVVHPGAGNPDGTVLNALLYHYPP-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AK A+T + V L +R+IT+ Y A+V GI+ + + +P
Sbjct: 146 MVVAKNIPAQTHL----------------VTALQKRQITREYEAVVSGIMTQGGKV-DEP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
+ R+P + V P GKPA++ ++ER RN T +++ +++GR HQIR+H+A +
Sbjct: 189 MA--RHPTKRTAMAV-HPMGKPAVTHYRIMER--FRNYTRLRLRLETGRTHQIRVHMAHI 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD LY GG+ PK EF A ++R LHA L L
Sbjct: 244 AHPLLGDQLY--GGRPRPPKGASEEF----LAVLRSFQRQA----------LHAAMLRLE 287
Query: 309 HPTTNEVIKITAPLPS 324
HP T E+++ A LP
Sbjct: 288 HPITGELMEWHASLPE 303
>gi|365157073|ref|ZP_09353354.1| RluA family pseudouridine synthase [Bacillus smithii 7_3_47FAA]
gi|363625807|gb|EHL76818.1| RluA family pseudouridine synthase [Bacillus smithii 7_3_47FAA]
Length = 303
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 99/314 (31%), Positives = 150/314 (47%), Gaps = 62/314 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL------LEVLYE 70
+Q W I+ G++TV+G V N A +V + EP+V + L++ YE
Sbjct: 33 VQEW---IKEGRVTVNGATVK-ANYKCEADDRIV---ISVPEPEVLEITPENMDLDIYYE 85
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+I +NKP G+ V P T++N L A + S + P VHR+ + TSG
Sbjct: 86 DRDVIVVNKPRGMVVHPAPGHLSGTLVNGLM--AHCKDLSGINGVLRPGIVHRIDKDTSG 143
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A ++ +LS + +T+ Y+A+VHG++ D I
Sbjct: 144 LLMAAKNDYAHEKLS----------------QQLSNKTVTRKYKAIVHGVIPHDVGTIDA 187
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R P + + V +GK A++ VLER Q +L++ E+++GR HQIR+H+ +
Sbjct: 188 PIG--RDPKDRQKMAVVE-NGKHAVTHFRVLERFSQ--YSLIECELETGRTHQIRVHMKY 242
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHPL GDP Y G K+ + E G LHA L HP
Sbjct: 243 IGHPLAGDPKY---GPKKTLNIE-----------------------GQALHAEVLGFIHP 276
Query: 311 TTNEVIKITAPLPS 324
T E ++ APLP
Sbjct: 277 RTEEYLEFKAPLPD 290
>gi|385823357|ref|YP_005859699.1| Hypothetical RNA pseudouridine synthase (RNA-uridine isomerase)
[Lactobacillus casei BD-II]
gi|418005172|ref|ZP_12645168.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei UW1]
gi|327385684|gb|AEA57158.1| Hypothetical RNA pseudouridine synthase (RNA-uridine isomerase)
[Lactobacillus casei BD-II]
gi|410547425|gb|EKQ21658.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei UW1]
Length = 306
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 102/350 (29%), Positives = 168/350 (48%), Gaps = 64/350 (18%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--- 59
+I + T H S +Q WLQ +G +TV+G+ N +++G +++ +P +P
Sbjct: 17 VITAHETTHTRSQ-VQKWLQ---DGLVTVNGQPTK-ANYKVASG-DVIAISIPEAKPLEA 70
Query: 60 -DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
P L+++YEDD +I ++KP G+ V P T++N L + + P
Sbjct: 71 IPEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLPGIN---GVIRP 127
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHR+ + TSG+L+ AKT+ A+ ++ KTS+ + Y ALVH
Sbjct: 128 GIVHRIDKDTSGLLMVAKTEKAQLSLSAQLKAKTSI----------------REYLALVH 171
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G ED+ I P+G R P K V + +G+ A++ VLER + T ++ +++
Sbjct: 172 GTFKEDEGTIDAPLG--RDPRDRKRQAVVA-AGRHAVTHFQVLER--FEHYTFIKCILET 226
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+A++ HP+ GDPLY P +PG G
Sbjct: 227 GRTHQIRVHMAYIHHPVAGDPLY-------------------------GPKRTLPGK-GQ 260
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKTREEGREVDKSVGSERIRGIQ 348
+LHA +L HPTT +++ AP+P + E D G ++ R ++
Sbjct: 261 FLHAAKLGFVHPTTGQLLVFEAPVPPIF----EKTLADLRAGIDKTRNVR 306
>gi|405377633|ref|ZP_11031573.1| pseudouridine synthase, RluA family [Rhizobium sp. CF142]
gi|397325899|gb|EJJ30224.1| pseudouridine synthase, RluA family [Rhizobium sp. CF142]
Length = 341
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 99/316 (31%), Positives = 151/316 (47%), Gaps = 48/316 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGS--ELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
I++GQ+ + G + DP + AG E++ LP E D+P L++LYED+D+I
Sbjct: 46 IKDGQVFLKGAPITDPQKKVRAGDSYEII---LPEPEDPAPKGEDIP--LDILYEDEDVI 100
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
++KP+GL V PG T++N L + S + P VHRL + T+G+++ A
Sbjct: 101 VISKPAGLVVHPGPGNWTGTLVNALIYHCGDTLSGIGG-VRRPGIVHRLDKDTTGVMVVA 159
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K +A ++ FAD + + + Y+A+V G I P+G
Sbjct: 160 KNDMAHRHLSLQFADHGRTM------------PLERAYQAIVWGRPRSLSGTIDAPLG-- 205
Query: 196 RYPGVAKGLYVASP---SGKPALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIRIH 247
R G V P S A++ +VLER D +LV+ +++GR HQIR+H
Sbjct: 206 RATGDRTRRAVKRPENESADEAITHYEVLERFHESPDASALASLVECHLETGRTHQIRVH 265
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
+A +GHPLLGD +Y AG + K+ + D ++R LHAY L
Sbjct: 266 MAHIGHPLLGDAVYGAGFKTKA--NLLPDEARKVVKAFDRQA----------LHAYMLQF 313
Query: 308 SHPTTNEVIKITAPLP 323
HP T EV+ PLP
Sbjct: 314 EHPRTGEVMHFEVPLP 329
>gi|385262518|ref|ZP_10040622.1| pseudouridine synthase, RluA family [Streptococcus sp. SK643]
gi|385190419|gb|EIF37866.1| pseudouridine synthase, RluA family [Streptococcus sp. SK643]
Length = 296
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 94/311 (30%), Positives = 153/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G+V + + YH L + ++P LE++Y+D+D+
Sbjct: 29 EQIKLGQVLVNGQV-KKAKYTVKEDDIITYHVPEPEVLEYVAEEIP--LEIIYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHLALAQELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T E +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGETM 276
Query: 317 KITAPLPSVLK 327
+ T +P + K
Sbjct: 277 EFTVDIPEIFK 287
>gi|148827314|ref|YP_001292067.1| 23S rRNA pseudouridine synthase D [Haemophilus influenzae PittGG]
gi|148718556|gb|ABQ99683.1| SfhB [Haemophilus influenzae PittGG]
Length = 324
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 100/333 (30%), Positives = 161/333 (48%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G ++ V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRIANIPREKVLGGEKIEITVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + + +
Sbjct: 77 EPENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIAEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L LSHP T E+++ APLP
Sbjct: 278 --------LHAVMLRLSHPITGEMMEWYAPLPD 302
>gi|386265467|ref|YP_005828959.1| 23S rRNA pseudouridine synthase [Haemophilus influenzae R2846]
gi|309972703|gb|ADO95904.1| 23S rRNA pseudouridine synthase [Haemophilus influenzae R2846]
Length = 324
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 100/333 (30%), Positives = 160/333 (48%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G + V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRITNIPREKVLGGERIEIIVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + S +
Sbjct: 77 EAENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPISEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLAHPITGEMMEWYAPLPD 302
>gi|333978716|ref|YP_004516661.1| RluA family pseudouridine synthase [Desulfotomaculum kuznetsovii
DSM 6115]
gi|333822197|gb|AEG14860.1| pseudouridine synthase, RluA family [Desulfotomaculum kuznetsovii
DSM 6115]
Length = 305
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 84/262 (32%), Positives = 125/262 (47%), Gaps = 47/262 (17%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L++ YED D++ +NKP G+ V P T++N L + S + P VHRL
Sbjct: 81 LDIYYEDGDVVVVNKPRGMVVHPAEGNYSGTLVNALLYHCRDLSGV--NGVMRPGIVHRL 138
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+++ AK +A +L R++T+ Y AL HG ED
Sbjct: 139 DKDTSGLIMVAKNDFTHLELA----------------RQLKDRRVTRRYTALAHGNFKED 182
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ + PIG R+P + + V S G+ A++ V ER Q TL+++++++GR HQI
Sbjct: 183 RGTVDAPIG--RHPRDRQRMAVVSRGGRHAVTHYMVKERFGQ--YTLLELKLETGRTHQI 238
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+A+LGHPL+GD Y P P G G +LHA
Sbjct: 239 RVHMAYLGHPLVGDLKY-------------------------GPARPHFGLQGQFLHAAT 273
Query: 305 LFLSHPTTNEVIKITAPLPSVL 326
L HP E ++ TAPLP L
Sbjct: 274 LGFHHPRREEYLEFTAPLPGEL 295
>gi|227878615|ref|ZP_03996537.1| pseudouridylate synthase [Lactobacillus crispatus JV-V01]
gi|256843219|ref|ZP_05548707.1| pseudouridine synthase [Lactobacillus crispatus 125-2-CHN]
gi|256850423|ref|ZP_05555851.1| pseudouridine synthase [Lactobacillus crispatus MV-1A-US]
gi|293380626|ref|ZP_06626679.1| pseudouridine synthase, RluA family [Lactobacillus crispatus 214-1]
gi|295692991|ref|YP_003601601.1| pseudouridine synthase [Lactobacillus crispatus ST1]
gi|312977447|ref|ZP_07789195.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
crispatus CTV-05]
gi|423318686|ref|ZP_17296563.1| RluA family pseudouridine synthase [Lactobacillus crispatus
FB049-03]
gi|227861792|gb|EEJ69389.1| pseudouridylate synthase [Lactobacillus crispatus JV-V01]
gi|256614639|gb|EEU19840.1| pseudouridine synthase [Lactobacillus crispatus 125-2-CHN]
gi|256712820|gb|EEU27813.1| pseudouridine synthase [Lactobacillus crispatus MV-1A-US]
gi|290922813|gb|EFD99762.1| pseudouridine synthase, RluA family [Lactobacillus crispatus 214-1]
gi|295031097|emb|CBL50576.1| Pseudouridine synthase [Lactobacillus crispatus ST1]
gi|310895878|gb|EFQ44944.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
crispatus CTV-05]
gi|405593417|gb|EKB66865.1| RluA family pseudouridine synthase [Lactobacillus crispatus
FB049-03]
Length = 303
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 98/340 (28%), Positives = 163/340 (47%), Gaps = 71/340 (20%)
Query: 7 YSTKHKNSAPLQGWLQRIQNGQI-----TVDGRVVNDPNIILSAGSELVYHRLPWK---E 58
YS + KN +G L + + QI T +V D NI+++ E V +++ E
Sbjct: 5 YSLEVKNE---KGRLDKFVSEQIPDLSRTRVKELVKDQNILVNGKVEKVSYKIQAGDKIE 61
Query: 59 PDVPYL-----------LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQ 107
++P + L+++YEDDD+I +NKP G+ V P T++N L + +
Sbjct: 62 VNIPAVKPLDVIPENIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHT--K 119
Query: 108 SSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQR 167
+ + S + P VHR+ + TSG+L+ AKT A+ + A KT+
Sbjct: 120 ALAQSPEGFRPGIVHRIDKDTSGLLMIAKTAKARESLEDQLAHKTN-------------- 165
Query: 168 KITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQR 227
++Y A+VHG E+ +I PIG R P K + V +GK A++ VLE+ +
Sbjct: 166 --KRLYWAIVHGNFAEENGVIDAPIG--RNPYDRKKMAVVE-TGKKAITHFKVLEQ--FK 218
Query: 228 NCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYER 287
+ +L++ ++++GR HQIR+HL ++GHP+ GDPLY G K+
Sbjct: 219 DYSLIECQLETGRTHQIRVHLDYIGHPVAGDPLY---GPRKTLKGH-------------- 261
Query: 288 PVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G +LHA L HP+T E ++ + P + +
Sbjct: 262 ---------GQFLHAKVLGFKHPSTGEWLEFSVEPPQIFQ 292
>gi|260438385|ref|ZP_05792201.1| ribosomal large subunit pseudouridine synthase D [Butyrivibrio
crossotus DSM 2876]
gi|292808971|gb|EFF68176.1| ribosomal large subunit pseudouridine synthase D [Butyrivibrio
crossotus DSM 2876]
Length = 316
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 90/321 (28%), Positives = 147/321 (45%), Gaps = 65/321 (20%)
Query: 18 QGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL-----------LE 66
+ ++Q++ I VND N G ++ Y+ L + +PYL L+
Sbjct: 40 RSYIQKL----IEAGNVCVNDKNT--KTGYKISYNDLI--KVMIPYLEDINIVAENIPLD 91
Query: 67 VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGR 126
++YEDDD+I +NKP G+ V P T++N L + S S ++ P VHR+ +
Sbjct: 92 IVYEDDDIILVNKPKGMVVHPSAGHYTGTLVNALMYHCSNNLSGING-VMRPGIVHRIDK 150
Query: 127 GTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKV 186
T+GI++ K A ++ +L + IT+ Y A+ H E +
Sbjct: 151 DTTGIIVACKNDAAHISLSE----------------QLKEHNITRYYYAICHNCFKEKEG 194
Query: 187 IIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRI 246
+ PIG R+P K + + +GK A++ +VLE RN ++ ++++GR HQIR+
Sbjct: 195 TVDAPIG--RHPVERKKMAINYKNGKKAVTHYEVLEN--FRNFAYIKCKLETGRTHQIRV 250
Query: 247 HLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLF 306
H+A + HPLLGD +Y P F+ E G LHA L
Sbjct: 251 HMASISHPLLGDNVYCNAKCP--FELE-----------------------GQTLHAGVLG 285
Query: 307 LSHPTTNEVIKITAPLPSVLK 327
HP T + ++ +APLP +
Sbjct: 286 FIHPRTGKYMEFSAPLPEYFE 306
>gi|217077318|ref|YP_002335036.1| ribosomal large subunit pseudouridine synthase D [Thermosipho
africanus TCF52B]
gi|419759894|ref|ZP_14286179.1| ribosomal large subunit pseudouridine synthase D [Thermosipho
africanus H17ap60334]
gi|217037173|gb|ACJ75695.1| ribosomal large subunit pseudouridine synthase D [Thermosipho
africanus TCF52B]
gi|407514933|gb|EKF49719.1| ribosomal large subunit pseudouridine synthase D [Thermosipho
africanus H17ap60334]
Length = 245
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 87/263 (33%), Positives = 127/263 (48%), Gaps = 46/263 (17%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L++LYED D++ +NK +G+ P F T++N L + K +S + P VHRL
Sbjct: 19 LDILYEDKDIVVVNKSAGMITHPTPSFTSGTLVNALMYHC-KDFQGISGELR-PGIVHRL 76
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+++ AK A ++ F D+ + K+Y A+V GIV +D
Sbjct: 77 DKDTSGVIVVAKNDKAHQSLSKQFKDRVT----------------EKVYAAIVKGIVKKD 120
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
I+ P+G R P V + A GK AL+ VL R ++ TLV ++GR HQI
Sbjct: 121 YGTIEVPVG--RNP-VVRTKMAAVDWGKNALTYFKVLRR--FKDATLVFAYPKTGRTHQI 175
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
RIH+ ++GHPLLGD LY +G + + + G LHA +
Sbjct: 176 RIHMKYIGHPLLGDELYGSGKK-----------------------DEIYGATRQMLHALR 212
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HPTT E + APLP K
Sbjct: 213 LSFYHPTTEEKMTFVAPLPEDFK 235
>gi|28897333|ref|NP_796938.1| 23S rRNA pseudouridine synthase D [Vibrio parahaemolyticus RIMD
2210633]
gi|153839761|ref|ZP_01992428.1| ribosomal large subunit pseudouridine synthase D [Vibrio
parahaemolyticus AQ3810]
gi|260876296|ref|ZP_05888651.1| ribosomal large subunit pseudouridine synthase D [Vibrio
parahaemolyticus AN-5034]
gi|260895103|ref|ZP_05903599.1| ribosomal large subunit pseudouridine synthase D [Vibrio
parahaemolyticus Peru-466]
gi|260903277|ref|ZP_05911672.1| ribosomal large subunit pseudouridine synthase D [Vibrio
parahaemolyticus AQ4037]
gi|417321415|ref|ZP_12107955.1| 23S rRNA pseudouridine synthase D [Vibrio parahaemolyticus 10329]
gi|433656839|ref|YP_007274218.1| Ribosomal large subunit pseudouridine synthase D [Vibrio
parahaemolyticus BB22OP]
gi|34395767|sp|Q87S65.1|RLUD_VIBPA RecName: Full=Ribosomal large subunit pseudouridine synthase D;
AltName: Full=23S rRNA pseudouridine(1911/1915/1917)
synthase; AltName: Full=rRNA pseudouridylate synthase D;
AltName: Full=rRNA-uridine isomerase D
gi|28805542|dbj|BAC58822.1| ribosomal large subunit pseudouridine synthase D [Vibrio
parahaemolyticus RIMD 2210633]
gi|149746714|gb|EDM57702.1| ribosomal large subunit pseudouridine synthase D [Vibrio
parahaemolyticus AQ3810]
gi|308088909|gb|EFO38604.1| ribosomal large subunit pseudouridine synthase D [Vibrio
parahaemolyticus Peru-466]
gi|308092904|gb|EFO42599.1| ribosomal large subunit pseudouridine synthase D [Vibrio
parahaemolyticus AN-5034]
gi|308107949|gb|EFO45489.1| ribosomal large subunit pseudouridine synthase D [Vibrio
parahaemolyticus AQ4037]
gi|328472095|gb|EGF42972.1| 23S rRNA pseudouridine synthase D [Vibrio parahaemolyticus 10329]
gi|432507527|gb|AGB09044.1| Ribosomal large subunit pseudouridine synthase D [Vibrio
parahaemolyticus BB22OP]
Length = 325
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 99/316 (31%), Positives = 148/316 (46%), Gaps = 56/316 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL +G++ V+G VV P + G E+ W+ D+P L+++YED
Sbjct: 36 LKEWLL---DGKVQVNGEVVTKPRTKVMGGEEITLQAELEDEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 DDIIVINKPRDFVVHPGAGTPDGTVLNALLHHYPD-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R IT+ Y A+ G + + QP
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRNITREYEAIAIGRMTAGGKV-DQP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L +P GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 189 IG--RH-STKRTLMAVAPLGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ P E D G++R LHA L
Sbjct: 244 QHPLLGDTAY--GGRARIPTGASQELTDMI----RGFDRQA----------LHAVMLRFE 287
Query: 309 HPTTNEVIKITAPLPS 324
HP T E ++ AP+P
Sbjct: 288 HPITGEELEFHAPVPD 303
>gi|325577679|ref|ZP_08147954.1| ribosomal large subunit pseudouridine synthase D [Haemophilus
parainfluenzae ATCC 33392]
gi|419846075|ref|ZP_14369332.1| pseudouridine synthase, RluA family [Haemophilus parainfluenzae
HK2019]
gi|325160424|gb|EGC72550.1| ribosomal large subunit pseudouridine synthase D [Haemophilus
parainfluenzae ATCC 33392]
gi|386414370|gb|EIJ28926.1| pseudouridine synthase, RluA family [Haemophilus parainfluenzae
HK2019]
Length = 324
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 99/329 (30%), Positives = 163/329 (49%), Gaps = 54/329 (16%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ Q+ ++G + + P + G ++ V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEAKQVKMNGEIADIPRAKVYGGEQIEISVEVEDENRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + + +
Sbjct: 77 EPQNIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPDGTVLNALLYHYPPIAEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--FRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQD-GGYERPVNPVPGD 295
++GR HQIR+H+A + HPLLGD Y GG+P+ + A F + ++R
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRP--PKNASKAFTEVLRNFKRQA------ 277
Query: 296 CGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 ----LHAVMLRLAHPITGEMMEWYAPLPD 302
>gi|260582391|ref|ZP_05850183.1| pseudouridylate synthase [Haemophilus influenzae NT127]
gi|260094542|gb|EEW78438.1| pseudouridylate synthase [Haemophilus influenzae NT127]
Length = 324
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 100/333 (30%), Positives = 160/333 (48%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G + V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRITNIPREKVLGGERIEIIVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + S +
Sbjct: 77 EAENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPISEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLAHPITGEMMEWYAPLPD 302
>gi|387771908|ref|ZP_10128065.1| pseudouridine synthase, RluA family [Haemophilus parahaemolyticus
HK385]
gi|386908293|gb|EIJ72991.1| pseudouridine synthase, RluA family [Haemophilus parahaemolyticus
HK385]
Length = 325
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 100/316 (31%), Positives = 158/316 (50%), Gaps = 56/316 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYED 71
L+ W I+N + V+ +VVN + G + + + ++ ++P L ++YED
Sbjct: 36 LKVW---IENDLVKVNSKVVNKAREKVFGGELIEVLAEIEEEVRFEPQNIP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP L V PG TVLN L + S++ + VHRL + T+G+
Sbjct: 91 DDIIVINKPKDLVVHPGAGNPDGTVLNALLY----HYPSIAEVPRAGI-VHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AK A+T + V L +R+IT+ Y A+ GI+ + + +P
Sbjct: 146 MVVAKNIPAQTHL----------------VTALQKRQITREYEAVASGIMTQGGKV-DEP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
+ R+P + V P GKPA++ ++ER RN T +++ +++GR HQIR+H+A +
Sbjct: 189 MA--RHPTKRTAMAV-HPMGKPAVTHYRIMER--FRNYTRLRLRLETGRTHQIRVHMAHI 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD LY GG+ PK EF A ++R LHA L L
Sbjct: 244 AHPLLGDQLY--GGRPRPPKGASEEF----LAVLRSFQRQA----------LHATMLRLE 287
Query: 309 HPTTNEVIKITAPLPS 324
HP T E+++ APLP
Sbjct: 288 HPITGELMEWHAPLPD 303
>gi|385264670|ref|ZP_10042757.1| RNA pseudouridylate synthase [Bacillus sp. 5B6]
gi|385149166|gb|EIF13103.1| RNA pseudouridylate synthase [Bacillus sp. 5B6]
Length = 304
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 96/314 (30%), Positives = 147/314 (46%), Gaps = 55/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W ++ G ++V+G+ V N + G ++ +E DV P L++ YED D
Sbjct: 33 VQQW---VKEGLVSVNGKSVK-ANYKMQPGDQVNVTIPEPEELDVLAEPMDLDIYYEDQD 88
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 89 VLVVNKPRGMVVHPAPGHVTGTLVNGLMAHCNDLSGI--NGVMRPGIVHRIDKDTSGLLM 146
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y A+VHG++ D I PIG
Sbjct: 147 VAKNDMAH----------------ESLVNQLVNKTVTRKYTAVVHGVISHDDGTIDAPIG 190
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V S K A++ VLER ++ TLV+ +++GR HQIR+H+ ++G
Sbjct: 191 --RDKKDRQSMTVTRESSKNAVTHFHVLER--FQDFTLVECRLETGRTHQIRVHMKYIGF 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPRKTIDFN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ APLP +K
Sbjct: 281 EYIEFEAPLPEDMK 294
>gi|148984670|ref|ZP_01817938.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP3-BS71]
gi|149006397|ref|ZP_01830109.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP18-BS74]
gi|225861177|ref|YP_002742686.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D) (rRNA pseudouridylate synthase D)
[Streptococcus pneumoniae Taiwan19F-14]
gi|298231008|ref|ZP_06964689.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D) (rRNA pseudouridylate synthase D)
[Streptococcus pneumoniae str. Canada MDR_19F]
gi|298254573|ref|ZP_06978159.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D) (rRNA pseudouridylate synthase D)
[Streptococcus pneumoniae str. Canada MDR_19A]
gi|298503058|ref|YP_003724998.1| pseudouridylate synthase [Streptococcus pneumoniae TCH8431/19A]
gi|387757323|ref|YP_006064302.1| putative RNA pseudouridylate synthase [Streptococcus pneumoniae
OXC141]
gi|387788395|ref|YP_006253463.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae ST556]
gi|417312502|ref|ZP_12099214.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA04375]
gi|417676682|ref|ZP_12326093.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17545]
gi|417698343|ref|ZP_12347516.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA41317]
gi|418082857|ref|ZP_12720058.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA44288]
gi|418084997|ref|ZP_12722181.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47281]
gi|418093761|ref|ZP_12730890.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA49138]
gi|418096036|ref|ZP_12733151.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA16531]
gi|418100758|ref|ZP_12737844.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 7286-06]
gi|418102650|ref|ZP_12739726.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae NP070]
gi|418112281|ref|ZP_12749283.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA41538]
gi|418118779|ref|ZP_12755736.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA18523]
gi|418132770|ref|ZP_12769643.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA11304]
gi|418141518|ref|ZP_12778331.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA13455]
gi|418146150|ref|ZP_12782932.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA13637]
gi|418150397|ref|ZP_12787148.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA14798]
gi|418152662|ref|ZP_12789402.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA16121]
gi|418154962|ref|ZP_12791693.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA16242]
gi|418157604|ref|ZP_12794320.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA16833]
gi|418164792|ref|ZP_12801462.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17371]
gi|418166547|ref|ZP_12803203.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17971]
gi|418171472|ref|ZP_12808096.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA19451]
gi|418195962|ref|ZP_12832441.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47688]
gi|418197756|ref|ZP_12834219.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47778]
gi|418223537|ref|ZP_12850177.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 5185-06]
gi|418225352|ref|ZP_12851981.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae NP112]
gi|418227514|ref|ZP_12854133.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 3063-00]
gi|418231995|ref|ZP_12858583.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA07228]
gi|418236436|ref|ZP_12863004.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA19690]
gi|419424954|ref|ZP_13965153.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 7533-05]
gi|419427402|ref|ZP_13967585.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 5652-06]
gi|419429090|ref|ZP_13969257.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA11856]
gi|419435796|ref|ZP_13975889.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 8190-05]
gi|419444852|ref|ZP_13984867.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA19923]
gi|419446996|ref|ZP_13987001.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 7879-04]
gi|419448569|ref|ZP_13988566.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 4075-00]
gi|419453032|ref|ZP_13993005.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae EU-NP03]
gi|419479758|ref|ZP_14019565.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA19101]
gi|419486478|ref|ZP_14026244.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA44128]
gi|419493073|ref|ZP_14032800.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47210]
gi|419499449|ref|ZP_14039148.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47597]
gi|419501660|ref|ZP_14041346.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47628]
gi|419505863|ref|ZP_14045524.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA49194]
gi|419512326|ref|ZP_14051960.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA05578]
gi|419516603|ref|ZP_14056221.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA02506]
gi|419518723|ref|ZP_14058330.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA08825]
gi|419527676|ref|ZP_14067219.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17719]
gi|421208751|ref|ZP_15665773.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2070005]
gi|421211030|ref|ZP_15668014.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2070035]
gi|421217447|ref|ZP_15674348.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2070335]
gi|421224795|ref|ZP_15681539.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2070768]
gi|421233913|ref|ZP_15690535.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2061617]
gi|421240488|ref|ZP_15697035.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2080913]
gi|421249222|ref|ZP_15705684.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2082239]
gi|421283118|ref|ZP_15733905.1| pseudouridine synthase [Streptococcus pneumoniae GA04216]
gi|421287648|ref|ZP_15738413.1| pseudouridine synthase [Streptococcus pneumoniae GA58771]
gi|421289569|ref|ZP_15740320.1| pseudouridine synthase [Streptococcus pneumoniae GA54354]
gi|421298396|ref|ZP_15749084.1| pseudouridine synthase [Streptococcus pneumoniae GA60080]
gi|421304888|ref|ZP_15755544.1| pseudouridine synthase [Streptococcus pneumoniae GA62331]
gi|147762174|gb|EDK69136.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP18-BS74]
gi|147923061|gb|EDK74176.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae SP3-BS71]
gi|225727922|gb|ACO23773.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D) (rRNA pseudouridylate synthase D)
[Streptococcus pneumoniae Taiwan19F-14]
gi|298238653|gb|ADI69784.1| pseudouridylate synthase [Streptococcus pneumoniae TCH8431/19A]
gi|301799912|emb|CBW32491.1| putative RNA pseudouridylate synthase [Streptococcus pneumoniae
OXC141]
gi|327389210|gb|EGE87555.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA04375]
gi|332075542|gb|EGI86010.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17545]
gi|332202784|gb|EGJ16853.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA41317]
gi|353756770|gb|EHD37369.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA44288]
gi|353758692|gb|EHD39280.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47281]
gi|353765637|gb|EHD46179.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA49138]
gi|353771023|gb|EHD51534.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA16531]
gi|353772694|gb|EHD53199.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 7286-06]
gi|353776816|gb|EHD57291.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae NP070]
gi|353784147|gb|EHD64568.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA41538]
gi|353790731|gb|EHD71112.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA18523]
gi|353805769|gb|EHD86043.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA13455]
gi|353806726|gb|EHD86999.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA11304]
gi|353814946|gb|EHD95168.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA13637]
gi|353815905|gb|EHD96117.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA14798]
gi|353819307|gb|EHD99505.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA16121]
gi|353823254|gb|EHE03429.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA16242]
gi|353824052|gb|EHE04226.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA16833]
gi|353829653|gb|EHE09784.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17371]
gi|353830143|gb|EHE10273.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17971]
gi|353835209|gb|EHE15303.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA19451]
gi|353861413|gb|EHE41350.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47688]
gi|353863912|gb|EHE43831.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47778]
gi|353878335|gb|EHE58165.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 5185-06]
gi|353882660|gb|EHE62471.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae NP112]
gi|353883115|gb|EHE62924.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 3063-00]
gi|353888301|gb|EHE68077.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA07228]
gi|353892668|gb|EHE72416.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA19690]
gi|379138137|gb|AFC94928.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae ST556]
gi|379551038|gb|EHZ16133.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA11856]
gi|379565829|gb|EHZ30820.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17719]
gi|379570924|gb|EHZ35883.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA19101]
gi|379572545|gb|EHZ37502.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA19923]
gi|379588093|gb|EHZ52939.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA44128]
gi|379595111|gb|EHZ59920.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47210]
gi|379602021|gb|EHZ66793.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47628]
gi|379602503|gb|EHZ67274.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47597]
gi|379607777|gb|EHZ72523.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA49194]
gi|379614536|gb|EHZ79246.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 7879-04]
gi|379615931|gb|EHZ80632.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 8190-05]
gi|379618855|gb|EHZ83530.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 5652-06]
gi|379620283|gb|EHZ84942.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 7533-05]
gi|379623627|gb|EHZ88260.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 4075-00]
gi|379626741|gb|EHZ91357.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae EU-NP03]
gi|379636796|gb|EIA01354.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA05578]
gi|379640606|gb|EIA05145.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA02506]
gi|379641702|gb|EIA06237.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA08825]
gi|395573753|gb|EJG34340.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2070035]
gi|395575707|gb|EJG36272.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2070005]
gi|395584933|gb|EJG45325.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2070335]
gi|395590583|gb|EJG50887.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2070768]
gi|395602810|gb|EJG62952.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2061617]
gi|395609070|gb|EJG69160.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2080913]
gi|395614523|gb|EJG74542.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2082239]
gi|395881081|gb|EJG92130.1| pseudouridine synthase [Streptococcus pneumoniae GA04216]
gi|395888260|gb|EJG99272.1| pseudouridine synthase [Streptococcus pneumoniae GA58771]
gi|395888810|gb|EJG99820.1| pseudouridine synthase [Streptococcus pneumoniae GA54354]
gi|395902352|gb|EJH13285.1| pseudouridine synthase [Streptococcus pneumoniae GA60080]
gi|395905550|gb|EJH16455.1| pseudouridine synthase [Streptococcus pneumoniae GA62331]
gi|429317749|emb|CCP37549.1| putative RNA pseudouridylate synthase [Streptococcus pneumoniae
SPN034156]
gi|429319292|emb|CCP32542.1| putative RNA pseudouridylate synthase [Streptococcus pneumoniae
SPN034183]
gi|429321107|emb|CCP34516.1| putative RNA pseudouridylate synthase [Streptococcus pneumoniae
SPN994039]
gi|429322927|emb|CCP30557.1| putative RNA pseudouridylate synthase [Streptococcus pneumoniae
SPN994038]
Length = 295
Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 92/311 (29%), Positives = 153/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDLP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GH +
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHSVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T + +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGKTL 276
Query: 317 KITAPLPSVLK 327
+ A +P + K
Sbjct: 277 EFKADIPEIFK 287
>gi|15606824|ref|NP_214204.1| hypothetical protein aq_1758 [Aquifex aeolicus VF5]
gi|3915479|sp|O67638.1|Y1758_AQUAE RecName: Full=Uncharacterized RNA pseudouridine synthase aq_1758;
AltName: Full=RNA pseudouridylate synthase; AltName:
Full=RNA-uridine isomerase
gi|2984062|gb|AAC07603.1| hypothetical protein aq_1758 [Aquifex aeolicus VF5]
Length = 316
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 95/311 (30%), Positives = 144/311 (46%), Gaps = 48/311 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
++ G + V+G V P+ L G ++ H +P EP ++P + ++YED+D+ +
Sbjct: 38 VKEGLVYVNGEEVRKPSRKLREGERVILH-VPEPEPLDVKPENIP--INIIYEDEDIAVV 94
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
KP GL V P + T++N L + SS P VHRL + T+G+++ AK
Sbjct: 95 EKPCGLVVHPSPGYTSGTLVNALLYHIKDLSSI--GGVERPGIVHRLDKETAGVMVIAKN 152
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A + V + +RK K Y+ LV G+V +D I PI R+
Sbjct: 153 NTAHRNL----------------VRQFQERKTEKFYKVLVKGLVKKDYGAIDTPIA--RH 194
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P K +V GK AL++ VL+R + TL++V+I +GR HQIR+H A +GHP+LG
Sbjct: 195 PVDRKRFWVRK-EGKEALTEYWVLKRYEKYEITLLKVKIHTGRTHQIRVHFASIGHPVLG 253
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
D Y G + S E + G+C L AY L HPT E +
Sbjct: 254 DRTY--GFKSSSVPKELLS---------------LMGECN-MLIAYHLGFYHPTKGEWMV 295
Query: 318 ITAPLPSVLKT 328
P K+
Sbjct: 296 FEIEEPETFKS 306
>gi|423561702|ref|ZP_17537978.1| RluA family pseudouridine synthase [Bacillus cereus MSX-A1]
gi|401201959|gb|EJR08824.1| RluA family pseudouridine synthase [Bacillus cereus MSX-A1]
Length = 302
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 85/263 (32%), Positives = 128/263 (48%), Gaps = 49/263 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
LE+ YED D++ +NKP G+ V P T++N L + S + P VHR+
Sbjct: 81 LEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRI 138
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK +A +S V +L + +T+ Y+A+VHG++ D
Sbjct: 139 DKDTSGLLMVAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHD 182
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PIG R + + V +GK A++ VLER ++ TLV+ +++GR HQI
Sbjct: 183 KGTIDAPIG--RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQI 237
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G+PL GDP Y G K+ D G LHA
Sbjct: 238 RVHMKYIGYPLAGDPKY---GPKKTLDMN-----------------------GQALHAGI 271
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T E I+ AP+P V +
Sbjct: 272 LGFDHPRTGEYIQFEAPIPEVFE 294
>gi|218899046|ref|YP_002447457.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus G9842]
gi|228902397|ref|ZP_04066552.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis IBL 4222]
gi|228966845|ref|ZP_04127889.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar sotto str. T04001]
gi|402564764|ref|YP_006607488.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis HD-771]
gi|423359071|ref|ZP_17336574.1| RluA family pseudouridine synthase [Bacillus cereus VD022]
gi|434376996|ref|YP_006611640.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis HD-789]
gi|218543499|gb|ACK95893.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus G9842]
gi|228792944|gb|EEM40502.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar sotto str. T04001]
gi|228857254|gb|EEN01759.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis IBL 4222]
gi|401084943|gb|EJP93189.1| RluA family pseudouridine synthase [Bacillus cereus VD022]
gi|401793416|gb|AFQ19455.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis HD-771]
gi|401875553|gb|AFQ27720.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis HD-789]
Length = 302
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 85/263 (32%), Positives = 128/263 (48%), Gaps = 49/263 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
LE+ YED D++ +NKP G+ V P T++N L + S + P VHR+
Sbjct: 81 LEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRI 138
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK +A +S V +L + +T+ Y+A+VHG++ D
Sbjct: 139 DKDTSGLLMVAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHD 182
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PIG R + + V +GK A++ VLER ++ TLV+ +++GR HQI
Sbjct: 183 KGTIDAPIG--RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQI 237
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G+PL GDP Y G K+ D G LHA
Sbjct: 238 RVHMKYIGYPLAGDPKY---GPKKTLDMN-----------------------GQALHAGI 271
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T E I+ AP+P V +
Sbjct: 272 LGFDHPRTGEYIQFEAPIPEVFE 294
>gi|452855493|ref|YP_007497176.1| pseudouridylate synthase [Bacillus amyloliquefaciens subsp.
plantarum UCMB5036]
gi|452079753|emb|CCP21510.1| pseudouridylate synthase [Bacillus amyloliquefaciens subsp.
plantarum UCMB5036]
Length = 304
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 96/314 (30%), Positives = 147/314 (46%), Gaps = 55/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W ++ G ++V+G+ V N + G ++ +E DV P L++ YED D
Sbjct: 33 VQQW---VKEGLVSVNGKSVK-ANYKMQPGDQVNVTIPEPEELDVLAEPMDLDIYYEDQD 88
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 89 VLVVNKPRGMVVHPAPGHVTGTLVNGLMAHCNDLSGI--NGVMRPGIVHRIDKDTSGLLM 146
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y A+VHG++ D I PIG
Sbjct: 147 VAKNDMAH----------------ESLVNQLVNKTVTRKYTAVVHGVISHDDGTIDAPIG 190
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V S K A++ VLER ++ TLV+ +++GR HQIR+H+ ++G
Sbjct: 191 --RDKKDRQSMTVTRESSKNAVTHFHVLER--FQDFTLVECRLETGRTHQIRVHMKYIGF 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPRKTIDFN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ APLP +K
Sbjct: 281 EYIEFEAPLPEDMK 294
>gi|319650250|ref|ZP_08004396.1| pseudouridine synthase [Bacillus sp. 2_A_57_CT2]
gi|317398081|gb|EFV78773.1| pseudouridine synthase [Bacillus sp. 2_A_57_CT2]
Length = 265
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 97/310 (31%), Positives = 145/310 (46%), Gaps = 63/310 (20%)
Query: 26 NGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD---VP--YLLEVLYEDDDLIALNKP 80
N Q+ + N N L AG +L +H ++E D +P Y +EVL+EDD L+ LNKP
Sbjct: 4 NKQVVTNDAPANWTNP-LQAGDKLKFHF--FREEDLGLIPSYYDIEVLFEDDHLLVLNKP 60
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
+G+ P Q T+ N + Q S + +HRL R T+G +L A
Sbjct: 61 AGMDTHPNSPEQNNTLANAAAFHMQMQGEYRSIKH-----IHRLDRDTTGAIL-----FA 110
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGV 200
K +AG DK +L +R I + Y ALVHG + + + I +PIG R+
Sbjct: 111 KHALAGAILDK-----------KLEERTIKRTYLALVHGRISKIRGTISEPIGRDRHHPA 159
Query: 201 AKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPL 260
+ + SP G+PA++ +++E +L++ + +GR HQIR+HL+ +GHPL GD L
Sbjct: 160 RRRV---SPGGQPAVTNYELIEYFPNLKLSLIKCRLDTGRTHQIRVHLSHIGHPLAGDIL 216
Query: 261 YVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITA 320
Y GG+P F + LHA +L + HP E I A
Sbjct: 217 Y--GGKP----------AFPRQA----------------LHAVKLEIPHPFLEETIVCHA 248
Query: 321 PL---PSVLK 327
P P + K
Sbjct: 249 PFLDNPEIFK 258
>gi|450001697|ref|ZP_21825778.1| putative pseudouridylate synthase [Streptococcus mutans N29]
gi|449184277|gb|EMB86231.1| putative pseudouridylate synthase [Streptococcus mutans N29]
Length = 296
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 94/312 (30%), Positives = 156/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+G+ + +++++ P +E ++P LE++YED+D+
Sbjct: 29 EQIKAGLVWVNGKTQKAKYAVKEG--DIIHYERPQEEVLDCVAQNIP--LEIVYEDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL ++K + Y ALVHG + D+ +I+ PIG
Sbjct: 143 KNDQAHQALA----------------KELKEKKSLRQYIALVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQTVTA-KGKPAVTYFKVLERFGQ--YSLVELTLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T+E+
Sbjct: 242 AGDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTDEL 275
Query: 316 IKITAPLPSVLK 327
++ T +P + +
Sbjct: 276 MQFTTEVPVIFQ 287
>gi|312865253|ref|ZP_07725481.1| pseudouridine synthase, RluA family [Streptococcus downei F0415]
gi|311099364|gb|EFQ57580.1| pseudouridine synthase, RluA family [Streptococcus downei F0415]
Length = 298
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 95/311 (30%), Positives = 152/311 (48%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
Q I++G + V+GR + AG + + L ++ ++P LE++YED DL
Sbjct: 29 QAIKDGSVLVNGRP-KKAKYSVKAGDVISFEEPEEEVLDYQAENLP--LEIVYEDQDLAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L +R K S+++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSVGHSSGTLVNALLYRI-KDLSTING-VVRPGIVHRIDKDTSGLLMVAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A EL +K + Y A+VHG + D+ I+ PIG R
Sbjct: 144 NDQAHQALAD----------------ELKAKKSLRKYLAIVHGNLPNDRGKIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + G+PA++ VLER N +L+++ +++GR HQIR+H+A++GHPL
Sbjct: 186 SEKDRKKQAVTA-KGRPAVTHFHVLER--FGNYSLLELRLETGRTHQIRVHMAYIGHPLA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDPLY G K+ G +LHA L +HP T +V+
Sbjct: 243 GDPLY---GPRKTLKGH-----------------------GQFLHAQTLGFTHPRTGQVL 276
Query: 317 KITAPLPSVLK 327
+ + P++ +
Sbjct: 277 EFSVQPPAIFQ 287
>gi|338730392|ref|YP_004659784.1| ribosomal large subunit pseudouridine synthase D [Thermotoga
thermarum DSM 5069]
gi|335364743|gb|AEH50688.1| ribosomal large subunit pseudouridine synthase D [Thermotoga
thermarum DSM 5069]
Length = 306
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 92/270 (34%), Positives = 137/270 (50%), Gaps = 49/270 (18%)
Query: 58 EPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASH 117
EP+ P L++LYED D+I +NKP+G+ V P T++N L + K + +
Sbjct: 74 EPE-PIHLDILYEDHDIIVVNKPAGMVVHPIPAHMTGTLVNALLYHC-KDLQGIGGELR- 130
Query: 118 PVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALV 177
P VHRL + TSG+++ AK LA ++ F D RK+ K+Y ALV
Sbjct: 131 PGIVHRLDKDTSGVIVVAKNDLAHQSLSKQFKD----------------RKVFKMYFALV 174
Query: 178 HGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQ 237
G V D+ I+ + + R+P V + S +G+ +++ VL+R + TLV +
Sbjct: 175 QGCVKNDEGEIQ--LSLARHP-VHRIKMTVSETGRKSITLYKVLKR-FKDLATLVVAYPK 230
Query: 238 SGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCG 297
+GR HQIR+H+ F+GHP++GDPLY KSF+ G ER +
Sbjct: 231 TGRTHQIRVHMKFIGHPIIGDPLY----GKKSFE------------GIERQM-------- 266
Query: 298 YYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
LHA +L HP T E ++ TAPLP K
Sbjct: 267 --LHAARLGFFHPRTGEYVQFTAPLPEDFK 294
>gi|228940981|ref|ZP_04103539.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar berliner ATCC 10792]
gi|228973912|ref|ZP_04134487.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar thuringiensis str. T01001]
gi|228980501|ref|ZP_04140811.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis Bt407]
gi|384187953|ref|YP_005573849.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis serovar chinensis CT-43]
gi|410676268|ref|YP_006928639.1| pseudouridine synthase, RluA family [Bacillus thuringiensis Bt407]
gi|423385394|ref|ZP_17362650.1| RluA family pseudouridine synthase [Bacillus cereus BAG1X1-2]
gi|423528248|ref|ZP_17504693.1| RluA family pseudouridine synthase [Bacillus cereus HuB1-1]
gi|452200334|ref|YP_007480415.1| Ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis serovar thuringiensis str. IS5056]
gi|228779321|gb|EEM27578.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis Bt407]
gi|228785778|gb|EEM33782.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar thuringiensis str. T01001]
gi|228818660|gb|EEM64727.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar berliner ATCC 10792]
gi|326941662|gb|AEA17558.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis serovar chinensis CT-43]
gi|401635450|gb|EJS53205.1| RluA family pseudouridine synthase [Bacillus cereus BAG1X1-2]
gi|402451911|gb|EJV83730.1| RluA family pseudouridine synthase [Bacillus cereus HuB1-1]
gi|409175397|gb|AFV19702.1| pseudouridine synthase, RluA family [Bacillus thuringiensis Bt407]
gi|452105727|gb|AGG02667.1| Ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis serovar thuringiensis str. IS5056]
Length = 302
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 85/263 (32%), Positives = 128/263 (48%), Gaps = 49/263 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
LE+ YED D++ +NKP G+ V P T++N L + S + P VHR+
Sbjct: 81 LEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRI 138
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK +A +S V +L + +T+ Y+A+VHG++ D
Sbjct: 139 DKDTSGLLMVAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHD 182
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PIG R + + V +GK A++ VLER ++ TLV+ +++GR HQI
Sbjct: 183 KGTIDAPIG--RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQI 237
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G+PL GDP Y G K+ D G LHA
Sbjct: 238 RVHMKYIGYPLAGDPKY---GPKKTLDMN-----------------------GQALHAGI 271
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T E I+ AP+P V +
Sbjct: 272 LGFDHPRTGEYIQFEAPIPEVFE 294
>gi|145637336|ref|ZP_01792996.1| SfhB [Haemophilus influenzae PittHH]
gi|145269428|gb|EDK09371.1| SfhB [Haemophilus influenzae PittHH]
Length = 324
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 100/333 (30%), Positives = 160/333 (48%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G + V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRITNIPREKVLGGERIEIIVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + S +
Sbjct: 77 EAENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPISEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNAREDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLAHPITGEMMEWYAPLPD 302
>gi|125624328|ref|YP_001032811.1| ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. cremoris MG1363]
gi|389854689|ref|YP_006356933.1| ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. cremoris NZ9000]
gi|124493136|emb|CAL98100.1| ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. cremoris MG1363]
gi|300071111|gb|ADJ60511.1| ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. cremoris NZ9000]
Length = 301
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 89/272 (32%), Positives = 133/272 (48%), Gaps = 50/272 (18%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P LE++YED D+ +NKP G+ V P T++N + + K SS++ P
Sbjct: 74 DLP--LEIIYEDSDVAVVNKPQGMVVHPAAGHASGTLVNAIMYHI-KDLSSING-VIRPG 129
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + TSG+L+ AK A +A DKTS + Y A+VHG
Sbjct: 130 IVHRIDKDTSGLLMIAKNDKAHESLAAQLKDKTS----------------KRRYLAIVHG 173
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
+ DK I+ PIG R K V S GKPA++ +VLE V TL+ + +++G
Sbjct: 174 ELANDKGTIEAPIG--RNLKDRKKQAVVS-GGKPAVTHFEVLEGFV--GYTLIALRLETG 228
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H+ ++GHP+ GDPLY G + + P + G +
Sbjct: 229 RTHQIRVHMHYIGHPVAGDPLY----------------------GPNKTLTP---NKGQF 263
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLKTREE 331
LHA L HPT+ E+++ P + K + E
Sbjct: 264 LHAETLGFEHPTSGELMEFQVDAPDLFKEQLE 295
>gi|449890974|ref|ZP_21787660.1| putative pseudouridylate synthase [Streptococcus mutans SF12]
gi|449906014|ref|ZP_21793256.1| putative pseudouridylate synthase [Streptococcus mutans M230]
gi|449935949|ref|ZP_21803731.1| putative pseudouridylate synthase [Streptococcus mutans 2ST1]
gi|449959180|ref|ZP_21810058.1| putative pseudouridylate synthase [Streptococcus mutans 4VF1]
gi|449964867|ref|ZP_21811515.1| putative pseudouridylate synthase [Streptococcus mutans 15VF2]
gi|450010131|ref|ZP_21828505.1| putative pseudouridylate synthase [Streptococcus mutans A19]
gi|450025082|ref|ZP_21831547.1| putative pseudouridylate synthase [Streptococcus mutans U138]
gi|450077198|ref|ZP_21850269.1| putative pseudouridylate synthase [Streptococcus mutans N3209]
gi|450117153|ref|ZP_21864856.1| putative pseudouridylate synthase [Streptococcus mutans ST1]
gi|450120507|ref|ZP_21865754.1| putative pseudouridylate synthase [Streptococcus mutans ST6]
gi|450138727|ref|ZP_21872278.1| putative pseudouridylate synthase [Streptococcus mutans NLML1]
gi|450153063|ref|ZP_21876988.1| putative pseudouridylate synthase [Streptococcus mutans 21]
gi|450176849|ref|ZP_21886051.1| putative pseudouridylate synthase [Streptococcus mutans SM1]
gi|449166085|gb|EMB69044.1| putative pseudouridylate synthase [Streptococcus mutans 2ST1]
gi|449169415|gb|EMB72190.1| putative pseudouridylate synthase [Streptococcus mutans 4VF1]
gi|449171965|gb|EMB74607.1| putative pseudouridylate synthase [Streptococcus mutans 15VF2]
gi|449190361|gb|EMB91937.1| putative pseudouridylate synthase [Streptococcus mutans A19]
gi|449191272|gb|EMB92778.1| putative pseudouridylate synthase [Streptococcus mutans U138]
gi|449211388|gb|EMC11792.1| putative pseudouridylate synthase [Streptococcus mutans N3209]
gi|449226478|gb|EMC26007.1| putative pseudouridylate synthase [Streptococcus mutans ST1]
gi|449230175|gb|EMC29447.1| putative pseudouridylate synthase [Streptococcus mutans ST6]
gi|449233731|gb|EMC32789.1| putative pseudouridylate synthase [Streptococcus mutans NLML1]
gi|449239302|gb|EMC38027.1| putative pseudouridylate synthase [Streptococcus mutans 21]
gi|449244465|gb|EMC42839.1| putative pseudouridylate synthase [Streptococcus mutans SM1]
gi|449257001|gb|EMC54811.1| putative pseudouridylate synthase [Streptococcus mutans SF12]
gi|449257582|gb|EMC55227.1| putative pseudouridylate synthase [Streptococcus mutans M230]
Length = 296
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 94/312 (30%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+G+ + +++++ P +E ++P LE++YED+D+
Sbjct: 29 EQIKAGLVWVNGKTQKAKYAVKEG--DIIHYERPQEEVLDCVAQNIP--LEIVYEDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL ++K + Y ALVHG + D+ +I+ PIG
Sbjct: 143 KNDQAHQALA----------------KELKEKKSLRQYIALVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQTVTA-KGKPAVTHFKVLERFGQ--YSLVELTLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T E+
Sbjct: 242 AGDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGEL 275
Query: 316 IKITAPLPSVLK 327
++ T +P + +
Sbjct: 276 MQFTTEVPVIFQ 287
>gi|290580687|ref|YP_003485079.1| pseudouridylate synthase [Streptococcus mutans NN2025]
gi|449970009|ref|ZP_21813570.1| putative pseudouridylate synthase [Streptococcus mutans 2VS1]
gi|450031172|ref|ZP_21833581.1| putative pseudouridylate synthase [Streptococcus mutans G123]
gi|450057586|ref|ZP_21842635.1| putative pseudouridylate synthase [Streptococcus mutans NLML4]
gi|450066264|ref|ZP_21845876.1| putative pseudouridylate synthase [Streptococcus mutans NLML9]
gi|450074040|ref|ZP_21849227.1| putative pseudouridylate synthase [Streptococcus mutans M2A]
gi|450091213|ref|ZP_21855381.1| putative pseudouridylate synthase [Streptococcus mutans W6]
gi|450148489|ref|ZP_21875647.1| putative pseudouridylate synthase [Streptococcus mutans 14D]
gi|254997586|dbj|BAH88187.1| putative pseudouridylate synthase [Streptococcus mutans NN2025]
gi|449173726|gb|EMB76274.1| putative pseudouridylate synthase [Streptococcus mutans 2VS1]
gi|449191850|gb|EMB93303.1| putative pseudouridylate synthase [Streptococcus mutans G123]
gi|449205028|gb|EMC05797.1| putative pseudouridylate synthase [Streptococcus mutans NLML4]
gi|449209045|gb|EMC09589.1| putative pseudouridylate synthase [Streptococcus mutans NLML9]
gi|449209628|gb|EMC10139.1| putative pseudouridylate synthase [Streptococcus mutans M2A]
gi|449219635|gb|EMC19594.1| putative pseudouridylate synthase [Streptococcus mutans W6]
gi|449235728|gb|EMC34675.1| putative pseudouridylate synthase [Streptococcus mutans 14D]
Length = 296
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 94/312 (30%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+G+ + +++++ P +E ++P LE++YED+D+
Sbjct: 29 EQIKAGLVWVNGKTQKAKYAVKEG--DIIHYERPQEEVLDCVAQNIP--LEIVYEDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL ++K + Y ALVHG + D+ +I+ PIG
Sbjct: 143 KNDQAHQALA----------------KELKEKKSLRQYIALVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQTVTA-KGKPAVTHFKVLERFDQ--YSLVELTLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T E+
Sbjct: 242 AGDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGEL 275
Query: 316 IKITAPLPSVLK 327
++ T +P + +
Sbjct: 276 MQFTTEVPVIFQ 287
>gi|317131689|ref|YP_004091003.1| RluA family pseudouridine synthase [Ethanoligenens harbinense
YUAN-3]
gi|315469668|gb|ADU26272.1| pseudouridine synthase, RluA family [Ethanoligenens harbinense
YUAN-3]
Length = 302
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 92/314 (29%), Positives = 152/314 (48%), Gaps = 56/314 (17%)
Query: 19 GWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDD 73
G + ++ G +T++G+ + + AG E+V L K D+P +EV+YEDDD
Sbjct: 32 GLQKLLECGLVTLNGKPAGKHDR-MRAGDEIVVEFPDPVPLEAKAQDIP--IEVVYEDDD 88
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
L+ +NKP G+ V PG T++N L + S + P VHR+ + TSG+L+
Sbjct: 89 LLVVNKPQGMVVHPGAGNPDGTLVNALLFHCGDSLSGIGG-VLRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK A +A + I A S + E Y A+V G++ ED + P+G
Sbjct: 148 VAKNDRAHQSLA-------AQIKAHSFLRE---------YEAVVCGVIKEDSGTVDAPVG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P K + V + + A++ VL R + T +++ +++GR HQIR+H+A++GH
Sbjct: 192 --RHPTNRKRMAVTQKNSRHAVTHYTVLRRYT--HYTHLRLRLETGRTHQIRLHMAYIGH 247
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
P+ GDP+ Y +P+ + G C LHA L HP+T
Sbjct: 248 PVAGDPV------------------------YGKPLCGLRGQC---LHARTLGFVHPSTG 280
Query: 314 EVIKITAPLPSVLK 327
++ T+ LP+ +
Sbjct: 281 RYMEFTSELPAYFR 294
>gi|260912661|ref|ZP_05919147.1| ribosomal large subunit pseudouridine synthase D [Pasteurella
dagmatis ATCC 43325]
gi|260633039|gb|EEX51204.1| ribosomal large subunit pseudouridine synthase D [Pasteurella
dagmatis ATCC 43325]
Length = 324
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 102/331 (30%), Positives = 164/331 (49%), Gaps = 58/331 (17%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I++ + V+G VV P + G ++ + +
Sbjct: 22 TLAELFPDYSRSR--LKTW---IEDELVLVNGEVVILPRAKVYGGEQIEITVEIEEDSRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
++P L ++YEDDD++ +NKP V PG TVLN L + + ++
Sbjct: 77 MPENLP--LNIVYEDDDILVINKPKDFVVHPGAGNPTGTVLNALLYHYPQ-----IAEVP 129
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 130 RAGIVHRLDKDTTGLMVIAKTIPAQTKL----------------VRDLQKRKITREYEAI 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + ++ QP+ R+P + V P GKPA++ ++ER RN T +++ +
Sbjct: 174 ASGIMTKGG-MVDQPMA--RHPTKRTQMAV-HPMGKPAITHYRIMER--FRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVP 293
++GR HQIR+H+A + HPLLGD Y GG+ PK+ EF A ++R
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEEF----MAVLRDFKRQA---- 277
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L HP T E+++ APLP
Sbjct: 278 ------LHAIMLRLKHPITGEMMEWYAPLPE 302
>gi|228909719|ref|ZP_04073542.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis IBL 200]
gi|228850008|gb|EEM94839.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis IBL 200]
Length = 302
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 85/263 (32%), Positives = 128/263 (48%), Gaps = 49/263 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
LE+ YED D++ +NKP G+ V P T++N L + S + P VHR+
Sbjct: 81 LEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRI 138
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK +A +S V +L + +T+ Y+A+VHG++ D
Sbjct: 139 DKDTSGLLMVAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHD 182
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PIG R + + V +GK A++ VLER ++ TLV+ +++GR HQI
Sbjct: 183 KGTIDAPIG--RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQI 237
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G+PL GDP Y G K+ D G LHA
Sbjct: 238 RVHMKYIGYPLAGDPKY---GPKKTLDMN-----------------------GQALHAGI 271
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T E I+ AP+P V +
Sbjct: 272 LGFDHPRTGEYIQFEAPIPEVFE 294
>gi|450050032|ref|ZP_21840036.1| putative pseudouridylate synthase [Streptococcus mutans NFSM1]
gi|450183124|ref|ZP_21888553.1| putative pseudouridylate synthase [Streptococcus mutans 24]
gi|449203059|gb|EMC03937.1| putative pseudouridylate synthase [Streptococcus mutans NFSM1]
gi|449243734|gb|EMC42142.1| putative pseudouridylate synthase [Streptococcus mutans 24]
Length = 296
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 94/312 (30%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+G+ + +++++ P +E ++P LE++YED+D+
Sbjct: 29 EQIKAGLVWVNGKTQKAKYAVKEG--DIIHYERPQEEVLDCVAQNIP--LEIVYEDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL ++K + Y ALVHG + D+ +I+ PIG
Sbjct: 143 KNDQAHQALA----------------KELKEKKSLRQYIALVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQTVTA-KGKPAVTHFKVLERFGQ--YSLVELTLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T E+
Sbjct: 242 AGDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGEL 275
Query: 316 IKITAPLPSVLK 327
++ T +P + +
Sbjct: 276 MQFTTEVPVIFQ 287
>gi|421227086|ref|ZP_15683795.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2072047]
gi|395596325|gb|EJG56544.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2072047]
Length = 295
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 92/311 (29%), Positives = 153/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDLP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GH +
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHSVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T + +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGKTL 276
Query: 317 KITAPLPSVLK 327
+ A +P + K
Sbjct: 277 EFKADIPEIFK 287
>gi|419451268|ref|ZP_13991254.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae EU-NP02]
gi|379622973|gb|EHZ87607.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae EU-NP02]
Length = 295
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 92/311 (29%), Positives = 153/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDLP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GH +
Sbjct: 186 SEKDRKQQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHSVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T + +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGKTL 276
Query: 317 KITAPLPSVLK 327
+ A +P + K
Sbjct: 277 EFKADIPEIFK 287
>gi|389693906|ref|ZP_10182000.1| pseudouridine synthase, RluA family [Microvirga sp. WSM3557]
gi|388587292|gb|EIM27585.1| pseudouridine synthase, RluA family [Microvirga sp. WSM3557]
Length = 332
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 95/311 (30%), Positives = 143/311 (45%), Gaps = 43/311 (13%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP----YLLEVLYEDDDLIALNK 79
I++GQ TVDG V DPN + G+ + +P P P L ++YEDDD+I ++K
Sbjct: 40 IRDGQATVDGVPVLDPNRKVGGGARIAL-TVPAPVPAEPAGEAMALAIVYEDDDVIVIDK 98
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
P+GL V P T++N L + S + P VHRL + TSG+L+ AK L
Sbjct: 99 PAGLVVHPAAGHDSGTLVNALIAHCGESLSGIGG-VKRPGIVHRLDKDTSGLLVVAKNDL 157
Query: 140 AKTCIAGYFADKTSVIDADSTVMEL----SQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
A +A FAD + + + +R+ + AL + +K+++
Sbjct: 158 AHQGLAAQFADHGRTGPLERAYLAILWGVPERRRGTVEAALARSTHNREKIVV------- 210
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLER--DVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
V G+ A++ +VLE Q +LVQ E+++GR HQIR+H+A LGH
Sbjct: 211 ----------VGEDRGRYAITHYEVLEGLPPAQPIASLVQCELETGRTHQIRVHMAHLGH 260
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY-YLHAYQLFLSHPTT 312
PLLGD Y +G + K+ P G LHA L HP +
Sbjct: 261 PLLGDATYGSGFKTKA-------------NRLSEPQKEALTALGRQALHAAILGFEHPRS 307
Query: 313 NEVIKITAPLP 323
E ++ +PLP
Sbjct: 308 GEFLRFESPLP 318
>gi|430750496|ref|YP_007213404.1| RluA family pseudouridine synthase [Thermobacillus composti KWC4]
gi|430734461|gb|AGA58406.1| pseudouridine synthase, RluA family [Thermobacillus composti KWC4]
Length = 317
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 151/311 (48%), Gaps = 56/311 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I+ G +TV+G V PN L G + ++ D+ P L V+YED D
Sbjct: 48 VQEW---IRTGAVTVNGATVK-PNYRLEPGDVVAVTPPEPEDADIRPEPIPLHVVYEDGD 103
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
+I ++KP G+ V P T++N L + S ++ + P VHR+ + TSG+L+
Sbjct: 104 VIVVDKPRGMVVHPAHGHASGTLVNAL-LHHCRDLSGINGRLR-PGIVHRIDKDTSGLLM 161
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK LA ++ +L + + Y ALVHG + D+ I PIG
Sbjct: 162 AAKNDLAHVSLS----------------EQLKAHTVERAYIALVHGNLPHDQGTIDAPIG 205
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R P K V + GKP+++ VLER + TLV++++++GR HQIR+H+ ++GH
Sbjct: 206 --RDPHDRKKFAVTA-GGKPSVTHFAVLER--FGDYTLVRLQLETGRTHQIRVHMKYIGH 260
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP+Y G+ K+ P++ G LHA L HP T
Sbjct: 261 PLAGDPVY---GRAKTL-----------------PLD------GQALHAVVLGFVHPRTG 294
Query: 314 EVIKITAPLPS 324
E ++ +P+P
Sbjct: 295 EALRFESPIPD 305
>gi|212639635|ref|YP_002316155.1| Pseudouridylate synthase, 23S RNA-specific [Anoxybacillus
flavithermus WK1]
gi|212561115|gb|ACJ34170.1| Pseudouridylate synthase, 23S RNA-specific [Anoxybacillus
flavithermus WK1]
Length = 303
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 101/311 (32%), Positives = 149/311 (47%), Gaps = 58/311 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-DV---PYLLEVLYEDD 72
+Q WL+ G + V+G+ V PN E+V +P EP DV P L++ YED
Sbjct: 33 VQQWLKE---GHVLVNGKAVK-PNYKCHVDDEVVI-SIPSPEPLDVAPEPIPLDIYYEDA 87
Query: 73 DLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGIL 132
D++ +NKP G+ V P T++N L A Q S + P VHR+ + TSG+L
Sbjct: 88 DVLVVNKPRGMVVHPAPGHMHGTLVNAL--LAHCQDLSGINGVLRPGIVHRIDKDTSGLL 145
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPI 192
+ AK LA +S V +L + +T+ Y A+VHG++ D I PI
Sbjct: 146 MVAKNDLAH----------------ESLVNQLVNKTVTRKYVAIVHGVIPHDYGTIDAPI 189
Query: 193 GIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
G R P + + V +GK A++ VLER + T V+ ++++GR HQIR+H+ ++G
Sbjct: 190 G--RDPRDRQSMAVVE-NGKEAVTHFRVLER--FEHYTFVECQLETGRTHQIRVHMKYIG 244
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
+PL GDP Y P +P D G LHA L HP T
Sbjct: 245 YPLAGDPKY-------------------------GPRKTLPID-GQALHAGVLGFQHPRT 278
Query: 313 NEVIKITAPLP 323
E ++ AP+P
Sbjct: 279 GEYLQFEAPIP 289
>gi|402815875|ref|ZP_10865467.1| pseudouridine synthase [Paenibacillus alvei DSM 29]
gi|402506915|gb|EJW17438.1| pseudouridine synthase [Paenibacillus alvei DSM 29]
Length = 248
Score = 122 bits (306), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 85/269 (31%), Positives = 131/269 (48%), Gaps = 49/269 (18%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P L+V YED D+I +NKP G+ V P TV+N L + S ++ + P
Sbjct: 21 DIP--LDVYYEDKDVIVINKPRGMVVHPAPGHTSGTVVNALMHHC-RDLSGINGELR-PG 76
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + TSG+L+ AK A +A +L + + + Y ALVHG
Sbjct: 77 IVHRIDKDTSGLLMAAKHDRAHVHLAE----------------QLKEHSVMRKYVALVHG 120
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
V D+ + PIG R K V + K A++ VLER + TLV++++++G
Sbjct: 121 NVPHDQGTVDAPIG--RDTHDRKMYTVTENNSKHAVTHFKVLER--FGDATLVELQLETG 176
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H+ F+GHPL+GDP+Y G + + + G
Sbjct: 177 RTHQIRVHMKFIGHPLVGDPMYSRGTRGLTMN-------------------------GQA 211
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLKT 328
LHA L HPT+ E ++ AP+P +++
Sbjct: 212 LHAMTLGFVHPTSGETLEFHAPIPEDMES 240
>gi|146296933|ref|YP_001180704.1| RluA family pseudouridine synthase [Caldicellulosiruptor
saccharolyticus DSM 8903]
gi|145410509|gb|ABP67513.1| pseudouridine synthase, RluA family [Caldicellulosiruptor
saccharolyticus DSM 8903]
Length = 300
Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 86/259 (33%), Positives = 135/259 (52%), Gaps = 47/259 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
+EV+YED+ L +NKP G+ V PG + T++N L + S + SS++ P VHRL
Sbjct: 73 IEVVYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFSGRLSSING-VIRPGIVHRL 131
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AKT A ++ L +I +IY A+ G++ ED
Sbjct: 132 DKDTSGLLIVAKTDEAHIKLSE----------------ALKSHQIKRIYYAICEGVLKED 175
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+I PIG R+P V + P+GK A++ +VLER T +++ +++GR HQI
Sbjct: 176 SGVINAPIG--RHP-VNRLKMAVVPNGKEAVTYFEVLER--FDKYTFIKLRLKTGRTHQI 230
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H++++G+PLLGD Y G+ K +EF G G LHA +
Sbjct: 231 RVHMSYIGYPLLGDSSY---GRAK---NEF-------------------GVQGQVLHAGE 265
Query: 305 LFLSHPTTNEVIKITAPLP 323
+ HP T++V+ +A LP
Sbjct: 266 IEFVHPITSKVLHFSADLP 284
>gi|168494358|ref|ZP_02718501.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D) (rRNA pseudouridylate synthase D)
[Streptococcus pneumoniae CDC3059-06]
gi|221231700|ref|YP_002510852.1| RNA pseudouridylate synthase [Streptococcus pneumoniae ATCC 700669]
gi|225854435|ref|YP_002735947.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D) (rRNA pseudouridylate synthase D)
[Streptococcus pneumoniae JJA]
gi|415698132|ref|ZP_11457043.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 459-5]
gi|415749329|ref|ZP_11477273.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae SV35]
gi|415752013|ref|ZP_11479124.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae SV36]
gi|418073711|ref|ZP_12710969.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA11184]
gi|418076032|ref|ZP_12713271.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47502]
gi|418078419|ref|ZP_12715642.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 4027-06]
gi|418080384|ref|ZP_12717596.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 6735-05]
gi|418089321|ref|ZP_12726478.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA43265]
gi|418098298|ref|ZP_12735397.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 6901-05]
gi|418104985|ref|ZP_12742045.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA44500]
gi|418114425|ref|ZP_12751415.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 5787-06]
gi|418116665|ref|ZP_12753637.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 6963-05]
gi|418123199|ref|ZP_12760133.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA44378]
gi|418127786|ref|ZP_12764682.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae NP170]
gi|418134989|ref|ZP_12771846.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA11426]
gi|418136960|ref|ZP_12773802.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA11663]
gi|418173297|ref|ZP_12809911.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA41277]
gi|418177958|ref|ZP_12814542.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA41565]
gi|418216376|ref|ZP_12843100.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae Netherlands15B-37]
gi|419431322|ref|ZP_13971468.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae EU-NP05]
gi|419433612|ref|ZP_13973730.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA40183]
gi|419440145|ref|ZP_13980197.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA40410]
gi|419464508|ref|ZP_14004401.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA04175]
gi|419468795|ref|ZP_14008666.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA06083]
gi|419472990|ref|ZP_14012841.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA13430]
gi|419497109|ref|ZP_14036820.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47522]
gi|419534390|ref|ZP_14073893.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17457]
gi|421236073|ref|ZP_15692674.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2071004]
gi|421280915|ref|ZP_15731713.1| pseudouridine synthase [Streptococcus pneumoniae GA04672]
gi|421309365|ref|ZP_15759992.1| pseudouridine synthase [Streptococcus pneumoniae GA62681]
gi|183575636|gb|EDT96164.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D) (rRNA pseudouridylate synthase D)
[Streptococcus pneumoniae CDC3059-06]
gi|220674160|emb|CAR68683.1| putative RNA pseudouridylate synthase [Streptococcus pneumoniae
ATCC 700669]
gi|225722558|gb|ACO18411.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D) (rRNA pseudouridylate synthase D)
[Streptococcus pneumoniae JJA]
gi|353747610|gb|EHD28266.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 4027-06]
gi|353749821|gb|EHD30464.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47502]
gi|353750558|gb|EHD31196.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA11184]
gi|353752924|gb|EHD33548.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 6735-05]
gi|353762007|gb|EHD42570.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA43265]
gi|353769658|gb|EHD50174.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 6901-05]
gi|353779419|gb|EHD59885.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA44500]
gi|353787167|gb|EHD67574.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 5787-06]
gi|353789887|gb|EHD70276.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 6963-05]
gi|353797286|gb|EHD77621.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA44378]
gi|353800247|gb|EHD80561.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae NP170]
gi|353839996|gb|EHE20070.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA41277]
gi|353844732|gb|EHE24775.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA41565]
gi|353873427|gb|EHE53288.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae Netherlands15B-37]
gi|353901587|gb|EHE77119.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA11663]
gi|353902226|gb|EHE77756.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA11426]
gi|379539727|gb|EHZ04906.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA04175]
gi|379546898|gb|EHZ12036.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA06083]
gi|379552497|gb|EHZ17586.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA13430]
gi|379565124|gb|EHZ30117.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA17457]
gi|379576613|gb|EHZ41537.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA40183]
gi|379579912|gb|EHZ44808.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA40410]
gi|379601623|gb|EHZ66396.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae GA47522]
gi|379632566|gb|EHZ97142.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae EU-NP05]
gi|381309709|gb|EIC50542.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae SV36]
gi|381317137|gb|EIC57867.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 459-5]
gi|381317623|gb|EIC58348.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae SV35]
gi|395604992|gb|EJG65124.1| pseudouridine synthase, RluA family protein [Streptococcus
pneumoniae 2071004]
gi|395882076|gb|EJG93123.1| pseudouridine synthase [Streptococcus pneumoniae GA04672]
gi|395910786|gb|EJH21655.1| pseudouridine synthase [Streptococcus pneumoniae GA62681]
Length = 295
Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 92/311 (29%), Positives = 153/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDLP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHLVLAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GH +
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHSVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T + +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGKTL 276
Query: 317 KITAPLPSVLK 327
+ A +P + K
Sbjct: 277 EFKADIPEIFK 287
>gi|417841450|ref|ZP_12487554.1| Ribosomal large subunit pseudouridine synthase D [Haemophilus
haemolyticus M19501]
gi|341949488|gb|EGT76092.1| Ribosomal large subunit pseudouridine synthase D [Haemophilus
haemolyticus M19501]
Length = 324
Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 99/333 (29%), Positives = 162/333 (48%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G ++ V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRITNIPREKVLGGEKIEITVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + + +
Sbjct: 77 EPENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIAEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ + +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNANEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLAHPITGEMMEWYAPLPD 302
>gi|169350183|ref|ZP_02867121.1| hypothetical protein CLOSPI_00927 [Clostridium spiroforme DSM 1552]
gi|169292966|gb|EDS75099.1| pseudouridine synthase, RluA family [Clostridium spiroforme DSM
1552]
Length = 306
Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 83/278 (29%), Positives = 137/278 (49%), Gaps = 54/278 (19%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L + D+P L V+YED D+I ++KP+G+ V P T++N L + K S ++
Sbjct: 70 LEIEAEDIP--LNVVYEDKDVIVIDKPTGMIVHPSPGITSGTLVNALLFHC-KDLSGING 126
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
+ P VHR+ + TSG+L+ AK +A ++ D + +T+ Y
Sbjct: 127 -VNRPGIVHRIDKETSGLLMVAKNDIAHRFLSEQLKDHS----------------VTRRY 169
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
ALVHG++ + I PIG R P + + V + K A++ VL+R +N +L++
Sbjct: 170 VALVHGLIPHVQGKIDAPIG--RNPNDRQSMCVTKNNSKNAITNFTVLKR--YKNMSLIE 225
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+++GR HQIR+H++++G+P+ GDP Y GY +
Sbjct: 226 CRLETGRTHQIRVHMSYIGYPVYGDPKY----------------------GYRK------ 257
Query: 294 GDC--GYYLHAYQLFLSHPTTNEVIKITAPLPSVLKTR 329
DC G +LHA +L HPTT E ++ + LP K +
Sbjct: 258 DDCSHGQFLHAKKLGFIHPTTKEYMEFESELPDYFKAK 295
>gi|54310131|ref|YP_131151.1| 23S rRNA pseudouridine synthase D [Photobacterium profundum SS9]
gi|90414902|ref|ZP_01222867.1| putative ribosomal large subunit pseudouridine synthase D
[Photobacterium profundum 3TCK]
gi|46914570|emb|CAG21349.1| putative ribosomal large subunit pseudouridine synthase D
[Photobacterium profundum SS9]
gi|90324016|gb|EAS40610.1| putative ribosomal large subunit pseudouridine synthase D
[Photobacterium profundum 3TCK]
Length = 324
Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 93/306 (30%), Positives = 152/306 (49%), Gaps = 47/306 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYEDDDLIALN 78
I ++V+G +VN P + + G EL + + W D+P L+++YED+ ++ +N
Sbjct: 40 ILKNMVSVNGEIVNKPRLKMMGGEELFIKAEIEDEVRWVAQDIP--LDIVYEDEHILVIN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP V PG RTVLN L + +L+ + VHRL + T+G+++ AKT
Sbjct: 98 KPRDFVVHPGAGTPDRTVLNALLF----HCPALAEVPRAGI-VHRLDKDTTGLMVVAKTI 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A+T + V L +RKIT+ Y A+ G + + ++PIG R+
Sbjct: 153 QAQTRL----------------VRALQKRKITREYEAIAMGKMTGGGTV-EKPIG--RH- 192
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ GKPA++ V E R T + + +++GR HQIR+H++++ HPL+GD
Sbjct: 193 ATKRICMAVHELGKPAITHYRVAEH--FREHTRLVLRLETGRTHQIRVHMSYMSHPLVGD 250
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
+Y GG+P+ +D ++R LHA L LSHP T E+++
Sbjct: 251 AIY--GGRPRP-PRHASDELILALRSFDRQA----------LHARMLRLSHPITGELMEW 297
Query: 319 TAPLPS 324
APLP+
Sbjct: 298 RAPLPN 303
>gi|358067453|ref|ZP_09153932.1| hypothetical protein HMPREF9333_00813 [Johnsonella ignava ATCC
51276]
gi|356694369|gb|EHI56031.1| hypothetical protein HMPREF9333_00813 [Johnsonella ignava ATCC
51276]
Length = 299
Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 83/264 (31%), Positives = 132/264 (50%), Gaps = 51/264 (19%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P L++ YED+D++ +NKP + V P T++N L + S ++S P
Sbjct: 75 DIP--LDIYYEDEDMLVVNKPKDMVVHPAAGRYTSTLVNALLYHCGNNLSDMNS-ILRPG 131
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + T+G+LL KT A I+ +L I ++Y+A+V G
Sbjct: 132 IVHRIDKDTTGLLLICKTNTAYVSISA----------------QLRAHSIKRLYKAIVCG 175
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
IV+ED+ II +PIG R+ K + V GK A++ VL+R +N T ++ ++++G
Sbjct: 176 IVNEDEGIIDKPIG--RHNIDRKKMAVVD-DGKEAITHYRVLKR--FKNHTYIECQLKTG 230
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H+A +GHPLLGD + Y PV + G
Sbjct: 231 RTHQIRVHMASIGHPLLGDTV------------------------YGHPVKKLQGQT--- 263
Query: 300 LHAYQLFLSHPTTNEVIKITAPLP 323
LHA ++ HP+ + ++ APLP
Sbjct: 264 LHASRIGFKHPSFRQYMEFNAPLP 287
>gi|254283218|ref|ZP_04958186.1| ribosomal large subunit pseudouridine synthase D [gamma
proteobacterium NOR51-B]
gi|219679421|gb|EED35770.1| ribosomal large subunit pseudouridine synthase D [gamma
proteobacterium NOR51-B]
Length = 319
Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 104/320 (32%), Positives = 150/320 (46%), Gaps = 59/320 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPN-IILSAGSELVYH---RLPWKEPDVPYLLEVLYEDD 72
L+ W IQ G++TVDG V+ + + L EL+ + W +P L++ YEDD
Sbjct: 36 LKTW---IQEGKLTVDGVVLRPKDKVALDNQLELIAEAEAEVAWSGESLP--LDICYEDD 90
Query: 73 DLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGIL 132
D+I +NKP+GL V P T++N L A + L Q + VHRL + TSG++
Sbjct: 91 DVIVVNKPAGLVVHPAAGHPTGTLVNALLAHAPE----LQQQPRGGI-VHRLDKDTSGVM 145
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPI 192
AK+ A S V +LS R +T+ Y AL G + I QPI
Sbjct: 146 FVAKSHRAHR----------------SLVTQLSARSVTREYAALCSGQLVAGGTI-DQPI 188
Query: 193 GIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
G R+P + V S GKPA++ V R + T +QV +++GR HQIR+H+A+
Sbjct: 189 G--RHPTARTKMAVVS-DGKPAITHFRVANR--FEHFTQLQVNLETGRTHQIRVHMAWCR 243
Query: 253 HPLLGDPLY-----VAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
HPL+GDP+Y + G S AD ++R LHA L
Sbjct: 244 HPLVGDPVYGGRLRIPAGISDRLKSALAD--------FQRQA----------LHARSLGF 285
Query: 308 SHPTTNEVIKITAPLPSVLK 327
HP T E ++ A LP +
Sbjct: 286 DHPATGERMQFDANLPDDFR 305
>gi|225856592|ref|YP_002738103.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D) (rRNA pseudouridylate synthase D)
[Streptococcus pneumoniae P1031]
gi|410476372|ref|YP_006743131.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae gamPNI0373]
gi|444388734|ref|ZP_21186708.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PCS125219]
gi|444389940|ref|ZP_21187855.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PCS70012]
gi|444393508|ref|ZP_21191153.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PCS81218]
gi|444395825|ref|ZP_21193364.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0002]
gi|444397385|ref|ZP_21194868.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0006]
gi|444399112|ref|ZP_21196584.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0007]
gi|444403348|ref|ZP_21200450.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0008]
gi|444405523|ref|ZP_21202399.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0009]
gi|444408601|ref|ZP_21205234.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0010]
gi|444409603|ref|ZP_21206191.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0076]
gi|444411719|ref|ZP_21208047.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0153]
gi|444415857|ref|ZP_21212078.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0199]
gi|444418513|ref|ZP_21214489.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0360]
gi|444420512|ref|ZP_21216291.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0427]
gi|444422565|ref|ZP_21218216.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0446]
gi|225724891|gb|ACO20743.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D) (rRNA pseudouridylate synthase D)
[Streptococcus pneumoniae P1031]
gi|406369317|gb|AFS43007.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae gamPNI0373]
gi|444248380|gb|ELU54889.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PCS125219]
gi|444255826|gb|ELU62166.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0002]
gi|444256403|gb|ELU62741.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PCS70012]
gi|444259284|gb|ELU65599.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PCS81218]
gi|444260042|gb|ELU66350.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0006]
gi|444264632|gb|ELU70695.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0008]
gi|444269298|gb|ELU75109.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0007]
gi|444269428|gb|ELU75235.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0010]
gi|444273134|gb|ELU78813.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0009]
gi|444275616|gb|ELU81238.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0153]
gi|444278844|gb|ELU84268.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0199]
gi|444279137|gb|ELU84547.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0076]
gi|444281303|gb|ELU86627.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0360]
gi|444284479|gb|ELU89617.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0427]
gi|444288071|gb|ELU92973.1| pseudouridine synthase, RluA family [Streptococcus pneumoniae
PNI0446]
Length = 295
Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 92/311 (29%), Positives = 153/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDLP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++ HP+
Sbjct: 186 SEKDRKKQAVIA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIDHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T + +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGKTL 276
Query: 317 KITAPLPSVLK 327
+ A +P + K
Sbjct: 277 EFKADIPEIFK 287
>gi|145641509|ref|ZP_01797087.1| SfhB [Haemophilus influenzae R3021]
gi|145273800|gb|EDK13668.1| SfhB [Haemophilus influenzae 22.4-21]
Length = 324
Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 100/333 (30%), Positives = 160/333 (48%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G + V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRITNIPREKVLGGERIEIIVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + S +
Sbjct: 77 EAENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPISEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPIGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLAHPITGEMMEWYAPLPD 302
>gi|429205232|ref|ZP_19196509.1| ribosomal large subunit pseudouridine synthase [Lactobacillus
saerimneri 30a]
gi|428146304|gb|EKW98543.1| ribosomal large subunit pseudouridine synthase [Lactobacillus
saerimneri 30a]
Length = 301
Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 90/299 (30%), Positives = 143/299 (47%), Gaps = 54/299 (18%)
Query: 26 NGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQV 85
NGQ+T V +++ E+ L + ++P L++ YED+D+I +NKP G+ V
Sbjct: 41 NGQVTKPKYKVEPGDVVTFDEPEI--QTLEVEPENIP--LDIYYEDEDVIVVNKPQGMVV 96
Query: 86 LPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIA 145
P T++N L + + S + P VHR+ + TSG+L+ AK A +A
Sbjct: 97 HPAPGHPDHTLVNALLYHSP---LSTINGTYRPGIVHRIDKDTSGLLMVAKNDQAHRSLA 153
Query: 146 GYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLY 205
+KT++ + Y ALVHG + DK I PIG + + +
Sbjct: 154 HQLKEKTNI----------------REYIALVHGRIKPDKGTINAPIGRSKKDRKKQAII 197
Query: 206 VASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGG 265
G+PA++ +VL+R ++ TLV+ +++GR HQIR+H+ ++ HPL GDPLY
Sbjct: 198 A---EGRPAVTHFEVLKR--YQHYTLVKCILETGRTHQIRVHMKYIDHPLAGDPLY---- 248
Query: 266 QPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
P +PG G +LHA +L HP T E++ APLP+
Sbjct: 249 ---------------------GPRKTLPG-AGQFLHAQKLGFKHPRTGELLTFEAPLPT 285
>gi|239631456|ref|ZP_04674487.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
paracasei subsp. paracasei 8700:2]
gi|417980747|ref|ZP_12621427.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei 12A]
gi|417984062|ref|ZP_12624690.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei 21/1]
gi|239525921|gb|EEQ64922.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
paracasei subsp. paracasei 8700:2]
gi|410525070|gb|EKP99977.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei 12A]
gi|410526714|gb|EKQ01596.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei 21/1]
Length = 306
Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 101/350 (28%), Positives = 168/350 (48%), Gaps = 64/350 (18%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--- 59
+I + T H S +Q WLQ +G +TV+G+ N +++G +++ +P +P
Sbjct: 17 VITAHETTHTRSQ-VQKWLQ---DGLVTVNGQPTK-ANYKVASG-DVIAISIPEAKPLEA 70
Query: 60 -DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
P L+++YEDD +I ++KP G+ V P T++N L + + P
Sbjct: 71 IPEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLPGIN---GVIRP 127
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHR+ + TSG+L+ AKT+ A+ ++ KTS+ + Y ALVH
Sbjct: 128 GIVHRIDKDTSGLLMVAKTEKAQLSLSAQLKAKTSI----------------REYLALVH 171
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G ED+ I P+G R P K V + G+ A++ VLER + T ++ +++
Sbjct: 172 GTFKEDEGTIDAPLG--RDPRDRKRQAVVA-DGRHAVTHFQVLER--FEHYTFIKCILET 226
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+A++ HP+ GDPLY P +PG+ G
Sbjct: 227 GRTHQIRVHMAYIHHPVAGDPLY-------------------------GPKRTLPGE-GQ 260
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKTREEGREVDKSVGSERIRGIQ 348
+LHA +L HPTT++++ P+P + E D G ++ R ++
Sbjct: 261 FLHAAKLGFVHPTTSQLLVFETPVPPIF----EKTLADLRAGIDKTRNVR 306
>gi|450161554|ref|ZP_21880555.1| putative pseudouridylate synthase [Streptococcus mutans 66-2A]
gi|449238509|gb|EMC37270.1| putative pseudouridylate synthase [Streptococcus mutans 66-2A]
Length = 296
Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 96/311 (30%), Positives = 153/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ G + V+G++ + G + Y R L ++P LE++YED+D+
Sbjct: 29 EQIKAGLVWVNGKM-QKAKYAVKEGDIIHYERPQEKVLDCVAQNIP--LEIVYEDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 86 INKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A EL ++K + Y ALVHG + D+ +I+ PIG R
Sbjct: 144 NDQAHQALA----------------KELKEKKSLRQYIALVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQTVTA-KGKPAVTHFKVLERFGQ--YSLVELTLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDPLY P + G G +LHA L +HP T E++
Sbjct: 243 GDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGELM 276
Query: 317 KITAPLPSVLK 327
+ T +P + +
Sbjct: 277 QFTTEVPVIFQ 287
>gi|89895611|ref|YP_519098.1| hypothetical protein DSY2865 [Desulfitobacterium hafniense Y51]
gi|89335059|dbj|BAE84654.1| hypothetical protein [Desulfitobacterium hafniense Y51]
Length = 300
Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 101/331 (30%), Positives = 156/331 (47%), Gaps = 59/331 (17%)
Query: 12 KNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLE 66
K+ + +QG I+ G I V+G N + A ++ L + ++P LE
Sbjct: 21 KSRSFIQGL---IEEGHILVNG-AARKANYKVRAMDQITVVIPPPRELKVEAENIP--LE 74
Query: 67 VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGR 126
VLYED+D++ +NKP G+ V P +T++N L + S + P VHR+ +
Sbjct: 75 VLYEDEDVLVVNKPQGMVVHPAPGAWTKTMVNALLYHCRNLSGI--NGVLRPGIVHRIDK 132
Query: 127 GTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKV 186
TSG+L+ AK LA +A ++ + + Y A+VHG+V E
Sbjct: 133 DTSGLLVVAKNDLAHQGLAE----------------QIKAHSMARRYLAIVHGVVFEPSG 176
Query: 187 IIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRI 246
+ P+G R P K + V + K A++ +VLER R+ TL++ +++GR HQIR+
Sbjct: 177 TVDAPVG--RDPADRKKMAVVFQNAKEAVTHYEVLER--FRDFTLLEARLETGRTHQIRV 232
Query: 247 HLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLF 306
H+A+L HP+LGDPLY P+ NP G G LHA L
Sbjct: 233 HMAYLKHPVLGDPLY----GPRK--------------------NPF-GLQGQMLHAQLLG 267
Query: 307 LSHPTTNEVIKITAPLPSVL-KTREEGREVD 336
HP + E ++ +AP + K EE R D
Sbjct: 268 FQHPRSGEYMEFSAPASGMFQKVLEEIRRDD 298
>gi|449932487|ref|ZP_21802865.1| putative pseudouridylate synthase [Streptococcus mutans 3SN1]
gi|449161288|gb|EMB64489.1| putative pseudouridylate synthase [Streptococcus mutans 3SN1]
Length = 296
Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 93/312 (29%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+G+ + +++++ P +E ++P LE++YED+D+
Sbjct: 29 EQIKAGLVLVNGKTQKAKYAVKEG--DIIHYERPQEEVLDCVAQNIP--LEIVYEDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL ++K + Y ALVHG + D+ +I+ PIG
Sbjct: 143 KNDQAHQALA----------------KELKEKKSLRQYIALVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + G+PA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQTVTA-KGRPAVTHFKVLERFGQ--YSLVELTLETGRTHQIRVHMAYIGHPI 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T E+
Sbjct: 242 AGDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGEL 275
Query: 316 IKITAPLPSVLK 327
++ T +P + +
Sbjct: 276 MQFTTEVPVIFQ 287
>gi|223934286|ref|ZP_03626210.1| pseudouridine synthase, RluA family [Streptococcus suis 89/1591]
gi|253751575|ref|YP_003024716.1| RNA pseudouridylate synthase [Streptococcus suis SC84]
gi|253753476|ref|YP_003026617.1| RNA pseudouridylate synthase [Streptococcus suis P1/7]
gi|253755698|ref|YP_003028838.1| RNA pseudouridylate synthase [Streptococcus suis BM407]
gi|330832720|ref|YP_004401545.1| RluA family pseudouridine synthase [Streptococcus suis ST3]
gi|386577763|ref|YP_006074169.1| hypothetical protein [Streptococcus suis GZ1]
gi|386579818|ref|YP_006076223.1| RluA family pseudouridine synthase [Streptococcus suis JS14]
gi|386581762|ref|YP_006078166.1| RluA family pseudouridine synthase [Streptococcus suis SS12]
gi|386583987|ref|YP_006080390.1| RluA family pseudouridine synthase [Streptococcus suis D9]
gi|386587998|ref|YP_006084399.1| RluA family pseudouridine synthase [Streptococcus suis A7]
gi|403061401|ref|YP_006649617.1| RluA family pseudouridine synthase [Streptococcus suis S735]
gi|31364860|gb|AAP49462.1| YlyB [Streptococcus suis]
gi|223897042|gb|EEF63479.1| pseudouridine synthase, RluA family [Streptococcus suis 89/1591]
gi|251815864|emb|CAZ51475.1| putative RNA pseudouridylate synthase [Streptococcus suis SC84]
gi|251818162|emb|CAZ55959.1| putative RNA pseudouridylate synthase [Streptococcus suis BM407]
gi|251819722|emb|CAR45564.1| putative RNA pseudouridylate synthase [Streptococcus suis P1/7]
gi|292558226|gb|ADE31227.1| YlyB [Streptococcus suis GZ1]
gi|319758010|gb|ADV69952.1| pseudouridine synthase, RluA family [Streptococcus suis JS14]
gi|329306943|gb|AEB81359.1| pseudouridine synthase, RluA family [Streptococcus suis ST3]
gi|353733908|gb|AER14918.1| pseudouridine synthase, RluA family [Streptococcus suis SS12]
gi|353736133|gb|AER17142.1| pseudouridine synthase, RluA family [Streptococcus suis D9]
gi|354985159|gb|AER44057.1| pseudouridine synthase, RluA family [Streptococcus suis A7]
gi|402808727|gb|AFR00219.1| RluA family pseudouridine synthase [Streptococcus suis S735]
Length = 297
Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 151/311 (48%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G+ + G L Y + + D+P LE++++D+D+
Sbjct: 29 EQIKAGQVLVNGQP-KKAKYSVQVGDVLTYQIPEVEEIDYVAEDIP--LEIVFQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALLYHV-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A T +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHTKLAAELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GK A+++ VLER + TLV++ +++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKEAVTRFQVLER--FGDYTLVELTLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD Y G K+ G +LHA L +HP T EV+
Sbjct: 243 GDEAY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEVV 276
Query: 317 KITAPLPSVLK 327
+ TA P++ +
Sbjct: 277 EFTAEAPAIFQ 287
>gi|116494944|ref|YP_806678.1| pseudouridylate synthase, 23S RNA-specific [Lactobacillus casei
ATCC 334]
gi|227535056|ref|ZP_03965105.1| pseudouridylate synthase [Lactobacillus paracasei subsp. paracasei
ATCC 25302]
gi|301066507|ref|YP_003788530.1| 23S RNA-specific pseudouridylate synthase [Lactobacillus casei str.
Zhang]
gi|417986821|ref|ZP_12627386.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei 32G]
gi|417999198|ref|ZP_12639410.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei T71499]
gi|418002143|ref|ZP_12642267.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei UCD174]
gi|418010905|ref|ZP_12650676.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei Lc-10]
gi|116105094|gb|ABJ70236.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei ATCC 334]
gi|227187271|gb|EEI67338.1| pseudouridylate synthase [Lactobacillus paracasei subsp. paracasei
ATCC 25302]
gi|300438914|gb|ADK18680.1| Pseudouridylate synthase, 23S RNA-specific [Lactobacillus casei
str. Zhang]
gi|410524555|gb|EKP99463.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei 32G]
gi|410539748|gb|EKQ14273.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei T71499]
gi|410544826|gb|EKQ19140.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei UCD174]
gi|410553484|gb|EKQ27487.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei Lc-10]
Length = 306
Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 102/350 (29%), Positives = 167/350 (47%), Gaps = 64/350 (18%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--- 59
+I + T H S +Q WLQ +G +TV+G+ N +++G +++ +P +P
Sbjct: 17 VITAHETTHTRSQ-VQKWLQ---DGLVTVNGQPTK-ANYKVASG-DVIAISIPEAKPLEA 70
Query: 60 -DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
P L+++YEDD +I ++KP G+ V P T++N L + + P
Sbjct: 71 IPEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLPGIN---GVIRP 127
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHR+ + TSG+L+ AKT+ A+ ++ KTS+ + Y ALVH
Sbjct: 128 GIVHRIDKDTSGLLMVAKTEKAQLSLSAQLKAKTSI----------------REYLALVH 171
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G ED+ I P+G R P K V + G+ A++ VLER + T ++ +++
Sbjct: 172 GTFKEDEGTIDAPLG--RDPRDRKRQAVVA-DGRHAVTHFQVLER--FEHYTFIKCILET 226
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+A++ HP+ GDPLY P +PG G
Sbjct: 227 GRTHQIRVHMAYIHHPVAGDPLY-------------------------GPKRTLPGK-GQ 260
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKTREEGREVDKSVGSERIRGIQ 348
+LHA +L HPTT +++ AP+P + E D G ++ R ++
Sbjct: 261 FLHAAKLGFVHPTTGQLLVFEAPVPPIF----EKTLADLRAGIDKTRNVR 306
>gi|190893167|ref|YP_001979709.1| RNA-pseudouridylate synthase, ribosomal large subunit D [Rhizobium
etli CIAT 652]
gi|190698446|gb|ACE92531.1| RNA-pseudouridylate synthase protein, ribosomal large subunit D
[Rhizobium etli CIAT 652]
Length = 354
Score = 122 bits (305), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 96/314 (30%), Positives = 150/314 (47%), Gaps = 44/314 (14%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLIAL 77
I++GQ+++ G+++ DP + AG LP E D+P L++LYEDDDLI +
Sbjct: 59 IKDGQVSMRGQLITDPQRKVRAGDSFEI-TLPEPEDPTPQGEDIP--LDILYEDDDLIVI 115
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
+KP+GL V PG T++N L S + P VHRL + T+G+++ AK
Sbjct: 116 SKPAGLVVHPGSGNWTGTLVNALIHHCGATLSGIGG-VRRPGIVHRLDKDTTGVMVVAKN 174
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+A ++ FAD + + + YRA+V G + P+G R
Sbjct: 175 DVAHRHLSLQFADHGRTM------------PLERAYRAIVWGRPRSLTGTVDAPLG--RA 220
Query: 198 PGVAKGLYVASPSGK---PALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIRIHLA 249
G V P + A++ +V+ER D +LV+ +++GR HQIR+H+A
Sbjct: 221 TGDRTRRAVKRPDSQDADEAITHYEVIERFHETPDATALASLVECRLETGRTHQIRVHMA 280
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
+GHPLLGD +Y AG + K+ +D + VN LHA+ L H
Sbjct: 281 HIGHPLLGDTVYGAGFRTKA-------NLLPED--IRKVVNRFDRQA---LHAFMLQFEH 328
Query: 310 PTTNEVIKITAPLP 323
P + E++ PLP
Sbjct: 329 PRSGELMHFEVPLP 342
>gi|450107248|ref|ZP_21860934.1| putative pseudouridylate synthase [Streptococcus mutans SF14]
gi|449222126|gb|EMC21862.1| putative pseudouridylate synthase [Streptococcus mutans SF14]
Length = 296
Score = 122 bits (305), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 93/312 (29%), Positives = 156/312 (50%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+G++ + +++++ P +E ++P LE++YED+D+
Sbjct: 29 EQIKAGLVWVNGKMQKAKYAVKEG--DIIHYERPQEEVLDCVAQNIP--LEIVYEDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K SS++ + VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSINGVIRQGI-VHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL ++K + Y ALVHG + D+ +I+ PIG
Sbjct: 143 KNDQAHQALA----------------KELKEKKSLRQYIALVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GKPA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQTVTA-KGKPAVTHFKVLERFGQ--YSLVELTLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T E+
Sbjct: 242 AGDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGEL 275
Query: 316 IKITAPLPSVLK 327
++ T +P + +
Sbjct: 276 MQFTTEVPVIFQ 287
>gi|347750588|ref|YP_004858153.1| RluA family pseudouridine synthase [Bacillus coagulans 36D1]
gi|347583106|gb|AEO99372.1| pseudouridine synthase, RluA family [Bacillus coagulans 36D1]
Length = 303
Score = 122 bits (305), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 100/309 (32%), Positives = 148/309 (47%), Gaps = 59/309 (19%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL------LEVLYEDDDLI 75
Q I++G ITV+G+ N L G +LV +P EP++P + L++ YED D++
Sbjct: 35 QWIKDGDITVNGKK-EKANYRLQTG-DLVEIEVP--EPELPDIEPEDLHLDIYYEDADVL 90
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ A
Sbjct: 91 VVNKPKGMVVHPSNGHFTGTLVNGLMYHC-KDLSGING-VLRPGIVHRIDKDTSGLLMVA 148
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A +LS++ +T+ Y ALVHG + + I PIG
Sbjct: 149 KNDYAHEKLAA----------------QLSEKTVTRKYFALVHGNIPHEAGTIDAPIG-- 190
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R P + + V +GK A++ VLER T ++ +++GR HQIR+H+ ++GHPL
Sbjct: 191 RDPADRQRMAVVD-NGKDAVTHFHVLER--FDRYTFIECRLETGRTHQIRVHMKYIGHPL 247
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDP Y G K+ D F G LHA L HP T E
Sbjct: 248 AGDPKY---GPKKTID--FG---------------------GQALHAGVLGFCHPRTGET 281
Query: 316 IKITAPLPS 324
+ APLP
Sbjct: 282 LTFEAPLPD 290
>gi|408401446|ref|YP_006859409.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
dysgalactiae subsp. equisimilis RE378]
gi|407967674|dbj|BAM60912.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
dysgalactiae subsp. equisimilis RE378]
Length = 297
Score = 122 bits (305), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 92/282 (32%), Positives = 143/282 (50%), Gaps = 52/282 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L ++ D+P L ++YED+ L +NKP G+ V P T++N L + K SS++
Sbjct: 65 LEYQAQDIP--LNIIYEDEALAIINKPQGMVVHPSAGHPSGTMVNALMYHI-KDLSSING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ +GTSG+L+ AKT A +A EL +K + Y
Sbjct: 122 -VVRPGIVHRIDKGTSGLLMVAKTDEAHQALAA----------------ELKAKKSLRKY 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ +I+ PIG R K V + GK A+++ VLER + +LV+
Sbjct: 165 LAIVHGNLPNDRGMIEAPIG--RSEKDRKKQAVIT-KGKEAVTRFTVLERF--GDYSLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+++++GR HQIR+H+A++GHP+ GDPLY G K+
Sbjct: 220 LQLETGRTHQIRVHMAYIGHPVAGDPLY---GPRKTLSGH-------------------- 256
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVL-KTREEGRE 334
G +LHA L L+HP T E + T P++ KT ++ R+
Sbjct: 257 ---GQFLHAETLGLTHPLTGEDMLFTVAPPAIFQKTLQQLRQ 295
>gi|152976253|ref|YP_001375770.1| RluA family pseudouridine synthase [Bacillus cytotoxicus NVH
391-98]
gi|152025005|gb|ABS22775.1| pseudouridine synthase, RluA family [Bacillus cytotoxicus NVH
391-98]
Length = 302
Score = 122 bits (305), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 94/314 (29%), Positives = 152/314 (48%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++G ITV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDGVITVNGKTVKG-NYKVKENDEITVTVPEPEELDIRAEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMYHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L ++ +T+ Y+A+VHG++ DK I PI
Sbjct: 148 VAKNDMAH----------------ESLVNQLVEKTVTRRYQAIVHGVIPHDKGTIDAPIA 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKDRQSMAV-DENGKHAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ + G LHA L +HP T
Sbjct: 247 PLAGDPKY---GPKKTLNLN-----------------------GQALHAGILGFNHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E ++ AP P++ +
Sbjct: 281 EYLQFEAPAPAIFE 294
>gi|25011477|ref|NP_735872.1| hypothetical protein gbs1435 [Streptococcus agalactiae NEM316]
gi|24413015|emb|CAD47094.1| unknown [Streptococcus agalactiae NEM316]
Length = 296
Score = 122 bits (305), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 85/264 (32%), Positives = 134/264 (50%), Gaps = 49/264 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+++Y+DDD+ +NKP G+ V P T++N L + K SS++ P VHR+
Sbjct: 74 LDIIYQDDDVAVVNKPQGMVVHPSAGHSSGTLVNALMYHI-KDLSSING-VVRPGIVHRI 131
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A +A DK S+ RK Y A+VHG + D
Sbjct: 132 DKDTSGLLMVAKNDRAHQVLAEELKDKKSL------------RK----YLAIVHGNLPND 175
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ +I+ PIG R K V + GKPA+++ VLER + TLV++ +++GR HQI
Sbjct: 176 RGVIEAPIG--RSDKDRKKQAVTA-KGKPAITRFHVLER--FGDYTLVELSLETGRTHQI 230
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+A++GHPL GD +Y G K+ + + G +LHA
Sbjct: 231 RVHMAYIGHPLAGDSVY---GPRKTLEGK-----------------------GQFLHAQT 264
Query: 305 LFLSHPTTNEVIKITAPLPSVLKT 328
L +HP+ E + + +P + +T
Sbjct: 265 LGFTHPSNGENLIFSVEVPEIFQT 288
>gi|317495177|ref|ZP_07953547.1| RluA family pseudouridine synthase [Gemella morbillorum M424]
gi|316914599|gb|EFV36075.1| RluA family pseudouridine synthase [Gemella morbillorum M424]
Length = 299
Score = 122 bits (305), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 91/311 (29%), Positives = 148/311 (47%), Gaps = 64/311 (20%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--------DVPYLLEVLYEDDDLI 75
I G I VDG+ + N L G+E+ + +KEP D+P ++++YED DLI
Sbjct: 36 ISEGYIKVDGKEIK-TNFKLKDGNEIT---IEYKEPEELDVVKQDIP--VDIVYEDSDLI 89
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NK G+ V P + T++N L + + + SS++ P VHR+ + TSG+L+ A
Sbjct: 90 VVNKAKGMVVHPSAGHRDGTLVNALLFHS--ELSSINGTIR-PGIVHRIDKDTSGLLVVA 146
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A ++ A+K + + Y ALVHG + D I PI
Sbjct: 147 KNDKAHVKLSEMIANKD----------------VKRKYYALVHGSIKHDYGTIDAPIA-- 188
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R P K + + GKP+++ V+ER TL++ E+++GR HQIR+H+ ++ HPL
Sbjct: 189 RNPKERKEMAIID-EGKPSITHFKVVER--FEKYTLIECELETGRTHQIRVHMKYINHPL 245
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
+GDP+Y G K+ ++ G LH+ + +HP T E
Sbjct: 246 VGDPVY---GPRKTLNAN-----------------------GQALHSKSIEFNHPITGEH 279
Query: 316 IKITAPLPSVL 326
+ P+P +
Sbjct: 280 LYFETPIPQYM 290
>gi|429212830|ref|ZP_19203995.1| pseudouridine synthase [Pseudomonas sp. M1]
gi|428157312|gb|EKX03860.1| pseudouridine synthase [Pseudomonas sp. M1]
Length = 319
Score = 122 bits (305), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 103/316 (32%), Positives = 158/316 (50%), Gaps = 59/316 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L GW I++G++TVDG V+ P ++ AGS L + WK D+ L+++YED
Sbjct: 36 LAGW---IKDGRLTVDGAVLR-PKDVVHAGSHLALEVQLEAQGEWKAQDIE--LDIVYED 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRG 127
+ ++ ++KP+GL V P Q T+LN L ++ VP VHRL +
Sbjct: 90 EHILVIDKPAGLVVHPAAGHQDGTLLNALLHHVPHLAN---------VPRAGIVHRLDKD 140
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
T+G+++ AKT A T + V +L R +++IY A+V G++ I
Sbjct: 141 TTGLMVVAKTLEAHTNL----------------VAQLQARSVSRIYEAIVVGVIVAGGKI 184
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
PI R+ GV + P+GK A+S VLER R+ T +V++++GR HQIR+H
Sbjct: 185 -DAPIS--RH-GVMRQKMAVVPTGKQAISHYRVLER--FRSHTHTRVKLETGRTHQIRVH 238
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
++ +G PL+GDP+Y GG+ + G V + LHA L L
Sbjct: 239 MSHIGFPLVGDPVY--GGRFR-----------IPPGASPTLVESLRDFPRQALHARFLEL 285
Query: 308 SHPTTNEVIKITAPLP 323
HP T E +K +PLP
Sbjct: 286 DHPATGERMKWESPLP 301
>gi|15599740|ref|NP_253234.1| pseudouridine synthase [Pseudomonas aeruginosa PAO1]
gi|116052689|ref|YP_793005.1| pseudouridine synthase [Pseudomonas aeruginosa UCBPP-PA14]
gi|218893639|ref|YP_002442508.1| pseudouridine synthase [Pseudomonas aeruginosa LESB58]
gi|254238708|ref|ZP_04932031.1| pseudouridine synthase [Pseudomonas aeruginosa C3719]
gi|254244558|ref|ZP_04937880.1| pseudouridine synthase [Pseudomonas aeruginosa 2192]
gi|296391365|ref|ZP_06880840.1| pseudouridine synthase [Pseudomonas aeruginosa PAb1]
gi|313107189|ref|ZP_07793388.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas
aeruginosa 39016]
gi|355652373|ref|ZP_09056769.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas sp.
2_1_26]
gi|392986207|ref|YP_006484794.1| pseudouridine synthase [Pseudomonas aeruginosa DK2]
gi|416858846|ref|ZP_11913561.1| pseudouridine synthase [Pseudomonas aeruginosa 138244]
gi|416877397|ref|ZP_11919797.1| pseudouridine synthase [Pseudomonas aeruginosa 152504]
gi|418584139|ref|ZP_13148204.1| pseudouridine synthase [Pseudomonas aeruginosa MPAO1/P1]
gi|418590192|ref|ZP_13154105.1| pseudouridine synthase [Pseudomonas aeruginosa MPAO1/P2]
gi|419752089|ref|ZP_14278498.1| pseudouridine synthase [Pseudomonas aeruginosa PADK2_CF510]
gi|420138346|ref|ZP_14646275.1| pseudouridine synthase [Pseudomonas aeruginosa CIG1]
gi|421155964|ref|ZP_15615423.1| pseudouridine synthase [Pseudomonas aeruginosa ATCC 14886]
gi|421170312|ref|ZP_15628274.1| pseudouridine synthase [Pseudomonas aeruginosa ATCC 700888]
gi|421176802|ref|ZP_15634461.1| pseudouridine synthase [Pseudomonas aeruginosa CI27]
gi|421182605|ref|ZP_15640079.1| pseudouridine synthase [Pseudomonas aeruginosa E2]
gi|421519098|ref|ZP_15965770.1| pseudouridine synthase [Pseudomonas aeruginosa PAO579]
gi|12231021|sp|P33640.2|RLUD_PSEAE RecName: Full=Ribosomal large subunit pseudouridine synthase D;
AltName: Full=23S rRNA pseudouridine(1911/1915/1917)
synthase; AltName: Full=rRNA pseudouridylate synthase D;
AltName: Full=rRNA-uridine isomerase D
gi|9950788|gb|AAG07932.1|AE004868_3 pseudouridine synthase [Pseudomonas aeruginosa PAO1]
gi|115587910|gb|ABJ13925.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas
aeruginosa UCBPP-PA14]
gi|126170639|gb|EAZ56150.1| pseudouridine synthase [Pseudomonas aeruginosa C3719]
gi|126197936|gb|EAZ61999.1| pseudouridine synthase [Pseudomonas aeruginosa 2192]
gi|218773867|emb|CAW29681.1| pseudouridine synthase [Pseudomonas aeruginosa LESB58]
gi|310879890|gb|EFQ38484.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas
aeruginosa 39016]
gi|334838996|gb|EGM17695.1| pseudouridine synthase [Pseudomonas aeruginosa 138244]
gi|334839644|gb|EGM18322.1| pseudouridine synthase [Pseudomonas aeruginosa 152504]
gi|354824204|gb|EHF08458.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas sp.
2_1_26]
gi|375046268|gb|EHS38833.1| pseudouridine synthase [Pseudomonas aeruginosa MPAO1/P1]
gi|375050965|gb|EHS43440.1| pseudouridine synthase [Pseudomonas aeruginosa MPAO1/P2]
gi|384401666|gb|EIE48020.1| pseudouridine synthase [Pseudomonas aeruginosa PADK2_CF510]
gi|392321712|gb|AFM67092.1| pseudouridine synthase [Pseudomonas aeruginosa DK2]
gi|403248926|gb|EJY62453.1| pseudouridine synthase [Pseudomonas aeruginosa CIG1]
gi|404346083|gb|EJZ72434.1| pseudouridine synthase [Pseudomonas aeruginosa PAO579]
gi|404519557|gb|EKA30291.1| pseudouridine synthase [Pseudomonas aeruginosa ATCC 14886]
gi|404523844|gb|EKA34236.1| pseudouridine synthase [Pseudomonas aeruginosa ATCC 700888]
gi|404530439|gb|EKA40439.1| pseudouridine synthase [Pseudomonas aeruginosa CI27]
gi|404541753|gb|EKA51102.1| pseudouridine synthase [Pseudomonas aeruginosa E2]
gi|453046119|gb|EME93836.1| pseudouridine synthase [Pseudomonas aeruginosa PA21_ST175]
Length = 320
Score = 122 bits (305), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 104/317 (32%), Positives = 161/317 (50%), Gaps = 59/317 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L GW I++G++TVDG V+ P I+ +G++LV + W D+ LE++YED
Sbjct: 36 LAGW---IKDGRLTVDGAVLR-PRDIVHSGAQLVLEAEQEAQGEWLAQDIE--LEIVYED 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRG 127
+ ++ ++KP+GL V P Q T+LN L + ++ VP VHRL +
Sbjct: 90 EHILVIDKPAGLVVHPAAGHQDGTLLNALLYHVPDIAN---------VPRAGIVHRLDKD 140
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
T+G+++ AKT A T + V +L R +++IY A+V G++ I
Sbjct: 141 TTGLMVVAKTLEAHTKL----------------VAQLQARSVSRIYEAIVIGVITSGGTI 184
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
PIG R+ GV + +GK A+S VLER R T +V++++GR HQIR+H
Sbjct: 185 -DAPIG--RH-GVQRQKMAVVDAGKVAVSHYRVLERF--RAHTHTRVKLETGRTHQIRVH 238
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
++ +G+PL+GDP+Y GG+ + A T Q + P LHA L L
Sbjct: 239 MSHIGYPLVGDPVY--GGRFRI--PPVASQTLVQ------TLREFPRQA---LHARFLEL 285
Query: 308 SHPTTNEVIKITAPLPS 324
HP T +K +PLP
Sbjct: 286 DHPATGVRMKWESPLPE 302
>gi|420144301|ref|ZP_14651789.1| Pseudouridine synthase [Lactococcus garvieae IPLA 31405]
gi|391855753|gb|EIT66302.1| Pseudouridine synthase [Lactococcus garvieae IPLA 31405]
Length = 301
Score = 122 bits (305), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 98/309 (31%), Positives = 147/309 (47%), Gaps = 58/309 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLIAL 77
I+ G++TVDG+V E + + LP E D+P L+++YED D+ +
Sbjct: 34 IREGKVTVDGQVKK--AKYKVKVGEAIAYELPEVEVLDIQAEDIP--LDIVYEDSDVAVI 89
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N + + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 90 NKPQGMVVHPSAGHASGTLVNAIMYHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIAKN 147
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A KT+ +R+ Y ALVHG + +K I+ PIG R
Sbjct: 148 DAAHESLAAQLKAKTN------------KRR----YIALVHGELPNEKGTIEAPIG--RN 189
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P K V S GKPA + V+ER TLV +E+++GR HQIR+H+A++G P+ G
Sbjct: 190 PKERKKQAVIS-GGKPAKTHFTVMER--FPGYTLVALELETGRTHQIRVHMAYIGFPIAG 246
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DPLY G + + P + G +LHA L HP T E ++
Sbjct: 247 DPLY----------------------GPSKTLTP---NKGQFLHAETLGFEHPATGEQLE 281
Query: 318 ITAPLPSVL 326
+P +
Sbjct: 282 FQVDIPEIF 290
>gi|145628474|ref|ZP_01784274.1| SfhB [Haemophilus influenzae 22.1-21]
gi|144978944|gb|EDJ88630.1| SfhB [Haemophilus influenzae 22.1-21]
Length = 324
Score = 122 bits (305), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 100/333 (30%), Positives = 160/333 (48%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G + V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVNLNDRIANIPREKVFGGERIEIIVEVEDDTRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + + +
Sbjct: 77 EPENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIAEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L LSHP T E+++ APLP
Sbjct: 278 --------LHAVMLRLSHPITGEMMEWYAPLPD 302
>gi|283780614|ref|YP_003371369.1| RluA family pseudouridine synthase [Pirellula staleyi DSM 6068]
gi|283439067|gb|ADB17509.1| pseudouridine synthase, RluA family [Pirellula staleyi DSM 6068]
Length = 355
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 89/263 (33%), Positives = 133/263 (50%), Gaps = 33/263 (12%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L++L+ED+ LIA+NKP G+ V P T+ + L + +Q S++ Q P VHRL
Sbjct: 115 LDILFEDEHLIAVNKPPGMVVHPARGHWSGTLTSALAFHF-QQLSTVGGQ-HRPGIVHRL 172
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
R TSG+++ AKT +A FAD+T+ K Y A+ G+ D D
Sbjct: 173 DRDTSGVIIVAKTDPVHFSLAAQFADRTT----------------AKEYFAITAGVPDRD 216
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ ++ QPIGI + + + + A + VLER Q V+ ++GR HQI
Sbjct: 217 RDVVSQPIGIHPFHREKMAIRPGHSTSRDAETMFHVLERFAQHAA--VECLPKTGRTHQI 274
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+HLA + P+L D LY GG+ +E G +DG E +N LHA +
Sbjct: 275 RVHLAHVRTPVLCDKLY--GGR-----AEITQGELVRDGSTEVVLN------RQALHARK 321
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L ++HP T E + I APLP+ L+
Sbjct: 322 LSINHPKTGERLTIEAPLPADLQ 344
>gi|223984556|ref|ZP_03634687.1| hypothetical protein HOLDEFILI_01982 [Holdemania filiformis DSM
12042]
gi|223963484|gb|EEF67865.1| hypothetical protein HOLDEFILI_01982 [Holdemania filiformis DSM
12042]
Length = 307
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 84/259 (32%), Positives = 122/259 (47%), Gaps = 48/259 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L V+YED D+I +NKP GL V PG T++N L W S + P VHR+
Sbjct: 80 LNVVYEDHDVIVINKPKGLVVHPGPGNPDHTLVNGLLWHCHDLSGI--NGVLRPGIVHRI 137
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+++ K A +A A+KT+ + Y ALVHG+++ +
Sbjct: 138 DKDTSGLIVACKNDNAHQSLAKQLAEKTA----------------GRQYYALVHGVINHE 181
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
I PIG R + + V + +PA++ V+ER N TLV +++GR HQI
Sbjct: 182 YGTIDAPIG--RDEKDRQKMAVTEKNSRPAITHFKVVER--FDNYTLVSCRLETGRTHQI 237
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G P++GDP Y R P G LHAYQ
Sbjct: 238 RVHMQYIGFPIVGDPKYSL-----------------------RKTLPTQGQM---LHAYQ 271
Query: 305 LFLSHPTTNEVIKITAPLP 323
L +HP+T E + APLP
Sbjct: 272 LSFTHPSTGERMTFEAPLP 290
>gi|52080148|ref|YP_078939.1| pseudouridine synthase [Bacillus licheniformis DSM 13 = ATCC 14580]
gi|319646073|ref|ZP_08000303.1| pseudouridine synthase [Bacillus sp. BT1B_CT2]
gi|404489036|ref|YP_006713142.1| RNA-pseudouridine synthase YlyB [Bacillus licheniformis DSM 13 =
ATCC 14580]
gi|423682090|ref|ZP_17656929.1| pseudouridine synthetase [Bacillus licheniformis WX-02]
gi|52003359|gb|AAU23301.1| Pseudouridine synthase [Bacillus licheniformis DSM 13 = ATCC 14580]
gi|52348027|gb|AAU40661.1| putative RNA-pseudouridine synthase YlyB [Bacillus licheniformis
DSM 13 = ATCC 14580]
gi|317391823|gb|EFV72620.1| pseudouridine synthase [Bacillus sp. BT1B_CT2]
gi|383438864|gb|EID46639.1| pseudouridine synthetase [Bacillus licheniformis WX-02]
Length = 304
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 97/316 (30%), Positives = 149/316 (47%), Gaps = 57/316 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-DV---PYLLEVLYEDD 72
+Q W I+ ++ V+G V N + G + V ++P EP DV P L++ YED
Sbjct: 33 VQQW---IKEDRVLVNGNAVK-ANYKVQEG-DAVSVQVPEPEPLDVTAEPMDLDIYYEDQ 87
Query: 73 DLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGIL 132
D++ +NKP G+ V P T++N L S + P VHR+ + TSG+L
Sbjct: 88 DVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCDDLSGI--NGVMRPGIVHRIDKDTSGLL 145
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPI 192
+ AK +A +S V +L + +T+ Y ALVHG++ D I PI
Sbjct: 146 MVAKNDMAH----------------ESLVNQLVNKTVTRKYTALVHGVIPHDHGTIDAPI 189
Query: 193 GIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
G R + + V +GK A++ +V+ER + T+V+ ++++GR HQIR+H+ ++G
Sbjct: 190 G--RDKKDRQSMTVTRENGKHAVTHFEVIER--FDDFTVVECQLETGRTHQIRVHMKYIG 245
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
PL GDP Y G K+ D G LHA L HP T
Sbjct: 246 FPLAGDPKY---GPKKTVDFN-----------------------GQVLHAGVLGFDHPRT 279
Query: 313 NEVIKITAPLPSVLKT 328
E ++ APLP +K
Sbjct: 280 GEYVEFEAPLPDDMKN 295
>gi|262282338|ref|ZP_06060106.1| pseudouridine synthase [Streptococcus sp. 2_1_36FAA]
gi|262261629|gb|EEY80327.1| pseudouridine synthase [Streptococcus sp. 2_1_36FAA]
Length = 296
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 87/268 (32%), Positives = 137/268 (51%), Gaps = 51/268 (19%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P LE++Y+D+D+ +NKP G+ V P T++N L + K S ++ P
Sbjct: 71 DIP--LEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPG 126
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + TSG+L+ AK A +A DK S+ RK Y A+VHG
Sbjct: 127 IVHRIDKDTSGLLMIAKNDQAHVALADELKDKKSL------------RK----YWAIVHG 170
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
+ D+ +I+ PIG R K V + GK AL++ VLER + +LV++++++G
Sbjct: 171 NLPNDRGVIEAPIG--RSEKDRKKQAV-TAKGKSALTRFQVLER--FGDYSLVELQLETG 225
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H+A++GHP+ GD +Y G K+ G +
Sbjct: 226 RTHQIRVHMAYIGHPVAGDEVY---GPRKTLKGH-----------------------GQF 259
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLK 327
LHA L +HP T EV++ TA +P++ +
Sbjct: 260 LHARTLGFTHPRTGEVLEFTAEVPAIFQ 287
>gi|238018931|ref|ZP_04599357.1| hypothetical protein VEIDISOL_00791 [Veillonella dispar ATCC 17748]
gi|237864415|gb|EEP65705.1| hypothetical protein VEIDISOL_00791 [Veillonella dispar ATCC 17748]
Length = 307
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 101/334 (30%), Positives = 157/334 (47%), Gaps = 64/334 (19%)
Query: 4 IEFYSTKHKNSAPLQGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--- 59
++ + T+H + + ++Q I+ G ITV G V N+ L+ + + R+ EP
Sbjct: 15 LDVFLTEHMEGS--RSYIQSLIKGGHITV-GAKVGKANLRLTPNAVV---RVEIPEPESV 68
Query: 60 -----DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQ 114
D+P L+VLYED D+I +NK G+ V P T++N L + K S ++ +
Sbjct: 69 EVKPEDIP--LDVLYEDHDIIIVNKQRGMVVHPAVGNYSGTLVNALLYHC-KDLSGINGE 125
Query: 115 ASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYR 174
P VHRL + TSG+++ AK A +A ++ + + Y
Sbjct: 126 IR-PGIVHRLDKDTSGVMMAAKNDAAHIGLAE----------------QVKEHSAKRTYL 168
Query: 175 ALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQV 234
ALV G + E+K IK PIG R+P + V + K A++ +V+ER + TLV+
Sbjct: 169 ALVQGNIVEEKGTIKAPIG--RHPKDRMKMAVVFENSKDAVTHFNVVERFGHQ--TLVEC 224
Query: 235 EIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPG 294
+++GR HQIR+H A +GHP++ DP Y GY R P+ G
Sbjct: 225 NLETGRTHQIRVHFAHIGHPVVNDPFY----------------------GYRRMDFPIEG 262
Query: 295 DCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLKT 328
LH+ L + HP T E + APLP K
Sbjct: 263 QA---LHSRSLDVKHPITGESMHFEAPLPDDFKA 293
>gi|229174558|ref|ZP_04302089.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
MM3]
gi|423401265|ref|ZP_17378438.1| RluA family pseudouridine synthase [Bacillus cereus BAG2X1-2]
gi|423457923|ref|ZP_17434720.1| RluA family pseudouridine synthase [Bacillus cereus BAG5X2-1]
gi|423478031|ref|ZP_17454746.1| RluA family pseudouridine synthase [Bacillus cereus BAG6X1-1]
gi|228608927|gb|EEK66218.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
MM3]
gi|401148307|gb|EJQ55800.1| RluA family pseudouridine synthase [Bacillus cereus BAG5X2-1]
gi|401654255|gb|EJS71798.1| RluA family pseudouridine synthase [Bacillus cereus BAG2X1-2]
gi|402428193|gb|EJV60290.1| RluA family pseudouridine synthase [Bacillus cereus BAG6X1-1]
Length = 302
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 85/263 (32%), Positives = 128/263 (48%), Gaps = 49/263 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
LE+ YED D++ +NKP G+ V P T++N L + S + P VHR+
Sbjct: 81 LEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRI 138
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK +A +S V +L + +T+ Y+A+VHG++ D
Sbjct: 139 DKDTSGLLMVAKNDVAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHD 182
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PIG R + + V +GK A++ VLER ++ TLV+ +++GR HQI
Sbjct: 183 KGTIDAPIG--RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQI 237
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G+PL GDP Y G K+ D G LHA
Sbjct: 238 RVHMKYIGYPLAGDPKY---GPKKTLDMN-----------------------GQALHAGI 271
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T E I+ AP+P V +
Sbjct: 272 LGFDHPRTGEYIQFEAPIPEVFE 294
>gi|328957532|ref|YP_004374918.1| pseudouridylate synthase [Carnobacterium sp. 17-4]
gi|328673856|gb|AEB29902.1| pseudouridylate synthase [Carnobacterium sp. 17-4]
Length = 301
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 90/316 (28%), Positives = 150/316 (47%), Gaps = 60/316 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYED 71
+Q W I+ G ++V+G + N + G E+ L D+P +E++Y+D
Sbjct: 32 IQQW---IKEGNVSVNGEKMK-ANYKVQPGDEIAIVEPELVSLEVLAEDIP--IEIVYQD 85
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
+D++ +NK G+ V P Q T++N L + S + P VHR+ + TSG+
Sbjct: 86 EDVVVVNKAQGMVVHPSAGHQTGTLVNALMHHITDLSGI--NGTIRPGIVHRIDKDTSGL 143
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK A +A DKTS+ + Y ALVHG++ +K I P
Sbjct: 144 LMVAKNDAAHEKLAAQLKDKTSL----------------REYIALVHGVIPHEKGTIDAP 187
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
+G + + + G+ A++ VLER ++ TLV +++++GR HQIR+H+ ++
Sbjct: 188 LGRSKQDRKKQDII---DGGRAAVTHFTVLER--FKDFTLVSLKLETGRTHQIRVHMKYI 242
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
G+PL GDP+Y G K+ + + G +LHA L HPT
Sbjct: 243 GYPLAGDPIY---GPRKTLEGK-----------------------GQFLHATTLGFKHPT 276
Query: 312 TNEVIKITAPLPSVLK 327
+ E + APLP + +
Sbjct: 277 SGEFLTFEAPLPKLFE 292
>gi|107099793|ref|ZP_01363711.1| hypothetical protein PaerPA_01000811 [Pseudomonas aeruginosa PACS2]
gi|386060696|ref|YP_005977218.1| pseudouridine synthase [Pseudomonas aeruginosa M18]
gi|386064008|ref|YP_005979312.1| pseudouridine synthase [Pseudomonas aeruginosa NCGM2.S1]
gi|424944690|ref|ZP_18360453.1| pseudouridine synthase [Pseudomonas aeruginosa NCMG1179]
gi|451983097|ref|ZP_21931392.1| Ribosomal large subunit pseudouridine synthase D [Pseudomonas
aeruginosa 18A]
gi|346061136|dbj|GAA21019.1| pseudouridine synthase [Pseudomonas aeruginosa NCMG1179]
gi|347307002|gb|AEO77116.1| pseudouridine synthase [Pseudomonas aeruginosa M18]
gi|348032567|dbj|BAK87927.1| pseudouridine synthase [Pseudomonas aeruginosa NCGM2.S1]
gi|451759231|emb|CCQ83915.1| Ribosomal large subunit pseudouridine synthase D [Pseudomonas
aeruginosa 18A]
Length = 317
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 104/317 (32%), Positives = 161/317 (50%), Gaps = 59/317 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L GW I++G++TVDG V+ P I+ +G++LV + W D+ LE++YED
Sbjct: 33 LAGW---IKDGRLTVDGAVLR-PRDIVHSGAQLVLEAEQEAQGEWLAQDIE--LEIVYED 86
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRG 127
+ ++ ++KP+GL V P Q T+LN L + ++ VP VHRL +
Sbjct: 87 EHILVIDKPAGLVVHPAAGHQDGTLLNALLYHVPDIAN---------VPRAGIVHRLDKD 137
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
T+G+++ AKT A T + V +L R +++IY A+V G++ I
Sbjct: 138 TTGLMVVAKTLEAHTKL----------------VAQLQARSVSRIYEAIVIGVITSGGTI 181
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
PIG R+ GV + +GK A+S VLER R T +V++++GR HQIR+H
Sbjct: 182 -DAPIG--RH-GVQRQKMAVVDAGKVAVSHYRVLERF--RAHTHTRVKLETGRTHQIRVH 235
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
++ +G+PL+GDP+Y GG+ + A T Q + P LHA L L
Sbjct: 236 MSHIGYPLVGDPVY--GGRFRI--PPVASQTLVQT------LREFPRQA---LHARFLEL 282
Query: 308 SHPTTNEVIKITAPLPS 324
HP T +K +PLP
Sbjct: 283 DHPATGVRMKWESPLPE 299
>gi|449988889|ref|ZP_21820780.1| putative pseudouridylate synthase [Streptococcus mutans NVAB]
gi|449183277|gb|EMB85265.1| putative pseudouridylate synthase [Streptococcus mutans NVAB]
Length = 296
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 93/312 (29%), Positives = 155/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+G+ + +++++ P +E ++P LE++YED+D+
Sbjct: 29 EQIKAGLVLVNGKTQKAKYAVKEG--DIIHYERPQEEVLDCVAQNIP--LEIVYEDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL ++K + Y ALVHG + D+ +I+ PIG
Sbjct: 143 KNDQAHQALA----------------KELKEKKSLRQYIALVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + G+PA++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQTVTA-KGRPAVTHFKVLERFGQ--YSLVELTLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T E+
Sbjct: 242 AGDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGEL 275
Query: 316 IKITAPLPSVLK 327
++ T +P + +
Sbjct: 276 MQFTTEVPVIFQ 287
>gi|423321680|ref|ZP_17299551.1| RluA family pseudouridine synthase [Lactobacillus crispatus
FB077-07]
gi|405591797|gb|EKB65265.1| RluA family pseudouridine synthase [Lactobacillus crispatus
FB077-07]
Length = 303
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 98/340 (28%), Positives = 162/340 (47%), Gaps = 71/340 (20%)
Query: 7 YSTKHKNSAPLQGWLQRIQNGQI-----TVDGRVVNDPNIILSAGSELVYHRLPWK---E 58
YS + KN +G L + QI T +V D NI+++ E V +++ E
Sbjct: 5 YSLEVKNE---KGRLDKFVAEQIPDLSRTRVKELVKDQNILVNGKVEKVSYKIQAGDKIE 61
Query: 59 PDVPYL-----------LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQ 107
++P + L+++YEDDD+I +NKP G+ V P T++N L + +
Sbjct: 62 VNIPAVKPLDVIPENIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHT--K 119
Query: 108 SSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQR 167
+ + S + P VHR+ + TSG+L+ AKT A+ + A KT+
Sbjct: 120 ALAQSPEGFRPGIVHRIDKDTSGLLMIAKTAKARESLEDQLAHKTN-------------- 165
Query: 168 KITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQR 227
++Y A+VHG E+ +I PIG R P K + V +GK A++ VLE+ +
Sbjct: 166 --KRLYWAIVHGNFAEENGVIDAPIG--RNPYDRKKMAVVE-TGKKAITHFKVLEQ--FK 218
Query: 228 NCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYER 287
+ +L++ ++++GR HQIR+HL ++GHP+ GDPLY G K+
Sbjct: 219 DYSLIECQLETGRTHQIRVHLDYIGHPVAGDPLY---GPRKTLKGH-------------- 261
Query: 288 PVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G +LHA L HP+T E ++ + P + +
Sbjct: 262 ---------GQFLHAKVLGFKHPSTGEWLEFSVEPPQIFQ 292
>gi|225870653|ref|YP_002746600.1| RNA pseudouridylate synthase [Streptococcus equi subsp. equi 4047]
gi|225700057|emb|CAW94108.1| putative RNA pseudouridylate synthase [Streptococcus equi subsp.
equi 4047]
Length = 296
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 102/318 (32%), Positives = 159/318 (50%), Gaps = 58/318 (18%)
Query: 23 RIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIAL 77
+I+ ++ V+G + I+ G + YH L ++ D+P L+++Y+DD L +
Sbjct: 30 QIKQKRVLVNG-LPKKAKYIVQVGDCISYHIPEESSLDYQAQDIP--LDIVYQDDVLAII 86
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AKT
Sbjct: 87 NKPQGMVVHPSAGHSTGTLVNALLYHI-KDLSSING-VIRPGIVHRIDKDTSGLLMVAKT 144
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
DK + AD EL +K + Y A+VHG + +D+ +I+ PIG R
Sbjct: 145 ------------DKAHQLLAD----ELKAKKSLRKYVAIVHGNLPKDRGVIEAPIG--RS 186
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
K V + GK AL+ VLER + T V++++++GR HQIR+H+A++GHPL G
Sbjct: 187 EKDRKKQTVTA-KGKEALTLFKVLER--FGHYTFVELQLETGRTHQIRVHMAYIGHPLAG 243
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DPLY G K+ + G +LHA L L+HP T E +
Sbjct: 244 DPLY---GPRKTLAGK-----------------------GQFLHAQTLGLTHPVTGEELV 277
Query: 318 ITAPLPSVL-KTREEGRE 334
T P + +T E+ R+
Sbjct: 278 FTVEPPEIFQRTLEQLRQ 295
>gi|32423742|gb|AAP81266.1| pseudouridine synthase [Pseudomonas aeruginosa PA14]
Length = 320
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 104/317 (32%), Positives = 161/317 (50%), Gaps = 59/317 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L GW I++G++TVDG V+ P I+ +G++LV + W D+ LE++YED
Sbjct: 36 LAGW---IKDGRLTVDGAVLR-PRDIVHSGAQLVLEAEQEAQGEWLAQDIE--LEIVYED 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRG 127
+ ++ ++KP+GL V P Q T+LN L + ++ VP VHRL +
Sbjct: 90 EHILVIDKPAGLVVHPAAGHQDGTLLNALLYHVPDIAN---------VPRAGIVHRLDKD 140
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
T+G+++ AKT A T + V +L R +++IY A+V G++ I
Sbjct: 141 TTGLMVVAKTLEAHTKL----------------VAQLQARSVSRIYEAIVIGVITSGGTI 184
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
PIG R+ GV + +GK A+S VLER R T +V++++GR HQIR+H
Sbjct: 185 -DAPIG--RH-GVQRQKMAVVDAGKVAVSHYRVLERF--RAHTHTRVKLETGRTHQIRVH 238
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
++ +G+PL+GDP+Y GG+ + A T Q + P LHA L L
Sbjct: 239 MSHIGYPLVGDPVY--GGRFRI--PPVASQTLVQT------LREFPRQA---LHARFLEL 285
Query: 308 SHPTTNEVIKITAPLPS 324
HP T +K +PLP
Sbjct: 286 DHPATGVRMKWESPLPE 302
>gi|421162909|ref|ZP_15621702.1| pseudouridine synthase [Pseudomonas aeruginosa ATCC 25324]
gi|404532676|gb|EKA42549.1| pseudouridine synthase [Pseudomonas aeruginosa ATCC 25324]
Length = 320
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 104/317 (32%), Positives = 161/317 (50%), Gaps = 59/317 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L GW I++G++TVDG V+ P I+ +G++LV + W D+ LE++YED
Sbjct: 36 LAGW---IKDGRLTVDGAVLR-PRDIVHSGAQLVLEAEQEAQGEWLAQDIE--LEIVYED 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRG 127
+ ++ ++KP+GL V P Q T+LN L + ++ VP VHRL +
Sbjct: 90 EHILVIDKPAGLVVHPAAGHQDGTLLNALLYHVPDIAN---------VPRAGIVHRLDKD 140
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
T+G+++ AKT A T + V +L R +++IY A+V G++ I
Sbjct: 141 TTGLMVVAKTLEAHTKL----------------VAQLQARSVSRIYEAIVIGVITSGGTI 184
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
PIG R+ GV + +GK A+S VLER R T +V++++GR HQIR+H
Sbjct: 185 -DAPIG--RH-GVQRQKMAGVDAGKVAVSHYRVLERF--RAHTHTRVKLETGRTHQIRVH 238
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
++ +G+PL+GDP+Y GG+ + A T Q + P LHA L L
Sbjct: 239 MSHIGYPLVGDPVY--GGRFRI--PPVASQTLVQ------TLREFPRQA---LHARFLEL 285
Query: 308 SHPTTNEVIKITAPLPS 324
HP T +K +PLP
Sbjct: 286 DHPATGVRMKWESPLPE 302
>gi|345428736|ref|YP_004821852.1| 23S rRNA pseudouridine synthase [Haemophilus parainfluenzae T3T1]
gi|301154795|emb|CBW14258.1| 23S rRNA pseudouridine synthase [Haemophilus parainfluenzae T3T1]
Length = 324
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 99/329 (30%), Positives = 162/329 (49%), Gaps = 54/329 (16%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ Q+ ++G + + P + G ++ V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEAKQVKMNGEIADIPRAKVYGGEQIEISVEVEDENRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + + +
Sbjct: 77 EPQNIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPDGTVLNALLYHYPPIAEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--FRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQD-GGYERPVNPVPGD 295
++GR HQIR+H+A + HPLLGD Y GG+P+ + A F + ++R
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRP--PKNASEAFTEVLRNFKRQA------ 277
Query: 296 CGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E ++ APLP
Sbjct: 278 ----LHAVMLRLAHPITGETMEWYAPLPD 302
>gi|260887804|ref|ZP_05899067.1| ribosomal large subunit pseudouridine synthase D [Selenomonas
sputigena ATCC 35185]
gi|330838700|ref|YP_004413280.1| pseudouridine synthase, RluA family [Selenomonas sputigena ATCC
35185]
gi|260862480|gb|EEX76980.1| ribosomal large subunit pseudouridine synthase D [Selenomonas
sputigena ATCC 35185]
gi|329746464|gb|AEB99820.1| pseudouridine synthase, RluA family [Selenomonas sputigena ATCC
35185]
Length = 301
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 141/311 (45%), Gaps = 60/311 (19%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I++G + V+GR N L G + V LP D+P L++LYED D+I +
Sbjct: 36 IESGCVLVNGRTAK-ANAKLREG-DAVETELPEARELEILPEDIP--LDILYEDSDVIVI 91
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK G+ V P T++N L S + P VHRL + TSG+++ AK
Sbjct: 92 NKARGMVVHPAAGAADGTLVNALLHHCEDLSGI--NGVIRPGIVHRLDKDTSGVMVAAKN 149
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A +KT+ +IYRA+V G + ED+ I+ PIG R+
Sbjct: 150 DRAHVDLAEQIREKTA----------------QRIYRAIVCGTIAEDRGEIRAPIG--RH 191
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P K + V P GK A + V+ER TLV+ +++GR HQIR+H+A++ HPLLG
Sbjct: 192 PTERKKMAVV-PGGKEATTLFRVVERFPAH--TLVECRLKTGRTHQIRVHMAYIDHPLLG 248
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP Y P G LH+ +L +HP T E +
Sbjct: 249 DPKYG---------------------------RKTPDIAGQALHSCELSFAHPRTKERMT 281
Query: 318 ITAPLPSVLKT 328
A +P +K
Sbjct: 282 FAAEMPEDMKA 292
>gi|323491101|ref|ZP_08096291.1| 23S rRNA pseudouridine synthase D [Vibrio brasiliensis LMG 20546]
gi|323314648|gb|EGA67722.1| 23S rRNA pseudouridine synthase D [Vibrio brasiliensis LMG 20546]
Length = 326
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 101/332 (30%), Positives = 151/332 (45%), Gaps = 58/332 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL +G++ V+G VV P + G E++ W+ D+P L+++YED
Sbjct: 36 LKEWLL---DGKVQVNGEVVTKPRTKVMGGEEIILQAELEDEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD++ +NKP G V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 DDILVINKPRGFIVHPGAGTPDGTVLNALLHHYPN-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + K R T+ Y A+ G + I +QP
Sbjct: 146 MVVAKTVPAQTRLVRALQKK---------------RNFTREYEAIAIGRMTAGGRI-EQP 189
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 190 IG--RH-STKRTLMAVSPMGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 244
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD Y GG+ + G E + LHA L HP
Sbjct: 245 QHPLLGDSAY--GGRAR-----------IPAGASEELATMIRQFDRQALHAVMLKFEHPI 291
Query: 312 TNEVIKITAPLPSVL---------KTREEGRE 334
T E ++ AP+P + TRE G E
Sbjct: 292 TGEEVEFHAPVPDDMVEMAEALRQDTREHGLE 323
>gi|450046972|ref|ZP_21839246.1| putative pseudouridylate synthase [Streptococcus mutans N34]
gi|449198082|gb|EMB99211.1| putative pseudouridylate synthase [Streptococcus mutans N34]
Length = 296
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 87/263 (33%), Positives = 133/263 (50%), Gaps = 49/263 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
LE++YED+D+ +NKP G+ V P T++N L + K SS++ P VHR+
Sbjct: 74 LEIVYEDEDVAVINKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRI 131
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A +A EL ++K + Y ALVHG + D
Sbjct: 132 DKDTSGLLMIAKNDQAHQALA----------------KELKEKKSLRQYIALVHGNLPND 175
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ +I+ PIG R K V + GKPA++ VLER Q +LV++ +++GR HQI
Sbjct: 176 RGVIEAPIG--RSEKDRKKQTVTA-KGKPAVTHFKVLERFGQ--YSLVELTLETGRTHQI 230
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+A++GHP+ GDPLY P + G G +LHA
Sbjct: 231 RVHMAYIGHPVAGDPLYA-------------------------PKKTLKGQ-GQFLHAKT 264
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L +HP T E+++ T +P + +
Sbjct: 265 LGFTHPKTGELMQFTTEVPVIFQ 287
>gi|372489157|ref|YP_005028722.1| RluA family pseudouridine synthase [Dechlorosoma suillum PS]
gi|359355710|gb|AEV26881.1| pseudouridine synthase, RluA family [Dechlorosoma suillum PS]
Length = 375
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 105/330 (31%), Positives = 161/330 (48%), Gaps = 66/330 (20%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGS-----ELVYHRLPWKEP-DVPYLLEVLYE 70
LQ W I+ G+++++G+ V +P L G E+ +L + P D+P+ V+YE
Sbjct: 53 LQTW---IREGRVSLNGQPVQEPKHKLLGGEFLNLEEVQDEKLAAETPEDIPF--PVVYE 107
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+ ++ +NKP+GL V PG T+LN L + +Q VHRL + TSG
Sbjct: 108 DEAILIINKPAGLVVHPGSGNWSGTLLNAL-----LHHTPQLAQVPRAGIVHRLDKDTSG 162
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+++ AKT A+T + V +L R + + YRAL+ G ++ + +
Sbjct: 163 LMVVAKTLEAQTDL----------------VRQLQARTVKREYRALLVGYLNRNGTV-DA 205
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R+P + V +G+ A + VLE CTLVQ +++GR HQIR+H+A
Sbjct: 206 PIG--RHPTQRTKMAVVQHNGREARTHYTVLEHF--ERCTLVQCRLETGRTHQIRVHMAA 261
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
LG PL+GD +Y G + G P LHAY+L L HP
Sbjct: 262 LGFPLVGDAVYNKG----------------KTAGVRFPRQA--------LHAYRLGLIHP 297
Query: 311 TTNEVIKITAPLP----SVLKT-REEGREV 335
T E ++ AP+P ++LKT R E E+
Sbjct: 298 LTREPMQWDAPVPDDMAALLKTLRSEWDEI 327
>gi|417839576|ref|ZP_12485752.1| Ribosomal large subunit pseudouridine synthase D [Haemophilus
haemolyticus M19107]
gi|417840404|ref|ZP_12486539.1| Ribosomal large subunit pseudouridine synthase D [Haemophilus
haemolyticus M19107]
gi|341948464|gb|EGT75093.1| Ribosomal large subunit pseudouridine synthase D [Haemophilus
haemolyticus M19107]
gi|341952323|gb|EGT78854.1| Ribosomal large subunit pseudouridine synthase D [Haemophilus
haemolyticus M19107]
Length = 324
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 99/333 (29%), Positives = 161/333 (48%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G ++ V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRIANIPREKVLGGEKIEITVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + + +
Sbjct: 77 EPENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNSLLYHYPPIAEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLAHPITGEMMEWYAPLPD 302
>gi|444915216|ref|ZP_21235352.1| Ribosomal large subunit pseudouridine synthase D [Cystobacter
fuscus DSM 2262]
gi|444713798|gb|ELW54690.1| Ribosomal large subunit pseudouridine synthase D [Cystobacter
fuscus DSM 2262]
Length = 310
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 104/316 (32%), Positives = 145/316 (45%), Gaps = 58/316 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL----LEVLYEDD 72
LQG I++G VDG+ ++ L G L +P P +P L VL ED
Sbjct: 31 LQGL---IESGHAQVDGKPAKV-SLRLKGGERLTLE-VPAPTPALPVAEELPLTVLREDK 85
Query: 73 DLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGIL 132
DL+ ++K +G+ V PG T++N L R K + + + P VHRL + T+G L
Sbjct: 86 DLVVVDKAAGMVVHPGAGHASGTLVNALLHRV-KDLAGVGGELR-PGIVHRLDKDTTGCL 143
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVII---- 188
+ AK + A + F +T + K Y ALVHG + I
Sbjct: 144 VVAKHETALVALQKSFKTRT----------------VEKTYLALVHGSPKAAEGRIETLY 187
Query: 189 -KQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
+ P+ R+ G K GKPAL+ VLE LV+V++ +GR HQIR+H
Sbjct: 188 GRHPVHRQRFTGKVK-------EGKPALTVYRVLESF--EGAALVEVDLLTGRTHQIRVH 238
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
LA LGHPLLGD LY AG +PK D Q LHA++L
Sbjct: 239 LAELGHPLLGDTLYGAGRKPKGLAGAAQDTVGRQ-----------------ALHAWKLSF 281
Query: 308 SHPTTNEVIKITAPLP 323
HP T +V+++ APLP
Sbjct: 282 PHPRTGKVLRVEAPLP 297
>gi|373106341|ref|ZP_09520644.1| RluA family pseudouridine synthase [Stomatobaculum longum]
gi|371652716|gb|EHO18124.1| RluA family pseudouridine synthase [Stomatobaculum longum]
Length = 304
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 98/311 (31%), Positives = 141/311 (45%), Gaps = 56/311 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I+ G + VDG+ + L+AG L LP E ++P L++LYED D+I +
Sbjct: 35 IKEGSVLVDGKP-RKASYPLTAGERLSV-TLPEPEATEVLPENIP--LDILYEDKDVIVI 90
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + K S S + P VHR+ R T+G+++ K
Sbjct: 91 NKPKGMVVHPAAGHTGGTLVNALLYHC-KDSLSGINGILRPGIVHRIDRDTTGVMIACKN 149
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A CIA +L IT+ Y AL G + E++ + P+G R
Sbjct: 150 DRAHQCIA----------------EQLKAHSITRRYLALAQGRMQEEEGTVDAPLG--RD 191
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P K + GK A++ VLER T ++ +++GR HQIR HLA LGHPLLG
Sbjct: 192 PENRKRMKSGMIGGKHAVTHYRVLERFAA--ATYLECRLETGRTHQIRAHLASLGHPLLG 249
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
D +Y +G P + G C LHA L HP ++
Sbjct: 250 DTVYGSGKNPYHLE----------------------GQC---LHAAVLGFRHPADGRYLE 284
Query: 318 ITAPLPSVLKT 328
TAPLP+ +
Sbjct: 285 FTAPLPTYFEA 295
>gi|289578538|ref|YP_003477165.1| pseudouridine synthase [Thermoanaerobacter italicus Ab9]
gi|289528251|gb|ADD02603.1| pseudouridine synthase, RluA family [Thermoanaerobacter italicus
Ab9]
Length = 305
Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 95/307 (30%), Positives = 151/307 (49%), Gaps = 58/307 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I +G + V+G+ V P+ + E+V + +P E ++P L++LYEDDD+I +
Sbjct: 39 IVDGLVFVNGKTVK-PSYKVKENDEVVVN-IPEAEKIDVLPENIP--LDILYEDDDIIVI 94
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + S + P VHRL + TSG+++ AK
Sbjct: 95 NKPQGMVVHPAPGNYSGTLVNALLYHCKNLSGI--NGILRPGIVHRLDKDTSGVMVVAKN 152
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A ++ ++ +R + K Y A+V G++ +++ I+ PIG R+
Sbjct: 153 DKAHISLSN----------------QIKERSVFKKYVAIVEGVIKDEEGKIEAPIG--RH 194
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P K + V G+ AL+ VLER + TLV+ I++GR HQIR+H+AF+GHP++G
Sbjct: 195 PVDRKKMAVIE-DGRYALTLYKVLER--FKENTLVEAVIKTGRTHQIRVHMAFIGHPVVG 251
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP+Y G + + F E G LH+ L HPT ++
Sbjct: 252 DPVY--GFKKQKFKLE-----------------------GQALHSSILGFIHPTKGVYME 286
Query: 318 ITAPLPS 324
APLP
Sbjct: 287 FEAPLPE 293
>gi|49083826|gb|AAT51150.1| PA4544, partial [synthetic construct]
Length = 321
Score = 121 bits (304), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 104/317 (32%), Positives = 161/317 (50%), Gaps = 59/317 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L GW I++G++TVDG V+ P I+ +G++LV + W D+ LE++YED
Sbjct: 36 LAGW---IKDGRLTVDGAVLR-PRDIVHSGAQLVLEAEQEAQGEWLAQDIE--LEIVYED 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRG 127
+ ++ ++KP+GL V P Q T+LN L + ++ VP VHRL +
Sbjct: 90 EHILVIDKPAGLVVHPAAGHQDGTLLNALLYHVPDIAN---------VPRAGIVHRLDKD 140
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
T+G+++ AKT A T + V +L R +++IY A+V G++ I
Sbjct: 141 TTGLMVVAKTLEAHTKL----------------VAQLQARSVSRIYEAIVIGVITSGGTI 184
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
PIG R+ GV + +GK A+S VLER R T +V++++GR HQIR+H
Sbjct: 185 -DAPIG--RH-GVQRQKMAVVDAGKVAVSHYRVLERF--RAHTHTRVKLETGRTHQIRVH 238
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
++ +G+PL+GDP+Y GG+ + A T Q + P LHA L L
Sbjct: 239 MSHIGYPLVGDPVY--GGRFRI--PPVASQTLVQ------TLREFPRQA---LHARFLEL 285
Query: 308 SHPTTNEVIKITAPLPS 324
HP T +K +PLP
Sbjct: 286 DHPATGVRMKWESPLPE 302
>gi|153853142|ref|ZP_01994551.1| hypothetical protein DORLON_00536 [Dorea longicatena DSM 13814]
gi|149753928|gb|EDM63859.1| pseudouridine synthase, RluA family [Dorea longicatena DSM 13814]
Length = 272
Score = 121 bits (304), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 93/306 (30%), Positives = 142/306 (46%), Gaps = 49/306 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDDLIALNKP 80
++ G + V+ + V N LS G + KEPD+ L++LYED D+I +NKP
Sbjct: 1 MKEGYVKVNQKPVKS-NYRLSFGDSVEVTLPEAKEPDIVPENIPLDILYEDQDIIMINKP 59
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
+ V P T++N L + + S ++ P VHR+ T+G L+ K A
Sbjct: 60 KQMVVHPAPGHYSGTLVNALMYHCGDELSGING-CMRPGIVHRIDMDTTGSLVVCKNDKA 118
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGV 200
++ +L I +IY A+VHG + ED + PIG R+P
Sbjct: 119 HQSLS----------------EQLKVHSIRRIYVAIVHGNIKEDSGTVNAPIG--RHPTD 160
Query: 201 AKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPL 260
K + +G+ A++ VLER + T +Q E+++GR HQIR+H+A +GHPL+GD +
Sbjct: 161 RKKMSTHCKNGRDAVTHYKVLER--FGDYTYIQCELETGRTHQIRVHMASIGHPLVGDEV 218
Query: 261 YVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITA 320
Y PK P G G LHA L + HPTT + +++ A
Sbjct: 219 Y----GPKKC--------------------PFKGLQGQTLHARTLGIIHPTTGKYLEVNA 254
Query: 321 PLPSVL 326
PLP
Sbjct: 255 PLPEYF 260
>gi|304404034|ref|ZP_07385696.1| pseudouridine synthase, RluA family [Paenibacillus curdlanolyticus
YK9]
gi|304347012|gb|EFM12844.1| pseudouridine synthase, RluA family [Paenibacillus curdlanolyticus
YK9]
Length = 324
Score = 121 bits (304), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 153/316 (48%), Gaps = 57/316 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV----PYLLEVLYEDD 72
+Q W I++G + V+G + L AG +++ +P EP P L ++YED+
Sbjct: 54 IQEW---IKSGAVLVNGTEAKAKHR-LEAG-DVITVEVPEPEPAEIIAEPIPLNIVYEDE 108
Query: 73 DLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGIL 132
D+I +NK GL V P TV+N L + Q S + + P VHR+ + TSG+L
Sbjct: 109 DVIVINKQRGLVVHPAPGHHSGTVVNALMYHC--QDLSGINGSIRPGIVHRIDKDTSGLL 166
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPI 192
+ AK A ++ +L + +T+ Y ALVHG + D+ + PI
Sbjct: 167 MAAKNDAAHASLSA----------------QLKEHTVTRKYIALVHGNLPHDRGTVDAPI 210
Query: 193 GIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
G R K V + K A++ V+ER + T++++++++GR HQIR+H+ ++G
Sbjct: 211 G--RDSRDRKMFAVTDKNSKHAVTHFSVIER--LDDYTVLELQLETGRTHQIRVHMKYIG 266
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
HPL GDP+Y G+ K T A + G LHA L +HP T
Sbjct: 267 HPLAGDPMY---GRSK---------TVALN--------------GQALHAAILGFNHPRT 300
Query: 313 NEVIKITAPLPSVLKT 328
NE ++ AP+P ++
Sbjct: 301 NEYLEFEAPIPEDMEN 316
>gi|161510965|ref|YP_089013.2| 23S rRNA pseudouridine synthase D [Mannheimia succiniciproducens
MBEL55E]
Length = 324
Score = 121 bits (304), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 99/331 (29%), Positives = 163/331 (49%), Gaps = 58/331 (17%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I++ + ++G+V N P + G ++ + +
Sbjct: 22 TLAELFPDYSRSR--LKTW---IEDELVLLNGKVANIPREKVYGGEQVEITVEIEDENRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD++ +NKP V PG TVLN L + + + +
Sbjct: 77 EPQNIP--LNIVYEDDDILVINKPKDFVVHPGAGNPNGTVLNALLYHYPQITEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTQL----------------VRALQKRKITREYEAI 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + +P+ R+P + L P GKPA++ V+E RN T +++ +
Sbjct: 174 AFGIMTKGGTV-DEPMS--RHP-TKRTLMAVHPMGKPAVTHYRVMEHF--RNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVP 293
++GR HQIR+H+A + HPLLGD Y GG+ PK+ EF + ++R
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEEF----MSVLRNFQRQA---- 277
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L HP T E+++ APLP
Sbjct: 278 ------LHAIMLRLEHPITGELMEWHAPLPE 302
>gi|148978562|ref|ZP_01815014.1| 23S rRNA pseudouridine synthase D [Vibrionales bacterium SWAT-3]
gi|417949672|ref|ZP_12592804.1| 23S rRNA pseudouridine synthase D [Vibrio splendidus ATCC 33789]
gi|145962351|gb|EDK27632.1| 23S rRNA pseudouridine synthase D [Vibrionales bacterium SWAT-3]
gi|342807812|gb|EGU42990.1| 23S rRNA pseudouridine synthase D [Vibrio splendidus ATCC 33789]
Length = 324
Score = 121 bits (304), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 96/328 (29%), Positives = 155/328 (47%), Gaps = 56/328 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
++ WL +G++ VDG V+ P + + G E++ W+ D+P L++++ED
Sbjct: 36 IKEWLL---DGKVQVDGEVITKPRVKVMGGEEIILQAELEDEERWEAQDIP--LDIVFED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
+ L+ +NKP V PG TVLN L + ++ VHRL + T+G+
Sbjct: 91 EHLLVINKPRDFVVHPGAGTPDGTVLNALLHHYPQ-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L++R+IT+ Y A+ G + ++ K
Sbjct: 146 MVVAKTVPAQTRL----------------VRALAKRRITREYEAIAIGKMTAGGMVEK-- 187
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
GI R+ + L + +GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 188 -GISRH-ATKRTLMAVNETGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ PK E A D LHA L
Sbjct: 244 QHPLLGDIAY--GGRARIPKGASEELTKMIRAFD--------------RQALHAVMLKFV 287
Query: 309 HPTTNEVIKITAPLPSVLKTREEGREVD 336
HP T E ++ AP+P+ + E VD
Sbjct: 288 HPITGEEVEFHAPVPNDMVVMAEALRVD 315
>gi|15640728|ref|NP_230358.1| 23S rRNA pseudouridine synthase D [Vibrio cholerae O1 biovar El Tor
str. N16961]
gi|153822744|ref|ZP_01975411.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
B33]
gi|227080889|ref|YP_002809440.1| 23S rRNA pseudouridine synthase D [Vibrio cholerae M66-2]
gi|229505673|ref|ZP_04395183.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
BX 330286]
gi|229508754|ref|ZP_04398247.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
B33]
gi|229519496|ref|ZP_04408939.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
RC9]
gi|229608691|ref|YP_002879339.1| 23S rRNA pseudouridine synthase D [Vibrio cholerae MJ-1236]
gi|254851039|ref|ZP_05240389.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
MO10]
gi|255743834|ref|ZP_05417790.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholera
CIRS 101]
gi|262156053|ref|ZP_06029172.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
INDRE 91/1]
gi|298500820|ref|ZP_07010623.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
MAK 757]
gi|360034618|ref|YP_004936381.1| 23S rRNA pseudouridine synthase D [Vibrio cholerae O1 str.
2010EL-1786]
gi|379740564|ref|YP_005332533.1| 23S rRNA pseudouridine synthase D [Vibrio cholerae IEC224]
gi|417812755|ref|ZP_12459414.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-49A2]
gi|417815622|ref|ZP_12462255.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HCUF01]
gi|418331757|ref|ZP_12942698.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-06A1]
gi|418336177|ref|ZP_12945078.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-23A1]
gi|418343014|ref|ZP_12949809.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-28A1]
gi|418348181|ref|ZP_12952916.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-43A1]
gi|418354482|ref|ZP_12957204.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-61A1]
gi|419825175|ref|ZP_14348681.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
CP1033(6)]
gi|421315740|ref|ZP_15766312.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1032(5)]
gi|421319563|ref|ZP_15770122.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1038(11)]
gi|421323613|ref|ZP_15774141.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1041(14)]
gi|421328009|ref|ZP_15778524.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1042(15)]
gi|421330934|ref|ZP_15781416.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1046(19)]
gi|421334603|ref|ZP_15785071.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1048(21)]
gi|421338495|ref|ZP_15788931.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-20A2]
gi|421345551|ref|ZP_15795937.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-46A1]
gi|422890816|ref|ZP_16933227.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-40A1]
gi|422901691|ref|ZP_16937054.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-48A1]
gi|422905916|ref|ZP_16940761.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-70A1]
gi|422912511|ref|ZP_16947037.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HFU-02]
gi|422924994|ref|ZP_16958024.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-38A1]
gi|423144314|ref|ZP_17131928.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-19A1]
gi|423148966|ref|ZP_17136325.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-21A1]
gi|423152811|ref|ZP_17140009.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-22A1]
gi|423155616|ref|ZP_17142729.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-32A1]
gi|423159451|ref|ZP_17146423.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-33A2]
gi|423164137|ref|ZP_17150924.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-48B2]
gi|423730270|ref|ZP_17703588.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-17A1]
gi|423748834|ref|ZP_17711598.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-50A2]
gi|423891988|ref|ZP_17725675.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-62A1]
gi|423926763|ref|ZP_17730291.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-77A1]
gi|424001318|ref|ZP_17744407.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-17A2]
gi|424005474|ref|ZP_17748458.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-37A1]
gi|424023484|ref|ZP_17763148.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-62B1]
gi|424026288|ref|ZP_17765904.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-69A1]
gi|424585613|ref|ZP_18025207.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1030(3)]
gi|424594308|ref|ZP_18033646.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1040(13)]
gi|424598173|ref|ZP_18037371.1| ribosomal large subunit pseudouridine synthase D [Vibrio Cholerae
CP1044(17)]
gi|424600927|ref|ZP_18040084.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1047(20)]
gi|424605906|ref|ZP_18044871.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1050(23)]
gi|424609740|ref|ZP_18048598.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-39A1]
gi|424612541|ref|ZP_18051348.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-41A1]
gi|424616364|ref|ZP_18055055.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-42A1]
gi|424621300|ref|ZP_18059828.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-47A1]
gi|424644278|ref|ZP_18082032.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-56A2]
gi|424651921|ref|ZP_18089445.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-57A2]
gi|424655870|ref|ZP_18093172.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-81A2]
gi|440709001|ref|ZP_20889661.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
4260B]
gi|443502816|ref|ZP_21069805.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-64A1]
gi|443506729|ref|ZP_21073519.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-65A1]
gi|443510836|ref|ZP_21077500.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-67A1]
gi|443514398|ref|ZP_21080937.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-68A1]
gi|443518211|ref|ZP_21084628.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-71A1]
gi|443523078|ref|ZP_21089318.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-72A2]
gi|443530708|ref|ZP_21096724.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-7A1]
gi|443534467|ref|ZP_21100379.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-80A1]
gi|443538058|ref|ZP_21103914.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-81A1]
gi|449053974|ref|ZP_21732642.1| Ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
O1 str. Inaba G4222]
gi|34395835|sp|Q9KU20.1|RLUD_VIBCH RecName: Full=Ribosomal large subunit pseudouridine synthase D;
AltName: Full=23S rRNA pseudouridine(1911/1915/1917)
synthase; AltName: Full=rRNA pseudouridylate synthase D;
AltName: Full=rRNA-uridine isomerase D
gi|9655151|gb|AAF93874.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
O1 biovar El Tor str. N16961]
gi|126519727|gb|EAZ76950.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
B33]
gi|227008777|gb|ACP04989.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
M66-2]
gi|229344185|gb|EEO09160.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
RC9]
gi|229354278|gb|EEO19208.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
B33]
gi|229357896|gb|EEO22813.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
BX 330286]
gi|229371346|gb|ACQ61769.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
MJ-1236]
gi|254846744|gb|EET25158.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
MO10]
gi|255738465|gb|EET93854.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholera
CIRS 101]
gi|262030089|gb|EEY48734.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
INDRE 91/1]
gi|297540601|gb|EFH76659.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
MAK 757]
gi|340042922|gb|EGR03885.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HCUF01]
gi|340043216|gb|EGR04176.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-49A2]
gi|341625015|gb|EGS50488.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-70A1]
gi|341626186|gb|EGS51592.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-48A1]
gi|341626665|gb|EGS52028.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-40A1]
gi|341640687|gb|EGS65268.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HFU-02]
gi|341648351|gb|EGS72415.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-38A1]
gi|356420480|gb|EHH74006.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-06A1]
gi|356421194|gb|EHH74699.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-21A1]
gi|356426017|gb|EHH79356.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-19A1]
gi|356433700|gb|EHH86887.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-23A1]
gi|356434211|gb|EHH87393.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-22A1]
gi|356437741|gb|EHH90827.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-28A1]
gi|356442785|gb|EHH95620.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-32A1]
gi|356447759|gb|EHI00547.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-43A1]
gi|356450007|gb|EHI02743.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-33A2]
gi|356453736|gb|EHI06396.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-61A1]
gi|356456274|gb|EHI08883.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-48B2]
gi|356645772|gb|AET25827.1| 23S rRNA pseudouridine synthase D [Vibrio cholerae O1 str.
2010EL-1786]
gi|378794074|gb|AFC57545.1| 23S rRNA pseudouridine synthase D [Vibrio cholerae IEC224]
gi|395922481|gb|EJH33297.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1032(5)]
gi|395922828|gb|EJH33643.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1041(14)]
gi|395925888|gb|EJH36685.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1038(11)]
gi|395930594|gb|EJH41341.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1042(15)]
gi|395934787|gb|EJH45525.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1046(19)]
gi|395937396|gb|EJH48115.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1048(21)]
gi|395944931|gb|EJH55603.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-20A2]
gi|395948496|gb|EJH59141.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-46A1]
gi|395962408|gb|EJH72707.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-56A2]
gi|395963601|gb|EJH73864.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-57A2]
gi|395966422|gb|EJH76547.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-42A1]
gi|395974596|gb|EJH84121.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-47A1]
gi|395977459|gb|EJH86869.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1030(3)]
gi|395979147|gb|EJH88511.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1047(20)]
gi|408009466|gb|EKG47372.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-39A1]
gi|408016237|gb|EKG53791.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-41A1]
gi|408036903|gb|EKG73319.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1040(13)]
gi|408044614|gb|EKG80520.1| ribosomal large subunit pseudouridine synthase D [Vibrio Cholerae
CP1044(17)]
gi|408046323|gb|EKG82023.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1050(23)]
gi|408056909|gb|EKG91780.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-81A2]
gi|408611446|gb|EKK84807.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
CP1033(6)]
gi|408627123|gb|EKK99948.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-17A1]
gi|408640343|gb|EKL12137.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-50A2]
gi|408658149|gb|EKL29221.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-77A1]
gi|408659178|gb|EKL30233.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-62A1]
gi|408848196|gb|EKL88249.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-37A1]
gi|408849137|gb|EKL89170.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-17A2]
gi|408873282|gb|EKM12484.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-62B1]
gi|408881201|gb|EKM20111.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-69A1]
gi|439975742|gb|ELP51854.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
4260B]
gi|443432936|gb|ELS75457.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-64A1]
gi|443436760|gb|ELS82877.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-65A1]
gi|443440323|gb|ELS90012.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-67A1]
gi|443444418|gb|ELS97692.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-68A1]
gi|443448253|gb|ELT04888.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-71A1]
gi|443451028|gb|ELT11292.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-72A2]
gi|443458909|gb|ELT26304.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-7A1]
gi|443462471|gb|ELT33510.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-80A1]
gi|443466491|gb|ELT41149.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-81A1]
gi|448266543|gb|EMB03770.1| Ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
O1 str. Inaba G4222]
Length = 324
Score = 121 bits (304), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 101/316 (31%), Positives = 151/316 (47%), Gaps = 56/316 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL G+I V+G V+ P + G + W+ D+P L ++YED
Sbjct: 36 LKEWLL---EGKIAVNGDVITKPRTKVMGGEVITVQAELEDEQRWEAQDLP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP V PG +TVLN L + S ++ VHRL + T+G+
Sbjct: 91 DDIIVINKPRDFVVHPGAGQADKTVLNALLFHYSP-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R +T+ Y A+V G + +I K P
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRDVTREYEAIVIGTMTAGGMIDK-P 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GK A++ V E R T +++ +++GR HQIR+H+A+L
Sbjct: 189 IG--RH-STKRTLMSVSPMGKHAVTHYRVAEH--FREHTRLRLRLETGRTHQIRVHMAYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ PK E + +D ++R LHA L
Sbjct: 244 QHPLLGDTAY--GGRARIPKGATEELTE--MIRD--FDRQA----------LHAVMLKFE 287
Query: 309 HPTTNEVIKITAPLPS 324
HP T E ++ AP+P
Sbjct: 288 HPVTGEELEFHAPVPD 303
>gi|15893233|ref|NP_360947.1| pseudouridylate synthase [Rickettsia conorii str. Malish 7]
gi|15620450|gb|AAL03848.1| sfhB protein homolog [Rickettsia conorii str. Malish 7]
Length = 313
Score = 121 bits (304), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 81/311 (26%), Positives = 154/311 (49%), Gaps = 52/311 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD------VPYLLEVLYEDDDLIAL 77
I++ Q+ V+ +++DP++++ +++ +KEP+ L+++YEDDDLI +
Sbjct: 35 IKDSQVLVNDVIISDPDVLVKENDIILF---SFKEPEELKIAAANVALDIIYEDDDLIVI 91
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK +G+ V PG T++N L S SS+ P VHRL + T+G+++ AK
Sbjct: 92 NKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSE--RPGIVHRLDKDTTGLMVVAKN 149
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ QR++ + Y+ LV G+++ + +IK IG R
Sbjct: 150 NKAHMLLAN----------------QIEQRQVIRKYKVLVWGVINPLEGVIKNNIG--RS 191
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + + GK A++ +LE + + ++V+ ++ +GR HQIR+ L+ L H ++G
Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKILELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSVVG 251
Query: 258 DPLYVAGGQ-----PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
D Y + P ++ D ++R LH++ L +HPT+
Sbjct: 252 DQTYGNNDRKIAHSPPELKAKLID--------FKRQA----------LHSWYLSFTHPTS 293
Query: 313 NEVIKITAPLP 323
NE+++ + LP
Sbjct: 294 NEIMEFSCELP 304
>gi|297544813|ref|YP_003677115.1| RluA family pseudouridine synthase [Thermoanaerobacter mathranii
subsp. mathranii str. A3]
gi|296842588|gb|ADH61104.1| pseudouridine synthase, RluA family [Thermoanaerobacter mathranii
subsp. mathranii str. A3]
Length = 305
Score = 121 bits (304), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 84/263 (31%), Positives = 129/263 (49%), Gaps = 48/263 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L++LYEDDD+I +NKP G+ V P T++N L + S + P VHRL
Sbjct: 82 LDILYEDDDIIVINKPQGMVVHPAPGNYSGTLVNALLYHCKNLSGI--NGILRPGIVHRL 139
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+++ AK A ++ ++ +R + K Y A+V G++ +
Sbjct: 140 DKDTSGVMVVAKNDKAHISLSN----------------QIKERSVFKKYVAIVEGVIKNE 183
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ I+ PIG R+P K + V G+ AL+ VLER + TL++ I++GR HQI
Sbjct: 184 EEKIEAPIG--RHPVDRKKMAVIE-DGRYALTLYKVLER--FKENTLIEAVIKTGRTHQI 238
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+AF+GHP++GDP+Y G + + F E G LH+
Sbjct: 239 RVHMAFIGHPVVGDPVY--GFKKQKFKLE-----------------------GQALHSRV 273
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HPT ++ APLP K
Sbjct: 274 LGFMHPTKGVYMEFEAPLPEYFK 296
>gi|374324826|ref|YP_005077955.1| RNA pseudouridine synthase ylyb [Paenibacillus terrae HPL-003]
gi|357203835|gb|AET61732.1| RNA pseudouridine synthase ylyb [Paenibacillus terrae HPL-003]
Length = 323
Score = 121 bits (304), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 97/313 (30%), Positives = 147/313 (46%), Gaps = 61/313 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD----VPYL--LEVLYE 70
+Q W I NG++ V+G + N L+ G + L EP+ VP L+V+YE
Sbjct: 53 IQLW---IVNGRVLVNGTAIK-ANYKLAEGDRI---SLSVPEPESVDIVPENIPLDVVYE 105
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+I +NK GL V P T++N L + S + P VHR+ + TSG
Sbjct: 106 DSDVIVINKQRGLVVHPAPGHSSGTLVNALMYHCHDLSGI--NGELRPGIVHRIDKDTSG 163
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A +A D + +T+ Y ALVHG + D+ +
Sbjct: 164 LLMAAKNDQAHASLAAQLKDHS----------------VTRKYIALVHGHLSHDQGTVDA 207
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R G K V + K A++ V+ER + TL+++++++GR HQIR+H+ F
Sbjct: 208 PIG--RDSGDRKLFTVTERNSKHAVTHFLVIER--LGDYTLLELQLETGRTHQIRVHMKF 263
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHPL+GDP+Y G+ K + G LHA L HP
Sbjct: 264 IGHPLVGDPMY---GRSKGVRMD-----------------------GQALHAAVLGFKHP 297
Query: 311 TTNEVIKITAPLP 323
TT E ++ + P+P
Sbjct: 298 TTGEYMEFSRPIP 310
>gi|254780610|ref|YP_003065023.1| RNA-pseudouridylate synthase protein, ribosomal large subunit D
[Candidatus Liberibacter asiaticus str. psy62]
gi|254040287|gb|ACT57083.1| RNA-pseudouridylate synthase protein, ribosomal large subunit D
[Candidatus Liberibacter asiaticus str. psy62]
Length = 340
Score = 121 bits (304), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 89/318 (27%), Positives = 156/318 (49%), Gaps = 44/318 (13%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIALN 78
I NG I+++G V +PN + G + +L + ++P L++LYEDDD+I +N
Sbjct: 46 ILNGFISINGMVSKNPNRKVVPGDSFLITVPAAQKLNIAQENIP--LDILYEDDDIIVIN 103
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP+GL V P T++N L + SS++ P VHRL + T+G+++ AK
Sbjct: 104 KPAGLVVHPAPGNWTGTLVNALLYHCHNNLSSING-VKRPGIVHRLDKDTTGVMVVAKND 162
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
LA ++ F D ST ++ + Y A+V GI D II P+G +
Sbjct: 163 LAHQKLSEQFVDH-----GKST-------RLKRAYYAMVWGIPLPDSGIINAPLGRCKSN 210
Query: 199 GVAKGLY-VASPSGKPALSK---VDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHP 254
+ + + + + A++ +++ ++ +L++ +++GR HQIR+H+A G+P
Sbjct: 211 RLRRAVKGIDDKTADSAITHYQTIEIYNKNSNFAVSLLKCHLETGRTHQIRVHMAHKGNP 270
Query: 255 LLGDPLYVAGGQPKS----FDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
L+GDPLY G + K+ +++ A + A+ LHA+ L SHP
Sbjct: 271 LIGDPLYGKGFKTKANIVNNNAKSAILSLARQA----------------LHAHSLSFSHP 314
Query: 311 TTNEVIKITAPLPSVLKT 328
N+ + P+P + T
Sbjct: 315 RNNQDMDFQVPIPEDMLT 332
>gi|343498449|ref|ZP_08736485.1| 23S rRNA pseudouridine synthase D [Vibrio tubiashii ATCC 19109]
gi|418477076|ref|ZP_13046212.1| 23S rRNA pseudouridine synthase D [Vibrio tubiashii NCIMB 1337 =
ATCC 19106]
gi|342824421|gb|EGU58966.1| 23S rRNA pseudouridine synthase D [Vibrio tubiashii ATCC 19109]
gi|384575271|gb|EIF05722.1| 23S rRNA pseudouridine synthase D [Vibrio tubiashii NCIMB 1337 =
ATCC 19106]
Length = 326
Score = 121 bits (304), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 101/335 (30%), Positives = 153/335 (45%), Gaps = 64/335 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL NG++ V+G V+ P + G E+ W+ D+P L+++YED
Sbjct: 36 LKEWLL---NGKVQVNGEVITKPRTKVMGGEEITLQAELEDEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD++ +NKP G V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 DDIMVINKPRGFVVHPGAGTPDGTVLNALLHHYPD-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + K R + Y A+ G + + +QP
Sbjct: 146 MVVAKTVPAQTRLVRALQKK---------------RNFVREYEAIAIGRMTAGGRV-EQP 189
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 190 IG--RH-STKRTLMAVSPMGKPAITHYRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 244
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ P E A+ + ++R LHA L
Sbjct: 245 QHPLLGDTAY--GGRARIPSGASQELAEHIRS----FDRQA----------LHAVMLKFE 288
Query: 309 HPTTNEVIKITAPLPSVL---------KTREEGRE 334
HP T E ++ AP+P + TRE G E
Sbjct: 289 HPITGEEVEFHAPVPDDMVEMAEALRQDTREHGLE 323
>gi|344996038|ref|YP_004798381.1| RluA family pseudouridine synthase [Caldicellulosiruptor
lactoaceticus 6A]
gi|343964257|gb|AEM73404.1| pseudouridine synthase, RluA family [Caldicellulosiruptor
lactoaceticus 6A]
Length = 300
Score = 121 bits (304), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 86/259 (33%), Positives = 135/259 (52%), Gaps = 47/259 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
+EV+YED+ L +NKP G+ V PG + T++N L + S + SS++ P VHRL
Sbjct: 73 IEVVYEDEHLAVINKPCGMVVHPGTGNFENTLVNALLHKFSGRLSSING-VIRPGIVHRL 131
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AKT A ++ L +I +IY A+ G++ ED
Sbjct: 132 DKDTSGLLIVAKTDEAHIKLSE----------------ALKSHQIKRIYYAICEGVLKED 175
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+I PIG R+P V + P+GK A++ +VLER T +++ +++GR HQI
Sbjct: 176 SGVINAPIG--RHP-VNRLKMAVVPNGKEAVTYFEVLER--FDKYTFIKLRLKTGRTHQI 230
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H++++G+PLLGD Y G+ K +EF G G LHA +
Sbjct: 231 RVHMSYIGYPLLGDSSY---GRAK---NEF-------------------GVQGQVLHAGE 265
Query: 305 LFLSHPTTNEVIKITAPLP 323
+ HP T++V+ +A LP
Sbjct: 266 IEFVHPITSKVLHFSADLP 284
>gi|373458939|ref|ZP_09550706.1| pseudouridine synthase, RluA family [Caldithrix abyssi DSM 13497]
gi|371720603|gb|EHO42374.1| pseudouridine synthase, RluA family [Caldithrix abyssi DSM 13497]
Length = 322
Score = 121 bits (303), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 94/311 (30%), Positives = 158/311 (50%), Gaps = 43/311 (13%)
Query: 24 IQNGQITVDGRVVNDPN---IILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDDLIAL 77
I+N + V+ N P+ +L G E+ H L + D+ P + ++YED+DL+ +
Sbjct: 38 IKNNDVLVN----NQPSKSGYLLRLGDEISVH-LKRTQIDMEPEPIPINIVYEDEDLLVI 92
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
+KP+G+ V PG + T++N L + + S + + +A P VHRL + TSG+L+ AK
Sbjct: 93 DKPAGMVVHPGKGNESNTLVNALLYHTN--SLADTGEAVRPGIVHRLDKDTSGLLVIAKN 150
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A+ + F K +I +IY ALV G DED+ +I++PI R
Sbjct: 151 DRAQRHLRRQFDTK----------------EIFRIYWALVWGDFDEDRGVIREPIARSRK 194
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ +V P G+ A+++ VL+R + TL+++ +++GR HQIR+H+ + HP++G
Sbjct: 195 NPIK---FVVDPRGRDAVTRFKVLQR--FQYVTLLEIRLETGRTHQIRVHMRHINHPVVG 249
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
D LY G + + + + G E + +P LHA +L HP T + +
Sbjct: 250 DQLY-NGRETQLLN---LPQNLRKRG--EHLLKLLPHQT---LHARKLSFLHPRTGQRVD 300
Query: 318 ITAPLPSVLKT 328
A LP KT
Sbjct: 301 FEADLPENFKT 311
>gi|358448457|ref|ZP_09158960.1| RluA family pseudouridine synthase [Marinobacter manganoxydans
MnI7-9]
gi|357227245|gb|EHJ05707.1| RluA family pseudouridine synthase [Marinobacter manganoxydans
MnI7-9]
Length = 325
Score = 121 bits (303), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 105/335 (31%), Positives = 165/335 (49%), Gaps = 66/335 (19%)
Query: 17 LQGWLQRIQNGQITVDG-------RVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLY 69
LQ W I++G +TV+G +V+ D + L A E ++ W+ ++ L+++Y
Sbjct: 38 LQSW---IKSGALTVNGETRKPRDKVMLDDRLALDAEPEA---QVSWQAEEIS--LDIVY 89
Query: 70 EDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTS 129
ED+ L+ +NKP+GL V P T++N L A + + + VHRL + TS
Sbjct: 90 EDEHLLVINKPAGLVVHPAAGHADGTLVNALLNYAPEVENLPRAGI-----VHRLDKDTS 144
Query: 130 GILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIK 189
GI++ A++ +A T S V +L R + + Y A+V G + +
Sbjct: 145 GIMVVARSLIAHT----------------SLVDQLQTRTMGREYEAVVVGTLT-GGATVD 187
Query: 190 QPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLA 249
PIG R+P K + V + SGKPA++ ++ER T V+ +++SGR HQIR+H+A
Sbjct: 188 APIG--RHPRERKKMAVVA-SGKPAVTHYRLVERFAAH--THVRCKLESGRTHQIRVHMA 242
Query: 250 FLGHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLF 306
+ HPL+GDPLY GG+ PK E + A + R LHA QL
Sbjct: 243 HVKHPLVGDPLY--GGRLRLPKGTTDELREALSA----FNRQA----------LHARQLT 286
Query: 307 LSHPTTNEVIKITAPLPS-----VLKTREEGREVD 336
L HP T E++ PLP + R+ RE++
Sbjct: 287 LEHPETGEILTWEVPLPEDMVALIEALRKHARELE 321
>gi|410667646|ref|YP_006920017.1| pseudouridylate synthase RluA [Thermacetogenium phaeum DSM 12270]
gi|409105393|gb|AFV11518.1| pseudouridylate synthase RluA [Thermacetogenium phaeum DSM 12270]
Length = 313
Score = 121 bits (303), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 93/267 (34%), Positives = 130/267 (48%), Gaps = 54/267 (20%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP--VH 122
L+++YED+DL+ +NKP GL V P + T++N + K LS + P VH
Sbjct: 83 LDIIYEDEDLLVINKPQGLVVHPAAGHKSGTLVNAVLNHCPK----LSGIGGYLRPGIVH 138
Query: 123 RLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVD 182
RL + TSG++L +K+ LA + +L +R I + Y ALVHG V
Sbjct: 139 RLDKDTSGLILVSKSDLAHQEL----------------TRQLKERSIKREYLALVHGEVK 182
Query: 183 EDKVIIKQPIGIVRYPGVAKGLYV---ASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
EDK +I P+G R P K + V +P K A + V ER TL+ V +++G
Sbjct: 183 EDKGVIDAPVG--RDPRNRKKMAVLPEGAPGAKSARTSYRVRERFA--GYTLLGVSLETG 238
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR H++FLGHP+ GDP+Y G R NP+ G G
Sbjct: 239 RTHQIRTHMSFLGHPVAGDPVY----------------------GPRR--NPL-GLPGQA 273
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVL 326
LHA ++ HP T E + TAP P V
Sbjct: 274 LHAGKISFQHPRTGEALTFTAPPPPVF 300
>gi|417844614|ref|ZP_12490655.1| Ribosomal large subunit pseudouridine synthase D [Haemophilus
haemolyticus M21639]
gi|341956573|gb|EGT82994.1| Ribosomal large subunit pseudouridine synthase D [Haemophilus
haemolyticus M21639]
Length = 324
Score = 121 bits (303), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 99/333 (29%), Positives = 160/333 (48%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G ++ V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRITNIPREKVLGGEKIEITVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + + +
Sbjct: 77 EPENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIAEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKNTTGLMIVAKTIPAQTKL----------------VRNLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLAHPITGEMMEWYAPLPD 302
>gi|154685962|ref|YP_001421123.1| hypothetical protein RBAM_015290 [Bacillus amyloliquefaciens FZB42]
gi|394993883|ref|ZP_10386622.1| YlyB [Bacillus sp. 916]
gi|429505097|ref|YP_007186281.1| hypothetical protein B938_07935 [Bacillus amyloliquefaciens subsp.
plantarum AS43.3]
gi|154351813|gb|ABS73892.1| YlyB [Bacillus amyloliquefaciens FZB42]
gi|393805207|gb|EJD66587.1| YlyB [Bacillus sp. 916]
gi|429486687|gb|AFZ90611.1| hypothetical protein B938_07935 [Bacillus amyloliquefaciens subsp.
plantarum AS43.3]
Length = 304
Score = 121 bits (303), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 94/314 (29%), Positives = 145/314 (46%), Gaps = 55/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W ++ G ++V+G+ V N + G ++ +E DV P L++ YED D
Sbjct: 33 VQQW---VKEGLVSVNGKSVK-ANYKMQPGDQVNVTIPEPEELDVLAEPMDLDIYYEDQD 88
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 89 VLVVNKPRGMVVHPAPGHVTGTLVNGLMAHCNDLSGI--NGVMRPGIVHRIDKDTSGLLM 146
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A + +KT +T+ Y A+VHG++ D I PIG
Sbjct: 147 VAKNDMAHESLVNQLVNKT----------------VTRKYTAVVHGVISHDDGTIDAPIG 190
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V S K A++ VLER ++ TLV+ +++GR HQIR+H+ ++G
Sbjct: 191 --RDKKDRQSMTVTRESSKNAVTHFHVLER--FQDFTLVECRLETGRTHQIRVHMKYIGF 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPRKTIDFN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E ++ APLP +K
Sbjct: 281 EYMEFEAPLPEDMK 294
>gi|13473214|ref|NP_104781.1| pseudouridine synthase [Mesorhizobium loti MAFF303099]
gi|14023962|dbj|BAB50567.1| pseudouridine synthase [Mesorhizobium loti MAFF303099]
Length = 329
Score = 121 bits (303), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 97/313 (30%), Positives = 147/313 (46%), Gaps = 43/313 (13%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP----YLLEVLYEDDDLIALNK 79
I+ G ++VDG+ ++ +SAG E V +P EP P L+VLYEDD LI +NK
Sbjct: 34 IRQGAVSVDGKPADETKRKMSAG-ESVSIAMPEPEPAAPQGEAIALDVLYEDDALIVINK 92
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
P+GL V PG T++N L S + P VHRL + TSG+++ AKT
Sbjct: 93 PAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGG-VRRPGIVHRLDKETSGVMVVAKTDR 151
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGI----V 195
A ++ FAD D + + Y ALV GI + P+G V
Sbjct: 152 AHKALSEAFADHGRTGD------------LERAYLALVWGIPQRPTGTVDAPLGRAADRV 199
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQR-----NCTLVQVEIQSGRPHQIRIHLAF 250
R V +G + A++ V ER + +LV+ +++GR HQIR+H+A
Sbjct: 200 RRAVVPEG----RDDARHAVTHFAVQERFGENQQEFATASLVECRLETGRTHQIRVHMAH 255
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHP++GDP Y G ++ + + +Q + R LHA+ L HP
Sbjct: 256 IGHPVIGDPDY--GQAFRTKANRLPEPLKSQVKAFSRQA----------LHAWLLAFRHP 303
Query: 311 TTNEVIKITAPLP 323
T+ ++ AP+P
Sbjct: 304 DTHLTMRFEAPIP 316
>gi|239948112|ref|ZP_04699865.1| ribosomal large subunit pseudouridine synthase, RluA family
[Rickettsia endosymbiont of Ixodes scapularis]
gi|239922388|gb|EER22412.1| ribosomal large subunit pseudouridine synthase, RluA family
[Rickettsia endosymbiont of Ixodes scapularis]
Length = 310
Score = 121 bits (303), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 84/323 (26%), Positives = 157/323 (48%), Gaps = 57/323 (17%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD------VPYLLEVLYEDDDLI 75
+ I++ + V+ +++DP++++ +++ +KEP+ L+++YEDDDLI
Sbjct: 33 KSIKSSCVQVNDVIISDPDVLVKENDVILF---SFKEPEELKIAAANIALDIIYEDDDLI 89
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NK +G+ V PG T++N L + S SS+ P VHRL + T+G+++ A
Sbjct: 90 VINKAAGMTVHPGAGHHDDTLVNALLYHTKNLSDIGSSE--RPGIVHRLDKNTTGLMVVA 147
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A ++ QR++ + Y+ALV G+++ + +IK IG
Sbjct: 148 KNNKAHMLLAN----------------QIEQRQVIRKYKALVWGVINPLEGVIKNNIG-- 189
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R + + + GK A++ LE ++V+ ++ +GR HQIR+ L+ L H +
Sbjct: 190 RSRSDRQKMTILKYGGKEAVTHYKTLELFYSGTISMVECKLSTGRTHQIRVQLSHLKHSV 249
Query: 256 LGDPLYVAGGQ-----PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GD Y + P ++ D ++R LH++ L +HP
Sbjct: 250 VGDQTYGNNDRKIAHSPPELKAKLID--------FKRQA----------LHSWYLSFTHP 291
Query: 311 TTNEVIKITAPLPSVLKTREEGR 333
T+NE+++ + LP R+ GR
Sbjct: 292 TSNEIMEFSCELP-----RDMGR 309
>gi|415727293|ref|ZP_11471391.1| hypothetical protein CGSMWGv00703Dmash_05533 [Gardnerella vaginalis
00703Dmash]
gi|388062190|gb|EIK84808.1| hypothetical protein CGSMWGv00703Dmash_05533 [Gardnerella vaginalis
00703Dmash]
Length = 331
Score = 121 bits (303), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 86/274 (31%), Positives = 135/274 (49%), Gaps = 45/274 (16%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
+ + Y+D+D++ ++KP G+ + TV L+ R S++ + + V RL
Sbjct: 102 MTIAYKDEDIVVVDKPVGMAAHQAQGWCGPTVGETLEKRGISISATAGDENRRGI-VSRL 160
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
GTSG++L +T LA + FA+ T + K Y ALV G + ++
Sbjct: 161 DAGTSGLMLVCRTDLAYEEMKKQFANHT----------------VKKTYHALVQGDLTQN 204
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I+ PIG + V+ + +PSGKPA++ DVLER Q TL V +++GR HQI
Sbjct: 205 KATIEAPIGRAK---VSDFRFTITPSGKPAVTHWDVLERFGQ--ATLASVNLETGRTHQI 259
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H +GHPL+GD +Y G P A+ G R +LH+ +
Sbjct: 260 RVHFTSIGHPLVGDSMY--GANP----------VLAKKLGLTRQ----------WLHSIE 297
Query: 305 LFLSHPTTNEVIKITAPLPSVLK-TREEGREVDK 337
L +HP T ++IK+ + PS L+ E RE+ K
Sbjct: 298 LIFTHPRTGKLIKVKSNYPSDLQHALEAMRELSK 331
>gi|422343047|ref|ZP_16423975.1| hypothetical protein HMPREF9432_00035 [Selenomonas noxia F0398]
gi|355379003|gb|EHG26179.1| hypothetical protein HMPREF9432_00035 [Selenomonas noxia F0398]
Length = 302
Score = 121 bits (303), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 97/314 (30%), Positives = 146/314 (46%), Gaps = 58/314 (18%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+ + QR I+ ++TVDG N L G E V LP E ++P L++LYE
Sbjct: 27 RSYAQRLIEEKRVTVDG-TPRKANYKL-CGGECVACDLPPAEEVSVRAENIP--LDILYE 82
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+I +NKP G+ V P T++N L + Q S + A P VHRL + TSG
Sbjct: 83 DADIIVVNKPRGMVVHPAAGISGGTLVNALLYHC--QDLSGINGALRPGIVHRLDKDTSG 140
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
++ AK A +A ++ +++ + YRA+V+G + E II
Sbjct: 141 VMAAAKNDAAHRSLA----------------EQIQKKEARREYRAIVYGNIAERAGIITG 184
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
IG R+P K + + +GK A + +VLER T V +++GR HQIR+H+
Sbjct: 185 DIG--RHPTDRKRMAIVRENGKHATTHFEVLER--FGGYTFVACRLETGRTHQIRVHMTS 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHPL+GD Y + P + G LH+ L L+HP
Sbjct: 241 IGHPLVGDAKYTSKKNPFAI-------------------------AGQALHSLTLTLAHP 275
Query: 311 TTNEVIKITAPLPS 324
+ E + TAPLP+
Sbjct: 276 RSGEEMAFTAPLPA 289
>gi|385854850|ref|YP_005901363.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis M01-240355]
gi|325203791|gb|ADY99244.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis M01-240355]
Length = 374
Score = 121 bits (303), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 87/263 (33%), Positives = 128/263 (48%), Gaps = 41/263 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QIPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLSAQ----------------NSLVRQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL GDP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAGDPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLPS 324
AY+L +HP T E + AP+P+
Sbjct: 301 AYRLSFTHPKTGETVSFEAPIPN 323
>gi|145633599|ref|ZP_01789327.1| SfhB [Haemophilus influenzae 3655]
gi|229847288|ref|ZP_04467391.1| 23S rRNA pseudouridine synthase D [Haemophilus influenzae 7P49H1]
gi|144985805|gb|EDJ92419.1| SfhB [Haemophilus influenzae 3655]
gi|229809831|gb|EEP45554.1| 23S rRNA pseudouridine synthase D [Haemophilus influenzae 7P49H1]
Length = 324
Score = 121 bits (303), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 99/333 (29%), Positives = 160/333 (48%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G + V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRIANIPREKVLGGERIEIIVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + + +
Sbjct: 77 EAENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIAEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLAHPITGEMMEWYAPLPD 302
>gi|90580377|ref|ZP_01236184.1| putative ribosomal large subunit pseudouridine synthase D
[Photobacterium angustum S14]
gi|90438679|gb|EAS63863.1| putative ribosomal large subunit pseudouridine synthase D [Vibrio
angustum S14]
Length = 324
Score = 121 bits (303), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 99/308 (32%), Positives = 149/308 (48%), Gaps = 53/308 (17%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYEDDDLIALN 78
I NG ++V+G VV P + G EL + + W D+P L+++YEDDD++ +N
Sbjct: 40 ILNGMVSVNGDVVKKPREKMMGGEELFIQAEIEDEVRWVAQDIP--LDIVYEDDDILVIN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP V PG TVLN L SL+ + VHRL + T+G+++ AKT
Sbjct: 98 KPRDFVVHPGAGTPDGTVLNAL----LHHCPSLAEVPRAGI-VHRLDKDTTGLMVVAKTI 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A+T + V L +RKIT+ Y AL G + I ++PIG
Sbjct: 153 QAQTRL----------------VRALQKRKITREYEALAIGQMTGGGTI-EKPIGRHSTK 195
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ ++ GK A++ V ER R T + + +++GR HQIR+H++++ HPL+GD
Sbjct: 196 RICMAVH---EMGKDAITHYRVAER--FREHTRIVLRLETGRTHQIRVHMSYMSHPLIGD 250
Query: 259 PLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
+Y GG+ P+ EF A ++R LHA L L HP T E
Sbjct: 251 VIY--GGRPRPPRDASPEFIQALRA----FDRQA----------LHARMLRLDHPITGEK 294
Query: 316 IKITAPLP 323
++ APLP
Sbjct: 295 MEWHAPLP 302
>gi|392428592|ref|YP_006469603.1| 23S rRNA pseudouridine synthase [Streptococcus intermedius JTH08]
gi|419777226|ref|ZP_14303143.1| pseudouridine synthase, RluA family [Streptococcus intermedius
SK54]
gi|383845113|gb|EID82518.1| pseudouridine synthase, RluA family [Streptococcus intermedius
SK54]
gi|391757738|dbj|BAM23355.1| 23S rRNA pseudouridine synthase [Streptococcus intermedius JTH08]
Length = 298
Score = 121 bits (303), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 155/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQI V+G+V + G + Y L + ++P L+++Y+D+D+
Sbjct: 29 EQIKSGQILVNGQV-KKAKYAVKTGDVITYELPEPETLEYVSENLP--LDIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NK G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKAQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A EL +K + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHIKLAD----------------ELKAKKSLRKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAITRFHVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y P + G+ G +LHA L +HP T +++
Sbjct: 243 GDGVY-------------------------GPRKTLKGN-GQFLHARTLGFTHPKTGKIM 276
Query: 317 KITAPLPSVLK 327
+ TA +P V +
Sbjct: 277 EFTAEVPIVFQ 287
>gi|217961313|ref|YP_002339881.1| RluA family ribosomal large subunit pseudouridine synthase
[Bacillus cereus AH187]
gi|222097338|ref|YP_002531395.1| ribosomal large subunit pseudouridine synthase, rlud subfamily
[Bacillus cereus Q1]
gi|229140541|ref|ZP_04269096.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BDRD-ST26]
gi|375285818|ref|YP_005106257.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus
NC7401]
gi|423353596|ref|ZP_17331223.1| RluA family pseudouridine synthase [Bacillus cereus IS075]
gi|423567211|ref|ZP_17543458.1| RluA family pseudouridine synthase [Bacillus cereus MSX-A12]
gi|217063169|gb|ACJ77419.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus AH187]
gi|221241396|gb|ACM14106.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Bacillus cereus Q1]
gi|228643102|gb|EEK99378.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BDRD-ST26]
gi|358354345|dbj|BAL19517.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus
NC7401]
gi|401089409|gb|EJP97580.1| RluA family pseudouridine synthase [Bacillus cereus IS075]
gi|401214299|gb|EJR21029.1| RluA family pseudouridine synthase [Bacillus cereus MSX-A12]
Length = 302
Score = 121 bits (303), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 95/314 (30%), Positives = 148/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDNVVTVNGKAVKG-NYKVRENDEITVTIPEPEELDIQPEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PI
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIA 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKHAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIQFEAPIPEVFE 294
>gi|319781137|ref|YP_004140613.1| RluA family pseudouridine synthase [Mesorhizobium ciceri biovar
biserrulae WSM1271]
gi|317167025|gb|ADV10563.1| pseudouridine synthase, RluA family [Mesorhizobium ciceri biovar
biserrulae WSM1271]
Length = 346
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 97/313 (30%), Positives = 152/313 (48%), Gaps = 43/313 (13%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP----YLLEVLYEDDDLIALNK 79
I+ G ++VDG+++++ ++ G E V +P EP P L+VLYEDD+LI +NK
Sbjct: 51 IRQGAVSVDGKLIDETKRKMAPG-ESVSVTMPEPEPAEPQGENIALDVLYEDDELIVINK 109
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
P+GL V PG T++N L S + P VHRL + TSG+++ AKT
Sbjct: 110 PAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGG-VRRPGIVHRLDKETSGVMVVAKTDR 168
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGI----V 195
A ++ FAD D + + Y ALV GI + P+G V
Sbjct: 169 AHKSLSEAFADHGLTGD------------LERAYLALVWGIPQRPTGRVDAPLGRAADRV 216
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLER--DVQR---NCTLVQVEIQSGRPHQIRIHLAF 250
R V +G + A++ V ER + Q+ ++V+ +++GR HQIR+H+A
Sbjct: 217 RRAVVPEG----RDDARHAVTHFAVQERFGESQQEFATASMVECRLETGRTHQIRVHMAH 272
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHP++GDP Y G ++ + + +Q + R LHA+ L HP
Sbjct: 273 IGHPVIGDPDY--GQAFRTKANRLPEPLKSQVKAFPR----------QALHAWLLAFRHP 320
Query: 311 TTNEVIKITAPLP 323
TT+ ++ APLP
Sbjct: 321 TTHLTMRFEAPLP 333
>gi|385330268|ref|YP_005884219.1| RluA family pseudouridine synthase [Marinobacter adhaerens HP15]
gi|311693418|gb|ADP96291.1| pseudouridine synthase, RluA family [Marinobacter adhaerens HP15]
Length = 325
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 105/337 (31%), Positives = 165/337 (48%), Gaps = 70/337 (20%)
Query: 17 LQGWLQRIQNGQITVDG-------RVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLY 69
LQ W I++G +TV+G +V+ D + L A E ++ W+ ++ L+++Y
Sbjct: 38 LQSW---IKSGALTVNGEVRKPRDKVMLDDRLALDAEPEA---QVSWQAEEIS--LDIVY 89
Query: 70 EDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTS 129
ED+ L+ +NKP+GL V P T++N L A + + + VHRL + TS
Sbjct: 90 EDEHLLVINKPAGLVVHPAAGHADGTLVNALLNYAPEVENLPRAGI-----VHRLDKDTS 144
Query: 130 GILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIK 189
GI++ A++ +A T S V +L R + + Y A+V G + +
Sbjct: 145 GIMVVARSLIAHT----------------SLVDQLQTRTMGREYEAVVVGTLT-GGATVD 187
Query: 190 QPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLA 249
PIG R+P K + V + SGKPA++ ++ER T V+ +++SGR HQIR+H+A
Sbjct: 188 APIG--RHPRERKKMAVVA-SGKPAVTHYRLVERFAAH--THVRCKLESGRTHQIRVHMA 242
Query: 250 FLGHPLLGDPLYVAGGQ---PKSFDSEFADG--TFAQDGGYERPVNPVPGDCGYYLHAYQ 304
+ HPL+GDPLY GG+ PK E + TF + LHA Q
Sbjct: 243 HVKHPLVGDPLY--GGRLRLPKGTTDELREALSTFNRQA----------------LHARQ 284
Query: 305 LFLSHPTTNEVIKITAPLPS-----VLKTREEGREVD 336
L L HP T E++ PLP + R+ RE++
Sbjct: 285 LTLEHPETGEILTWEVPLPEDMVALIEALRKHARELE 321
>gi|422909221|ref|ZP_16943872.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HE-09]
gi|424658576|ref|ZP_18095833.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HE-16]
gi|341635609|gb|EGS60319.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HE-09]
gi|408054710|gb|EKG89673.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HE-16]
Length = 324
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 101/316 (31%), Positives = 148/316 (46%), Gaps = 56/316 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL G+I V+G V+ P + G + W+ D+P L ++YED
Sbjct: 36 LKEWLL---EGKIAVNGDVITKPRTKVMGGEVITVQAELEDEQRWEAQDLP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP V PG TVLN L + ++ VHRL + T+G+
Sbjct: 91 DDIIVINKPRDFVVHPGAGQADSTVLNALLFHYPP-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R +T+ Y A+V G + +I K P
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRDVTREYEAIVIGTMTAGGMIDK-P 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GK A++ V E R T +++ +++GR HQIR+H+A+L
Sbjct: 189 IG--RH-STKRTLMSVSPMGKHAVTHYRVAEH--FREHTRLRLRLETGRTHQIRVHMAYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ PK E D G++R LHA L
Sbjct: 244 QHPLLGDIAY--GGRARIPKGASEELTDMI----RGFDRQA----------LHAVMLKFE 287
Query: 309 HPTTNEVIKITAPLPS 324
HP T E ++ AP+P
Sbjct: 288 HPVTGEELEFHAPVPD 303
>gi|342903736|ref|ZP_08725542.1| Ribosomal large subunit pseudouridine synthase D [Haemophilus
haemolyticus M21621]
gi|373466576|ref|ZP_09557890.1| ribosomal large subunit pseudouridine synthase D [Haemophilus sp.
oral taxon 851 str. F0397]
gi|417842600|ref|ZP_12488682.1| Ribosomal large subunit pseudouridine synthase D [Haemophilus
haemolyticus M21127]
gi|341951438|gb|EGT78010.1| Ribosomal large subunit pseudouridine synthase D [Haemophilus
haemolyticus M21127]
gi|341954563|gb|EGT81039.1| Ribosomal large subunit pseudouridine synthase D [Haemophilus
haemolyticus M21621]
gi|371760358|gb|EHO49047.1| ribosomal large subunit pseudouridine synthase D [Haemophilus sp.
oral taxon 851 str. F0397]
Length = 324
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 99/333 (29%), Positives = 161/333 (48%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G ++ V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRIANIPREKVLGGEKIEITVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + + +
Sbjct: 77 EPENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIAEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLAHPITGEMMEWYAPLPD 302
>gi|313890534|ref|ZP_07824162.1| pseudouridine synthase, RluA family [Streptococcus pseudoporcinus
SPIN 20026]
gi|416850955|ref|ZP_11908296.1| pseudouridine synthase, RluA family [Streptococcus pseudoporcinus
LQ 940-04]
gi|313121051|gb|EFR44162.1| pseudouridine synthase, RluA family [Streptococcus pseudoporcinus
SPIN 20026]
gi|356740634|gb|EHI65857.1| pseudouridine synthase, RluA family [Streptococcus pseudoporcinus
LQ 940-04]
Length = 299
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 91/315 (28%), Positives = 155/315 (49%), Gaps = 57/315 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I+ G + V+G+ V + +G + Y L ++ ++P ++++YED DL
Sbjct: 29 EQIKKGLVLVNGQAVK-AKYNVKSGDNITYQLPEEEVLDYQAENLP--IDIIYEDSDLAI 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NK G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AK
Sbjct: 86 INKAQGMVVHPSAGHSSGTLVNALMYHI-KDLSSING-VVRPGIVHRIDKDTSGLLMVAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A EL +K + Y A+VHG + D+ +I+ PIG
Sbjct: 144 NDKAHQVLA----------------EELKAKKSLRNYLAIVHGNLPNDRGMIEAPIGRSE 187
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
+ + V GK A+++ VLER + TL+++ +++GR HQIR+H+A++GHP+
Sbjct: 188 KDRKKQSVTV---KGKDAVTRFTVLER--FGDYTLLELSLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDPLY P + G+ G +LHA L L+HP++ E++
Sbjct: 243 GDPLY-------------------------GPRKTLKGN-GQFLHAQTLGLTHPSSGELM 276
Query: 317 KITAPLPSVLKTREE 331
+A P++ R E
Sbjct: 277 TFSAEPPAIFLKRLE 291
>gi|78044742|ref|YP_360337.1| ribosomal large subunit pseudouridine synthase A [Carboxydothermus
hydrogenoformans Z-2901]
gi|77996857|gb|ABB15756.1| ribosomal large subunit pseudouridine synthase, RluA family
[Carboxydothermus hydrogenoformans Z-2901]
Length = 305
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 97/307 (31%), Positives = 153/307 (49%), Gaps = 57/307 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLP------WKEPDVPYLLEVLYEDDDLIAL 77
I+ G++TV+G ++ G E++ LP K ++P L+++YED+DL+ +
Sbjct: 39 IEEGKVTVNG--LHRKASYKVRGGEIIAVLLPPPRELSVKPEEIP--LDIVYEDEDLVVV 94
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK +G+ V P T++N L + Q+ S P VHRL + TSG+L+ AK
Sbjct: 95 NKKAGMVVHPAEGNWDGTLVNALLYHC--QNLSGIGGVLRPGIVHRLDKDTSGLLVVAKN 152
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
LA +A ++ ++K + Y +VHG + + II PIG R+
Sbjct: 153 DLAHQSLA----------------EQIKEKKAVREYWTIVHGYLKNKEGIIDLPIG--RH 194
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P + + V S +GK A + VLE + + TL+Q ++ +GR HQIR+H ++LGHP+LG
Sbjct: 195 PRDRQKMAVVS-NGKTAQTVYKVLE-EFNKGFTLIQAKLLTGRTHQIRVHFSYLGHPVLG 252
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP Y G Q F G +R + LHA +L HP + E+++
Sbjct: 253 DPKY--GHQNNPF-------------GVKRQM----------LHAIKLSFIHPRSGELLE 287
Query: 318 ITAPLPS 324
TAPLP
Sbjct: 288 FTAPLPE 294
>gi|424787614|ref|ZP_18214378.1| pseudouridine synthase, RluA family protein [Streptococcus
intermedius BA1]
gi|422113368|gb|EKU17106.1| pseudouridine synthase, RluA family protein [Streptococcus
intermedius BA1]
Length = 298
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 155/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQI V+G+V + G + Y L + ++P L+++Y+D+D+
Sbjct: 29 EQIKSGQILVNGQV-KKAKYAVKVGDVITYELPEPETLEYVSENLP--LDIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NK G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKAQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A EL +K + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHIKLAD----------------ELKAKKSLRKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAITRFHVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y P + G+ G +LHA L +HP T +++
Sbjct: 243 GDGVY-------------------------GPRKTLKGN-GQFLHARTLGFTHPKTGKIM 276
Query: 317 KITAPLPSVLK 327
+ TA +P V +
Sbjct: 277 EFTAEVPIVFQ 287
>gi|52307928|gb|AAU38428.1| RluA protein [Mannheimia succiniciproducens MBEL55E]
Length = 327
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 99/331 (29%), Positives = 163/331 (49%), Gaps = 58/331 (17%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I++ + ++G+V N P + G ++ + +
Sbjct: 25 TLAELFPDYSRSR--LKTW---IEDELVLLNGKVANIPREKVYGGEQVEITVEIEDENRF 79
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD++ +NKP V PG TVLN L + + + +
Sbjct: 80 EPQNIP--LNIVYEDDDILVINKPKDFVVHPGAGNPNGTVLNALLYHYPQITEVPRAGI- 136
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V L +RKIT+ Y A+
Sbjct: 137 ----VHRLDKDTTGLMVVAKTIPAQTQL----------------VRALQKRKITREYEAI 176
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + +P+ R+P + L P GKPA++ V+E RN T +++ +
Sbjct: 177 AFGIMTKGGTV-DEPMS--RHP-TKRTLMAVHPMGKPAVTHYRVMEHF--RNYTRLRLRL 230
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVP 293
++GR HQIR+H+A + HPLLGD Y GG+ PK+ EF + ++R
Sbjct: 231 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEEF----MSVLRNFQRQA---- 280
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L HP T E+++ APLP
Sbjct: 281 ------LHAIMLRLEHPITGELMEWHAPLPE 305
>gi|270291159|ref|ZP_06197382.1| ribosomal large subunit pseudouridine synthase D [Pediococcus
acidilactici 7_4]
gi|270280555|gb|EFA26390.1| ribosomal large subunit pseudouridine synthase D [Pediococcus
acidilactici 7_4]
Length = 292
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 103/328 (31%), Positives = 158/328 (48%), Gaps = 73/328 (22%)
Query: 18 QGWLQRIQNGQ-----ITVDGRVVNDPNIILSAGSELVYHRLPWKE-------PDVPYL- 64
Q LQR+ Q I GR+V++ ++ +L+ W E P VP
Sbjct: 16 QKVLQRLGASQRLMQKIRQAGRLVDENERTVALKDKLMPFEPFWIELPDEDSDPAVPVSD 75
Query: 65 --LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQ--WRASKQSSSLSSQASHPVP 120
L+V+YEDD+ + +NKP+GL +PG + T++N+++ W+A+ + + P
Sbjct: 76 QPLDVIYEDDNWLVVNKPAGLTAVPGPSNRTDTLVNRVKGHWQANGAVNLV------PHL 129
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
+ RL R TSGI L A+ ++A + ++ ++ RKI K Y ALV G+
Sbjct: 130 ITRLDRFTSGITLVARHQVANSLLS----------------EQVRHRKIKKTYLALVDGV 173
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLY-VASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
V +K QP+G+ A G++ G+ A + V++R N TLVQV +++G
Sbjct: 174 VSAEKGTFNQPLGLA-----ADGIHREVQEGGQSATTSFKVVQRFA--NQTLVQVHLKTG 226
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H A GHPL+GD LY G P D G ER
Sbjct: 227 RTHQIRVHFANAGHPLVGDQLY---GGP-------------MDRGIERQA---------- 260
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLK 327
LHA + P TN+ ++ TAPLP+ L+
Sbjct: 261 LHAQSIRFFDPFTNQKLEFTAPLPADLQ 288
>gi|52141596|ref|YP_085233.1| pseudouridylate synthase [Bacillus cereus E33L]
gi|228987037|ref|ZP_04147162.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar tochigiensis BGSC 4Y1]
gi|229157471|ref|ZP_04285548.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
ATCC 4342]
gi|51975065|gb|AAU16615.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus cereus
E33L]
gi|228625921|gb|EEK82671.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
ATCC 4342]
gi|228772631|gb|EEM21072.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar tochigiensis BGSC 4Y1]
Length = 302
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 95/314 (30%), Positives = 148/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDDVVTVNGKAVKG-NYKVKENDEITVTIPEPEELDIQPEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PI
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIA 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKHAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIQFEAPIPEVFE 294
>gi|27382447|ref|NP_773976.1| pseudouridine synthase [Bradyrhizobium japonicum USDA 110]
gi|27355618|dbj|BAC52601.1| blr7336 [Bradyrhizobium japonicum USDA 110]
Length = 335
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 145/311 (46%), Gaps = 37/311 (11%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP----YLLEVLYEDDDLIALNK 79
I G +++ V DP +S G ++ +P P P L++++EDDD+I +NK
Sbjct: 43 ILAGAVSLKASAVRDPAYHVSHGDTIII-DVPEAAPAEPKGEEIALDIVFEDDDIIVINK 101
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
P GL V P + T++N L S + P VHRL + T+G+++ AK L
Sbjct: 102 PRGLVVHPAAGHETGTLVNALIAHCGSTLSGIGG-VRRPGIVHRLDKDTTGLMVVAKNDL 160
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPG 199
A ++ FAD + + Y A G+ + + PI R+P
Sbjct: 161 AHASLSAQFADHGRT------------GAMRRGYMAFAWGVPGRHRGTVDAPID--RHPY 206
Query: 200 VAKGLYVASPSGKPALSKVDVLE----RDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
+ + V G+ A++ ++LE RD + L+ E+++GR HQIR+HLA +GHPL
Sbjct: 207 AREKMAVRQ-GGREAVTHWEILESFPGRDGKPIAALLACELETGRTHQIRVHLAHIGHPL 265
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
+GD +Y G K+ ++ A + A R LHAY L L HP T E+
Sbjct: 266 MGDAVY--GPHFKTKANQLAPESQAALATLGRQA----------LHAYLLVLEHPRTGEL 313
Query: 316 IKITAPLPSVL 326
+ APLP L
Sbjct: 314 LHWEAPLPEDL 324
>gi|126664287|ref|ZP_01735278.1| ribosomal large subunit pseudouridine synthase D [Flavobacteria
bacterium BAL38]
gi|126623707|gb|EAZ94404.1| ribosomal large subunit pseudouridine synthase D [Flavobacteria
bacterium BAL38]
Length = 346
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 97/314 (30%), Positives = 149/314 (47%), Gaps = 43/314 (13%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLL-------EVLYEDDDL 74
Q +NG I V+ V N + AG + RL P LL +++YEDD L
Sbjct: 49 QAAENGSILVNDVAVK-SNYKVKAGDVV---RLVLAHPTYEQLLTPENIPLDIVYEDDQL 104
Query: 75 IALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLC 134
+ +NKP+G+ V PG T++N L + + S + P VHR+ + T+G+L+
Sbjct: 105 LVINKPAGMVVHPGHGNYSGTLVNALAYHFENLPMNSSER---PGLVHRIDKDTTGLLVV 161
Query: 135 AKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGI 194
AKT+LA ++ FA+KTS + Y ALV G ++ED+ ++ IG
Sbjct: 162 AKTELAMAYLSKQFAEKTS----------------EREYVALVWGNIEEDEGTVEGNIGR 205
Query: 195 VRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHP 254
+ ++ + GKPA++ VLER TLV ++++GR HQIR+H+ +GH
Sbjct: 206 HDTNRMRMAVHESDEKGKPAVTHYKVLERFGY--VTLVSCQLETGRTHQIRVHMKHIGHT 263
Query: 255 LLGDPLYVAGGQPKSFDSEFADGTFAQDGGY-ERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
L D Y GG DS TF + + + +P LHA L HP T
Sbjct: 264 LFNDERY--GG-----DSILKGTTFTKYKQFVDNCFKVLPRQA---LHAKTLGFEHPITK 313
Query: 314 EVIKITAPLPSVLK 327
E ++ P+P L+
Sbjct: 314 EFLRFNTPIPQDLQ 327
>gi|414564157|ref|YP_006043118.1| RNA pseudouridylate synthase [Streptococcus equi subsp.
zooepidemicus ATCC 35246]
gi|338847222|gb|AEJ25434.1| RNA pseudouridylate synthase [Streptococcus equi subsp.
zooepidemicus ATCC 35246]
Length = 296
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 98/310 (31%), Positives = 154/310 (49%), Gaps = 57/310 (18%)
Query: 23 RIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIAL 77
+I+ ++ V+G + I+ G + YH L ++ +P L+++Y+DD L +
Sbjct: 30 QIKQKRVLVNG-LPKKAKYIVQVGDCISYHIPEESSLDYQAQAIP--LDIVYQDDVLAII 86
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AKT
Sbjct: 87 NKPQGMVVHPSAGHSTETLVNALLYHI-KDLSSING-VIRPGIVHRIDKDTSGLLMVAKT 144
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
DK + AD EL +K + Y A+VHG + +D+ +I+ PIG R
Sbjct: 145 ------------DKAHQLLAD----ELKAKKSLRKYVAIVHGNLPKDRGVIEAPIG--RS 186
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
K V + GK AL++ VLER + T V++++++GR HQIR+H+A++GHPL G
Sbjct: 187 DKDRKKQTVTA-KGKEALTRFKVLERF--GHYTFVELQLETGRTHQIRVHMAYIGHPLAG 243
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DPLY G K+ + G +LHA L L+HP T E +
Sbjct: 244 DPLY---GPRKTLTGK-----------------------GQFLHAQTLGLTHPVTGEELV 277
Query: 318 ITAPLPSVLK 327
T P + +
Sbjct: 278 FTVKPPEIFQ 287
>gi|146318440|ref|YP_001198152.1| YlyB [Streptococcus suis 05ZYH33]
gi|145689246|gb|ABP89752.1| YlyB [Streptococcus suis 05ZYH33]
Length = 309
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 151/311 (48%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G+ + G L Y + + D+P LE++++D+D+
Sbjct: 29 EQIKAGQVLVNGQP-KKAKYSVQVGDVLTYQIPEVEEIDYVAEDIP--LEIVFQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALLYHV-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A T +A DK S+ + Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHTKLAAELKDKKSL----------------RKYWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GK A+++ VLER + TLV++ +++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKEAVTRFQVLER--FGDYTLVELTLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD Y G K+ G +LHA L +HP T EV+
Sbjct: 243 GDEAY---GPRKTLKGH-----------------------GQFLHARTLGFTHPRTGEVV 276
Query: 317 KITAPLPSVLK 327
+ TA P++ +
Sbjct: 277 EFTAEAPAIFQ 287
>gi|116072039|ref|ZP_01469307.1| probable pseudouridine synthase [Synechococcus sp. BL107]
gi|116065662|gb|EAU71420.1| probable pseudouridine synthase [Synechococcus sp. BL107]
Length = 315
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 93/295 (31%), Positives = 147/295 (49%), Gaps = 60/295 (20%)
Query: 20 WLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIALNK 79
WL RI G++ +G + + L++G E+ + R PW E +P + +++D DL+ +NK
Sbjct: 52 WLGRIAAGELHRNGEPLRG-DTQLASGDEIRWQRPPWLEEAIPDQWDTIHDDGDLLVINK 110
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
PSGL V+PGG F + T+ ++ L+S + PV HRLGR TSG+ +CA+T
Sbjct: 111 PSGLPVMPGGGFLEHTL-----------TALLASTGAKPV--HRLGRFTSGLQVCARTAA 157
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI--VDEDKVIIKQPIGIVRY 197
+ ++ F + + KIY+A H + ++ K ++ + R
Sbjct: 158 TRAALSKQFRPDS---------------RCQKIYQAWAHRVEGLEPGKSLVVSTDVVERQ 202
Query: 198 PGVAKGLYVASPSGKP-------ALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
+ L+ P K A S V +L+R + ++V I++GRPHQIRIHLA
Sbjct: 203 HPLLGWLWGPEPRDKEPTRKRLTAHSTVRLLDRCAAGD--RLEVTIRTGRPHQIRIHLAQ 260
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQL 305
LG PLLGDPLY+ + + +D + PGD GY LHA++L
Sbjct: 261 LGSPLLGDPLYL-------LNRKISD-------------HATPGDGGYGLHAWRL 295
>gi|302871828|ref|YP_003840464.1| RluA family pseudouridine synthase [Caldicellulosiruptor
obsidiansis OB47]
gi|302574687|gb|ADL42478.1| pseudouridine synthase, RluA family [Caldicellulosiruptor
obsidiansis OB47]
Length = 303
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 85/259 (32%), Positives = 134/259 (51%), Gaps = 47/259 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
+EV+YED+ L +NKP G+ V PG + T++N L + S + SS++ P VHRL
Sbjct: 73 IEVVYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFSGKLSSING-VIRPGIVHRL 131
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AKT A ++ L +I +IY A+ G++ ED
Sbjct: 132 DKDTSGLLIVAKTDEAHIKLSE----------------ALKSHQIKRIYYAICEGVLKED 175
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
++ PIG R+P V + P+GK A++ +VLER T V++ +++GR HQI
Sbjct: 176 SGVVDAPIG--RHP-VNRLKMAVIPNGKQAVTYFEVLER--YDKYTFVKLRLKTGRTHQI 230
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H++++G+PLLGD Y G+ K +EF G G LHA +
Sbjct: 231 RVHMSYIGYPLLGDSTY---GRSK---NEF-------------------GIQGQVLHAGE 265
Query: 305 LFLSHPTTNEVIKITAPLP 323
+ HP T++V+ + LP
Sbjct: 266 IKFVHPITSDVLHFSTELP 284
>gi|343506632|ref|ZP_08744107.1| 23S rRNA pseudouridine synthase D [Vibrio ichthyoenteri ATCC
700023]
gi|342802149|gb|EGU37591.1| 23S rRNA pseudouridine synthase D [Vibrio ichthyoenteri ATCC
700023]
Length = 325
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 101/320 (31%), Positives = 150/320 (46%), Gaps = 64/320 (20%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL G++ VDG+V+ P + G ++ W+ D+P L+++YED
Sbjct: 36 LKEWLL---AGKVQVDGKVITKPRTRVMGGEVIILQAELEDEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRG 127
DD+I +NKP G V PG TVLN L + VP VHRL +
Sbjct: 91 DDIIVMNKPRGFVVHPGAGTPDGTVLNALLHHYPDIAE---------VPRVGIVHRLDKD 141
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
T+G+++ AKT A+T + V EL +R IT+ Y A+ G + I
Sbjct: 142 TTGLMVVAKTVPAQTRL----------------VRELQKRNITREYEAIAIGRMTAGGKI 185
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
+QPIG R+ + L SP GK A + V E R T +++ +++GR HQIR+H
Sbjct: 186 -EQPIG--RH-STKRTLMAVSPMGKAAATHYRVAEH--FREHTRIRLRLETGRTHQIRVH 239
Query: 248 LAFLGHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
+++L +PLLGD Y GG+ P + E D ++R LHA
Sbjct: 240 MSYLQYPLLGDTAY--GGRARIPSGANQELTDMIRQ----FDRQA----------LHAVM 283
Query: 305 LFLSHPTTNEVIKITAPLPS 324
L HP T E ++ AP+P
Sbjct: 284 LKFEHPITGEELEFHAPVPE 303
>gi|336113719|ref|YP_004568486.1| RluA family pseudouridine synthase [Bacillus coagulans 2-6]
gi|335367149|gb|AEH53100.1| pseudouridine synthase, RluA family [Bacillus coagulans 2-6]
Length = 303
Score = 121 bits (303), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 99/309 (32%), Positives = 145/309 (46%), Gaps = 59/309 (19%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL------LEVLYEDDDLI 75
Q I+ G ITV+G+ N AG +LV +P EP++P + L++ YED D++
Sbjct: 35 QWIKEGDITVNGKK-EKANYRCQAG-DLVEIEVP--EPELPDIEPEDLHLDIYYEDADVL 90
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + S + P VHR+ + TSG+L+ A
Sbjct: 91 VVNKPKGMVVHPSNGHFTGTLVNGLMYHCKDLSGI--NGVLRPGIVHRIDKDTSGLLMVA 148
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A +LS++ +T+ Y ALVHG + + I PIG
Sbjct: 149 KNDYAHEKLAA----------------QLSEKTVTRKYFALVHGNIPHEAGTIDAPIG-- 190
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R P + + V +GK A++ VLER T ++ +++GR HQIR+H+ ++GHPL
Sbjct: 191 RDPADRQRMAVVD-NGKDAVTHFHVLER--FDRYTFIECRLETGRTHQIRVHMKYIGHPL 247
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDP Y G K+ D F G LHA L HP T E
Sbjct: 248 AGDPKY---GPKKTID--FG---------------------GQALHAGVLGFCHPRTGET 281
Query: 316 IKITAPLPS 324
+ APLP
Sbjct: 282 LTFEAPLPD 290
>gi|296122834|ref|YP_003630612.1| RluA family pseudouridine synthase [Planctomyces limnophilus DSM
3776]
gi|296015174|gb|ADG68413.1| pseudouridine synthase, RluA family [Planctomyces limnophilus DSM
3776]
Length = 325
Score = 120 bits (302), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 100/335 (29%), Positives = 156/335 (46%), Gaps = 50/335 (14%)
Query: 4 IEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-- 61
++ + KH S L+ + G +T+DG+V + + P PD+
Sbjct: 19 VDSFLVKHFRSYTSWRILRMVAAGLVTIDGQVAATTQRVHPGQQVTIQLTEP---PDLFV 75
Query: 62 ---PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
P LE+L+EDD L+ +NKP+GL P G T++N +Q KQS+ + P
Sbjct: 76 PPEPTPLEILFEDDSLLVINKPAGLIAHPTGEIPDGTLINAVQHYLDKQSTHPGLE--RP 133
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHRL R TSG + K L+ ++ ++ +I+K Y ALV
Sbjct: 134 GIVHRLDRDTSGAMAICKEHLSHRLLS----------------IQFQLGRISKSYLALVE 177
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASP---SGKPALSKVDVLERDVQRNCTLVQVE 235
G++ +D+++I PIG R PG + L + + + + V+ER Q TLV+ +
Sbjct: 178 GVLTDDQLVIDLPIG--RAPGCSSALMSCRADALEAQASKTSLRVVERFPQH--TLVEAK 233
Query: 236 IQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSF---DSEFADGTFAQDGGYERPVNPV 292
++GR HQIRIHLA +G P++GD Y+ GG+ + +SE + +
Sbjct: 234 PRTGRMHQIRIHLATIGFPIVGDEFYLKGGEIRPLVWPESERVQVSLLIN---------- 283
Query: 293 PGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
LHA L +HP TNE APLP L+
Sbjct: 284 ----RQALHAACLSFAHPLTNEWQDFQAPLPDDLR 314
>gi|399043350|ref|ZP_10737704.1| pseudouridine synthase, RluA family [Rhizobium sp. CF122]
gi|398058188|gb|EJL50096.1| pseudouridine synthase, RluA family [Rhizobium sp. CF122]
Length = 341
Score = 120 bits (302), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 148/316 (46%), Gaps = 40/316 (12%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGS--ELVYHRLPWKEPDVP----YLLEVLYEDDDLIAL 77
I+ GQ++V G+V+ DP + G E+V LP E P L++LYEDDDLI +
Sbjct: 46 IKEGQVSVAGKVLADPQKKVRPGDIFEIV---LPEPEDPTPRGENIPLDILYEDDDLIVI 102
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
+KP+GL V P T++N L + S + P VHRL + T+G+++ AK
Sbjct: 103 SKPAGLVVHPAAGNWTGTLVNALIYHCGDSLSGIGG-VRRPGIVHRLDKDTTGVMVVAKN 161
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
++ ++ FAD + + + Y+A+V G I +G
Sbjct: 162 DISHRHLSLQFADHGRTM------------PLERAYQAIVWGRPRTLTGTINASLGRAVG 209
Query: 198 PGVAKGLYVA-SPSGKPALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
+ + A + A++ +VLER D +LV+ +++GR HQIR+H+A +
Sbjct: 210 DRTRRAVKRAETQDADEAITHYEVLERFHENPDATSLASLVECHLETGRTHQIRVHMAHI 269
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPLLGD +Y AG + K+ + D + R LHAY L HP
Sbjct: 270 GHPLLGDTVYGAGFKTKA--NLLPDAARKTVNAFARQA----------LHAYMLQFEHPR 317
Query: 312 TNEVIKITAPLPSVLK 327
T EV+ PLP ++
Sbjct: 318 TGEVMHFEVPLPEDME 333
>gi|365839179|ref|ZP_09380425.1| pseudouridine synthase, RluA family [Anaeroglobus geminatus F0357]
gi|364565366|gb|EHM43093.1| pseudouridine synthase, RluA family [Anaeroglobus geminatus F0357]
Length = 303
Score = 120 bits (302), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 90/305 (29%), Positives = 146/305 (47%), Gaps = 54/305 (17%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVY-----HRLPWKEPDVPYLLEVLYEDDDLIALN 78
I+ G++TV + V N ++AG + + ++P L+++YED +I +N
Sbjct: 36 IKGGKVTVGDKAVK-ANYKVAAGDKFAVVVEAATAFSVEPENIP--LDIVYEDRHIIVIN 92
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
K G+ V P T++N L + K+ S ++ P VHRL + TSGI++ AKT
Sbjct: 93 KARGMVVHPAAGNPDGTLVNALLYHCGKELSGING-VIRPGIVHRLDKDTSGIMVAAKTD 151
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
+A +A ++ + Y+ALVHG + E K I+ PIG R+P
Sbjct: 152 MAHKALA----------------EQIKAHSARRTYKALVHGNIVEAKGRIEAPIG--RHP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ V G+ A++ VLER + TL++ +++GR HQIR+H+A++GHP++ D
Sbjct: 194 KDRIKMAVNLKDGREAVTHFTVLER--YGDYTLIECRLETGRTHQIRVHMAYIGHPVVND 251
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY G+ R P+ G LH+ L L+HP T +
Sbjct: 252 PLY----------------------GHTRDNFPI---IGQVLHSCTLDLAHPVTGVPLHF 286
Query: 319 TAPLP 323
AP+P
Sbjct: 287 EAPVP 291
>gi|229512403|ref|ZP_04401877.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
TMA 21]
gi|229350553|gb|EEO15499.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
TMA 21]
Length = 324
Score = 120 bits (302), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 100/316 (31%), Positives = 149/316 (47%), Gaps = 56/316 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL G+I V+G V+ P + G + W+ D+P L ++YED
Sbjct: 36 LKEWLL---EGKIAVNGDVITKPRTKVMGGEVITVQAELEDEQRWEAQDLP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP V PG +TVLN L + ++ VHRL + T+G+
Sbjct: 91 DDIIVINKPRDFVVHPGAGQADKTVLNALLFHYPP-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R +T+ Y A+V G + +I K P
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRDVTREYEAIVIGTMTAGGMIDK-P 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GK A++ V E R T +++ +++GR HQIR+H+A+L
Sbjct: 189 IG--RH-STKRTLMSVSPMGKHAVTHYRVAEH--FREHTRLRLRLETGRTHQIRVHMAYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ PK E + G++R LHA L
Sbjct: 244 QHPLLGDTAY--GGRARIPKGASEELTEMI----RGFDRQA----------LHAVMLKFE 287
Query: 309 HPTTNEVIKITAPLPS 324
HP T E ++ AP+P
Sbjct: 288 HPITGEELEFHAPVPD 303
>gi|34581099|ref|ZP_00142579.1| sfhB protein homolog [Rickettsia sibirica 246]
gi|28262484|gb|EAA25988.1| sfhB protein homolog [Rickettsia sibirica 246]
Length = 313
Score = 120 bits (302), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 82/311 (26%), Positives = 155/311 (49%), Gaps = 52/311 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD------VPYLLEVLYEDDDLIAL 77
I++ Q+ V+ +++DP++++ +++ +KEP+ L+++YEDDDLI +
Sbjct: 35 IKDSQVLVNDVIISDPDVLVKENDIILF---SFKEPEELKIAAANVALDIIYEDDDLIVI 91
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK +G+ V PG T++N L +K S + S + P VHRL + T+G+++ AK
Sbjct: 92 NKAAGMTVHPGAGHHDDTLVNAL-LHHTKNLSDIGS-SERPGIVHRLDKDTTGLMVVAKN 149
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ QR++ + Y+ LV G+++ + IIK IG R
Sbjct: 150 NKAHMLLAN----------------QIEQRQVIRKYKVLVWGVINPLEGIIKNNIG--RS 191
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + + GK A++ LE + + ++V+ ++ +GR HQIR+ L+ L H ++G
Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKTLELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSVVG 251
Query: 258 DPLYVAGGQ-----PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
D Y + P ++ D ++R LH++ L +HPT+
Sbjct: 252 DQTYGNNDRKIAHSPPELKAKLID--------FKRQA----------LHSWYLSFTHPTS 293
Query: 313 NEVIKITAPLP 323
NE+++ + LP
Sbjct: 294 NEIMEFSCELP 304
>gi|163867809|ref|YP_001609013.1| ribosomal large subunit pseudouridine synthase D [Bartonella
tribocorum CIP 105476]
gi|161017460|emb|CAK01018.1| ribosomal large subunit pseudouridine synthase D [Bartonella
tribocorum CIP 105476]
Length = 334
Score = 120 bits (302), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 89/311 (28%), Positives = 146/311 (46%), Gaps = 38/311 (12%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGS--ELVYHRLPWKEPDVPYL-LEVLYEDDDLIALNKP 80
I+ G + +DG+ + +P L EL L EP + L++LYEDD +I +NKP
Sbjct: 37 IREGCLKIDGQFIKEPKTKLKPNQIIELEMPNLRDAEPSAEAIALDILYEDDHVIVINKP 96
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
+GL V PG T++N L + S + P VHRL + TSG+++ AK LA
Sbjct: 97 AGLVVHPGNGNWTGTLVNALIYHCGNSLSGIGG-VKRPGVVHRLDKNTSGVMVVAKNDLA 155
Query: 141 KTCIAGYFAD--KTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
++ F+D +T +D + Y AL+ G + I +G +
Sbjct: 156 HKSLSAQFSDHGRTCALD--------------RRYHALIWGTPHRNVWTIDASLGRSPHN 201
Query: 199 GVAKGL-YVASPSGKPALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
+ + + +P + A++ +LE+ D +L++ +++GR HQIR+H+A +G
Sbjct: 202 RTKQAVVHKQTPHARHAVTHFSLLEKYGTHADSTSFASLLECRLETGRTHQIRVHMAHIG 261
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
HPL+GD +Y G S + T N + + LHA L HP++
Sbjct: 262 HPLIGDTVY---GNAFKTKSNTLNPTLK---------NAIDQFNRHALHAASLTFEHPSS 309
Query: 313 NEVIKITAPLP 323
+VI +APLP
Sbjct: 310 GKVISFSAPLP 320
>gi|225567968|ref|ZP_03776993.1| hypothetical protein CLOHYLEM_04041 [Clostridium hylemonae DSM
15053]
gi|225163256|gb|EEG75875.1| hypothetical protein CLOHYLEM_04041 [Clostridium hylemonae DSM
15053]
Length = 304
Score = 120 bits (302), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 92/310 (29%), Positives = 149/310 (48%), Gaps = 50/310 (16%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+ ++Q+ I++ I V+ + V N LS G L KEPD+ L +LYED D
Sbjct: 28 RSYIQKLIKDSHILVNNKPVK-ANYRLSCGDMLEVTIPSAKEPDILPEDIPLHILYEDAD 86
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
+I +NKP + V P T++N L + ++ S ++ P VHR+ T+G L+
Sbjct: 87 IIIVNKPKQMVVHPAPGHYSGTLVNALMFHCGRELSGINGMMR-PGIVHRIDMDTTGSLI 145
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
K +A ++ +L + I +IY A+VHG E++ + PIG
Sbjct: 146 VCKNDMAHQALSE----------------QLKKHSIRRIYEAVVHGGFKEEEGTVSAPIG 189
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P K + + + + A++ VLER + + +Q E+++GR HQIR+H++ +GH
Sbjct: 190 --RHPTDRKRMSTHAKNAREAVTHYKVLERFGEY--SYIQCELETGRTHQIRVHMSSIGH 245
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
P++GD +Y G R P PG G LHA L + HP T
Sbjct: 246 PIVGDMVY----------------------GPRR--CPFPGLQGQTLHAKTLGIIHPRTG 281
Query: 314 EVIKITAPLP 323
E +++ APLP
Sbjct: 282 EYLEVEAPLP 291
>gi|310828904|ref|YP_003961261.1| ribosomal large subunit pseudouridine synthase D [Eubacterium
limosum KIST612]
gi|308740638|gb|ADO38298.1| ribosomal large subunit pseudouridine synthase D [Eubacterium
limosum KIST612]
Length = 307
Score = 120 bits (302), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 93/318 (29%), Positives = 151/318 (47%), Gaps = 56/318 (17%)
Query: 18 QGWLQRIQN-GQITVDGRVVNDPNIILSAGSELVYHRLPWK-----EPD-VPYLLEVLYE 70
+G+++ + N G + VDG + G E++ +P EP+ +P LE++YE
Sbjct: 30 RGYIKNLLNEGAVKVDGGQKKASYKL--KGKEIITMEIPEPAESTIEPENIP--LEIIYE 85
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D+I +NKP G+ V P T++N L S+ + P +HR+ + TSG
Sbjct: 86 DEDVIVVNKPKGMVVHPAPGSPSGTLVNALMHHTGALSNI--NGVYRPGIIHRIDKDTSG 143
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AK A + +L IT+ Y+ALV GI++ ++ I
Sbjct: 144 LLMVAKNNAAHQNL----------------TEQLKAHTITRQYKALVKGIMENNRGTIDM 187
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R+P + V + K A++ + L+R + TL+Q +++GR HQIR+H+
Sbjct: 188 PIG--RHPKDRVRMAVVKENSKEAVTHFETLKRYAE-GYTLMQFRLETGRTHQIRVHMQA 244
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+G+P+ GDPLY G + F +E G C LHA L HP
Sbjct: 245 IGYPIAGDPLY-KGDKKNPFKTE--------------------GQC---LHAELLGFKHP 280
Query: 311 TTNEVIKITAPLPSVLKT 328
T E ++ +APLP +
Sbjct: 281 RTGEYMEFSAPLPEAFQA 298
>gi|423604480|ref|ZP_17580373.1| RluA family pseudouridine synthase [Bacillus cereus VD102]
gi|401245100|gb|EJR51458.1| RluA family pseudouridine synthase [Bacillus cereus VD102]
Length = 302
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 95/314 (30%), Positives = 148/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDDVVTVNGKAVKG-NYKVRENDEITVTIPEPEELDIQPEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PI
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIA 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKHAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIQFEAPIPEVFE 294
>gi|336314898|ref|ZP_08569812.1| pseudouridine synthase, RluA family [Rheinheimera sp. A13L]
gi|335880725|gb|EGM78610.1| pseudouridine synthase, RluA family [Rheinheimera sp. A13L]
Length = 324
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 99/336 (29%), Positives = 162/336 (48%), Gaps = 51/336 (15%)
Query: 7 YSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAG-SELVYHRLPWKE--PDVPY 63
YS L W+Q ++G++ N P L G S L+ LP E P
Sbjct: 31 YSRSRIKEWILADWVQ--------INGQLCNTPREKLLGGESVLIQAELPDDERFEAEPI 82
Query: 64 LLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHR 123
L ++YED+ ++ +NKP+GL V PG T+LN L S++ + VHR
Sbjct: 83 DLNIVYEDEHIMVINKPAGLVVHPGAGNADGTLLNALL----HHCPSIAEVPRAGI-VHR 137
Query: 124 LGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDE 183
L + T+G+++ AKT A+T + V + +R+IT+ Y A+ HG +
Sbjct: 138 LDKDTTGLMVIAKTIPAQTHL----------------VEAMQEREITREYEAICHGTMTA 181
Query: 184 DKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQ 243
+ +PIG R+P + V S SG+PA++ V+E+ R T +++ ++SGR HQ
Sbjct: 182 GGTV-DEPIG--RHPTKRTHMAVTS-SGRPAVTHYRVMEK--FRAHTRLRLRLESGRTHQ 235
Query: 244 IRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAY 303
IR+H+ ++ +PL+GDP+Y +P E G++R LHA
Sbjct: 236 IRVHMTYINYPLVGDPVYAGRPRPPRKADE---ALLTVLRGFKRQA----------LHAA 282
Query: 304 QLFLSHPTTNEVIKITAPLPSVLKTREEGREVDKSV 339
L L+HP T+E+++ AP+P + + VD +
Sbjct: 283 MLRLAHPITSEIMEWHAPIPDDMVELTQALRVDTDI 318
>gi|423084352|ref|ZP_17072857.1| pseudouridine synthase, RluA family [Clostridium difficile
002-P50-2011]
gi|423088048|ref|ZP_17076433.1| pseudouridine synthase, RluA family [Clostridium difficile
050-P50-2011]
gi|357542657|gb|EHJ24699.1| pseudouridine synthase, RluA family [Clostridium difficile
002-P50-2011]
gi|357543576|gb|EHJ25593.1| pseudouridine synthase, RluA family [Clostridium difficile
050-P50-2011]
Length = 315
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 92/318 (28%), Positives = 152/318 (47%), Gaps = 60/318 (18%)
Query: 18 QGWLQRI-QNGQITVDGRV-------VNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLY 69
+ ++Q+I ++G++ V+ +V + NI++ V LP D+P ++++Y
Sbjct: 43 RSYIQKIIKDGKVKVNNKVEKAKYLVKEEDNIVIEIPEPKVLEVLPQ---DIP--IDIVY 97
Query: 70 EDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTS 129
EDDD++ +NKP + V P + T++N + + + SS++ P VHR+ + TS
Sbjct: 98 EDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHCKDKLSSING-VIRPGIVHRIDKDTS 156
Query: 130 GILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIK 189
G+L+ AK A +A +L + IT+ Y + +G+V EDKV +
Sbjct: 157 GLLMIAKNNYAHNFLAE----------------QLKEHTITREYEFICYGVVKEDKVTVD 200
Query: 190 QPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLA 249
+PIG R P + V GK A++ +V+ER T ++ +++GR HQIR+H
Sbjct: 201 KPIG--RNPKDRLKMAVVK-EGKNAITHFEVVER--FDKFTHMRARLETGRTHQIRVHAL 255
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
+ HPLLGD YV G + F + G LHA +L H
Sbjct: 256 SINHPLLGD--YVYGPKETKFKLK-----------------------GQTLHAKKLGFIH 290
Query: 310 PTTNEVIKITAPLPSVLK 327
PTT E I+ + LP K
Sbjct: 291 PTTKEYIEFNSELPEYFK 308
>gi|30021981|ref|NP_833612.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus
ATCC 14579]
gi|229129170|ref|ZP_04258143.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BDRD-Cer4]
gi|296504387|ref|YP_003666087.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis BMB171]
gi|423585698|ref|ZP_17561785.1| RluA family pseudouridine synthase [Bacillus cereus VD045]
gi|423649754|ref|ZP_17625324.1| RluA family pseudouridine synthase [Bacillus cereus VD169]
gi|29897537|gb|AAP10813.1| Ribosomal large subunit pseudouridine synthase D [Bacillus cereus
ATCC 14579]
gi|228654407|gb|EEL10272.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BDRD-Cer4]
gi|296325439|gb|ADH08367.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis BMB171]
gi|401233044|gb|EJR39540.1| RluA family pseudouridine synthase [Bacillus cereus VD045]
gi|401283034|gb|EJR88931.1| RluA family pseudouridine synthase [Bacillus cereus VD169]
Length = 302
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 95/314 (30%), Positives = 148/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDNVVTVNGKAVKG-NYKVKEEDEITVTIPEPEELDIQPEDLNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PI
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIA 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIQFEAPIPEVFE 294
>gi|354807589|ref|ZP_09041052.1| pseudouridine synthase, RluA family protein [Lactobacillus curvatus
CRL 705]
gi|354513924|gb|EHE85908.1| pseudouridine synthase, RluA family protein [Lactobacillus curvatus
CRL 705]
Length = 301
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 86/276 (31%), Positives = 138/276 (50%), Gaps = 53/276 (19%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P L+++YEDD ++ +NKP G+ V P T++N L + S + P
Sbjct: 76 DIP--LDIVYEDDQVLVVNKPQGMVVHPSAGHPNGTLVNAL---LAHTPLSEINGVFRPG 130
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + TSG+L+ AKT A ++ +L ++ + Y ALVHG
Sbjct: 131 IVHRIDKDTSGLLMVAKTNEAHESLSA----------------QLKAKENLREYIALVHG 174
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
++ED+ I PIG + + + + G+PA++ V+ER + TL++ +++G
Sbjct: 175 NIEEDEGTIDAPIGRSKVDRMKQAIV---EDGRPAVTHFTVMER--FEDFTLIKCRLETG 229
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+HLA++ P+ GDP+Y G K+ G+ G +
Sbjct: 230 RTHQIRVHLAYINRPVAGDPVY---GPRKTL------------AGH-----------GQF 263
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVL-KTREEGRE 334
LHA L HPTT E+++ APLP++ KT E RE
Sbjct: 264 LHAAVLGFKHPTTGEMMRFEAPLPAIFEKTLTELRE 299
>gi|261493667|ref|ZP_05990186.1| 23S rRNA pseudouridine synthase D [Mannheimia haemolytica serotype
A2 str. BOVINE]
gi|261494334|ref|ZP_05990828.1| 23S rRNA pseudouridine synthase D [Mannheimia haemolytica serotype
A2 str. OVINE]
gi|452745563|ref|ZP_21945397.1| 23S rRNA pseudouridine synthase D [Mannheimia haemolytica serotype
6 str. H23]
gi|261309983|gb|EEY11192.1| 23S rRNA pseudouridine synthase D [Mannheimia haemolytica serotype
A2 str. OVINE]
gi|261310667|gb|EEY11851.1| 23S rRNA pseudouridine synthase D [Mannheimia haemolytica serotype
A2 str. BOVINE]
gi|452086438|gb|EME02827.1| 23S rRNA pseudouridine synthase D [Mannheimia haemolytica serotype
6 str. H23]
Length = 325
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 95/306 (31%), Positives = 151/306 (49%), Gaps = 47/306 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLP-----WKEPDVPYLLEVLYEDDDLIALN 78
I++ + V+G +VN + G + ++ D+P L ++YEDDD+I +N
Sbjct: 40 IESDLVKVNGNIVNKAREKVFGGETVEITAEIEEEIRFEPQDIP--LNIVYEDDDIIVIN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP L V PG TVLN L ++ VHRL + T+G+++ AK
Sbjct: 98 KPKDLVVHPGAGNPDGTVLNALL-----HYYPPIAEVPRAGIVHRLDKDTTGLMVVAKNI 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A+T + V L +R+IT+ Y A+ GI+ + + +P+ R+P
Sbjct: 153 PAQTHL----------------VTALQKRRITREYEAIASGIMTQGGKV-DEPMA--RHP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ V P GKPA++ ++ER RN T +++ +++GR HQIR+H+A + HPLLGD
Sbjct: 194 TKRTAMAV-HPMGKPAVTHYRIMER--FRNYTRLRLRLETGRTHQIRVHMAHIAHPLLGD 250
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
LY GG+P+ +D + G++R LHA L L HP T E+++
Sbjct: 251 QLY--GGRPRPPKGA-SDSFLSVLRGFQRQA----------LHATMLRLEHPITGEMMEW 297
Query: 319 TAPLPS 324
APLP
Sbjct: 298 HAPLPD 303
>gi|148825561|ref|YP_001290314.1| 23S rRNA pseudouridine synthase D [Haemophilus influenzae PittEE]
gi|148715721|gb|ABQ97931.1| SfhB [Haemophilus influenzae PittEE]
Length = 324
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 99/333 (29%), Positives = 160/333 (48%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G + V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRIANIPREKVLGGERIEIIVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + + +
Sbjct: 77 EAENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIAEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMD--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLAHPITGEMMEWYAPLPD 302
>gi|121634501|ref|YP_974746.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis FAM18]
gi|416178790|ref|ZP_11610747.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis M6190]
gi|416192726|ref|ZP_11616832.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis ES14902]
gi|433466853|ref|ZP_20424310.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
87255]
gi|433468860|ref|ZP_20426289.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
98080]
gi|433492205|ref|ZP_20449299.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM586]
gi|433494282|ref|ZP_20451352.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM762]
gi|433496466|ref|ZP_20453507.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
M7089]
gi|433498526|ref|ZP_20455535.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
M7124]
gi|433502865|ref|ZP_20459830.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM126]
gi|120866207|emb|CAM09947.1| putative ribosomal large subunit pseudouridine synthase D
[Neisseria meningitidis FAM18]
gi|325131843|gb|EGC54543.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis M6190]
gi|325137893|gb|EGC60468.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis ES14902]
gi|432203429|gb|ELK59480.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
87255]
gi|432205253|gb|ELK61283.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
98080]
gi|432228994|gb|ELK84687.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM586]
gi|432230956|gb|ELK86626.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM762]
gi|432234360|gb|ELK89980.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
M7124]
gi|432235166|gb|ELK90782.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
M7089]
gi|432240961|gb|ELK96492.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM126]
Length = 374
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 87/262 (33%), Positives = 129/262 (49%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P + T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWRGTLLNGLLAHCPELS-----QVPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLPAQ----------------NSLVRQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLTH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL GDP+Y G P+ S+ G + LH
Sbjct: 256 HQIRVHMREANHPLAGDPVY---GNPRHPCSDPVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 301 AYRLSFTHPESGETVSFEAPIP 322
>gi|229146464|ref|ZP_04274835.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BDRD-ST24]
gi|228637097|gb|EEK93556.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BDRD-ST24]
Length = 302
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 95/314 (30%), Positives = 148/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDNVVTVNGKAVKG-NYKVKEEDEITVTIPEPEELDIQPEDLNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PI
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIA 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIQFEAPIPEVFE 294
>gi|229587213|ref|YP_002845714.1| Ribosomal large subunit pseudouridine synthases RluD subfamily
protein [Rickettsia africae ESF-5]
gi|228022263|gb|ACP53971.1| Ribosomal large subunit pseudouridine synthases RluD subfamily
protein [Rickettsia africae ESF-5]
Length = 313
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 81/311 (26%), Positives = 153/311 (49%), Gaps = 52/311 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD------VPYLLEVLYEDDDLIAL 77
I++ Q+ V+ +++DP++++ +++ +KEP+ L+++YEDDDLI +
Sbjct: 35 IKDSQVLVNDVIISDPDVLVKENDIILF---SFKEPEELKIATANVALDIIYEDDDLIVI 91
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK +G+ V PG T++N L S SS+ P VHRL + T+G+++ AK
Sbjct: 92 NKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSE--RPGIVHRLDKDTTGLMVVAKN 149
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ QR++ + Y+ LV G+++ + +IK IG R
Sbjct: 150 NKAHMLLAN----------------QIEQRQVIRKYKVLVWGVINPLEGVIKNNIG--RS 191
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + + GK A++ LE + + ++V+ ++ +GR HQIR+ L+ L H ++G
Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKTLELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSIVG 251
Query: 258 DPLYVAGGQ-----PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
D Y + P ++ D ++R LH++ L +HPT+
Sbjct: 252 DQTYGNNDRKIAHSPPELKAKLID--------FKRQA----------LHSWYLSFTHPTS 293
Query: 313 NEVIKITAPLP 323
NE+++ + LP
Sbjct: 294 NEIMEFSCELP 304
>gi|258620374|ref|ZP_05715412.1| Ribosomal large subunit pseudouridine synthase D [Vibrio mimicus
VM573]
gi|262172216|ref|ZP_06039894.1| ribosomal large subunit pseudouridine synthase D [Vibrio mimicus
MB-451]
gi|424809679|ref|ZP_18235056.1| ribosomal large subunit pseudouridine synthase D [Vibrio mimicus
SX-4]
gi|449144152|ref|ZP_21774969.1| Ribosomal large subunit pseudouridine synthase D [Vibrio mimicus
CAIM 602]
gi|258587253|gb|EEW11964.1| Ribosomal large subunit pseudouridine synthase D [Vibrio mimicus
VM573]
gi|261893292|gb|EEY39278.1| ribosomal large subunit pseudouridine synthase D [Vibrio mimicus
MB-451]
gi|342323167|gb|EGU18953.1| ribosomal large subunit pseudouridine synthase D [Vibrio mimicus
SX-4]
gi|449080252|gb|EMB51169.1| Ribosomal large subunit pseudouridine synthase D [Vibrio mimicus
CAIM 602]
Length = 324
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 103/320 (32%), Positives = 150/320 (46%), Gaps = 56/320 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL G+I V+G VV P + G +V W+ D+P L ++YED
Sbjct: 36 LKEWLL---EGKIAVNGEVVTKPRTKVMGGEVIVVQAELEDEQRWEAQDLP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP V PG TVLN L + ++ VHRL + T+G+
Sbjct: 91 DDIIVINKPRDFVVHPGAGQADGTVLNALLFHFPP-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R +T+ Y A+V G + +I K P
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRDVTREYEAIVIGTMTAGGMIDK-P 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GK A++ V E R T +++ +++GR HQIR+H+A+L
Sbjct: 189 IG--RH-STKRTLMSVSPMGKHAVTHYRVAEH--FREHTRLRLRLETGRTHQIRVHMAYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ PK E A ++R LHA L
Sbjct: 244 QHPLLGDTAY--GGRARIPKGASEELT----AMIRNFDRQA----------LHAVMLKFE 287
Query: 309 HPTTNEVIKITAPLPSVLKT 328
HP T E ++ AP+P + T
Sbjct: 288 HPITGEELEFHAPVPDDMVT 307
>gi|241896496|ref|ZP_04783792.1| pseudouridylate synthase [Weissella paramesenteroides ATCC 33313]
gi|241870218|gb|EER73969.1| pseudouridylate synthase [Weissella paramesenteroides ATCC 33313]
Length = 304
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 82/259 (31%), Positives = 130/259 (50%), Gaps = 50/259 (19%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+++YEDDDL+ +NKP G+ V P T++N L + + SS++ P VHR+
Sbjct: 78 LDIVYEDDDLLVVNKPQGMVVHPAAGHPNGTLVNALMYHT--ELSSING-VIRPGIVHRI 134
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A ++ DK ++ + Y ALVHG E+
Sbjct: 135 DKDTSGLLMVAKNDQAHEALSADLKDKKNL----------------RQYYALVHGEFSEN 178
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K IK P+G + + + G+ A++ +V++R V TL++V +++GR HQI
Sbjct: 179 KGTIKAPLGRSKTDRKKQAVIAG---GRDAVTHFEVVKRYV--GYTLLRVTLETGRTHQI 233
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+A++GHP+ GDPLY P + G+ G +LHA
Sbjct: 234 RVHMAYIGHPVAGDPLY-------------------------GPKKTLAGN-GQFLHAAT 267
Query: 305 LFLSHPTTNEVIKITAPLP 323
L L+ PTT + + APLP
Sbjct: 268 LGLTQPTTKKELTFEAPLP 286
>gi|183597510|ref|ZP_02959003.1| hypothetical protein PROSTU_00783 [Providencia stuartii ATCC 25827]
gi|386742538|ref|YP_006215717.1| 23S rRNA pseudouridine synthase D [Providencia stuartii MRSN 2154]
gi|188023155|gb|EDU61195.1| ribosomal large subunit pseudouridine synthase D [Providencia
stuartii ATCC 25827]
gi|384479231|gb|AFH93026.1| 23S rRNA pseudouridine synthase D [Providencia stuartii MRSN 2154]
Length = 325
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 95/306 (31%), Positives = 155/306 (50%), Gaps = 47/306 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRL-----PWKEPDVPYLLEVLYEDDDLIALN 78
I + ++ V+G+V+N P + G +++ L W+ D+P L+V+YED+D++ +N
Sbjct: 40 ILDDRVQVNGKVINKPKEKVLGGEQILVDALIEEDNRWEPQDIP--LDVVYEDEDILVIN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP GL V PG T+LN L R + + VHRL + T+G+++ AKT
Sbjct: 98 KPRGLVVHPGAGNPDGTILNALLHRYPEIVDVPRAGI-----VHRLDKDTTGLMVVAKTV 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A+T + V L R+IT+ Y A+ G + ++++PI R+P
Sbjct: 153 PAQTRL----------------VESLQLREITREYEAVAVGRMTAGG-MVEEPIS--RHP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ V P GKPA++ V+E R T +++ +++GR HQIR+H+A + HPL+GD
Sbjct: 194 TKRTHMAV-HPMGKPAITHYRVMEH--FRAHTRLRLRLETGRTHQIRVHMAHINHPLIGD 250
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY GG+P+ ++ F ++R LHA L L HP + ++
Sbjct: 251 PLY--GGRPRPLKGA-SEEFFEVMRKFDRQA----------LHATMLRLYHPISGIQMEW 297
Query: 319 TAPLPS 324
APLP
Sbjct: 298 HAPLPD 303
>gi|262163884|ref|ZP_06031623.1| ribosomal large subunit pseudouridine synthase D [Vibrio mimicus
VM223]
gi|262027412|gb|EEY46078.1| ribosomal large subunit pseudouridine synthase D [Vibrio mimicus
VM223]
Length = 324
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 103/320 (32%), Positives = 150/320 (46%), Gaps = 56/320 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL G+I V+G VV P + G +V W+ D+P L ++YED
Sbjct: 36 LKEWLL---EGKIAVNGEVVTKPRTKVMGGEVIVVQAELEDEQRWEAQDLP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP V PG TVLN L + ++ VHRL + T+G+
Sbjct: 91 DDIIVINKPRDFVVHPGAGQADGTVLNALLFHYPP-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R +T+ Y A+V G + +I K P
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRDVTREYEAIVIGTMTAGGMIDK-P 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GK A++ V E R T +++ +++GR HQIR+H+A+L
Sbjct: 189 IG--RH-STKRTLMSVSPMGKHAVTHYRVAEH--FREHTRLRLRLETGRTHQIRVHMAYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ PK E A ++R LHA L
Sbjct: 244 QHPLLGDTAY--GGRARIPKGASEELT----AMIRNFDRQA----------LHAVMLKFE 287
Query: 309 HPTTNEVIKITAPLPSVLKT 328
HP T E ++ AP+P + T
Sbjct: 288 HPITGEELEFHAPVPDDMVT 307
>gi|42782985|ref|NP_980232.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus
ATCC 10987]
gi|49186742|ref|YP_029994.1| RNA pseudouridylate synthase [Bacillus anthracis str. Sterne]
gi|118479113|ref|YP_896264.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis str. Al Hakam]
gi|165872288|ref|ZP_02216925.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0488]
gi|167636442|ref|ZP_02394741.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0442]
gi|167641146|ref|ZP_02399401.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0193]
gi|170688858|ref|ZP_02880061.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0465]
gi|170708814|ref|ZP_02899250.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0389]
gi|177654900|ref|ZP_02936617.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0174]
gi|190565878|ref|ZP_03018797.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. Tsiankovskii-I]
gi|196035788|ref|ZP_03103190.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus W]
gi|196045901|ref|ZP_03113130.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus 03BB108]
gi|218905022|ref|YP_002452856.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus AH820]
gi|225865874|ref|YP_002751252.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus 03BB102]
gi|228916530|ref|ZP_04080096.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar pulsiensis BGSC 4CC1]
gi|228928941|ref|ZP_04091973.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar pondicheriensis BGSC 4BA1]
gi|228935208|ref|ZP_04098034.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar andalousiensis BGSC 4AW1]
gi|228947612|ref|ZP_04109902.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar monterrey BGSC 4AJ1]
gi|229092938|ref|ZP_04224071.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock3-42]
gi|229123406|ref|ZP_04252610.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
95/8201]
gi|229186133|ref|ZP_04313302.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BGSC 6E1]
gi|254683398|ref|ZP_05147258.1| ribosomal large subunit pseudouridine synthase, RluA family protein
[Bacillus anthracis str. CNEVA-9066]
gi|254735932|ref|ZP_05193638.1| ribosomal large subunit pseudouridine synthase, RluA family protein
[Bacillus anthracis str. Western North America USA6153]
gi|254739820|ref|ZP_05197513.1| ribosomal large subunit pseudouridine synthase, RluA family protein
[Bacillus anthracis str. Kruger B]
gi|254751010|ref|ZP_05203049.1| ribosomal large subunit pseudouridine synthase, RluA family protein
[Bacillus anthracis str. Vollum]
gi|301055383|ref|YP_003793594.1| ribosomal large subunit pseudouridylate synthase D [Bacillus cereus
biovar anthracis str. CI]
gi|376267789|ref|YP_005120501.1| Ribosomal large subunit pseudouridine synthase D [Bacillus cereus
F837/76]
gi|384181707|ref|YP_005567469.1| 23S rRNA pseudouridine synthase D [Bacillus thuringiensis serovar
finitimus YBT-020]
gi|386737715|ref|YP_006210896.1| Ribosomal large subunit pseudouridine synthase D [Bacillus
anthracis str. H9401]
gi|421507433|ref|ZP_15954353.1| ribosomal large subunit pseudouridine synthase D [Bacillus
anthracis str. UR-1]
gi|421639648|ref|ZP_16080239.1| ribosomal large subunit pseudouridine synthase D [Bacillus
anthracis str. BF1]
gi|423550359|ref|ZP_17526686.1| RluA family pseudouridine synthase [Bacillus cereus ISP3191]
gi|42738912|gb|AAS42840.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Bacillus cereus ATCC 10987]
gi|49180669|gb|AAT56045.1| RNA pseudouridylate synthase [Bacillus anthracis str. Sterne]
gi|118418338|gb|ABK86757.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis str. Al Hakam]
gi|164711964|gb|EDR17504.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0488]
gi|167510926|gb|EDR86317.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0193]
gi|167528184|gb|EDR90971.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0442]
gi|170126299|gb|EDS95190.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0389]
gi|170667213|gb|EDT17973.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0465]
gi|172080411|gb|EDT65498.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0174]
gi|190562797|gb|EDV16763.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. Tsiankovskii-I]
gi|195991437|gb|EDX55403.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus W]
gi|196023341|gb|EDX62019.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus 03BB108]
gi|218538740|gb|ACK91138.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus AH820]
gi|225786554|gb|ACO26771.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus 03BB102]
gi|228597309|gb|EEK54960.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BGSC 6E1]
gi|228660182|gb|EEL15818.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
95/8201]
gi|228690442|gb|EEL44226.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock3-42]
gi|228812132|gb|EEM58463.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar monterrey BGSC 4AJ1]
gi|228824373|gb|EEM70179.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar andalousiensis BGSC 4AW1]
gi|228830748|gb|EEM76353.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar pondicheriensis BGSC 4BA1]
gi|228843109|gb|EEM88191.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar pulsiensis BGSC 4CC1]
gi|300377552|gb|ADK06456.1| ribosomal large subunit pseudouridylate synthase D [Bacillus cereus
biovar anthracis str. CI]
gi|324327791|gb|ADY23051.1| 23S rRNA pseudouridine synthase D [Bacillus thuringiensis serovar
finitimus YBT-020]
gi|364513589|gb|AEW56988.1| Ribosomal large subunit pseudouridine synthase D [Bacillus cereus
F837/76]
gi|384387567|gb|AFH85228.1| Ribosomal large subunit pseudouridine synthase D [Bacillus
anthracis str. H9401]
gi|401189975|gb|EJQ97025.1| RluA family pseudouridine synthase [Bacillus cereus ISP3191]
gi|401822567|gb|EJT21717.1| ribosomal large subunit pseudouridine synthase D [Bacillus
anthracis str. UR-1]
gi|403393313|gb|EJY90558.1| ribosomal large subunit pseudouridine synthase D [Bacillus
anthracis str. BF1]
Length = 302
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 95/314 (30%), Positives = 148/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDDVVTVNGKAVKG-NYKVRENDEITVTIPEPEELDIQPEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PI
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIA 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKHAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIQFEAPIPEVFE 294
>gi|170692348|ref|ZP_02883511.1| pseudouridine synthase, RluA family [Burkholderia graminis C4D1M]
gi|170142778|gb|EDT10943.1| pseudouridine synthase, RluA family [Burkholderia graminis C4D1M]
Length = 450
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 104/317 (32%), Positives = 159/317 (50%), Gaps = 56/317 (17%)
Query: 17 LQGWLQRIQNGQITVDGR--VVNDPNIILSAGSELVYHRLPWK---EPDVPYLLEVLYED 71
LQ W I+ ++ +DG+ + P + L A ELV LP + P+ P LE++YED
Sbjct: 95 LQSW---IEAERVRIDGKPAKIRQP-VPLGATIELVPDLLPEQLAFTPE-PVPLEIVYED 149
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
D L+ +NKP+G+ V P TVLN L +R ++ L VHRL + TSG+
Sbjct: 150 DTLVVINKPAGMVVHPAAGNWSGTVLNGLLYRYGDAAAGLPRAGI----VHRLDKETSGL 205
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ A+T A+T + V +L R + + Y ALV G + E+ I P
Sbjct: 206 MVVARTLEAQTDL----------------VRQLQARTVKRRYLALVWGNMPEEGTI-DAP 248
Query: 192 IGIVRYPGVAKGLYVAS-PSGKPALSKVDVLERDV-QRN-CTLVQVEIQSGRPHQIRIHL 248
IG R P + V + SGKPA + ++ + QR T + ++++GR HQIR+H
Sbjct: 249 IG--RDPRERTRMAVVTGASGKPARTHFRRVDTAIWQRQPVTAIHCDLETGRTHQIRVHC 306
Query: 249 AFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY-YLHAYQLFL 307
A +GHPLLGDP+Y G+ + +R V P+PG+ LHA++L L
Sbjct: 307 AHIGHPLLGDPVY---GRARG----------------KRSVTPLPGEFARQALHAWRLGL 347
Query: 308 SHPTTNEVIKITAPLPS 324
HP T ++ A +P+
Sbjct: 348 IHPKTGRTMQWRADVPA 364
>gi|422022039|ref|ZP_16368548.1| 23S rRNA pseudouridine synthase D [Providencia sneebia DSM 19967]
gi|414097789|gb|EKT59442.1| 23S rRNA pseudouridine synthase D [Providencia sneebia DSM 19967]
Length = 325
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 93/306 (30%), Positives = 154/306 (50%), Gaps = 47/306 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRL-----PWKEPDVPYLLEVLYEDDDLIALN 78
I + ++ V+G+V+N P + G +++ + W+ D+P L+V+YED+D++ +N
Sbjct: 40 ILDDRVQVNGKVINKPKEKVLGGEQILIDAIIEEDNRWEPQDIP--LDVVYEDEDILVIN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP GL V PG T+LN L +R + + VHRL + T+G+++ AKT
Sbjct: 98 KPRGLVVHPGAGNPDGTILNALLYRYPEIVDVPRAGI-----VHRLDKDTTGLMVVAKTV 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A+T + V L R+IT+ Y A+ G + ++++PI R+P
Sbjct: 153 PAQTRL----------------VESLQLREITREYEAVAVGRMTAGG-MVEEPIS--RHP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ V P GKPA++ ++E R T +++ +++GR HQIR+H+A + HPL+GD
Sbjct: 194 TKRTHMAV-HPMGKPAITHYRIMEH--FRAHTRLRLRLETGRTHQIRVHMAHINHPLIGD 250
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
PLY GG+P+ G E + + LHA L L HP + ++
Sbjct: 251 PLY--GGRPRPL-----------KGASEEFLEVMRNFDRQALHATMLRLYHPISGIQMEW 297
Query: 319 TAPLPS 324
APLP
Sbjct: 298 HAPLPD 303
>gi|307944601|ref|ZP_07659941.1| ribosomal large subunit pseudouridine synthase D [Roseibium sp.
TrichSKD4]
gi|307772350|gb|EFO31571.1| ribosomal large subunit pseudouridine synthase D [Roseibium sp.
TrichSKD4]
Length = 341
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 94/316 (29%), Positives = 152/316 (48%), Gaps = 50/316 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD-----VPYLLEVLYEDDDLIALN 78
I+ G++TVDGR + +P ++ G L ++PD +P L ++YEDD LI ++
Sbjct: 49 IKGGEVTVDGRKIVEPKHRVNEGQTLTLTLPEPEDPDPKGENIP--LSIIYEDDHLIVVD 106
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP+GL V PG T++N L S + S P VHR+ + TSG+L+ AKT
Sbjct: 107 KPAGLVVHPGAGNLTGTLVNALIHHCGDSLSGIGS-VKRPGIVHRIDKDTSGLLVVAKTD 165
Query: 139 LAKTCIAGYFAD--KTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A ++ FAD KT ++ + Y ALV G K I + R
Sbjct: 166 QAHQGLSEQFADHGKTGPLE--------------RAYSALVWGAPSSLKGTINA--NLAR 209
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLER----DVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
+ + V +G+ A+++ V ER D + +L++ +++GR HQIR+H+A +G
Sbjct: 210 SQANRQKIAVVKTAGRHAITRWQVKERFGEKDTEALASLMECRLETGRTHQIRVHMAHIG 269
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY----LHAYQLFLS 308
HPL+GD Y AG + K+ +R +P+ + LHA L +
Sbjct: 270 HPLIGDMDYGAGFKTKT----------------KRLEDPLKTTINTFTRQALHAGLLAFA 313
Query: 309 HPTTNEVIKITAPLPS 324
HP + E ++ +P P+
Sbjct: 314 HPVSGETLRFESPFPT 329
>gi|312135180|ref|YP_004002518.1| pseudouridine synthase, rlua family [Caldicellulosiruptor
owensensis OL]
gi|311775231|gb|ADQ04718.1| pseudouridine synthase, RluA family [Caldicellulosiruptor
owensensis OL]
Length = 300
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 85/260 (32%), Positives = 135/260 (51%), Gaps = 47/260 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
++V+YED+ L +NKP G+ V PG + T++N L + S + SS++ P VHRL
Sbjct: 73 IDVVYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFSGRLSSING-VIRPGIVHRL 131
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AKT A ++ L +I +IY A+ G++ ED
Sbjct: 132 DKDTSGLLVVAKTDEAHIKLSE----------------ALKSHQIKRIYYAICEGVLKED 175
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
++ PIG R+P V + P+GK A++ +VLER T V++ +++GR HQI
Sbjct: 176 SGVVDAPIG--RHP-VNRLKMAVVPNGKEAVTYFEVLER--FDKYTFVKLRLKTGRTHQI 230
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H++++G+PLLGD Y G+ K +EF G G LHA +
Sbjct: 231 RVHMSYIGYPLLGDNTY---GRAK---NEF-------------------GVQGQVLHAGE 265
Query: 305 LFLSHPTTNEVIKITAPLPS 324
+ HP T++V+ +A LP
Sbjct: 266 IEFVHPITSKVLHFSADLPE 285
>gi|395787283|ref|ZP_10466884.1| RluA family pseudouridine synthase [Bartonella birtlesii LL-WM9]
gi|395411707|gb|EJF78228.1| RluA family pseudouridine synthase [Bartonella birtlesii LL-WM9]
Length = 334
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 89/313 (28%), Positives = 146/313 (46%), Gaps = 42/313 (13%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGS--ELVYHRLPWKEP-DVPYLLEVLYEDDDLIALNKP 80
I+ G + VDG+++ +P L EL L EP +L++L+ED+D+I +NKP
Sbjct: 37 IREGYLKVDGQLIREPKTKLKPNQIIELAMPILRDAEPCGEAIILDILFEDNDVIVINKP 96
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
+GL V PG T++N L S + P VHRL + TSG+++ AK A
Sbjct: 97 AGLVVHPGNGNWTGTLVNALIHHCGNSLSGIGG-VKRPGIVHRLDKNTSGVMVVAKNDFA 155
Query: 141 KTCIAGYFAD--KTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
++ F+D +TS +D + Y AL+ GI + I +G Y
Sbjct: 156 HKSLSAQFSDHGRTSALD--------------RRYHALIWGIPHRNIWTIDASLGRSPYN 201
Query: 199 GVAKGL-YVASPSGKPALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
+ + + + + A++ +LE+ D +L++ +++GR HQIR+H+A +G
Sbjct: 202 RIKQAVVHNQHAYARHAITHFSLLEKYGTYADTTPVASLIECRLETGRTHQIRVHMAHIG 261
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPV--NPVPGDCGYYLHAYQLFLSHP 310
HPL+GDP+Y F P+ N + LHA L HP
Sbjct: 262 HPLIGDPVY--------------GNAFKTKSNMLNPIIKNAIDQFNRQALHATSLTFEHP 307
Query: 311 TTNEVIKITAPLP 323
T++V+ ++PLP
Sbjct: 308 ATSKVMSFSSPLP 320
>gi|386362494|ref|YP_006071825.1| pseudouridine synthase, RluA family protein [Streptococcus pyogenes
Alab49]
gi|350276903|gb|AEQ24271.1| pseudouridine synthase, RluA family protein [Streptococcus pyogenes
Alab49]
Length = 296
Score = 120 bits (302), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 88/274 (32%), Positives = 137/274 (50%), Gaps = 51/274 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L ++ D+P L+++YEDD L +NKP G+ V P T++N L + K SS++
Sbjct: 65 LEYQAQDIP--LDIIYEDDALAIINKPQGMVVHPSAGHPSGTMVNALMYHI-KDLSSING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AKT A +A EL +K + Y
Sbjct: 122 -VVRPGIVHRIDKDTSGLLMVAKTDAAHQALA----------------EELKAKKSLRKY 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ +I+ PIG R K V + GK A+++ VLER + +LV+
Sbjct: 165 LAIVHGNLPNDRGMIEAPIG--RSEKDRKKQAVTA-KGKEAVTRFTVLERF--GDYSLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+++++GR HQIR+H+A++GHP+ GDPLY G K+
Sbjct: 220 LQLETGRTHQIRVHMAYIGHPVAGDPLY---GPRKTLSGH-------------------- 256
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G +LHA L L+HP T + + T P + +
Sbjct: 257 ---GQFLHAKTLGLTHPMTGKEMIFTVEAPEIFQ 287
>gi|138894673|ref|YP_001125126.1| ribosomal large subunit pseudouridine synthase D-like protein
[Geobacillus thermodenitrificans NG80-2]
gi|196247711|ref|ZP_03146413.1| pseudouridine synthase, RluA family [Geobacillus sp. G11MC16]
gi|134266186|gb|ABO66381.1| ribosomal large subunit pseudouridine synthase D-like protein
[Geobacillus thermodenitrificans NG80-2]
gi|196212495|gb|EDY07252.1| pseudouridine synthase, RluA family [Geobacillus sp. G11MC16]
Length = 304
Score = 120 bits (301), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 99/309 (32%), Positives = 146/309 (47%), Gaps = 60/309 (19%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSEL---VYHRLPWKEP----DVPYLLEVLYEDDDL 74
Q I+NG +TV+GR V + SEL V P EP P L++ YED+D+
Sbjct: 35 QWIKNGLVTVNGRTVK-----ANYKSELGDTVAISPPEPEPLHVEPEPIPLDIYYEDEDV 89
Query: 75 IALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLC 134
+ +NKP G+ V P + T++N L A + S + P VHR+ + TSG+L+
Sbjct: 90 LVVNKPRGMVVHPAPGHMRGTLVNALL--AHCRDLSGINGVLRPGIVHRIDKDTSGLLMV 147
Query: 135 AKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGI 194
AK A S V +L + +T+ Y+A+VHG++ D I PIG
Sbjct: 148 AKNDAAHR----------------SLVEQLVNKTVTRRYKAIVHGVIPHDYGTIDAPIG- 190
Query: 195 VRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHP 254
R K + V +GK A++ VLER R T V+ ++++GR HQIR+H+ ++G+P
Sbjct: 191 -RDKRDRKKMAVTDENGKEAVTHFRVLER--FRQYTYVECQLETGRTHQIRVHMKYIGYP 247
Query: 255 LLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNE 314
L GDP Y G K+ E G LHA L HP + +
Sbjct: 248 LAGDPQY---GPKKTLSIE-----------------------GQALHAGVLGFRHPRSGD 281
Query: 315 VIKITAPLP 323
++ APLP
Sbjct: 282 YLEFEAPLP 290
>gi|421524705|ref|ZP_15971326.1| RluA family pseudouridine synthase [Pseudomonas putida LS46]
gi|402751168|gb|EJX11681.1| RluA family pseudouridine synthase [Pseudomonas putida LS46]
Length = 320
Score = 120 bits (301), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 107/322 (33%), Positives = 160/322 (49%), Gaps = 71/322 (22%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L W I+ G++TVDG VV P ++ GS L + W D+ L+++YED
Sbjct: 36 LTSW---IKEGRLTVDGAVVR-PRDLVHGGSLLALEAEQEAQGEWIAEDIE--LDIVYED 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----------V 121
D ++ +NKP+GL V P T+LN L H VP V
Sbjct: 90 DHILVINKPAGLVVHPAAGHASGTLLNALL---------------HHVPDIVNVPRAGIV 134
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + T+G+++ AKT A+T + V ++ RK+++IY +V G+V
Sbjct: 135 HRLDKDTTGLMVVAKTLQAQTKL----------------VEQMQARKVSRIYECIVIGVV 178
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
I PIG R+ G+ + + V + GKPA+S VL+R R+ T V+V++++GR
Sbjct: 179 TAGGKI-DAPIG--RHGGMRQRMAV-TDGGKPAVSHYRVLKRF--RSHTHVRVKLETGRT 232
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+A +G PL+GD Y GG+ + + A T + V P LH
Sbjct: 233 HQIRVHMAHVGFPLVGDQTY--GGRFRIPPA--ASPTMVE------AVKTFPRQA---LH 279
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
A L L+HP T EV+K +PLP
Sbjct: 280 ARFLALAHPITGEVMKWESPLP 301
>gi|384265127|ref|YP_005420834.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens subsp. plantarum YAU B9601-Y2]
gi|387898123|ref|YP_006328419.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens Y2]
gi|380498480|emb|CCG49518.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens subsp. plantarum YAU B9601-Y2]
gi|387172233|gb|AFJ61694.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens Y2]
Length = 304
Score = 120 bits (301), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 94/314 (29%), Positives = 145/314 (46%), Gaps = 55/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W ++ G ++V+G+ V N + G ++ +E DV P L++ YED D
Sbjct: 33 VQQW---VKEGLVSVNGKSVK-ANYKMQPGDQVNVTIPEPEELDVLAEPMDLDIYYEDQD 88
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 89 VLVVNKPRGMVVHPAPGHVTGTLVNGLMAHCNDLSGI--NGVMRPGIVHRIDKDTSGLLM 146
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A + +KT +T+ Y A+VHG++ D I PIG
Sbjct: 147 VAKNDMAHESLVNQLVNKT----------------VTRKYTAVVHGMISHDDGTIDAPIG 190
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V S K A++ VLER ++ TLV+ +++GR HQIR+H+ ++G
Sbjct: 191 --RDKKDRQSMTVTRESSKNAVTHFHVLER--FQDFTLVECRLETGRTHQIRVHMKYIGF 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPRKTVDFN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E ++ APLP +K
Sbjct: 281 EYMEFEAPLPEDMK 294
>gi|407713454|ref|YP_006834019.1| Ribosomal large subunit pseudouridine synthase D [Burkholderia
phenoliruptrix BR3459a]
gi|407235638|gb|AFT85837.1| Ribosomal large subunit pseudouridine synthase D [Burkholderia
phenoliruptrix BR3459a]
Length = 395
Score = 120 bits (301), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 104/317 (32%), Positives = 158/317 (49%), Gaps = 56/317 (17%)
Query: 17 LQGWLQRIQNGQITVDGR--VVNDPNIILSAGSELVYHRLPWK---EPDVPYLLEVLYED 71
LQ W I+ ++ +DG+ + P + L A ELV LP + P+ P L+++YED
Sbjct: 66 LQSW---IEAERVRIDGKPAKIRQP-VPLGATIELVPDLLPEQLAFTPE-PVPLDIVYED 120
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
D L+ +NKP+G+ V P TVLN L +R ++ L VHRL + TSG+
Sbjct: 121 DTLVVINKPAGMVVHPAAGNWSGTVLNGLLYRYGDAAAGLPRAGI----VHRLDKETSGL 176
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ A+T A+T + V +L R + + Y ALV G + E+ I P
Sbjct: 177 MVVARTLEAQTDL----------------VRQLQARTVKRRYLALVWGNMPEEGTI-DAP 219
Query: 192 IGIVRYPGVAKGLYVAS-PSGKPALSKVDVLERDV-QRN-CTLVQVEIQSGRPHQIRIHL 248
IG R P + V + SGKPA + ++ + QR T + ++++GR HQIR+H
Sbjct: 220 IG--RDPRERTRMAVVTGASGKPARTHFRRVDTALWQRQPVTAIHCDLETGRTHQIRVHC 277
Query: 249 AFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY-YLHAYQLFL 307
A +GHPLLGDP+Y G+ + +R V P+PGD LHA++L L
Sbjct: 278 AHIGHPLLGDPVY---GRARG----------------KRSVTPLPGDFARQALHAWRLGL 318
Query: 308 SHPTTNEVIKITAPLPS 324
HP T ++ A +P
Sbjct: 319 IHPKTGRTMQWRADVPE 335
>gi|334129660|ref|ZP_08503464.1| Ribosomal large subunit pseudouridine synthase D [Methyloversatilis
universalis FAM5]
gi|333445345|gb|EGK73287.1| Ribosomal large subunit pseudouridine synthase D [Methyloversatilis
universalis FAM5]
Length = 326
Score = 120 bits (301), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 100/314 (31%), Positives = 149/314 (47%), Gaps = 62/314 (19%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGS--ELVYHRLPWKE----PDVPYLLEVLYE 70
LQGWL+ G++ VDGR +D +G EL LP D+P L V++E
Sbjct: 56 LQGWLR---EGRVRVDGRECSDARRRTFSGERLELDPGSLPEDTVHAPQDIP--LRVVFE 110
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
DD +I ++KP+GL V PG T+LN L +R + + + VHRL + TSG
Sbjct: 111 DDTVIVIDKPAGLVVHPGNGVPDGTLLNALLYRWPELARVPRAGI-----VHRLDKDTSG 165
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ A+T A+T + V +L R +++ Y A+V G V D +
Sbjct: 166 LLVVARTVEAQTDL----------------VRQLQARTVSRRYFAVVAGSVGADGTV--- 206
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
I R+P + V GKPA + V ER R+ TLV+ +++GR HQIR+H+A
Sbjct: 207 DAAIGRHPVQRTRMAVVQVGGKPARTHYFVRER--LRDATLVECRLETGRTHQIRVHMAH 264
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GH LLGD +Y P++ F+ LHA++L L HP
Sbjct: 265 IGHSLLGDEVYA----PRNVAERFSRQA---------------------LHAWRLGLVHP 299
Query: 311 TTNEVIKITAPLPS 324
+ E + PLP+
Sbjct: 300 RSGEEVGWEVPLPA 313
>gi|433500494|ref|ZP_20457480.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM174]
gi|432235785|gb|ELK91394.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM174]
Length = 374
Score = 120 bits (301), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 87/262 (33%), Positives = 129/262 (49%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P + T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWRGTLLNGLLAHCPELS-----QVPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLPAQ----------------NSLVRQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLTH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL GDP+Y G P+ S+ G + LH
Sbjct: 256 HQIRVHMREANHPLAGDPVY---GNPRHPCSDPVKEAVKSLGSRQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 301 AYRLSFTHPESGETVSFEAPIP 322
>gi|402494315|ref|ZP_10841057.1| RluA family pseudouridine synthase [Aquimarina agarilytica ZC1]
Length = 352
Score = 120 bits (301), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 89/268 (33%), Positives = 135/268 (50%), Gaps = 44/268 (16%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
++V+YEDDDL+ +NK +G+ V PG + T++N L + ++ S + P VHR+
Sbjct: 103 IDVVYEDDDLLVVNKEAGMVVHPGHGNYEGTLINALIYHFENLPNNSSDR---PGLVHRI 159
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AKT+ A T +A F DKTS + Y ALV G ++ED
Sbjct: 160 DKDTSGLLVVAKTEAAMTHLAKQFFDKTS----------------KREYVALVWGNIEED 203
Query: 185 KVIIKQPIGIVRYPGVAKGLYV----ASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
I+ IG R+P V + GKPA++ +V+ER TLV+ ++++GR
Sbjct: 204 SGTIEGNIG--RHPKNRLQNTVWDGEEADKGKPAVTHFEVIER--LGYVTLVKCKLETGR 259
Query: 241 PHQIRIHLAFLGHPLLGDPLY----VAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDC 296
HQIR+H+ ++GH L D Y + G + +F D F +P
Sbjct: 260 THQIRVHMKYIGHTLFNDERYGGDKILKGTTFTKYKQFVDNCFKT----------LPRQA 309
Query: 297 GYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L HPTTN+ + AP+PS
Sbjct: 310 ---LHARTLGFVHPTTNKEMFFEAPIPS 334
>gi|258624747|ref|ZP_05719681.1| Ribosomal large subunit pseudouridine synthase D [Vibrio mimicus
VM603]
gi|258583034|gb|EEW07849.1| Ribosomal large subunit pseudouridine synthase D [Vibrio mimicus
VM603]
Length = 324
Score = 120 bits (301), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 103/320 (32%), Positives = 150/320 (46%), Gaps = 56/320 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL G+I V+G VV P + G +V W+ D+P L ++YED
Sbjct: 36 LKEWLL---EGKIAVNGEVVTKPRTKVMGGEVIVVQAELEDEQRWEAQDLP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP V PG TVLN L + ++ VHRL + T+G+
Sbjct: 91 DDIIVINKPRDFVVHPGAGQADGTVLNALLFHYPP-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R +T+ Y A+V G + +I K P
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRDVTREYEAIVIGTMTAGGMIDK-P 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GK A++ V E R T +++ +++GR HQIR+H+A+L
Sbjct: 189 IG--RH-STKRTLMSVSPMGKHAVTHYRVAEH--FREHTRLRLRLETGRTHQIRVHMAYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ PK E A ++R LHA L
Sbjct: 244 QHPLLGDTAY--GGRARIPKGASEELT----AMIRNFDRQA----------LHAVMLKFK 287
Query: 309 HPTTNEVIKITAPLPSVLKT 328
HP T E ++ AP+P + T
Sbjct: 288 HPITGEELEFHAPVPDDMVT 307
>gi|375264535|ref|YP_005021978.1| 23S rRNA pseudouridine synthase D [Vibrio sp. EJY3]
gi|369839859|gb|AEX21003.1| 23S rRNA pseudouridine synthase D [Vibrio sp. EJY3]
Length = 325
Score = 120 bits (301), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 98/316 (31%), Positives = 145/316 (45%), Gaps = 56/316 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL G++ V+G VV P + G E+ W+ D+P L+++YED
Sbjct: 36 LKEWLL---EGKVQVNGEVVTKPRTKVMGGEEITLQAELEDEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 DDIIVINKPRDFVVHPGAGTPDGTVLNALLHHYPD-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R IT+ Y A+ G + + QP
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRNITREYEAIAIGRMTAGGKV-DQP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L +P GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 189 IG--RH-STKRTLMAVAPMGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ P E D + D LHA L
Sbjct: 244 QHPLLGDTAY--GGRARIPTGASQELTDMIRSFD--------------RQALHAVMLRFE 287
Query: 309 HPTTNEVIKITAPLPS 324
HP T E ++ AP+P
Sbjct: 288 HPITGEELEFHAPVPD 303
>gi|334138438|ref|ZP_08511857.1| pseudouridine synthase, RluA family [Paenibacillus sp. HGF7]
gi|333604087|gb|EGL15482.1| pseudouridine synthase, RluA family [Paenibacillus sp. HGF7]
Length = 327
Score = 120 bits (301), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 92/274 (33%), Positives = 132/274 (48%), Gaps = 38/274 (13%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQL--QWRASKQSSSLSSQASH 117
D+P LE+LYED+ L+ +NK SG+ V P TV N W+ ++
Sbjct: 81 DLP--LEILYEDEHLLIVNKESGMIVHPTHGHYLNTVANAAVHHWKERGENVRFR----- 133
Query: 118 PVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALV 177
PVHRL + TSG+L AK I+ ++ ITK Y A+V
Sbjct: 134 --PVHRLDQETSGVLAIAKNPYVHQQISE----------------QMIAHSITKEYLAIV 175
Query: 178 HGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQ 237
HG V ED+ I PI R P + + +PSG A++ + + R TLV++ ++
Sbjct: 176 HGTVVEDRGTIDAPID--RDPE-QPHVRIVTPSGYRAVTHYETVRR--YDGITLVRLMLE 230
Query: 238 SGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPV---NPVPG 294
+GR HQIR+H+ LGHPLLGD +Y G + ++ ADG P VP
Sbjct: 231 TGRTHQIRVHMKHLGHPLLGDKMY---GPDFAAGADCADGVPGAPSAVPSPAVDGEAVPA 287
Query: 295 DCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLKT 328
LHAY+L HP T E ++ TAPLP+ ++
Sbjct: 288 LARQALHAYRLGFVHPGTRERVEFTAPLPADMQA 321
>gi|229198004|ref|ZP_04324718.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
m1293]
gi|423574501|ref|ZP_17550620.1| RluA family pseudouridine synthase [Bacillus cereus MSX-D12]
gi|228585483|gb|EEK43587.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
m1293]
gi|401212026|gb|EJR18772.1| RluA family pseudouridine synthase [Bacillus cereus MSX-D12]
Length = 302
Score = 120 bits (301), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 95/314 (30%), Positives = 148/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDDVVTVNGKAVKG-NYKVRENDEITVTIPEPEELDIQPEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PI
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIA 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKHAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIQFEAPIPKVFE 294
>gi|433446181|ref|ZP_20410240.1| pseudouridine synthase, RluA family protein [Anoxybacillus
flavithermus TNO-09.006]
gi|432000477|gb|ELK21371.1| pseudouridine synthase, RluA family protein [Anoxybacillus
flavithermus TNO-09.006]
Length = 303
Score = 120 bits (301), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 100/311 (32%), Positives = 150/311 (48%), Gaps = 58/311 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-DV---PYLLEVLYEDD 72
+Q WL+ G++ V+G+ V PN E+V +P EP DV P L++ YED
Sbjct: 33 VQQWLKE---GRVLVNGKAVK-PNYKCHVDDEVVI-SIPDPEPLDVEPEPIPLDIYYEDA 87
Query: 73 DLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGIL 132
D++ +NKP G+ V P T++N L A Q S + P VHR+ + TSG+L
Sbjct: 88 DVLVVNKPRGMVVHPAPGHMHGTLVNAL--LAHCQDLSGINGVLRPGIVHRIDKDTSGLL 145
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPI 192
+ AK LA +S V +L + +T+ Y A+VHG++ D I PI
Sbjct: 146 MIAKNDLAH----------------ESLVNQLVNKTVTRKYVAIVHGVIPHDYGTIDAPI 189
Query: 193 GIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
G R P + + V +GK A++ VLER + T ++ ++++GR HQIR+H+ ++G
Sbjct: 190 G--RDPRDRQSMAVVE-NGKEAVTHFRVLER--FEHYTFLECQLETGRTHQIRVHMKYIG 244
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
+PL GDP Y P +P D G LHA L HP T
Sbjct: 245 YPLAGDPKY-------------------------GPRKTLPID-GQALHAGVLGFHHPRT 278
Query: 313 NEVIKITAPLP 323
E ++ AP+P
Sbjct: 279 GEYLQFEAPIP 289
>gi|312793558|ref|YP_004026481.1| pseudouridine synthase, rlua family [Caldicellulosiruptor
kristjanssonii 177R1B]
gi|312180698|gb|ADQ40868.1| pseudouridine synthase, RluA family [Caldicellulosiruptor
kristjanssonii 177R1B]
Length = 300
Score = 120 bits (301), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 85/260 (32%), Positives = 134/260 (51%), Gaps = 47/260 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
+EV+YED+ L +NKP G+ V PG + T++N L + + SS++ P VHRL
Sbjct: 73 IEVVYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFRGRLSSING-VIRPGIVHRL 131
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AKT A ++ L +I +IY A+ G++ ED
Sbjct: 132 DKDTSGLLIVAKTDEAHIKLSE----------------ALKSHQIKRIYYAICEGVLKED 175
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+I PIG R+P V + P+GK A++ +VLER T +++ +++GR HQI
Sbjct: 176 SGVINAPIG--RHP-VNRLKMAVVPNGKEAVTYFEVLER--FDKYTFIKLRLKTGRTHQI 230
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H++++G+PLLGD Y G+ K +EF G G LHA +
Sbjct: 231 RVHMSYIGYPLLGDSSY---GRAK---NEF-------------------GVQGQVLHAGE 265
Query: 305 LFLSHPTTNEVIKITAPLPS 324
+ HP T++V+ +A LP
Sbjct: 266 IEFVHPITSKVLHFSADLPE 285
>gi|402555984|ref|YP_006597255.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus
FRI-35]
gi|401797194|gb|AFQ11053.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus
FRI-35]
Length = 302
Score = 120 bits (301), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 95/314 (30%), Positives = 148/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDDIVTVNGKAVKG-NYKVRENDEITVTIPEPEELDIQPEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PI
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIA 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKHAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIQFEAPIPEVFE 294
>gi|220909998|ref|YP_002485309.1| RluA family pseudouridine synthase [Cyanothece sp. PCC 7425]
gi|219866609|gb|ACL46948.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 7425]
Length = 313
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 101/309 (32%), Positives = 145/309 (46%), Gaps = 50/309 (16%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLP--WKEPDVPYL-LEVLYEDDDLIALN 78
Q I+ GQ+ V+G++ I+ G + P EP ++ L++LYEDD L+ +N
Sbjct: 30 QLIEQGQVYVNGQLCQAKKQIVQVGDRIQLELPPPVAAEPLPEHIPLDILYEDDQLLIVN 89
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP+GL V P T++N L Q P VHRL + TSG + AKT+
Sbjct: 90 KPAGLVVHPAPGHSGGTLVNALLAHCGDLPGIGGVQ--RPGIVHRLDKDTSGAIAIAKTE 147
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
LA + KT+ + Y +V+G+ I PIG R+P
Sbjct: 148 LAHRHLQAQIKAKTA----------------RREYLGVVYGVPKTSSGRIDLPIG--RHP 189
Query: 199 GVAKGL-YVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
K + VAS G+ A++ + ER N TL+Q ++++GR HQIR+H+A LGHP++G
Sbjct: 190 VDRKKMAVVASDKGRSAVTHWQIQER--LGNFTLLQFQLETGRTHQIRVHIAQLGHPIVG 247
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DPLY +G A G G LHA++L L HP T I
Sbjct: 248 DPLYSSG---------HATGVNL---------------TGQALHAWKLALQHPVTGATIA 283
Query: 318 ITAPLPSVL 326
+TAPLP L
Sbjct: 284 VTAPLPPEL 292
>gi|148545913|ref|YP_001266015.1| RluA family pseudouridine synthase [Pseudomonas putida F1]
gi|395447024|ref|YP_006387277.1| RluA family pseudouridine synthase [Pseudomonas putida ND6]
gi|397693570|ref|YP_006531450.1| RluA family pseudouridine synthase [Pseudomonas putida DOT-T1E]
gi|148509971|gb|ABQ76831.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas
putida F1]
gi|388561021|gb|AFK70162.1| RluA family pseudouridine synthase [Pseudomonas putida ND6]
gi|397330300|gb|AFO46659.1| RluA family pseudouridine synthase [Pseudomonas putida DOT-T1E]
Length = 352
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 107/322 (33%), Positives = 160/322 (49%), Gaps = 71/322 (22%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L W I+ G++TVDG VV P ++ GS L + W D+ L+++YED
Sbjct: 68 LTSW---IKEGRLTVDGAVVR-PRDLVHGGSLLALEAEQEAQGEWIAEDIE--LDIVYED 121
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----------V 121
D ++ +NKP+GL V P T+LN L H VP V
Sbjct: 122 DHILVINKPAGLVVHPAAGHASGTLLNALL---------------HHVPDIVNVPRAGIV 166
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + T+G+++ AKT A+T + V ++ RK+++IY +V G+V
Sbjct: 167 HRLDKDTTGLMVVAKTLQAQTKL----------------VEQMQARKVSRIYECIVIGVV 210
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
I PIG R+ G+ + + V + GKPA+S VL+R R+ T V+V++++GR
Sbjct: 211 TAGGKI-DAPIG--RHGGMRQRMAV-TDGGKPAVSHYRVLKRF--RSHTHVRVKLETGRT 264
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+A +G PL+GD Y GG+ + + A T + V P LH
Sbjct: 265 HQIRVHMAHVGFPLVGDQTY--GGRFRIPPA--ASPTMVE------AVKTFPRQA---LH 311
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
A L L+HP T EV+K +PLP
Sbjct: 312 ARFLALAHPITGEVMKWESPLP 333
>gi|365924511|ref|ZP_09447274.1| ribosomal large subunit pseudouridine synthase [Lactobacillus mali
KCTC 3596 = DSM 20444]
gi|420265320|ref|ZP_14767883.1| ribosomal large subunit pseudouridine synthase [Lactobacillus mali
KCTC 3596 = DSM 20444]
gi|394428211|gb|EJF00790.1| ribosomal large subunit pseudouridine synthase [Lactobacillus mali
KCTC 3596 = DSM 20444]
Length = 301
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 83/263 (31%), Positives = 133/263 (50%), Gaps = 50/263 (19%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+++YED+D++ +NKP G+ V P +T++N L A S+++ + P VHR+
Sbjct: 77 LDIVYEDEDVLVVNKPQGMVVHPSPGHPDKTLVNAL--LAHSPLSTINGEFR-PGIVHRI 133
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A +A KT++ + Y ALVHG++ ED
Sbjct: 134 DKDTSGLLMVAKNDQAHRSLAAQLKAKTNI----------------REYIALVHGVIKED 177
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
I P+G R P K V S G+ A+++ V++R +N TL++ +++GR HQI
Sbjct: 178 NGKIDAPLG--RSPKDRKKQAVVS-GGRNAVTRFSVIKR--YQNYTLIKCILETGRTHQI 232
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+HL ++GHPL+GDPLY P + G+ G +LHA +
Sbjct: 233 RVHLKYIGHPLVGDPLY-------------------------GPSKTIKGN-GQFLHAGK 266
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T + + PLP + +
Sbjct: 267 LGFKHPRTGKELVFDVPLPEIFR 289
>gi|298346986|ref|YP_003719673.1| putative pseudouridylate synthase [Mobiluncus curtisii ATCC 43063]
gi|298237047|gb|ADI68179.1| possible pseudouridylate synthase [Mobiluncus curtisii ATCC 43063]
Length = 304
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 105/321 (32%), Positives = 150/321 (46%), Gaps = 56/321 (17%)
Query: 21 LQRIQNGQITVDGRVVNDPNII-----LSAGSELVYHRLPWKEPDVPYL-----LEVLYE 70
L R + G + G V+ D + L+AG+ L+ +P VP + L +LY
Sbjct: 26 LSRAKTGALLESGAVIQDGETLKKSDQLAAGN-LLEIDIPEPTGYVPEVTRVDNLGILYA 84
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
DDDL+ ++KP+G+ G ++ TV+ L RA+ S S VHRL GTSG
Sbjct: 85 DDDLVVVDKPAGVAAHTGPGWEGPTVVGAL--RAAGIRVSTSGPVEREGIVHRLDAGTSG 142
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
++ AK++LA + F ++ KIY AL G V I
Sbjct: 143 AMVVAKSELAYGKLKNEF----------------RYHRVEKIYTALATGKVKPPVGTIDA 186
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R PG + V S GKPA++ D++E TL++V++++GR HQIR+HLA
Sbjct: 187 PIG--RAPGREFKMAVVS-GGKPAVTHYDIIEE--LPGATLLKVQLETGRTHQIRVHLAA 241
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHPL+GD Y AD A G ER +LHA +L HP
Sbjct: 242 IGHPLVGDTEY------------GADRKTAARLGLER----------QWLHASRLAFKHP 279
Query: 311 TTNEVIKITAPLPSVLKTREE 331
T + + APLP+ L T E
Sbjct: 280 RTGLEVAVQAPLPADLATAVE 300
>gi|23015589|ref|ZP_00055361.1| COG0564: Pseudouridylate synthases, 23S RNA-specific
[Magnetospirillum magnetotacticum MS-1]
Length = 327
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 90/309 (29%), Positives = 145/309 (46%), Gaps = 44/309 (14%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP----YLLEVLYEDDDLIALNK 79
I++G++++D ++D ++ + G +P P P L V+YED+DLI ++K
Sbjct: 43 IEDGRVSLDATTISDASLRVKPGQCFTVE-VPPDAPAEPEAQDIALSVVYEDEDLIVIDK 101
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
P+G+ V P T++N L + + + P VHR+ + TSG+L+ AKT
Sbjct: 102 PAGMVVHPAPGNPDETLVNALLAHCGESLAGIGG-VKRPGIVHRIDKDTSGLLVAAKTDA 160
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPG 199
A +A FA+ + + + Y ALV G + I+ IG R P
Sbjct: 161 AHRGLAAQFAEHS----------------LERAYWALVWGTPSPRQGEIEGNIG--RNPN 202
Query: 200 VAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDP 259
K + V GKPAL++ VL+ +LV+ + +GR HQIR+H+ GHPL+GDP
Sbjct: 203 DRKKMAVVKSGGKPALTRYRVLKSFAGGAVSLVECRLATGRTHQIRVHMTAQGHPLIGDP 262
Query: 260 LY--VAGGQPKSFDSEFADG--TFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
+Y + G + E + TF + LHAY L SHPT
Sbjct: 263 VYGRIRGSRKVVLPPEVKESLTTFPRQA----------------LHAYLLGFSHPTKGYE 306
Query: 316 IKITAPLPS 324
++ +P+P+
Sbjct: 307 VRFESPIPA 315
>gi|260364018|ref|ZP_05776749.1| ribosomal large subunit pseudouridine synthase D [Vibrio
parahaemolyticus K5030]
gi|308115630|gb|EFO53170.1| ribosomal large subunit pseudouridine synthase D [Vibrio
parahaemolyticus K5030]
Length = 325
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 96/307 (31%), Positives = 143/307 (46%), Gaps = 53/307 (17%)
Query: 26 NGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIALNKP 80
G++ V+G VV P + G E+ W+ D+P L+++YEDDD+I +NKP
Sbjct: 42 TGKVQVNGEVVTKPRTKVMGGEEITLQAELEDEERWEAQDIP--LDIVYEDDDIIVINKP 99
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
V PG TVLN L ++ VHRL + T+G+++ AKT A
Sbjct: 100 RDFVVHPGAGTPDGTVLNALLHHYPD-----IAEVPRAGIVHRLDKDTTGLMVVAKTVPA 154
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGV 200
+T + V L +R IT+ Y A+ G + + QPIG R+
Sbjct: 155 QTRL----------------VRALQKRNITREYEAIAIGRMTAGGKV-DQPIG--RH-ST 194
Query: 201 AKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPL 260
+ L +P GKPA++ V E R T +++ +++GR HQIR+H+++L HPLLGD
Sbjct: 195 KRTLMAVAPLGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMSYLQHPLLGDTA 252
Query: 261 YVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
Y GG+ P E D G++R LHA L HP T E ++
Sbjct: 253 Y--GGRARIPTGASQELTDMI----RGFDRQA----------LHAVMLRFEHPITGEELE 296
Query: 318 ITAPLPS 324
AP+P
Sbjct: 297 FHAPVPD 303
>gi|424032095|ref|ZP_17771516.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HENC-01]
gi|408876507|gb|EKM15624.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HENC-01]
Length = 325
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 96/313 (30%), Positives = 150/313 (47%), Gaps = 50/313 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL +G++ V+G VV P + G E+ W+ D+P L+++YED
Sbjct: 36 LKEWLL---DGKVQVNGEVVTKPRTKVMGGEEITLQAELEDEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
+D+I +NKP V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 EDIIVINKPRDFVVHPGAGTPDGTVLNALLHHYPD-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R IT+ Y A+ G + + QP
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRNITREYEAIAIGRMTAGGKV-DQP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L +P GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 189 IG--RH-STKRTLMAVAPLGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD Y GG+ + + ++ A G++R LHA L HP
Sbjct: 244 QHPLLGDTAY--GGRAR-IPTGASEELTAMIRGFDRQA----------LHAVMLRFEHPI 290
Query: 312 TNEVIKITAPLPS 324
T E ++ AP+P
Sbjct: 291 TGEELEFHAPVPD 303
>gi|303250129|ref|ZP_07336331.1| 23S rRNA pseudouridine synthase D [Actinobacillus pleuropneumoniae
serovar 6 str. Femo]
gi|307252760|ref|ZP_07534651.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 6 str. Femo]
gi|302651192|gb|EFL81346.1| 23S rRNA pseudouridine synthase D [Actinobacillus pleuropneumoniae
serovar 6 str. Femo]
gi|306859792|gb|EFM91814.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 6 str. Femo]
Length = 325
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 98/309 (31%), Positives = 152/309 (49%), Gaps = 53/309 (17%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLP-----WKEPDVPYLLEVLYEDDDLIALN 78
I++ + V+G VVN + G ++ ++ D+P L ++YEDDD+I +N
Sbjct: 40 IESDLVKVNGIVVNKAREKVFGGEQVEIQAEIEEEIRFEPQDIP--LNIVYEDDDIIVIN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP L V PG TVLN L ++ VHRL + T+G+++ AK
Sbjct: 98 KPKDLVVHPGAGNPDGTVLNALL-----HYYPPIAEVPRAGIVHRLDKDTTGLMVVAKNI 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A+T + V L +R+IT+ Y A+ G++ + + +P+ R+P
Sbjct: 153 PAQTHL----------------VTALQKRRITREYEAVASGVMTQGGKV-DEPMA--RHP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ V P GKPA++ ++ER RN T +++ +++GR HQIR+H+A + HPLLGD
Sbjct: 194 TKRTAMAV-HPMGKPAVTHYRIMER--FRNYTRLRLRLETGRTHQIRVHMAHIAHPLLGD 250
Query: 259 PLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
LY GG+ PK EF A G++R LHA L L HP T E+
Sbjct: 251 QLY--GGRPRPPKGASEEF----LAVLRGFQRQA----------LHATMLRLEHPITGEL 294
Query: 316 IKITAPLPS 324
++ APLP
Sbjct: 295 MEWHAPLPD 303
>gi|303229468|ref|ZP_07316258.1| pseudouridine synthase, RluA family [Veillonella atypica
ACS-134-V-Col7a]
gi|401680523|ref|ZP_10812438.1| pseudouridine synthase, RluA family [Veillonella sp. ACP1]
gi|302516004|gb|EFL57956.1| pseudouridine synthase, RluA family [Veillonella atypica
ACS-134-V-Col7a]
gi|400218431|gb|EJO49311.1| pseudouridine synthase, RluA family [Veillonella sp. ACP1]
Length = 305
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 97/307 (31%), Positives = 146/307 (47%), Gaps = 57/307 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I++G + V+G+V N+ L+A S + +P E D+P +E LYED D+I +
Sbjct: 34 IKSGHVLVNGKV-GKANLRLNADSTISV-DIPEPESVEILPEDIP--VEYLYEDHDIIIV 89
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + K S ++ + P VHRL + TSG+++ AK
Sbjct: 90 NKPRGMVVHPAIGNYSGTLVNALLYHC-KDLSGINGEIR-PGIVHRLDKDTSGVMMAAKN 147
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ + Y ALV G + E+K IIK PIG R+
Sbjct: 148 DAAHIGLAE----------------QVKAHSAKRTYLALVQGNIVEEKGIIKAPIG--RH 189
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P + V + K A++ VLER TLV+ +++GR HQIR+H A +GHP++
Sbjct: 190 PKDRMKMAVVFENSKEAVTHFKVLERYGYH--TLVECVLETGRTHQIRVHFAHIGHPVVN 247
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP Y GY R P+ G LH++ L + HP T E +
Sbjct: 248 DPFY----------------------GYRRMDFPIEGQA---LHSHTLDVVHPITGEPMH 282
Query: 318 ITAPLPS 324
AP+P
Sbjct: 283 FEAPVPE 289
>gi|383482760|ref|YP_005391674.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
montanensis str. OSU 85-930]
gi|378935114|gb|AFC73615.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
montanensis str. OSU 85-930]
Length = 313
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 81/311 (26%), Positives = 153/311 (49%), Gaps = 52/311 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD------VPYLLEVLYEDDDLIAL 77
I++ Q+ V+ +++DP++++ +++ +KEP+ L+++YEDDDLI +
Sbjct: 35 IKDSQVLVNDVIISDPDVLVKENDIILF---SFKEPEELKMAAANVALDIIYEDDDLIVI 91
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK +G+ V PG T++N L S SS+ P VHRL + T+G+++ AK
Sbjct: 92 NKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSE--RPGIVHRLDKDTTGLMVVAKN 149
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ QR++ + Y+ LV G+++ + +IK IG R
Sbjct: 150 NKAHMLLAN----------------QIEQRQVIRKYKVLVWGVINPLEGVIKNNIG--RS 191
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + + GK A++ LE + + ++V+ ++ +GR HQIR+ L+ L H ++G
Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKTLELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSVVG 251
Query: 258 DPLYVAGGQ-----PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
D Y + P ++ D ++R LH++ L +HPT+
Sbjct: 252 DQTYGNNDRKIAHSPPELKAKLID--------FKRQA----------LHSWYLSFTHPTS 293
Query: 313 NEVIKITAPLP 323
NE+++ + LP
Sbjct: 294 NEIMEFSCELP 304
>gi|379714229|ref|YP_005302567.1| ribosomal large subunit pseudouridine synthases RluD subfamily
protein [Rickettsia massiliae str. AZT80]
gi|376334875|gb|AFB32107.1| ribosomal large subunit pseudouridine synthases RluD subfamily
protein [Rickettsia massiliae str. AZT80]
Length = 313
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 81/311 (26%), Positives = 153/311 (49%), Gaps = 52/311 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD------VPYLLEVLYEDDDLIAL 77
I++ Q+ V+ +++DP++++ +++ +KEP+ L+++YEDDDLI +
Sbjct: 35 IKDSQVLVNDVIISDPDVLVKENDIILF---SFKEPEELKIAAANVALDIIYEDDDLIVI 91
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK +G+ V PG T++N L S SS+ P VHRL + T+G+++ AK
Sbjct: 92 NKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSE--RPGIVHRLDKDTTGLMVVAKN 149
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ QR++ + Y+ LV G+++ + +IK IG R
Sbjct: 150 NKAHMLLAN----------------QIEQRQVIRKYKVLVWGVINPLEGVIKNNIG--RS 191
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + + GK A++ LE + + ++V+ ++ +GR HQIR+ L+ L H ++G
Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKTLELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSVVG 251
Query: 258 DPLYVAGGQ-----PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
D Y + P ++ D ++R LH++ L +HPT+
Sbjct: 252 DQTYGNNDRKIAHSPPELKAKLID--------FKRQA----------LHSWYLSFTHPTS 293
Query: 313 NEVIKITAPLP 323
NE+++ + LP
Sbjct: 294 NEIMEFSCKLP 304
>gi|386010292|ref|YP_005928569.1| RluA family pseudouridine synthase [Pseudomonas putida BIRD-1]
gi|313496998|gb|ADR58364.1| RluA family pseudouridine synthase [Pseudomonas putida BIRD-1]
Length = 352
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 107/322 (33%), Positives = 160/322 (49%), Gaps = 71/322 (22%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L W I+ G++TVDG VV P ++ GS L + W D+ L+++YED
Sbjct: 68 LTSW---IKEGRLTVDGAVVR-PRDLVHGGSLLTLEAEQEAQGEWIAEDIE--LDIVYED 121
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----------V 121
D ++ +NKP+GL V P T+LN L H VP V
Sbjct: 122 DHILVINKPAGLVVHPAAGHASGTLLNALL---------------HHVPDIVNVPRAGIV 166
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + T+G+++ AKT A+T + V ++ RK+++IY +V G+V
Sbjct: 167 HRLDKDTTGLMVVAKTLQAQTKL----------------VEQMQARKVSRIYECIVIGVV 210
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
I PIG R+ G+ + + V + GKPA+S VL+R R+ T V+V++++GR
Sbjct: 211 TAGGKI-DAPIG--RHGGMRQRMAV-TDGGKPAVSHYRVLKRF--RSHTHVRVKLETGRT 264
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+A +G PL+GD Y GG+ + + A T + V P LH
Sbjct: 265 HQIRVHMAHVGFPLVGDQTY--GGRFRIPPA--ASPTMVE------AVKTFPRQA---LH 311
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
A L L+HP T EV+K +PLP
Sbjct: 312 ARFLALAHPITGEVMKWESPLP 333
>gi|53728774|ref|ZP_00135229.2| COG0564: Pseudouridylate synthases, 23S RNA-specific
[Actinobacillus pleuropneumoniae serovar 1 str. 4074]
gi|126208592|ref|YP_001053817.1| 23S rRNA pseudouridine synthase D [Actinobacillus pleuropneumoniae
serovar 5b str. L20]
gi|165976548|ref|YP_001652141.1| 23S rRNA pseudouridine synthase D [Actinobacillus pleuropneumoniae
serovar 3 str. JL03]
gi|190150449|ref|YP_001968974.1| ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 7 str. AP76]
gi|303253303|ref|ZP_07339452.1| 23S rRNA pseudouridine synthase D [Actinobacillus pleuropneumoniae
serovar 2 str. 4226]
gi|307246037|ref|ZP_07528119.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 1 str. 4074]
gi|307248145|ref|ZP_07530173.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 2 str. S1536]
gi|307250378|ref|ZP_07532326.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 4 str. M62]
gi|307255019|ref|ZP_07536837.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 9 str. CVJ13261]
gi|307257175|ref|ZP_07538947.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 10 str. D13039]
gi|307259455|ref|ZP_07541180.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 11 str. 56153]
gi|307261604|ref|ZP_07543272.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 12 str. 1096]
gi|126097384|gb|ABN74212.1| ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 5b str. L20]
gi|165876649|gb|ABY69697.1| pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 3
str. JL03]
gi|189915580|gb|ACE61832.1| ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 7 str. AP76]
gi|302647985|gb|EFL78192.1| 23S rRNA pseudouridine synthase D [Actinobacillus pleuropneumoniae
serovar 2 str. 4226]
gi|306852972|gb|EFM85195.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 1 str. 4074]
gi|306855322|gb|EFM87497.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 2 str. S1536]
gi|306857588|gb|EFM89696.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 4 str. M62]
gi|306861892|gb|EFM93868.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 9 str. CVJ13261]
gi|306864337|gb|EFM96248.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 10 str. D13039]
gi|306866391|gb|EFM98254.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 11 str. 56153]
gi|306868727|gb|EFN00536.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus
pleuropneumoniae serovar 12 str. 1096]
Length = 325
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 98/309 (31%), Positives = 152/309 (49%), Gaps = 53/309 (17%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLP-----WKEPDVPYLLEVLYEDDDLIALN 78
I++ + V+G VVN + G ++ ++ D+P L ++YEDDD+I +N
Sbjct: 40 IESDLVKVNGIVVNKAREKVFGGEQVEIQAEIEEEIRFEPQDIP--LNIVYEDDDIIVIN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP L V PG TVLN L ++ VHRL + T+G+++ AK
Sbjct: 98 KPKDLVVHPGAGNPDGTVLNALL-----HYYPPIAEVPRAGIVHRLDKDTTGLMVVAKNI 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A+T + V L +R+IT+ Y A+ G++ + + +P+ R+P
Sbjct: 153 PAQTHL----------------VTALQKRRITREYEAVASGVMTQGGKV-DEPMA--RHP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ V P GKPA++ ++ER RN T +++ +++GR HQIR+H+A + HPLLGD
Sbjct: 194 TKRTAMAV-HPMGKPAVTHYRIMER--FRNYTRLRLRLETGRTHQIRVHMAHIAHPLLGD 250
Query: 259 PLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
LY GG+ PK EF A G++R LHA L L HP T E+
Sbjct: 251 QLY--GGRPRPPKGASEEF----LAVLRGFQRQA----------LHATMLRLEHPITGEL 294
Query: 316 IKITAPLPS 324
++ APLP
Sbjct: 295 MEWHAPLPD 303
>gi|375362190|ref|YP_005130229.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens subsp. plantarum CAU B946]
gi|421731785|ref|ZP_16170908.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens subsp. plantarum M27]
gi|451347084|ref|YP_007445715.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens IT-45]
gi|371568184|emb|CCF05034.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens subsp. plantarum CAU B946]
gi|407073998|gb|EKE46988.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens subsp. plantarum M27]
gi|449850842|gb|AGF27834.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens IT-45]
Length = 304
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 94/314 (29%), Positives = 145/314 (46%), Gaps = 55/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W ++ G ++V+G+ V N + G ++ +E DV P L++ YED D
Sbjct: 33 VQQW---VKEGLVSVNGKSVK-ANYKMQPGDQVNVTIPEPEELDVLAEPMDLDIYYEDQD 88
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 89 VLVVNKPRGMVVHPAPGHVTGTLVNGLMAHCNDLSGI--NGVMRPGIVHRIDKDTSGLLM 146
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A + +KT +T+ Y A+VHG++ D I PIG
Sbjct: 147 VAKNDMAHESLVNQLVNKT----------------VTRKYTAVVHGLISHDDGTIDAPIG 190
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V S K A++ VLER ++ TLV+ +++GR HQIR+H+ ++G
Sbjct: 191 --RDKKDRQSMTVTRESSKNAVTHFHVLER--FQDFTLVECRLETGRTHQIRVHMKYIGF 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPRKTIDFN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E ++ APLP +K
Sbjct: 281 EYMEFEAPLPEDMK 294
>gi|238651091|ref|YP_002916949.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
peacockii str. Rustic]
gi|383484602|ref|YP_005393515.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
parkeri str. Portsmouth]
gi|238625189|gb|ACR47895.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
peacockii str. Rustic]
gi|378936956|gb|AFC75456.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
parkeri str. Portsmouth]
Length = 313
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 81/311 (26%), Positives = 153/311 (49%), Gaps = 52/311 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD------VPYLLEVLYEDDDLIAL 77
I++ Q+ V+ +++DP++++ +++ +KEP+ L+++YEDDDLI +
Sbjct: 35 IKDSQVLVNDVIISDPDVLVKENDIILF---SFKEPEELKIAAANVALDIIYEDDDLIVI 91
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK +G+ V PG T++N L S SS+ P VHRL + T+G+++ AK
Sbjct: 92 NKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSE--RPGIVHRLDKDTTGLMVVAKN 149
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ QR++ + Y+ LV G+++ + +IK IG R
Sbjct: 150 NKAHMLLAN----------------QIEQRQVIRKYKVLVWGVINPLEGVIKNNIG--RS 191
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + + GK A++ LE + + ++V+ ++ +GR HQIR+ L+ L H ++G
Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKTLELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSVVG 251
Query: 258 DPLYVAGGQ-----PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
D Y + P ++ D ++R LH++ L +HPT+
Sbjct: 252 DQTYGNNDRKIAHSPPELKAKLID--------FKRQA----------LHSWYLSFTHPTS 293
Query: 313 NEVIKITAPLP 323
NE+++ + LP
Sbjct: 294 NEIMEFSCELP 304
>gi|319898141|ref|YP_004136338.1| 23S rRNA pseudouridine synthase [Haemophilus influenzae F3031]
gi|317433647|emb|CBY82032.1| 23S rRNA pseudouridine synthase [Haemophilus influenzae F3031]
Length = 324
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 99/333 (29%), Positives = 159/333 (47%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G + V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRITNIPREKVLGGERIEIIVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + +
Sbjct: 77 EAENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIVEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLAHPITGEMMEWYAPLPD 302
>gi|253681471|ref|ZP_04862268.1| ribosomal large subunit pseudouridine synthase D [Clostridium
botulinum D str. 1873]
gi|253561183|gb|EES90635.1| ribosomal large subunit pseudouridine synthase D [Clostridium
botulinum D str. 1873]
Length = 304
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 94/319 (29%), Positives = 158/319 (49%), Gaps = 63/319 (19%)
Query: 18 QGWLQR-IQNGQITVDGR--------VVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVL 68
+ ++Q+ IQ G + V+G+ ++D I+ + +E + ++ + D L++L
Sbjct: 30 RSYIQKLIQEGHVKVNGKDKKSNYKLKLHDSVIVNNIENE--FQKINPENID----LDIL 83
Query: 69 YEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGT 128
YED D+I +NKP G+ V P T++N L + + S + + P VHR+ + T
Sbjct: 84 YEDKDIIVINKPQGMVVHPATSNYSGTLVNGLLYHCD--TLSTLNDDTRPGIVHRIDKDT 141
Query: 129 SGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVII 188
SG+L+ AK A +A +L + + + Y ALV GI+ +D I
Sbjct: 142 SGVLVVAKNNKAHEVLAE----------------QLKEHSMKREYIALVEGILKKDNGFI 185
Query: 189 KQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHL 248
+P+G R P + V GK A++ +VL+R ++N TLV+ +++GR HQIR+H+
Sbjct: 186 DKPLG--RNPKDRIKMAVVQ-EGKNAITHYEVLKR-FKKN-TLVKCILETGRTHQIRVHM 240
Query: 249 AFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
+++GHPL+GDP+Y G + + F + G LHA +L
Sbjct: 241 SYIGHPLVGDPMY--GFKKQRFKLK-----------------------GQMLHAKKLGFI 275
Query: 309 HPTTNEVIKITAPLPSVLK 327
HPTT E I+ + LP K
Sbjct: 276 HPTTQEYIEFQSDLPKYYK 294
>gi|254509457|ref|ZP_05121534.1| ribosomal large subunit pseudouridine synthase D [Vibrio
parahaemolyticus 16]
gi|219547619|gb|EED24667.1| ribosomal large subunit pseudouridine synthase D [Vibrio
parahaemolyticus 16]
Length = 326
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 95/312 (30%), Positives = 143/312 (45%), Gaps = 49/312 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL G++ V+G VV P + G E++ W+ D+P L+++YED
Sbjct: 36 LKEWLL---AGKVQVNGEVVTKPRTKVMGGEEIILQAELEDEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD++ +NKP G V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 DDILVINKPRGFVVHPGAGTPDGTVLNALLHHYPN-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + K R + Y A+ G + I +QP
Sbjct: 146 MVVAKTVPAQTRLVRALQKK---------------RNFVREYEAIAIGRMTAGGRI-EQP 189
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 190 IG--RH-STKRTLMAVSPMGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 244
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD Y GG+ + G E + LHA L HP
Sbjct: 245 QHPLLGDSAY--GGRAR-----------IPSGATEELAEKIRSFDRQALHAVMLKFEHPI 291
Query: 312 TNEVIKITAPLP 323
T E ++ AP+P
Sbjct: 292 TGEEVEFHAPVP 303
>gi|350272994|ref|YP_004884302.1| pseudouridine synthase [Oscillibacter valericigenes Sjm18-20]
gi|348597836|dbj|BAL01797.1| pseudouridine synthase [Oscillibacter valericigenes Sjm18-20]
Length = 307
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 100/321 (31%), Positives = 146/321 (45%), Gaps = 61/321 (19%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I+ G++ VDG+ + G E V LP +P D+P L+V+YED D+I +
Sbjct: 36 IEEGRVLVDGK--RPVKSLRLTGGETVTVELPNPQPTEVRPEDIP--LDVVYEDGDVIVV 91
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP GL V P T++N L S + P VHR+ R TSG+++ AK
Sbjct: 92 NKPKGLVVHPAPGHPDGTLVNALLHHCGSSLSGIGG-VLRPGIVHRIDRDTSGLIIAAKN 150
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A D T + + Y +V G + E+ + PIG R
Sbjct: 151 DFAHQKLAAQLQDHT----------------LARTYECIVLGNLKEESGSVDAPIG--RC 192
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
PG K V P G+ A++ +V+ R T V+ +++GR HQIR+H+A+LGHP+LG
Sbjct: 193 PGDRKKQAVV-PGGRRAVTHWEVVAR--YSGYTHVRCRLETGRTHQIRVHMAYLGHPILG 249
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
D +Y A PVPG G LHA L HP T + ++
Sbjct: 250 DTVYGAK-------------------------KPVPGLHGQCLHAVGLRFIHPRTGKPVE 284
Query: 318 ITAPLPSV----LKTREEGRE 334
++ PLP L+ E GR+
Sbjct: 285 LSCPLPEEFFRQLRRLEAGRQ 305
>gi|303231392|ref|ZP_07318126.1| pseudouridine synthase, RluA family [Veillonella atypica
ACS-049-V-Sch6]
gi|429760093|ref|ZP_19292583.1| pseudouridine synthase, RluA family [Veillonella atypica KON]
gi|302513988|gb|EFL55996.1| pseudouridine synthase, RluA family [Veillonella atypica
ACS-049-V-Sch6]
gi|429178498|gb|EKY19776.1| pseudouridine synthase, RluA family [Veillonella atypica KON]
Length = 305
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 97/307 (31%), Positives = 146/307 (47%), Gaps = 57/307 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I++G + V+G+V N+ L+A S + +P E D+P +E LYED D+I +
Sbjct: 34 IKSGHVLVNGKV-GKANLRLNADSTISV-DIPEPESVEILPEDIP--VEYLYEDHDIIIV 89
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + K S ++ + P VHRL + TSG+++ AK
Sbjct: 90 NKPRGMVVHPAIGNYSGTLVNALLYHC-KDLSGINGEIR-PGIVHRLDKDTSGVMMAAKN 147
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ + Y ALV G + E+K IIK PIG R+
Sbjct: 148 DAAHIGLAE----------------QVKAHSAKRTYLALVQGNIVEEKGIIKAPIG--RH 189
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P + V + K A++ VLER TLV+ +++GR HQIR+H A +GHP++
Sbjct: 190 PKDRMKMAVVFENSKEAVTHFKVLER--YGYHTLVECVLETGRTHQIRVHFAHIGHPVVN 247
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP Y GY R P+ G LH++ L + HP T E +
Sbjct: 248 DPFY----------------------GYRRMDFPIDGQA---LHSHTLDVVHPITGEPMH 282
Query: 318 ITAPLPS 324
AP+P
Sbjct: 283 FEAPVPE 289
>gi|296111936|ref|YP_003622318.1| pseudouridine synthase [Leuconostoc kimchii IMSNU 11154]
gi|295833468|gb|ADG41349.1| pseudouridine synthase [Leuconostoc kimchii IMSNU 11154]
Length = 308
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 84/268 (31%), Positives = 131/268 (48%), Gaps = 49/268 (18%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P L+++YED+D++ +NKP G+ V P T++N L A + + + + P
Sbjct: 76 DIP--LDIVYEDNDILVVNKPQGMVVHPAAGHSSGTLVNALLHHAPLSTINGTFR---PG 130
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ R TSG+L+ AK +A ++ +L K +IY ALV G
Sbjct: 131 IVHRIDRDTSGLLMVAKNDVAHKALSA----------------QLKAHKNDRIYYALVRG 174
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
ED I PIG R+P V + G+ A++ +V+ R V TL++V +++G
Sbjct: 175 EFSEDSGTINAPIG--RHP-VDRKRQAVQVGGREAITHFEVVHRYV--GFTLLKVRLETG 229
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+HL ++GHP++GDP+Y G K D G
Sbjct: 230 RTHQIRVHLTYIGHPIVGDPVY--GNAQKLADVSL---------------------MGQL 266
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLK 327
LHA L L+ PTT E ++ + LP+ +
Sbjct: 267 LHAKTLSLTQPTTGEELRFDSSLPTYFQ 294
>gi|255101761|ref|ZP_05330738.1| putative pseudouridylate synthase [Clostridium difficile QCD-63q42]
gi|255307629|ref|ZP_05351800.1| putative pseudouridylate synthase [Clostridium difficile ATCC
43255]
gi|423092627|ref|ZP_17080431.1| pseudouridine synthase, RluA family [Clostridium difficile
70-100-2010]
gi|357553497|gb|EHJ35244.1| pseudouridine synthase, RluA family [Clostridium difficile
70-100-2010]
Length = 315
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 91/318 (28%), Positives = 152/318 (47%), Gaps = 60/318 (18%)
Query: 18 QGWLQRI-QNGQITVDGRV-------VNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLY 69
+ ++Q+I ++G++ V+ +V + NI++ V LP D+P ++++Y
Sbjct: 43 RSYIQKIIKDGKVKVNNKVEKARYLVKEEDNIVIEIPEPKVLEVLPQ---DIP--IDIVY 97
Query: 70 EDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTS 129
EDDD++ +NKP + V P + T++N + + + SS++ P VHR+ + TS
Sbjct: 98 EDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHCKDKLSSING-VIRPGIVHRIDKDTS 156
Query: 130 GILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIK 189
G+L+ AK A +A +L + IT+ Y + +G+V EDK+ +
Sbjct: 157 GLLMIAKNNYAHNFLAE----------------QLKEHTITREYEFICYGVVKEDKITVD 200
Query: 190 QPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLA 249
+PIG R P + V GK A++ +V+ER T ++ +++GR HQIR+H
Sbjct: 201 KPIG--RNPKDRLKMAVVK-DGKNAITHFEVVER--FDKFTHMRARLETGRTHQIRVHAL 255
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
+ HPLLGD YV G + F + G LHA +L H
Sbjct: 256 SINHPLLGD--YVYGPKETKFKLK-----------------------GQTLHAKKLGFIH 290
Query: 310 PTTNEVIKITAPLPSVLK 327
PTT E I+ + LP K
Sbjct: 291 PTTKEYIEFNSELPEYFK 308
>gi|49478436|ref|YP_037954.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis serovar konkukian str. 97-27]
gi|49329992|gb|AAT60638.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis serovar konkukian str. 97-27]
Length = 302
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 95/314 (30%), Positives = 148/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDDVVTVNGKAVKG-NYKVREDDEITVTIPEPEELDIQPEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PI
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIA 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKHAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIQFEAPIPEVFE 294
>gi|323526134|ref|YP_004228287.1| RluA family pseudouridine synthase [Burkholderia sp. CCGE1001]
gi|323383136|gb|ADX55227.1| pseudouridine synthase, RluA family [Burkholderia sp. CCGE1001]
Length = 426
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 104/316 (32%), Positives = 158/316 (50%), Gaps = 56/316 (17%)
Query: 17 LQGWLQRIQNGQITVDGR--VVNDPNIILSAGSELVYHRLPWK---EPDVPYLLEVLYED 71
LQ W I+ ++ +DG+ + P + L A ELV LP + P+ P L+++YED
Sbjct: 95 LQSW---IEAERVRIDGKPAKIRQP-VPLGATIELVPDLLPEQLAFTPE-PVPLDIVYED 149
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
D L+ +NKP+G+ V P TVLN L +R ++ L VHRL + TSG+
Sbjct: 150 DTLVVINKPAGMVVHPAAGNWSGTVLNGLLYRYGDAAAGLPRAGI----VHRLDKETSGL 205
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ A+T A+T + V +L R + + Y ALV G + E+ I P
Sbjct: 206 MVVARTLEAQTDL----------------VRQLQARTVKRRYLALVWGNMPEEGTI-DAP 248
Query: 192 IGIVRYPGVAKGLYVAS-PSGKPALSKVDVLERDV-QRN-CTLVQVEIQSGRPHQIRIHL 248
IG R P + V + SGKPA + ++ + QR T + ++++GR HQIR+H
Sbjct: 249 IG--RDPRERTRMAVVTGASGKPARTHFRRVDTALWQRQPVTAIHCDLETGRTHQIRVHC 306
Query: 249 AFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY-YLHAYQLFL 307
A +GHPLLGDP+Y G+ + +R V P+PGD LHA++L L
Sbjct: 307 AHIGHPLLGDPVY---GRARG----------------KRSVAPLPGDFARQALHAWRLGL 347
Query: 308 SHPTTNEVIKITAPLP 323
HP T ++ A +P
Sbjct: 348 IHPKTGRTMQWRADVP 363
>gi|126700216|ref|YP_001089113.1| pseudouridylate synthase, RluC/RluD family [Clostridium difficile
630]
gi|115251653|emb|CAJ69486.1| putative pseudouridylate synthase, RluC/RluD family [Clostridium
difficile 630]
Length = 303
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 91/318 (28%), Positives = 152/318 (47%), Gaps = 60/318 (18%)
Query: 18 QGWLQRI-QNGQITVDGRV-------VNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLY 69
+ ++Q+I ++G++ V+ +V + NI++ V LP D+P ++++Y
Sbjct: 31 RSYIQKIIKDGKVKVNNKVEKARYLVKEEDNIVIEIPEPKVLEVLPQ---DIP--IDIVY 85
Query: 70 EDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTS 129
EDDD++ +NKP + V P + T++N + + + SS++ P VHR+ + TS
Sbjct: 86 EDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHCKDKLSSING-VIRPGIVHRIDKDTS 144
Query: 130 GILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIK 189
G+L+ AK A +A +L + IT+ Y + +G+V EDK+ +
Sbjct: 145 GLLMIAKNNYAHNFLAE----------------QLKEHTITREYEFICYGVVKEDKITVD 188
Query: 190 QPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLA 249
+PIG R P + V GK A++ +V+ER T ++ +++GR HQIR+H
Sbjct: 189 KPIG--RNPKDRLKMAVVK-DGKNAITHFEVVER--FDKFTHMRARLETGRTHQIRVHAL 243
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
+ HPLLGD YV G + F + G LHA +L H
Sbjct: 244 SINHPLLGD--YVYGPKETKFKLK-----------------------GQTLHAKKLGFIH 278
Query: 310 PTTNEVIKITAPLPSVLK 327
PTT E I+ + LP K
Sbjct: 279 PTTKEYIEFNSELPEYFK 296
>gi|117921609|ref|YP_870801.1| ribosomal large subunit pseudouridine synthase D [Shewanella sp.
ANA-3]
gi|117613941|gb|ABK49395.1| ribosomal large subunit pseudouridine synthase D [Shewanella sp.
ANA-3]
Length = 323
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 91/267 (34%), Positives = 138/267 (51%), Gaps = 54/267 (20%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP---- 120
L+++YEDDD++ +NK +GL V PG T++N L VP
Sbjct: 84 LDIVYEDDDILVINKQAGLVVHPGAGNADGTLMNALLHHCPNIEH---------VPRAGI 134
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
VHRL + T+G+++ AKT A+T + V L R+IT+ Y A+V G
Sbjct: 135 VHRLDKDTTGLMVVAKTVEAQTHL----------------VAALQAREITREYEAIVLGT 178
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
+ + +PIG R+P + V SGKPA++ V E+ RN T +++ ++SGR
Sbjct: 179 MTAGGTV-DEPIG--RHPTKRTHMAVHH-SGKPAVTHYRVAEK--FRNHTRLRLRLESGR 232
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCG 297
HQIR+H+A++GH L+GDP+Y GG+ PK+ EF F ++R
Sbjct: 233 THQIRVHMAYIGHVLVGDPVY--GGRPKPPKAASPEF----FEILKNFKRQA-------- 278
Query: 298 YYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA +L L+HP T E++ TAP+P
Sbjct: 279 --LHAVRLELAHPVTCEIMSWTAPIPE 303
>gi|47570307|ref|ZP_00240954.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus
G9241]
gi|47553016|gb|EAL11420.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus
G9241]
Length = 302
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 95/314 (30%), Positives = 148/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDDVVTVNGKSVK-VNYKVKENDEITVTIPDPEELDIQAEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PI
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIA 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKHAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIQFEAPIPEVFE 294
>gi|113971328|ref|YP_735121.1| ribosomal large subunit pseudouridine synthase D [Shewanella sp.
MR-4]
gi|114048565|ref|YP_739115.1| ribosomal large subunit pseudouridine synthase D [Shewanella sp.
MR-7]
gi|113886012|gb|ABI40064.1| ribosomal large subunit pseudouridine synthase D [Shewanella sp.
MR-4]
gi|113890007|gb|ABI44058.1| ribosomal large subunit pseudouridine synthase D [Shewanella sp.
MR-7]
Length = 323
Score = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 91/267 (34%), Positives = 138/267 (51%), Gaps = 54/267 (20%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP---- 120
L+++YEDDD++ +NK +GL V PG T++N L VP
Sbjct: 84 LDIVYEDDDILVINKQAGLVVHPGAGNADGTLMNALLHHCPNIEH---------VPRAGI 134
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
VHRL + T+G+++ AKT A+T + V L R+IT+ Y A+V G
Sbjct: 135 VHRLDKDTTGLMVVAKTVEAQTHL----------------VAALQAREITREYEAIVLGT 178
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
+ + +PIG R+P + V SGKPA++ V E+ RN T +++ ++SGR
Sbjct: 179 MTAGGTV-DEPIG--RHPTKRTHMAVHH-SGKPAVTHYRVAEK--FRNHTRLRLRLESGR 232
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCG 297
HQIR+H+A++GH L+GDP+Y GG+ PK+ EF F ++R
Sbjct: 233 THQIRVHMAYIGHVLVGDPVY--GGRPKPPKAASPEF----FEILKNFKRQA-------- 278
Query: 298 YYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA +L L+HP T E++ TAP+P
Sbjct: 279 --LHAVRLELAHPVTCEIMSWTAPIPE 303
>gi|383774169|ref|YP_005453236.1| pseudouridine synthase-like protein [Bradyrhizobium sp. S23321]
gi|381362294|dbj|BAL79124.1| pseudouridine synthase-like protein [Bradyrhizobium sp. S23321]
Length = 335
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 92/310 (29%), Positives = 143/310 (46%), Gaps = 35/310 (11%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSEL---VYHRLPWKEPDVPYLLEVLYEDDDLIALNKP 80
I G +T+ + DP +S+G + V +P + L++++EDDD++ LNKP
Sbjct: 43 ILAGAVTLKASAIRDPAYHVSSGDTITIDVPEAVPAEPKGEDITLDIVFEDDDIVVLNKP 102
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
GL V P + T++N L S + P VHRL + T+G+++ AK LA
Sbjct: 103 KGLVVHPAAGHETGTLVNALIAHCGTSLSGIGG-VRRPGIVHRLDKDTTGLMVVAKNDLA 161
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGV 200
+ FAD + + Y A G+ + + PI R+P
Sbjct: 162 HASLTAQFADHGRT------------GPMRRGYMAFAWGVPGRHRGTVDAPID--RHP-Y 206
Query: 201 AKGLYVASPSGKPALSKVDVLE----RDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
A+ SG+ A++ ++LE RD + TL+ E+++GR HQIR+HLA +GHPL+
Sbjct: 207 AREKMAVRQSGREAVTHWEILESFAGRDGKPIATLLACELETGRTHQIRVHLAHIGHPLM 266
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ ++ + A R LHAY L L HP T E++
Sbjct: 267 GDAVY--GPHFKTKANQLGPESQAALASLGRQA----------LHAYLLVLEHPRTGELL 314
Query: 317 KITAPLPSVL 326
A LP L
Sbjct: 315 HWEAALPEDL 324
>gi|269836533|ref|YP_003318761.1| RluA family pseudouridine synthase [Sphaerobacter thermophilus DSM
20745]
gi|269785796|gb|ACZ37939.1| pseudouridine synthase, RluA family [Sphaerobacter thermophilus DSM
20745]
Length = 313
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 85/261 (32%), Positives = 133/261 (50%), Gaps = 48/261 (18%)
Query: 67 VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGR 126
V+YEDDD+I +KP+GL P + T++N + +A + L P VHRL +
Sbjct: 91 VIYEDDDVIIFDKPAGLVTHPAPGHEHGTLVNVV--KALRPDVPLLMGGKRPGIVHRLDK 148
Query: 127 GTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKV 186
TSG+++ AK + A+ + V + QR + K Y ALVHG++ E++
Sbjct: 149 DTSGLIVVAKNEEARRYL----------------VQQWQQRDVVKRYIALVHGVIRENEG 192
Query: 187 IIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRI 246
I PI R P K + V P+G+PA++ VLER R+ TL+ V+I++GR HQIR+
Sbjct: 193 TIDAPIS--RDPRNRKRMAVV-PNGRPAVTHFRVLER--FRDATLLNVQIETGRTHQIRV 247
Query: 247 HLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLF 306
H+ F+GHP++GD +Y G +P + P+ +LHA L
Sbjct: 248 HMLFIGHPIVGDQMY--GKRP-----------------FRIPI------ARQFLHASYLK 282
Query: 307 LSHPTTNEVIKITAPLPSVLK 327
S P + I++ LP+ L+
Sbjct: 283 FSLPESGRPIEVETALPADLR 303
>gi|218233909|ref|YP_002368692.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus B4264]
gi|229152090|ref|ZP_04280285.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
m1550]
gi|218161866|gb|ACK61858.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus B4264]
gi|228631439|gb|EEK88073.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
m1550]
Length = 302
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 84/263 (31%), Positives = 127/263 (48%), Gaps = 49/263 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
LE+ YED D++ +NKP G+ V P T++N L + S + P VHR+
Sbjct: 81 LEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRI 138
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK +A +S V +L + +T+ Y+A+VHG++ D
Sbjct: 139 DKDTSGLLMVAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHD 182
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PI R + + V +GK A++ VLER ++ TLV+ +++GR HQI
Sbjct: 183 KGTIDAPIA--RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQI 237
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G+PL GDP Y G K+ D G LHA
Sbjct: 238 RVHMKYIGYPLAGDPKY---GPKKTLDMN-----------------------GQALHAGI 271
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T E I+ AP+P V +
Sbjct: 272 LGFDHPRTGEYIQFEAPIPEVFE 294
>gi|392940816|ref|ZP_10306460.1| pseudouridine synthase, RluA family [Thermoanaerobacter
siderophilus SR4]
gi|392292566|gb|EIW01010.1| pseudouridine synthase, RluA family [Thermoanaerobacter
siderophilus SR4]
Length = 307
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 94/307 (30%), Positives = 150/307 (48%), Gaps = 58/307 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I +G + V+G+ V P+ + E+V + +P E ++P L++LYEDDD+I +
Sbjct: 39 IVDGLVFVNGKTVK-PSYKVKENDEVVVN-IPEAEKIDVLPENIP--LDILYEDDDIIVI 94
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + S + P VHRL + TSG+++ AK
Sbjct: 95 NKPQGMVVHPAPGNYSGTLVNALLYHCKNLSGI--NGILRPGIVHRLDKDTSGVMVVAKN 152
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A ++ ++ +R + K Y A+V G++ ++ I+ PIG R+
Sbjct: 153 DKAHISLSN----------------QIKERSVFKKYVAIVEGVIKDEAGEIEAPIG--RH 194
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P K + V G+ AL+ VLER + TLV+ I++GR HQIR+H+A++GHP++G
Sbjct: 195 PVDRKKMAVIE-DGRYALTLYKVLER--FKENTLVEAVIKTGRTHQIRVHMAYIGHPVVG 251
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP+Y G + + F E G LH+ L HPT ++
Sbjct: 252 DPVY--GFKKQKFKLE-----------------------GQALHSRVLGFMHPTKGVYME 286
Query: 318 ITAPLPS 324
APLP
Sbjct: 287 FEAPLPE 293
>gi|16272141|ref|NP_438344.1| 23S rRNA pseudouridine synthase D [Haemophilus influenzae Rd KW20]
gi|260580943|ref|ZP_05848767.1| sfhB protein [Haemophilus influenzae RdAW]
gi|1175998|sp|P44445.1|RLUD_HAEIN RecName: Full=Ribosomal large subunit pseudouridine synthase D;
AltName: Full=23S rRNA pseudouridine(1911/1915/1917)
synthase; AltName: Full=rRNA pseudouridylate synthase D;
AltName: Full=rRNA-uridine isomerase D
gi|1573131|gb|AAC21845.1| sfhB protein (sfhB) [Haemophilus influenzae Rd KW20]
gi|260092432|gb|EEW76371.1| sfhB protein [Haemophilus influenzae RdAW]
Length = 324
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 99/333 (29%), Positives = 159/333 (47%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G + V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRITNIPREKVLGGERIEIIVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + +
Sbjct: 77 EAENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIVEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLAHPITGEMMEWYAPLPD 302
>gi|228960110|ref|ZP_04121774.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar pakistani str. T13001]
gi|229047577|ref|ZP_04193167.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH676]
gi|229111362|ref|ZP_04240915.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock1-15]
gi|423628987|ref|ZP_17604736.1| RluA family pseudouridine synthase [Bacillus cereus VD154]
gi|423641029|ref|ZP_17616647.1| RluA family pseudouridine synthase [Bacillus cereus VD166]
gi|423656753|ref|ZP_17632052.1| RluA family pseudouridine synthase [Bacillus cereus VD200]
gi|228672138|gb|EEL27429.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock1-15]
gi|228723824|gb|EEL75179.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH676]
gi|228799626|gb|EEM46579.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar pakistani str. T13001]
gi|401268532|gb|EJR74580.1| RluA family pseudouridine synthase [Bacillus cereus VD154]
gi|401280090|gb|EJR86012.1| RluA family pseudouridine synthase [Bacillus cereus VD166]
gi|401290494|gb|EJR96188.1| RluA family pseudouridine synthase [Bacillus cereus VD200]
Length = 302
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 84/263 (31%), Positives = 127/263 (48%), Gaps = 49/263 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
LE+ YED D++ +NKP G+ V P T++N L + S + P VHR+
Sbjct: 81 LEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRI 138
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK +A +S V +L + +T+ Y+A+VHG++ D
Sbjct: 139 DKDTSGLLMVAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHD 182
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PI R + + V +GK A++ VLER ++ TLV+ +++GR HQI
Sbjct: 183 KGTIDAPIA--RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQI 237
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G+PL GDP Y G K+ D G LHA
Sbjct: 238 RVHMKYIGYPLAGDPKY---GPKKTLDMN-----------------------GQALHAGI 271
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T E I+ AP+P V +
Sbjct: 272 LGFDHPRTGEYIQFEAPIPEVFE 294
>gi|374851289|dbj|BAL54254.1| ribosomal large subunit pseudouridine synthase D [uncultured
candidate division OP1 bacterium]
gi|374857430|dbj|BAL60283.1| ribosomal large subunit pseudouridine synthase D [uncultured
candidate division OP1 bacterium]
Length = 337
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 98/282 (34%), Positives = 139/282 (49%), Gaps = 55/282 (19%)
Query: 47 SELVYHRLPWKEPDV-----PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQ 101
++L+ LP K P P+ L VLYED +IA++KPSG+ V P TV+NQL
Sbjct: 59 NDLIEIELPDKPPHTTVEPEPFTLPVLYEDSHIIAIDKPSGMVVYPAAGHPNGTVINQLL 118
Query: 102 WRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTV 161
+ S + P VHRL GTSG+LL AK+ A Y V
Sbjct: 119 SHCALASFGAPQR---PGIVHRLDEGTSGVLLVAKSD------AAYL----------RLV 159
Query: 162 MELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVL 221
+ R+I K+Y ALV G + ED+ I+ I R P + + + S GKPA+++ VL
Sbjct: 160 EQFKNREIEKLYLALVWGHIVEDEGRIEG--AIARDPVRRQRMKILS-HGKPAITEFRVL 216
Query: 222 ERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQ 281
R Q TL+ V +GR HQIR+HL+ +GHP++GD +Y +
Sbjct: 217 ARFPQ--TTLLTVRPLTGRTHQIRVHLSAIGHPVVGDDVY------------------GR 256
Query: 282 DGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLP 323
+ ER LHA+Q+ L+HP T E +++TAPLP
Sbjct: 257 EKLRER--------SRLMLHAWQVKLAHPITGERLELTAPLP 290
>gi|346314172|ref|ZP_08855693.1| hypothetical protein HMPREF9022_01350 [Erysipelotrichaceae
bacterium 2_2_44A]
gi|345906530|gb|EGX76254.1| hypothetical protein HMPREF9022_01350 [Erysipelotrichaceae
bacterium 2_2_44A]
Length = 304
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 81/259 (31%), Positives = 124/259 (47%), Gaps = 48/259 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+V YED+D+I +NKP + V P Q T++N L + K S ++ P VHR+
Sbjct: 79 LDVRYEDEDVIVINKPKNIVVHPAAGNQSGTLVNGLLYHC-KDLSGINGTLR-PGIVHRI 136
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ T+G+L+ AK LA ++ KT + ++Y ALVHG++ D
Sbjct: 137 DKDTTGLLIVAKNDLAHASLSKQLQSKT----------------VNRLYYALVHGVIQHD 180
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
I PIG R + + V + + K A + V+ER N TLV+ +++GR HQI
Sbjct: 181 FGTIDAPIG--RDVKDRQKMAVTATNSKDARTHFQVIER--FENYTLVECRLETGRTHQI 236
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++GHP++GD Y Y + + G LHA+Q
Sbjct: 237 RVHMQYIGHPVVGDEKY----------------------SYRKTMQT----NGQLLHAHQ 270
Query: 305 LFLSHPTTNEVIKITAPLP 323
L HP T EV+ + A LP
Sbjct: 271 LTFQHPRTGEVMTVEAELP 289
>gi|309778048|ref|ZP_07672988.1| ribosomal large subunit pseudouridine synthase D
[Erysipelotrichaceae bacterium 3_1_53]
gi|308914185|gb|EFP59985.1| ribosomal large subunit pseudouridine synthase D
[Erysipelotrichaceae bacterium 3_1_53]
Length = 304
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 81/259 (31%), Positives = 124/259 (47%), Gaps = 48/259 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+V YED+D+I +NKP + V P Q T++N L + K S ++ P +HR+
Sbjct: 79 LDVRYEDEDVIVINKPKNIVVHPAAGNQTGTLVNGLLYHC-KDLSGINGTLR-PGIIHRI 136
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ T+G+L+ AK LA ++ KT + ++Y ALVHG++ D
Sbjct: 137 DKDTTGLLIVAKNDLAHASLSKQLQSKT----------------VNRLYYALVHGVIQHD 180
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
I PIG R + + V S + K A + V+ER N TLV+ +++GR HQI
Sbjct: 181 FGTIDAPIG--RDVKDRQKMAVTSTNSKDARTHFQVIER--FENYTLVECRLETGRTHQI 236
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++GHP++GD Y Y + + G LHA+Q
Sbjct: 237 RVHMQYIGHPVVGDEKY----------------------SYRKTMQT----NGQLLHAHQ 270
Query: 305 LFLSHPTTNEVIKITAPLP 323
L HP T E+I + A LP
Sbjct: 271 LTFQHPRTGEMITVEAELP 289
>gi|229845163|ref|ZP_04465297.1| 23S rRNA pseudouridine synthase D [Haemophilus influenzae 6P18H1]
gi|229811874|gb|EEP47569.1| 23S rRNA pseudouridine synthase D [Haemophilus influenzae 6P18H1]
Length = 324
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 99/333 (29%), Positives = 159/333 (47%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G + V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRIANIPREKVLGGERIEIIVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + + +
Sbjct: 77 EAENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIAEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLVHPITGEMMEWYAPLPD 302
>gi|20807974|ref|NP_623145.1| pseudouridylate synthase [Thermoanaerobacter tengcongensis MB4]
gi|20516547|gb|AAM24749.1| Pseudouridylate synthase, 23S RNA-specific [Thermoanaerobacter
tengcongensis MB4]
Length = 309
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 92/308 (29%), Positives = 146/308 (47%), Gaps = 60/308 (19%)
Query: 24 IQNGQITVDGR-------VVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIA 76
I+ G + V+G+ V D +I++ +P P L++LYED+D+I
Sbjct: 39 IEEGLVLVNGKNVKPSYKVKEDDEVIVNIKEAEKIEVVPENIP-----LDILYEDEDIIV 93
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + S + P VHRL + TSG+++ AK
Sbjct: 94 INKPQGMVVHPAPGNYSGTLVNALLYHCKNLSGI--NGILRPGIVHRLDKDTSGVMVVAK 151
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A ++ ++ +R + K Y A+V G++ E++ I+ PIG R
Sbjct: 152 NDKAHMSLSN----------------QIKERSVLKKYVAIVEGVIKEEEGKIEAPIG--R 193
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
+P K + V G+ AL+ VLER +N T V+ I++GR HQIR+HL+++GHP++
Sbjct: 194 HPVDRKRMAVVQ-DGRYALTLYKVLER--FKNNTFVEATIKTGRTHQIRVHLSYIGHPVV 250
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GDP+Y G + + F E G LH+ L HPT +
Sbjct: 251 GDPVY--GYKKQKFKLE-----------------------GQALHSKVLGFIHPTKGVYM 285
Query: 317 KITAPLPS 324
+ APLP
Sbjct: 286 EFEAPLPD 293
>gi|414562165|ref|YP_007001393.1| 23S rRNA pseudouridine1911/1915/1917 synthase RluD [Shewanella
oneidensis MR-1]
gi|410519916|gb|AFV73582.1| 23S rRNA pseudouridine1911/1915/1917 synthase RluD [Shewanella
oneidensis MR-1]
Length = 323
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 91/267 (34%), Positives = 138/267 (51%), Gaps = 54/267 (20%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP---- 120
L+++YEDDD++ +NK +GL V PG T++N L VP
Sbjct: 84 LDIVYEDDDILVINKQAGLVVHPGAGNADGTLMNALLHHCPNIEH---------VPRAGI 134
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGI 180
VHRL + T+G+++ AKT A+T + V L R+IT+ Y A+V G
Sbjct: 135 VHRLDKDTTGLMVVAKTVEAQTHL----------------VAALQAREITREYEAIVLGT 178
Query: 181 VDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGR 240
+ + +PIG R+P + V SGKPA++ V E+ RN T +++ ++SGR
Sbjct: 179 MTAGGTV-DEPIG--RHPTKRTHMAVHH-SGKPAVTHYRVAEK--FRNHTRLRLRLESGR 232
Query: 241 PHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCG 297
HQIR+H+A++GH L+GDP+Y GG+ PK+ EF F ++R
Sbjct: 233 THQIRVHMAYIGHVLVGDPVY--GGRPKPPKAASPEF----FEILKNFKRQA-------- 278
Query: 298 YYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA +L L+HP T E++ TAP+P
Sbjct: 279 --LHAVRLELAHPVTCEIMSWTAPIPE 303
>gi|229104455|ref|ZP_04235123.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock3-28]
gi|229117388|ref|ZP_04246765.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock1-3]
gi|407706351|ref|YP_006829936.1| formamidase [Bacillus thuringiensis MC28]
gi|423378255|ref|ZP_17355539.1| RluA family pseudouridine synthase [Bacillus cereus BAG1O-2]
gi|423448398|ref|ZP_17425277.1| RluA family pseudouridine synthase [Bacillus cereus BAG5O-1]
gi|423547190|ref|ZP_17523548.1| RluA family pseudouridine synthase [Bacillus cereus HuB5-5]
gi|423615844|ref|ZP_17591678.1| RluA family pseudouridine synthase [Bacillus cereus VD115]
gi|423623028|ref|ZP_17598806.1| RluA family pseudouridine synthase [Bacillus cereus VD148]
gi|228666088|gb|EEL21553.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock1-3]
gi|228678977|gb|EEL33186.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock3-28]
gi|401128992|gb|EJQ36675.1| RluA family pseudouridine synthase [Bacillus cereus BAG5O-1]
gi|401178911|gb|EJQ86084.1| RluA family pseudouridine synthase [Bacillus cereus HuB5-5]
gi|401259801|gb|EJR65975.1| RluA family pseudouridine synthase [Bacillus cereus VD148]
gi|401260381|gb|EJR66554.1| RluA family pseudouridine synthase [Bacillus cereus VD115]
gi|401636521|gb|EJS54275.1| RluA family pseudouridine synthase [Bacillus cereus BAG1O-2]
gi|407384036|gb|AFU14537.1| putative RNA pseudouridine synthase ylyB [Bacillus thuringiensis
MC28]
Length = 302
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 95/314 (30%), Positives = 148/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDDVVTVNGKSVK-VNYKVKENDEITVTIPDPEELDIQAEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PI
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIA 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKHAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIQFEAPIPEVFE 294
>gi|206971264|ref|ZP_03232215.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus AH1134]
gi|228954169|ref|ZP_04116197.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar kurstaki str. T03a001]
gi|229071392|ref|ZP_04204614.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
F65185]
gi|229081145|ref|ZP_04213655.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock4-2]
gi|229180168|ref|ZP_04307512.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
172560W]
gi|229192062|ref|ZP_04319031.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
ATCC 10876]
gi|365159330|ref|ZP_09355511.1| RluA family pseudouridine synthase [Bacillus sp. 7_6_55CFAA_CT2]
gi|423412304|ref|ZP_17389424.1| RluA family pseudouridine synthase [Bacillus cereus BAG3O-2]
gi|423426027|ref|ZP_17403058.1| RluA family pseudouridine synthase [Bacillus cereus BAG3X2-2]
gi|423431911|ref|ZP_17408915.1| RluA family pseudouridine synthase [Bacillus cereus BAG4O-1]
gi|423437345|ref|ZP_17414326.1| RluA family pseudouridine synthase [Bacillus cereus BAG4X12-1]
gi|423503431|ref|ZP_17480023.1| RluA family pseudouridine synthase [Bacillus cereus HD73]
gi|449090834|ref|YP_007423275.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus thuringiensis serovar kurstaki str. HD73]
gi|206734036|gb|EDZ51207.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus AH1134]
gi|228591388|gb|EEK49238.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
ATCC 10876]
gi|228603377|gb|EEK60854.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
172560W]
gi|228702189|gb|EEL54665.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock4-2]
gi|228711683|gb|EEL63636.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
F65185]
gi|228805489|gb|EEM52080.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar kurstaki str. T03a001]
gi|363625328|gb|EHL76369.1| RluA family pseudouridine synthase [Bacillus sp. 7_6_55CFAA_CT2]
gi|401104372|gb|EJQ12349.1| RluA family pseudouridine synthase [Bacillus cereus BAG3O-2]
gi|401110774|gb|EJQ18673.1| RluA family pseudouridine synthase [Bacillus cereus BAG3X2-2]
gi|401116667|gb|EJQ24505.1| RluA family pseudouridine synthase [Bacillus cereus BAG4O-1]
gi|401120500|gb|EJQ28296.1| RluA family pseudouridine synthase [Bacillus cereus BAG4X12-1]
gi|402459652|gb|EJV91389.1| RluA family pseudouridine synthase [Bacillus cereus HD73]
gi|449024591|gb|AGE79754.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus thuringiensis serovar kurstaki str. HD73]
Length = 302
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 84/263 (31%), Positives = 127/263 (48%), Gaps = 49/263 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
LE+ YED D++ +NKP G+ V P T++N L + S + P VHR+
Sbjct: 81 LEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRI 138
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK +A +S V +L + +T+ Y+A+VHG++ D
Sbjct: 139 DKDTSGLLMVAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHD 182
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PI R + + V +GK A++ VLER ++ TLV+ +++GR HQI
Sbjct: 183 KGTIDAPIA--RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQI 237
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G+PL GDP Y G K+ D G LHA
Sbjct: 238 RVHMKYIGYPLAGDPKY---GPKKTLDMN-----------------------GQALHAGI 271
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T E I+ AP+P V +
Sbjct: 272 LGFDHPRTGEYIQFEAPIPEVFE 294
>gi|187923831|ref|YP_001895473.1| pseudouridine synthase [Burkholderia phytofirmans PsJN]
gi|187715025|gb|ACD16249.1| pseudouridine synthase, RluA family [Burkholderia phytofirmans
PsJN]
Length = 431
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 109/343 (31%), Positives = 167/343 (48%), Gaps = 64/343 (18%)
Query: 17 LQGWLQRIQNGQITVDGR--VVNDPNIILSAGSELVYHRLPWK---EPDVPYLLEVLYED 71
LQ W I+ ++ +DG+ + P + L A ELV LP + P+ P LE++YED
Sbjct: 95 LQSW---IEAERVRIDGKPAKIRQP-VPLGATIELVPDLLPEQLAFTPE-PVPLEIVYED 149
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
D L+ +NKP+G+ V P TVLN L +R ++ L VHRL + TSG+
Sbjct: 150 DTLVVINKPAGMVVHPAAGNWSGTVLNGLLYRYGDAAAGLPRAGI----VHRLDKETSGL 205
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ A+T A+T + V +L R + + Y ALV G + E+ I P
Sbjct: 206 MVVARTLEAQTDL----------------VRQLQARTVKRRYLALVWGNMPEEGTI-DAP 248
Query: 192 IGIVRYP-GVAKGLYVASPSGKPALSKVDVLERDV-QRN-CTLVQVEIQSGRPHQIRIHL 248
IG R P + V S SGKPA + ++ + QR T + ++++GR HQIR+H
Sbjct: 249 IG--RDPRERTRMAVVTSASGKPARTHFRRVDSAIWQRQPVTAIHCDLETGRTHQIRVHC 306
Query: 249 AFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP-GDCGYYLHAYQLFL 307
A +GHPLLGDP+Y G+ + +R V P+P G LHA++L L
Sbjct: 307 AHIGHPLLGDPVY---GRARG----------------KRSVTPLPDGFARQALHAWRLGL 347
Query: 308 SHPTTNEVIKITAPLPSVLKT--------REEGREVDKSVGSE 342
HP T ++ A P+ ++ R++ E D++ E
Sbjct: 348 IHPQTGRTMQWRADAPADMEALSAALGLGRDDAGEFDETYYEE 390
>gi|401766101|ref|YP_006581107.1| pseudouridine synthase [Mycoplasma gallisepticum VA94_7994-1-7P]
gi|401766857|ref|YP_006581862.1| pseudouridine synthase [Mycoplasma gallisepticum NC95_13295-2-2P]
gi|401767612|ref|YP_006582616.1| pseudouridine synthase [Mycoplasma gallisepticum NC96_1596-4-2P]
gi|401768386|ref|YP_006583389.1| pseudouridine synthase [Mycoplasma gallisepticum
NY01_2001.047-5-1P]
gi|401769138|ref|YP_006584140.1| pseudouridine synthase [Mycoplasma gallisepticum
WI01_2001.043-13-2P]
gi|401769888|ref|YP_006584889.1| pseudouridine synthase [Mycoplasma gallisepticum
NC06_2006.080-5-2P]
gi|401770631|ref|YP_006585631.1| pseudouridine synthase [Mycoplasma gallisepticum
CA06_2006.052-5-2P]
gi|401771394|ref|YP_006586393.1| pseudouridine synthase [Mycoplasma gallisepticum
NC08_2008.031-4-3P]
gi|400272365|gb|AFP75828.1| Pseudouridine synthase [Mycoplasma gallisepticum VA94_7994-1-7P]
gi|400273133|gb|AFP76595.1| Pseudouridine synthase [Mycoplasma gallisepticum NC95_13295-2-2P]
gi|400273888|gb|AFP77349.1| Pseudouridine synthase [Mycoplasma gallisepticum NC96_1596-4-2P]
gi|400274660|gb|AFP78120.1| Pseudouridine synthase [Mycoplasma gallisepticum
NY01_2001.047-5-1P]
gi|400275421|gb|AFP78880.1| Pseudouridine synthase [Mycoplasma gallisepticum
WI01_2001.043-13-2P]
gi|400276168|gb|AFP79626.1| Pseudouridine synthase [Mycoplasma gallisepticum
NC06_2006.080-5-2P]
gi|400276913|gb|AFP80370.1| Pseudouridine synthase [Mycoplasma gallisepticum
CA06_2006.052-5-2P]
gi|400277677|gb|AFP81133.1| Pseudouridine synthase [Mycoplasma gallisepticum
NC08_2008.031-4-3P]
Length = 311
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 85/302 (28%), Positives = 144/302 (47%), Gaps = 70/302 (23%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGS--ELVYHR----------LPWKEPDVPYLLEVLYED 71
I N + V+ ++VN N +L G EL Y LP+ + L+++YED
Sbjct: 35 ILNDLVKVNKKLVNKNNFVLKVGDLVELQYEESIFNKVSNEILPFNKK-----LDIIYED 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DDLI +NKP+ + P + T+LN L + KQ L+ HRL + T+G+
Sbjct: 90 DDLIIVNKPTNMLSHPTTHNEPDTLLNCLMYHNKKQKVYLA---------HRLDKDTTGL 140
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ K A I ++++R + + Y A+VH +E + +I P
Sbjct: 141 IVATKNFKALEKIQE----------------QITKRTMERYYLAIVHYPFNELRAVIDAP 184
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG ++ + G+ + + K A++K+ VL+++ + L++ E+ +GR HQIR+H+ F+
Sbjct: 185 IGYLKDHDLKFGV-ENTKNPKNAITKIYVLDQN--KKYALIKCELLTGRTHQIRVHMDFI 241
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
H ++ DPLY G+ ++ D +LHAYQL L+HPT
Sbjct: 242 KHNIVNDPLYGVKGEQRT-------------------------DYKQFLHAYQLELTHPT 276
Query: 312 TN 313
TN
Sbjct: 277 TN 278
>gi|389856694|ref|YP_006358937.1| RluA family pseudouridine synthase [Streptococcus suis ST1]
gi|353740412|gb|AER21419.1| pseudouridine synthase, RluA family [Streptococcus suis ST1]
Length = 297
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 94/311 (30%), Positives = 151/311 (48%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I+ GQ+ V+G+ + G L Y + + D+P LE++++D+D+
Sbjct: 29 EQIKAGQVLVNGQP-KKAKYSVQVGDVLTYQIPEVEEIDYVAEDIP--LEIVFQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALLYHV-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A T +A DK S+ RK Y A+VHG + D+ +I+ PIG R
Sbjct: 144 NDDAHTKLAAELKDKKSL------------RK----YWAIVHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GK A+++ VLE + TLV++ +++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAV-TAKGKEAVTRFQVLE--CFGDYTLVELTLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD Y G K+ G +LHA L +HP T EV+
Sbjct: 243 GDEAY---GARKTLKGH-----------------------GQFLHARTLGFTHPRTGEVV 276
Query: 317 KITAPLPSVLK 327
+ TA P++ +
Sbjct: 277 EFTAEAPAIFQ 287
>gi|313901079|ref|ZP_07834567.1| pseudouridine synthase, RluA family [Clostridium sp. HGF2]
gi|373121536|ref|ZP_09535404.1| RluA family pseudouridine synthase [Erysipelotrichaceae bacterium
21_3]
gi|312954037|gb|EFR35717.1| pseudouridine synthase, RluA family [Clostridium sp. HGF2]
gi|371665554|gb|EHO30719.1| RluA family pseudouridine synthase [Erysipelotrichaceae bacterium
21_3]
Length = 304
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 81/259 (31%), Positives = 124/259 (47%), Gaps = 48/259 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+V YED+D+I +NKP + V P Q T++N L + K S ++ P VHR+
Sbjct: 79 LDVRYEDEDVIVINKPKNIVVHPAAGNQSGTLVNGLLYHC-KDLSGINGTLR-PGIVHRI 136
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ T+G+L+ AK LA ++ KT + ++Y ALVHG++ D
Sbjct: 137 DKDTTGLLIIAKNDLAHASLSKQLQSKT----------------VNRLYYALVHGVIQHD 180
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
I PIG R + + V + + K A + V+ER N TLV+ +++GR HQI
Sbjct: 181 FGTIDAPIG--RDVKDRQKMAVTATNSKDARTHFQVIER--FENYTLVECRLETGRTHQI 236
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++GHP++GD Y Y + + G LHA+Q
Sbjct: 237 RVHMQYIGHPVVGDEKY----------------------SYRKTMQT----NGQLLHAHQ 270
Query: 305 LFLSHPTTNEVIKITAPLP 323
L HP T EV+ + A LP
Sbjct: 271 LTFQHPRTGEVMTVEAELP 289
>gi|365902765|ref|ZP_09440588.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
malefermentans KCTC 3548]
Length = 306
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 89/271 (32%), Positives = 129/271 (47%), Gaps = 61/271 (22%)
Query: 58 EP-DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
EP D+P L+++YEDDD+I +NKP+G+ V P T++N L + + S +
Sbjct: 72 EPEDIP--LDIVYEDDDVIVVNKPAGMVVHPSAGHPNHTLVNALLYHSP---LSTINGTF 126
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
P VHR+ + T+G+L+ AK A +A KT+ + Y AL
Sbjct: 127 RPGIVHRIDKDTTGLLMVAKNDHAHQSLAAQLKAKTN----------------KREYVAL 170
Query: 177 VHGIVDEDKVIIKQPIGIV----RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLV 232
VHGIV D+ I PI + G+ +G G+ A++ VLER + N TLV
Sbjct: 171 VHGIVKNDEGTINAPIARSLKDRKKMGIVQG-------GRVAITHYRVLERYL--NYTLV 221
Query: 233 QVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPV 292
+++GR HQIR+H+ +GHPL GDPLY G K+
Sbjct: 222 ACRLETGRTHQIRVHMKSIGHPLAGDPLY---GPKKTL---------------------- 256
Query: 293 PGDCGYYLHAYQLFLSHPTTNEVIKITAPLP 323
G YLHA +L HP + + + TAPLP
Sbjct: 257 -AGTGQYLHARELGFRHPVSGKELLFTAPLP 286
>gi|339490789|ref|YP_004705294.1| pseudouridine synthase [Leuconostoc sp. C2]
gi|338852461|gb|AEJ30671.1| pseudouridine synthase [Leuconostoc sp. C2]
Length = 308
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 84/268 (31%), Positives = 131/268 (48%), Gaps = 49/268 (18%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P L+++YED+D++ +NKP G+ V P T++N L A + + + + P
Sbjct: 76 DIP--LDIVYEDNDILVVNKPQGMVVHPAAGHSSGTLVNALLHHAPLSTINGTFR---PG 130
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ R TSG+L+ AK +A ++ +L K +IY ALV G
Sbjct: 131 IVHRIDRDTSGLLMVAKNDVAHKALSA----------------QLKAHKNDRIYYALVRG 174
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
ED I PIG R+P V + G+ A++ +V+ R V TL++V +++G
Sbjct: 175 EFSEDSGTINAPIG--RHP-VDRKRQAVQVGGREAITHFEVVHRYV--GFTLLKVRLETG 229
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+HL ++GHP++GDP+Y G K D G
Sbjct: 230 RTHQIRVHLTYIGHPIVGDPVY--GNAQKLADVSL---------------------MGQL 266
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLK 327
LHA L L+ PTT E ++ + LP+ +
Sbjct: 267 LHAKTLSLTQPTTGEELRFDSSLPTYFQ 294
>gi|422016625|ref|ZP_16363206.1| 23S rRNA pseudouridine synthase D [Providencia burhodogranariea DSM
19968]
gi|414092610|gb|EKT54285.1| 23S rRNA pseudouridine synthase D [Providencia burhodogranariea DSM
19968]
Length = 325
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 95/309 (30%), Positives = 153/309 (49%), Gaps = 53/309 (17%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRL-----PWKEPDVPYLLEVLYEDDDLIALN 78
I + ++ V+G+V+N P + +++ L W+ D+P L+V+YEDDD++ +N
Sbjct: 40 ILDDRVQVNGKVINKPKEKVLGSEQILIDALIEEPNRWEPQDIP--LDVIYEDDDILVIN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP GL V PG +T+LN L +R + + VHRL + T+G+++ AKT
Sbjct: 98 KPRGLVVHPGAGNPDKTILNALLYRYPEIVDVPRAGI-----VHRLDKDTTGLMVVAKTV 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A+T + V L R+IT+ Y A+ G + ++++PI R+P
Sbjct: 153 PAQTRL----------------VESLQLREITREYEAVAVGRMTAGG-MVEEPIS--RHP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ V P GKPA++ ++E R T +++ +++GR HQIR+H+A + HPL+GD
Sbjct: 194 TKRTHMAV-HPMGKPAITHYRIMEH--FRAHTRLRLRLETGRTHQIRVHMAHINHPLIGD 250
Query: 259 PLYVAGGQPKSFD---SEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
LY GG+P+ EF D D LHA L L HP +
Sbjct: 251 ALY--GGRPRPLKGATEEFFDVMRKFD--------------RQALHATMLRLYHPISGIQ 294
Query: 316 IKITAPLPS 324
++ APLP
Sbjct: 295 MEWHAPLPD 303
>gi|385339679|ref|YP_005893551.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis G2136]
gi|325197923|gb|ADY93379.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis G2136]
Length = 374
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 87/262 (33%), Positives = 129/262 (49%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P + T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWRGTLLNGLLAHCPELS-----QVPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLPAQ----------------NSLVRQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLPH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL GDP+Y G P+ S+ G + LH
Sbjct: 256 HQIRVHMREANHPLAGDPVY---GNPRHPCSDPVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 301 AYRLSFTHPESGETVSFEAPIP 322
>gi|255522642|ref|ZP_05389879.1| hypothetical protein LmonocFSL_15771 [Listeria monocytogenes FSL
J1-175]
Length = 279
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 92/294 (31%), Positives = 133/294 (45%), Gaps = 57/294 (19%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIALN 78
++NG ITV+G + PN + G E+ Y L D+P L++ +ED D++ +N
Sbjct: 36 LKNGDITVNGELAK-PNYKVQVGDEIHYEVREPEELEVLAEDIP--LDIYFEDKDMLVVN 92
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 KPEGMVVHPSAGHASGTLVNALLFHCDDLSGI--NGKIRPGIVHRIDKDTSGLLMVAKND 150
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +A DKTS + Y ALVHG + K I+ PIG +
Sbjct: 151 HAHESLAKQLKDKTS----------------DREYIALVHGDIVHQKGTIEAPIGRAKED 194
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ GK A + +VLER TL+ ++ +GR HQIR+HL ++GHPL GD
Sbjct: 195 ---RQKMAVVRDGKEARTHFEVLER--LPGYTLINCKLDTGRTHQIRVHLKYIGHPLAGD 249
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
P Y P N + G+ G +LHA +L HPTT
Sbjct: 250 PKY-------------------------GPKNTIKGN-GQFLHAAKLGFDHPTT 277
>gi|222529363|ref|YP_002573245.1| RluA family pseudouridine synthase [Caldicellulosiruptor bescii DSM
6725]
gi|222456210|gb|ACM60472.1| pseudouridine synthase, RluA family [Caldicellulosiruptor bescii
DSM 6725]
Length = 300
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 85/260 (32%), Positives = 135/260 (51%), Gaps = 47/260 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
+EV+YED+ L +NKP G+ V PG + T++N L + + SS++ P VHRL
Sbjct: 73 IEVVYEDEHLSVINKPRGMVVHPGAGNFENTLVNALLHKFKGRLSSING-VIRPGIVHRL 131
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AKT A ++ L +I +IY A+ G++ ED
Sbjct: 132 DKDTSGLLVVAKTDEAHIKLSE----------------ALKSHQIKRIYYAICEGVLKED 175
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
++ PIG R+P V + P+GK A++ +VLER T V++ +++GR HQI
Sbjct: 176 SGVVDAPIG--RHP-VNRLKMAIVPNGKEAVTYFEVLER--FDKYTFVKLRLKTGRTHQI 230
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H++++G+PLLGD +Y G+ K +EF G G LHA +
Sbjct: 231 RVHMSYIGYPLLGDGIY---GRAK---NEF-------------------GVEGQVLHAGE 265
Query: 305 LFLSHPTTNEVIKITAPLPS 324
+ HP T++V+ +A LP
Sbjct: 266 IEFVHPITSKVLHFSADLPE 285
>gi|89075039|ref|ZP_01161480.1| putative ribosomal large subunit pseudouridine synthase D
[Photobacterium sp. SKA34]
gi|89049126|gb|EAR54691.1| putative ribosomal large subunit pseudouridine synthase D
[Photobacterium sp. SKA34]
Length = 324
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 99/315 (31%), Positives = 152/315 (48%), Gaps = 56/315 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYED 71
++ W I NG ++V+G VV P + G EL + + W D+P L+++YED
Sbjct: 36 IKDW---ILNGMVSVNGDVVKKPREKMMGGEELFIQAEIEDEVRWVAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD++ +NKP V PG T+LN L SL+ + VHRL + T+G+
Sbjct: 91 DDILVINKPRDFVVHPGAGTPDGTILNAL----LHYCPSLAEVPRAGI-VHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +RKIT+ Y AL G + I ++P
Sbjct: 146 MVVAKTIQAQTRL----------------VRALQKRKITREYEALAIGQMTGGGTI-EKP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG + ++ GK A++ V ER R T + + +++GR HQIR+H++++
Sbjct: 189 IGRHSTKRICMAVH---EMGKDAITHYRVAER--FREHTRIVLRLETGRTHQIRVHMSYM 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPL+GD +Y GG+ P+ EF A ++R LHA L L
Sbjct: 244 SHPLIGDVIY--GGRPRPPRDASPEFIQALRA----FDRQA----------LHARMLRLD 287
Query: 309 HPTTNEVIKITAPLP 323
HP T E ++ APLP
Sbjct: 288 HPITGEKMEWHAPLP 302
>gi|254423656|ref|ZP_05037374.1| pseudouridine synthase, RluA family [Synechococcus sp. PCC 7335]
gi|196191145|gb|EDX86109.1| pseudouridine synthase, RluA family [Synechococcus sp. PCC 7335]
Length = 309
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 93/314 (29%), Positives = 151/314 (48%), Gaps = 56/314 (17%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLI 75
Q I+ G ++V+G V + +++AG ++ +P +P D+P L++LYEDD L+
Sbjct: 33 QLIEQGAVSVNGEVCDRKKELVTAGDYIIL-SVPEAQPYELTPEDIP--LDILYEDDQLL 89
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP+G+ V P T+++ L + +Q + + P VHRL + T+G ++ A
Sbjct: 90 IVNKPAGMVVHPAPGHATGTLVHALLFYCGEQLTGVGG-VQRPGIVHRLDKNTTGAMVVA 148
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
KT+ A + KT+ + Y +V+G ++ I QPIG
Sbjct: 149 KTETALCNLQQQIQAKTA----------------KREYLGIVNGAPKAEQGTIDQPIG-- 190
Query: 196 RYPGVAKGLYV--ASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P K + + G+ A++ +ER N TL+ ++++GR HQIR+H A+LG
Sbjct: 191 RHPKHRKKMSILPVESGGRTAITHWKTVER--LGNYTLIHFQLETGRTHQIRVHSAYLGL 248
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
P++GDP Y G P +PG LHA++L LSHP T
Sbjct: 249 PIIGDPDY---------------------GSTRFPGVKLPGQA---LHAFRLTLSHPITQ 284
Query: 314 EVIKITAPLPSVLK 327
V+ APLP K
Sbjct: 285 AVVSAEAPLPDQWK 298
>gi|16331032|ref|NP_441760.1| hypothetical protein slr1629 [Synechocystis sp. PCC 6803]
gi|383322775|ref|YP_005383628.1| hypothetical protein SYNGTI_1866 [Synechocystis sp. PCC 6803
substr. GT-I]
gi|383325944|ref|YP_005386797.1| hypothetical protein SYNPCCP_1865 [Synechocystis sp. PCC 6803
substr. PCC-P]
gi|383491828|ref|YP_005409504.1| hypothetical protein SYNPCCN_1865 [Synechocystis sp. PCC 6803
substr. PCC-N]
gi|384437095|ref|YP_005651819.1| hypothetical protein SYNGTS_1866 [Synechocystis sp. PCC 6803]
gi|451815190|ref|YP_007451642.1| hypothetical protein MYO_118830 [Synechocystis sp. PCC 6803]
gi|3915482|sp|P74346.1|Y1629_SYNY3 RecName: Full=Uncharacterized RNA pseudouridine synthase slr1629;
AltName: Full=RNA pseudouridylate synthase; AltName:
Full=RNA-uridine isomerase
gi|1653527|dbj|BAA18440.1| slr1629 [Synechocystis sp. PCC 6803]
gi|339274127|dbj|BAK50614.1| hypothetical protein SYNGTS_1866 [Synechocystis sp. PCC 6803]
gi|359272094|dbj|BAL29613.1| hypothetical protein SYNGTI_1866 [Synechocystis sp. PCC 6803
substr. GT-I]
gi|359275264|dbj|BAL32782.1| hypothetical protein SYNPCCN_1865 [Synechocystis sp. PCC 6803
substr. PCC-N]
gi|359278434|dbj|BAL35951.1| hypothetical protein SYNPCCP_1865 [Synechocystis sp. PCC 6803
substr. PCC-P]
gi|407961601|dbj|BAM54841.1| hypothetical protein BEST7613_5910 [Bacillus subtilis BEST7613]
gi|451781159|gb|AGF52128.1| hypothetical protein MYO_118830 [Synechocystis sp. PCC 6803]
Length = 327
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 96/309 (31%), Positives = 151/309 (48%), Gaps = 57/309 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I++GQ+ +G V D N+IL G LV + +P P ++P L++LYED+ LI +
Sbjct: 54 IESGQVQRNGLVCQDKNLILKTGDRLVVN-IPELIPLDVVAQNIP--LDILYEDEQLIII 110
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP+GL V PG TV+N L + Q P VHRL + T+G ++ AKT
Sbjct: 111 NKPAGLVVHPGPGHPDGTVVNALLAHCPDLAGIGGVQ--RPGIVHRLDKDTTGAMVVAKT 168
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+LA + +KT+ ++Y +V+G E + + P+G R+
Sbjct: 169 ELALHNLQVQLKEKTA----------------RRLYWGIVYGSPKEIQGTVNLPVG--RH 210
Query: 198 PGVAK--GLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
PG + G+ G+ A++ +LER N + ++ ++++GR HQIR+H +GHPL
Sbjct: 211 PGDRQKMGIVPVEKGGREAVTHWRLLERI--GNHSWLEFQLETGRTHQIRVHSKQMGHPL 268
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
+GD LY + P S + G LHA+QL L HP + E+
Sbjct: 269 VGDNLYTS---PGSVNVNLP---------------------GQALHAHQLSLIHPVSGEI 304
Query: 316 IKITAPLPS 324
I AP+P+
Sbjct: 305 ITAIAPMPA 313
>gi|229075650|ref|ZP_04208632.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock4-18]
gi|228707426|gb|EEL59617.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock4-18]
Length = 302
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 95/314 (30%), Positives = 148/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDDVVTVNGKSVK-VNYKVKENDEITVTIPDPEELDIQAEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PI
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIA 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKHAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIQFEAPIPEVFE 294
>gi|39933445|ref|NP_945721.1| pseudouridine synthase [Rhodopseudomonas palustris CGA009]
gi|39647291|emb|CAE25812.1| possible pseudouridine synthases [Rhodopseudomonas palustris
CGA009]
Length = 407
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 97/310 (31%), Positives = 145/310 (46%), Gaps = 35/310 (11%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDDLIALNKP 80
I +G++ + G V DP S G + P + L+++YED D+I LNKP
Sbjct: 115 ILDGRVAIAGTPVRDPAYHASPGETITIDVPPPVPAEPAGEAIALDIVYEDADIIVLNKP 174
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
GL V P + T++N L S + P VHRL + T+G+++ AK A
Sbjct: 175 RGLVVHPAAGHETGTLVNALIAHCGASLSGIGG-VRRPGIVHRLDKDTTGLMVAAKNDKA 233
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGV 200
++ FAD + + + Y A V G+ I PI R+P
Sbjct: 234 HQSLSAQFADHGRTGE------------LRRGYLAFVWGVPGRKYGTIDAPID--RHPHA 279
Query: 201 AKGLYVASPSGKPALSKVDVLE----RDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
+ + V SG+ A++ +VLE +D + L+ ++++GR HQIR+HLA LGHPLL
Sbjct: 280 REKMAVRQ-SGREAITHWEVLENFSGKDGKPVAALIACQLETGRTHQIRVHLAHLGHPLL 338
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ ++ A A G R LHAY L L HP+T EV+
Sbjct: 339 GDDVY--GPHFKTKANQLAPAGRAALAGLGRQA----------LHAYLLTLEHPSTGEVL 386
Query: 317 KITAPLPSVL 326
+PLP+ L
Sbjct: 387 TWESPLPADL 396
>gi|415886500|ref|ZP_11548280.1| Pseudouridylate synthase, 23S RNA-specific [Bacillus methanolicus
MGA3]
gi|387587187|gb|EIJ79510.1| Pseudouridylate synthase, 23S RNA-specific [Bacillus methanolicus
MGA3]
Length = 303
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 96/306 (31%), Positives = 149/306 (48%), Gaps = 53/306 (17%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDDLIALN 78
Q I++GQ+ V+G+ V N S ++ +E DV L++ YED D+I +N
Sbjct: 35 QWIKDGQVLVNGQKVK-TNYKCSLNDQIEIFIPDPEELDVLPEEMDLDIYYEDHDVIVVN 93
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L A + S + P VHR+ + TSG+L+ AK
Sbjct: 94 KPRGMVVHPAPGHSTGTLVNGL--LAHCKDLSGINGVLRPGIVHRIDKDTSGLLMVAKND 151
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A +S V +L ++ +T+ Y+A+VHG + D I PIG R P
Sbjct: 152 FAH----------------ESLVNQLVEKTVTRKYKAIVHGEIPHDYGTIDAPIG--RDP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ + V +GK A++ VLER ++ T ++ ++++GR HQIR+H+ ++G+PL GD
Sbjct: 194 KDRQSMTVVD-NGKHAVTHFHVLER--FKDFTFIECQLETGRTHQIRVHMKYIGYPLAGD 250
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y G K+ D + G LHA L +HP T E ++
Sbjct: 251 PKY---GPKKTLDID-----------------------GQALHAGVLGFNHPRTKEYLEF 284
Query: 319 TAPLPS 324
APLPS
Sbjct: 285 EAPLPS 290
>gi|340749928|ref|ZP_08686775.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium
mortiferum ATCC 9817]
gi|229419571|gb|EEO34618.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium
mortiferum ATCC 9817]
Length = 318
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 96/317 (30%), Positives = 148/317 (46%), Gaps = 59/317 (18%)
Query: 18 QGWLQRI-QNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYE 70
+ ++Q+I NG + + G+ + L G+E++ +P E D+P L+++YE
Sbjct: 33 RSYVQKIIDNGLVEIQGKKITKSGNKLK-GTEIIVVNIPEDEVLDLTPEDIP--LDIIYE 89
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D++ +NK L V P T++N L + K S+++ P VHRL + TSG
Sbjct: 90 DSDIVVINKAPNLVVHPAHGNYSGTLVNALLYHI-KDLSTING-VIRPGIVHRLDKDTSG 147
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+++ AK A ++ F +KT + KIY + GI E IK
Sbjct: 148 VIVVAKNDEAHGKLSEMFKEKT----------------LEKIYVCIAKGIFKEKSGRIKT 191
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
IG R K + V + +GK A+S +V+ D +N +LV+V I++GR HQIR+H+
Sbjct: 192 LIG--RDSRDRKKMAVVNENGKIAISNYEVI--DEGKNHSLVKVRIETGRTHQIRVHMKH 247
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
L HP++GD Y G DG Q LHAY+L HP
Sbjct: 248 LNHPIMGDTTYGNGN----------DGADRQ-----------------MLHAYRLKFIHP 280
Query: 311 TTNEVIKITAPLPSVLK 327
T N + + APLP K
Sbjct: 281 TKNTEMTVIAPLPEDFK 297
>gi|254478536|ref|ZP_05091911.1| pseudouridine synthase, RluA family [Carboxydibrachium pacificum
DSM 12653]
gi|214035544|gb|EEB76243.1| pseudouridine synthase, RluA family [Carboxydibrachium pacificum
DSM 12653]
Length = 309
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 93/307 (30%), Positives = 150/307 (48%), Gaps = 58/307 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I+ G + V+G+ V P+ + E+V + +P E ++P L++LYED+D+I +
Sbjct: 39 IEEGLVLVNGKNVK-PSYKVKEDDEVVVN-IPEAEKIEVVPENIP--LDILYEDEDIIVI 94
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + S + P VHRL + TSG+++ AK
Sbjct: 95 NKPQGMVVHPAPGNYSGTLVNALLYHCKNLSGI--NGILRPGIVHRLDKDTSGVMVVAKN 152
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A ++ ++ +R + K Y A+V G++ E++ I+ PIG R+
Sbjct: 153 DKAHMSLSN----------------QIKERSVLKKYVAIVEGVIKEEEGKIEAPIG--RH 194
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P K + V G+ AL+ VLER +N T V+ I++GR HQIR+H +++GHP++G
Sbjct: 195 PVDRKRMAVVQ-DGRYALTLYKVLER--FKNNTFVEATIKTGRTHQIRVHFSYIGHPVVG 251
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP+Y G + + F E G LH+ L HPT ++
Sbjct: 252 DPVY--GYKKQKFKLE-----------------------GQALHSKVLGFIHPTKGVYME 286
Query: 318 ITAPLPS 324
APLP
Sbjct: 287 FEAPLPD 293
>gi|415717813|ref|ZP_11467048.1| hypothetical protein CGSMWGv1500E_02292 [Gardnerella vaginalis
1500E]
gi|388060696|gb|EIK83380.1| hypothetical protein CGSMWGv1500E_02292 [Gardnerella vaginalis
1500E]
Length = 367
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 85/274 (31%), Positives = 135/274 (49%), Gaps = 45/274 (16%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
+++ Y+D+D++ ++KP G+ + TV L+ R S + + + V RL
Sbjct: 138 MKIAYKDEDIVVVDKPIGMAAHQAQGWCGPTVGEALEKRGISISHTAGDENRRGI-VSRL 196
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
GTSG++L +T LA + FA+ T + K Y ALV G + ++
Sbjct: 197 DAGTSGLMLVCRTDLAYEEMKKQFANHT----------------VKKTYHALVQGDLTQN 240
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I+ PIG + V+ + +P+GKPA++ DVLER Q TL V +++GR HQI
Sbjct: 241 KATIEAPIGRAK---VSDFRFTITPNGKPAVTHWDVLERFGQ--ATLASVNLETGRTHQI 295
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H +GHPL+GD +Y G P A+ G R +LH+ +
Sbjct: 296 RVHFTSIGHPLVGDSMY--GANP----------VLAKKLGLTRQ----------WLHSME 333
Query: 305 LFLSHPTTNEVIKITAPLPSVLK-TREEGREVDK 337
L +HP T +VI++ + PS L+ E RE+ K
Sbjct: 334 LIFTHPRTGKVIRVESNYPSDLQHALEAMRELSK 367
>gi|325954148|ref|YP_004237808.1| pseudouridine synthase [Weeksella virosa DSM 16922]
gi|323436766|gb|ADX67230.1| pseudouridine synthase, RluA family [Weeksella virosa DSM 16922]
Length = 362
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 87/270 (32%), Positives = 136/270 (50%), Gaps = 32/270 (11%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P L +++EDD ++ ++KP+G+ V PG T++N L++ S+S++ P
Sbjct: 94 DLP--LNIVFEDDQVLVIDKPAGMVVHPGHGNYSGTLVNALKFHFDN-LPSMSAELERPG 150
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + TSG+L+ AKT+ A +A FA+ T+ T+ Y ALV G
Sbjct: 151 LVHRIDKDTSGLLVIAKTEQAMNHLALQFANHTT----------------TRKYNALVWG 194
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
V ED+ I IG + ++ GK A++ VLER TLV+ ++++G
Sbjct: 195 NVTEDEGTITGHIGRHLKDRMQMAVFEDGSQGKHAVTHYKVLER--LSYVTLVECQLETG 252
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGY-ERPVNPVPGDCGY 298
R HQIR H ++GHPL D Y GG + TF + + E N P
Sbjct: 253 RTHQIRTHFKYIGHPLFNDERY--GG-----NKILKGTTFTKYKQFVENCFNICPRQA-- 303
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKT 328
LHA L +HPTT E ++ A LP+ +++
Sbjct: 304 -LHARTLGFTHPTTGEFMEFEATLPNDMQS 332
>gi|423070499|ref|ZP_17059275.1| hypothetical protein HMPREF9177_00592 [Streptococcus intermedius
F0413]
gi|355365860|gb|EHG13580.1| hypothetical protein HMPREF9177_00592 [Streptococcus intermedius
F0413]
Length = 298
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 92/311 (29%), Positives = 155/311 (49%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQI V+G+V + G + Y L + ++P L+++Y+D+D+
Sbjct: 29 EQIKSGQILVNGQV-KKAKYAVKVGDVITYELPDPETLEYVSENLP--LDIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NK G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKAQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A EL +K + Y A++HG + D+ +I+ PIG R
Sbjct: 144 NDDAHIKLAD----------------ELKAKKSLRKYWAILHGNLPNDRGVIEAPIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER N TLV++++++GR HQIR+H+A++GHP+
Sbjct: 186 SEKDRKKQAVTA-KGKPAITRFHVLER--FGNYTLVELQLETGRTHQIRVHMAYIGHPVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y P + G+ G +LHA L +HP T +++
Sbjct: 243 GDGVY-------------------------GPRKTLKGN-GQFLHARTLGFTHPKTGKIM 276
Query: 317 KITAPLPSVLK 327
+ TA +P V +
Sbjct: 277 EFTAEVPIVFQ 287
>gi|409351550|ref|ZP_11234218.1| Pseudouridine synthase [Lactobacillus equicursoris CIP 110162]
gi|407876703|emb|CCK86276.1| Pseudouridine synthase [Lactobacillus equicursoris CIP 110162]
Length = 302
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 92/308 (29%), Positives = 150/308 (48%), Gaps = 57/308 (18%)
Query: 25 QNGQITVDGRVVNDPNIILSAGSELVYHRLPWK----EPD-VPYLLEVLYEDDDLIALNK 79
Q GQ+ V+G+ + + AG ++ + LP + EP+ +P L+++YEDDD+I +NK
Sbjct: 36 QAGQVLVNGKKTK-VSYKVEAGDQIEVNILPLEPLDLEPENIP--LDIVYEDDDVIVVNK 92
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
P G+ V P T++N L + + S + P VHR+ + TSG+L+ AK
Sbjct: 93 PQGMVVHPAAGHPNHTLVNALLYHTRDLADS--PEGFRPGIVHRIDKDTSGLLMVAKNAK 150
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPG 199
A+ +S +L+Q+ +IY A+VHG E + PI R P
Sbjct: 151 AR----------------ESLEAQLAQKSNKRIYLAIVHGNFAEKSGTVDAPIA--RNPR 192
Query: 200 VAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDP 259
K + V +GK A++ VLE+ +L++ ++++GR HQIR+H+A++GHPL GDP
Sbjct: 193 DRKQMAVVE-NGKNAVTHFKVLEQ--YPGYSLIECQLETGRTHQIRVHMAYIGHPLAGDP 249
Query: 260 LYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKIT 319
LY P +PG G +LHA L PTT + ++ +
Sbjct: 250 LY-------------------------GPRKTLPGH-GQFLHAQTLGFEQPTTGQWLEFS 283
Query: 320 APLPSVLK 327
P + +
Sbjct: 284 VEPPEIFQ 291
>gi|315656560|ref|ZP_07909447.1| ribosomal large subunit pseudouridine synthase D [Mobiluncus
curtisii subsp. holmesii ATCC 35242]
gi|315492515|gb|EFU82119.1| ribosomal large subunit pseudouridine synthase D [Mobiluncus
curtisii subsp. holmesii ATCC 35242]
Length = 304
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 106/321 (33%), Positives = 150/321 (46%), Gaps = 56/321 (17%)
Query: 21 LQRIQNGQITVDGRVVNDPNII-----LSAGSELVYHRLPWKEPDVPYL-----LEVLYE 70
L R + G + G V+ D + L+AG+ L+ +P VP + L +LY
Sbjct: 26 LSRAKAGALLESGAVIQDGETLKKSDQLAAGN-LLEIDIPEPTGYVPEVTRVDNLGILYA 84
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
DDDL+ ++KP+G+ G ++ TV+ L RA+ S S VHRL GTSG
Sbjct: 85 DDDLVVVDKPAGVAAHTGPGWEGPTVVGAL--RAAGIRVSTSGPVEREGIVHRLDAGTSG 142
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
++ AK++LA + F ++ KIY AL G V I
Sbjct: 143 AMVVAKSELAYGKLKNEF----------------RYHRVEKIYTALATGGVKPPVGTIDA 186
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R PG + V S GKPA++ DV+E TL++V++++GR HQIR+HLA
Sbjct: 187 PIG--RAPGREFKMAVVS-GGKPAVTHYDVIEE--LPGATLLKVQLETGRTHQIRVHLAA 241
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHPL+GD Y AD A G ER +LHA +L HP
Sbjct: 242 IGHPLVGDTEY------------GADRKTAARLGLER----------QWLHASRLAFKHP 279
Query: 311 TTNEVIKITAPLPSVLKTREE 331
T + + APLP+ L T E
Sbjct: 280 RTGLEVAVQAPLPADLATAVE 300
>gi|240850017|ref|YP_002971410.1| ribosomal large subunit pseudouridine synthase D [Bartonella
grahamii as4aup]
gi|240267140|gb|ACS50728.1| ribosomal large subunit pseudouridine synthase D [Bartonella
grahamii as4aup]
Length = 334
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 88/311 (28%), Positives = 146/311 (46%), Gaps = 38/311 (12%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGS--ELVYHRLPWKEPDVPYL-LEVLYEDDDLIALNKP 80
I+ G + +DG+ + +P L EL L EP + L++L+EDD +I +NKP
Sbjct: 37 IREGYLKIDGQFIKEPKTKLRPKQIIELAMPDLRDAEPSAEAIALDILFEDDHIIVINKP 96
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
+GL V PG T++N L + S + P VHRL + TSG+++ AK LA
Sbjct: 97 AGLVVHPGNGNWTGTLVNALIYHCGNSLSGIGG-VKRPGIVHRLDKNTSGVMIVAKNDLA 155
Query: 141 KTCIAGYFAD--KTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
++ F+D +T +D + Y AL+ G + I +G +
Sbjct: 156 HKSLSAQFSDHGRTCALD--------------RRYHALIWGTPHRNVWTIDASLGRSPHN 201
Query: 199 GVAKG-LYVASPSGKPALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIRIHLAFLG 252
+ ++ +P + A++ +LE+ D +L++ +++GR HQIR+H+A +G
Sbjct: 202 RTKQAVIHKQNPYARHAVTHFSLLEKYGSHADSTSFASLLECRLETGRTHQIRVHMAHIG 261
Query: 253 HPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
HPL+GD +Y G K+ + F + R LHA L HP+T
Sbjct: 262 HPLIGDTVY--GNAFKTKSNAFNPTIRNAIDQFNRQA----------LHAASLSFEHPST 309
Query: 313 NEVIKITAPLP 323
+V+ +APLP
Sbjct: 310 GKVMSFSAPLP 320
>gi|254478004|ref|ZP_05091388.1| pseudouridine synthase, RluA family [Carboxydibrachium pacificum
DSM 12653]
gi|214036008|gb|EEB76698.1| pseudouridine synthase, RluA family [Carboxydibrachium pacificum
DSM 12653]
Length = 309
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 90/306 (29%), Positives = 149/306 (48%), Gaps = 56/306 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIALN 78
I+ G + V+G+ V P+ + E+V + ++ ++P L++LYED+D+I +N
Sbjct: 39 IEEGLVLVNGKNVK-PSYKVKEDDEIVVNIKEAEKIEVVPENIP--LDILYEDEDIIVIN 95
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S + P VHRL + TSG+++ AK
Sbjct: 96 KPQGMVVHPAAGNYSGTLVNALLYHCKNLSGI--NGILRPGIVHRLDKDTSGVMVVAKND 153
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A ++ ++ +R + K Y A+V G++ E++ ++ PIG R+P
Sbjct: 154 KAHMSLSN----------------QIKERSVLKKYIAIVEGVIKEEEGKVEAPIG--RHP 195
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K + V G+ AL+ VLER +N T V+ I++GR HQIR+H +++GHP++GD
Sbjct: 196 VDRKRMAVVQ-EGRYALTLYKVLER--FKNNTFVEATIKTGRTHQIRVHFSYIGHPVVGD 252
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P+Y G + + F E G LH+ L HPT ++
Sbjct: 253 PVY--GYKKQRFKLE-----------------------GQALHSKVLGFIHPTKGVYMEF 287
Query: 319 TAPLPS 324
APLP
Sbjct: 288 EAPLPD 293
>gi|423073746|ref|ZP_17062483.1| pseudouridine synthase, RluA family [Desulfitobacterium hafniense
DP7]
gi|361855368|gb|EHL07344.1| pseudouridine synthase, RluA family [Desulfitobacterium hafniense
DP7]
Length = 334
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 87/270 (32%), Positives = 132/270 (48%), Gaps = 48/270 (17%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
LE+LYED+D++ +NKP G+ V P +T++N L + S + P VHR+
Sbjct: 107 LEILYEDEDVLVVNKPQGMVVHPAPGAWTKTMVNALLYHCRNLSGI--NGVLRPGIVHRI 164
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK LA +A ++ + + Y A+VHG+V E
Sbjct: 165 DKDTSGLLVVAKNDLAHQGLA----------------EQIKAHSMARRYLAIVHGVVFEP 208
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ P+G R P K + V + K A++ +VLER R+ TL++ +++GR HQI
Sbjct: 209 SGTVDAPVG--RDPADRKKMAVVFQNAKEAVTHYEVLERF--RDFTLLEARLETGRTHQI 264
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+A+L HP+LGDPLY P+ NP G G LHA
Sbjct: 265 RVHMAYLKHPVLGDPLY----GPRK--------------------NPF-GLQGQMLHAQL 299
Query: 305 LFLSHPTTNEVIKITAPLPSVL-KTREEGR 333
L HP + E ++ +AP + K EE R
Sbjct: 300 LGFQHPRSGEYMEFSAPASGLFQKVLEEIR 329
>gi|425736769|ref|ZP_18855045.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus
massiliensis S46]
gi|425483241|gb|EKU50393.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus
massiliensis S46]
Length = 304
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 80/263 (30%), Positives = 128/263 (48%), Gaps = 49/263 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L++ +ED+D+ + KP G+ V P T++N L ++ + S + P VHR+
Sbjct: 80 LDIYFEDEDVAIVYKPKGMVVHPAPGHYSNTLVNGLMYQMTDLSGI--NGEIRPGIVHRI 137
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK +A + DKT +T+ Y ALVHG++ D
Sbjct: 138 DKDTSGLLMVAKNDIAHRSLVDQLVDKT----------------VTRKYVALVHGVIPHD 181
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ PIG R + + V G+ A++ DVL+R +N TL++ +++GR HQI
Sbjct: 182 YGTVDAPIG--RNKNDRQAMAVED-DGRDAITHFDVLQR--FKNYTLIECRLETGRTHQI 236
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G+PL+GDP Y G K+ D G LHA
Sbjct: 237 RVHMKYIGYPLVGDPKY---GPKKTMDI-----------------------GGQALHAAT 270
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
+ +HP TNE I+ APLP+ +
Sbjct: 271 IGFNHPKTNEYIEKIAPLPTYFE 293
>gi|297617022|ref|YP_003702181.1| pseudouridine synthase [Syntrophothermus lipocalidus DSM 12680]
gi|297144859|gb|ADI01616.1| pseudouridine synthase, RluA family [Syntrophothermus lipocalidus
DSM 12680]
Length = 305
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 88/274 (32%), Positives = 138/274 (50%), Gaps = 50/274 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L ++YED DL+ ++KP GL V P + T++N L +R K S ++ + P VHRL
Sbjct: 80 LNIVYEDRDLVVIDKPQGLVVHPAHGHWEGTLVNALLYRV-KDLSGINGELR-PGIVHRL 137
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+++ AK A +A ++ RKI + Y A+VHG++ E+
Sbjct: 138 DKDTSGLMVVAKNDQAHRDLAD----------------QIKARKIRREYVAVVHGVIREN 181
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
I PIG R P K + V G+PA++ VL R R+ TLV+ +++GR HQI
Sbjct: 182 SGTIDAPIG--RSPSDRKKMAVVR-EGRPAVTHYTVLRR--YRDYTLVRARLETGRTHQI 236
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H A++ HP++GD +Y G F+ + G LHA
Sbjct: 237 RVHFAYIRHPVVGDQVY--GPSRSRFELK-----------------------GQALHACY 271
Query: 305 LFLSHPTTNEVIKITAPLPSVLKTREEGREVDKS 338
L HPTT E+++ +P P ++ E R+++KS
Sbjct: 272 LAFYHPTTKELLEFDSPFPPYVQ--ELLRQLEKS 303
>gi|389876793|ref|YP_006370358.1| Pseudouridylate synthase, 23S RNA-specific [Tistrella mobilis
KA081020-065]
gi|388527577|gb|AFK52774.1| Pseudouridylate synthase, 23S RNA-specific [Tistrella mobilis
KA081020-065]
Length = 405
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 101/332 (30%), Positives = 169/332 (50%), Gaps = 54/332 (16%)
Query: 13 NSAPL--QGWLQR-IQNGQITVDGRVVNDPNIILSAGSEL-VYHRLPWK---EPDVPYLL 65
N+AP +G +Q I++G++T+DG + D + + G +L V +P + EP+ P L
Sbjct: 102 NAAPSLSRGRVQALIRDGRVTLDGATIADASRRVKPGQKLTVTVPVPEERRLEPE-PMAL 160
Query: 66 EVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLG 125
+++YED+ LI ++KP+GL V PG + T+++ L + SS+ + + P VHR+
Sbjct: 161 DIVYEDEWLIVVDKPAGLVVHPGAGNDRGTLVSGLLAHGDGRLSSIGA-PTRPGVVHRID 219
Query: 126 RGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDK 185
+ TSG+++ AKT A +A FAD T I + Y A+V G+ D
Sbjct: 220 KDTSGLIVFAKTDAAHLALARQFADHT----------------IRRAYTAIVWGVPAVDP 263
Query: 186 VIIKQPIGIVRYPGVAKGLYVASPSGKPALSK------VDVLERDVQRNCTLVQVEIQSG 239
I+ IG R+ + + V + GKPA++ V V+E + +++ +++G
Sbjct: 264 GRIEGNIG--RHATDRQRMAVVTRGGKPAVTHYRIANMVGVVEVSEKPLASVLDCRLETG 321
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNP-VPGDCGY 298
R HQIR+HL+ +GHPL+GDP+Y G P +R +P + C +
Sbjct: 322 RTHQIRVHLSHVGHPLVGDPVY--GRSPARL---------------QRMEDPRIKAMCSF 364
Query: 299 ---YLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
LHA +L HP T +K +PLP ++
Sbjct: 365 PRQALHARRLGFVHPVTGRRLKFESPLPQDMR 396
>gi|59711171|ref|YP_203947.1| 23S rRNA pseudouridine synthase D [Vibrio fischeri ES114]
gi|423685280|ref|ZP_17660088.1| 23S rRNA pseudouridine synthase D [Vibrio fischeri SR5]
gi|59479272|gb|AAW85059.1| 23S rRNA pseudouridine synthase [Vibrio fischeri ES114]
gi|371495781|gb|EHN71376.1| 23S rRNA pseudouridine synthase D [Vibrio fischeri SR5]
Length = 324
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 97/305 (31%), Positives = 146/305 (47%), Gaps = 53/305 (17%)
Query: 27 GQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYEDDDLIALNKPS 81
G +TV+G VV + + G E+ W D+P L+++YEDDDL+ +NKP
Sbjct: 43 GNMTVNGEVVTKARLKVMGGEEITVKAELEDEERWLAQDIP--LDIVYEDDDLLVINKPR 100
Query: 82 GLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAK 141
V PG TVLN L + ++ VHRL + T+G+++ AKT A+
Sbjct: 101 DFVVHPGAGTPDGTVLNALLFHYPN-----IAEVPRAGIVHRLDKDTTGLMVVAKTVPAQ 155
Query: 142 TCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVA 201
T + V L +RKIT+ Y A+V G + +I++PIG R+P
Sbjct: 156 TRL----------------VRALQKRKITREYEAVVVGRMTAGG-MIEKPIG--RHPN-K 195
Query: 202 KGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLY 261
+ L GK A++ V E R T +++ +++GR HQIR+H+++L HPL+GD Y
Sbjct: 196 RTLMAVHELGKDAVTHYRVAEH--FRIHTRIRLRLETGRTHQIRVHMSYLQHPLVGDTAY 253
Query: 262 VAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
GG+ PK E D G++R LHA L HP T E ++
Sbjct: 254 --GGRARIPKGASQELIDMI----RGFDRQA----------LHAAMLRFEHPITGETMEF 297
Query: 319 TAPLP 323
AP+P
Sbjct: 298 HAPIP 302
>gi|421539879|ref|ZP_15986033.1| pseudouridine synthase [Neisseria meningitidis 93004]
gi|402320481|gb|EJU55969.1| pseudouridine synthase [Neisseria meningitidis 93004]
Length = 374
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 127/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWSGTLLNGLLAHCPELS-----QVPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLPAQ----------------NSLVQQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLTH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL GDP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAGDPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 301 AYRLSFTHPESGETVSFEAPIP 322
>gi|402297359|ref|ZP_10817131.1| large ribosomal pseudouridine synthesis protein [Bacillus
alcalophilus ATCC 27647]
gi|401727409|gb|EJT00599.1| large ribosomal pseudouridine synthesis protein [Bacillus
alcalophilus ATCC 27647]
Length = 304
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 94/318 (29%), Positives = 151/318 (47%), Gaps = 57/318 (17%)
Query: 18 QGWLQRIQNGQITVDGRVVNDPNIILS--AGSELVYHRLPWKEPDVPYL------LEVLY 69
+ W R Q Q D RV + N++ S S+L + EP+V + L++++
Sbjct: 26 EDW-SRTQVQQWIKDKRVKVNGNVVKSNYKVSDLDQVEVSVPEPEVLEVEAENIPLDIVF 84
Query: 70 EDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTS 129
ED+D+I +NKP G+ V P T++N L + K S ++ P VHR+ + TS
Sbjct: 85 EDEDVIVVNKPRGMVVHPAPGHYSGTLVNALMYHC-KDLSGING-VIRPGIVHRIDKDTS 142
Query: 130 GILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIK 189
G+L+ AK A +S V +L + ++Y+A+VHG++ I
Sbjct: 143 GLLMVAKNDQAH----------------ESLVSQLKAKTTKRVYQAIVHGVISHQTGTID 186
Query: 190 QPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLA 249
PIG R + + V + + + A++ VL+R N T VQ E+++GR HQIR+H+
Sbjct: 187 APIG--RDKKERQSMTVTNENSREAVTHFTVLDRFT--NYTYVQCELETGRTHQIRVHMK 242
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
++G+PL GDP Y G K+ D + G LHA L H
Sbjct: 243 YIGYPLAGDPKY---GPKKTLDID-----------------------GQALHAAVLGFEH 276
Query: 310 PTTNEVIKITAPLPSVLK 327
P T E ++ APLP+ ++
Sbjct: 277 PKTKEWVEFEAPLPTEME 294
>gi|398310646|ref|ZP_10514120.1| pseudouridylate synthase [Bacillus mojavensis RO-H-1]
Length = 303
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 98/316 (31%), Positives = 148/316 (46%), Gaps = 60/316 (18%)
Query: 18 QGW-----LQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-DV---PYLLEVL 68
GW Q +++GQ+ V+G V N + G ++ +P E DV P L++
Sbjct: 26 NGWSRTQVQQWVKDGQVVVNGSPVK-ANYKIQPGDQVTV-TVPEPEALDVLAEPMDLDIY 83
Query: 69 YEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGT 128
YED D++ +NKP G+ V P T++N L + S + P VHR+ + T
Sbjct: 84 YEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCTDLSGI--NGVMRPGIVHRIDKDT 141
Query: 129 SGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVII 188
SG+L+ AK +A +S V +L + +T++Y A+VHGI+ D I
Sbjct: 142 SGLLMVAKNDMAH----------------ESLVNQLVNKTVTRVYTAVVHGIISHDDGTI 185
Query: 189 KQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHL 248
PIG R + + V GK A++ VL+R + TLV+ ++++GR HQIR+H+
Sbjct: 186 DAPIG--RDKKDRQSMTVTR-DGKNAVTHFHVLDR--FQEFTLVECQLETGRTHQIRVHM 240
Query: 249 AFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
++G PL GDP Y G K+ D G LHA L
Sbjct: 241 KYIGFPLAGDPKY---GPRKTIDFN-----------------------GQALHAGILGFQ 274
Query: 309 HPTTNEVIKITAPLPS 324
HP T+E I+ APLP
Sbjct: 275 HPRTDEYIEFEAPLPE 290
>gi|343511109|ref|ZP_08748294.1| 23S rRNA pseudouridine synthase D [Vibrio scophthalmi LMG 19158]
gi|343514768|ref|ZP_08751836.1| 23S rRNA pseudouridine synthase D [Vibrio sp. N418]
gi|342799456|gb|EGU35022.1| 23S rRNA pseudouridine synthase D [Vibrio scophthalmi LMG 19158]
gi|342799505|gb|EGU35069.1| 23S rRNA pseudouridine synthase D [Vibrio sp. N418]
Length = 325
Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 97/313 (30%), Positives = 147/313 (46%), Gaps = 50/313 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL G++ VDG+V+ P + G ++ W+ D+P L+++YED
Sbjct: 36 LKEWLL---AGKVQVDGQVITKPRTRVMGGEVIILQAELEDEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP G V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 DDIIVMNKPRGFVVHPGAGTPDGTVLNALLHHYPD-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R IT+ Y A+ G + I +QP
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRNITREYEAIAIGRMTAGGKI-EQP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GKPA + V E R T +++ +++GR HQIR+H+++L
Sbjct: 189 IG--RH-STKRTLMAVSPMGKPAATHYRVAEHF--REHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
+PLLGD Y + S S+ Q ++R LHA L HP
Sbjct: 244 QYPLLGDTAYGGRARIPSGASQELTEMIRQ---FDRQA----------LHAVMLKFEHPV 290
Query: 312 TNEVIKITAPLPS 324
T E ++ AP+P
Sbjct: 291 TGEELEFHAPVPE 303
>gi|197301721|ref|ZP_03166791.1| hypothetical protein RUMLAC_00447 [Ruminococcus lactaris ATCC
29176]
gi|197299161|gb|EDY33691.1| pseudouridine synthase, RluA family [Ruminococcus lactaris ATCC
29176]
Length = 304
Score = 119 bits (299), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 91/314 (28%), Positives = 151/314 (48%), Gaps = 57/314 (18%)
Query: 18 QGWLQRI-QNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+ ++Q++ ++G I V+G+ V N L+ G ++ +P EP ++P L++LYE
Sbjct: 28 RSYIQKLLKDGLILVNGKKVK-ANYKLNEGDQIDV-EVPDPEPLDIAAENIP--LDILYE 83
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D+D++ +NKP G+ V P T++N + + + S ++ P VHR+ T+G
Sbjct: 84 DEDILIVNKPKGMVVHPSPGHPDHTLVNAILYHCGEHLSGING-VIRPGIVHRIDMNTTG 142
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
LL K A +A +L + IT+ Y A+VHG + D +
Sbjct: 143 SLLICKNDHAHQILA----------------EQLKEHSITRRYHAIVHGSLKADTGTVNA 186
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
IG R+P K + + +G+ A++ VLER N T ++ E+++GR HQIR+H+A
Sbjct: 187 SIG--RHPTDRKKMSTKALNGRHAVTHYRVLER--LGNYTYIECELETGRTHQIRVHMAS 242
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHP+LGD +Y P + G LHA L ++HP
Sbjct: 243 IGHPILGDDVYGPAKCPFHLE-------------------------GQTLHAKILGITHP 277
Query: 311 TTNEVIKITAPLPS 324
T E ++ APLP
Sbjct: 278 ATGEYMEFDAPLPE 291
>gi|145639768|ref|ZP_01795370.1| SfhB [Haemophilus influenzae PittII]
gi|145271136|gb|EDK11051.1| SfhB [Haemophilus influenzae PittII]
gi|309750408|gb|ADO80392.1| 23S rRNA pseudouridine synthase [Haemophilus influenzae R2866]
Length = 324
Score = 119 bits (299), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 99/333 (29%), Positives = 159/333 (47%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G + V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRITNIPREKVLGGERIEIIVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + +
Sbjct: 77 EAENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIVEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPIGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLAHPITGEMMEWYAPLPD 302
>gi|222152892|ref|YP_002562069.1| RNA pseudouridylate synthase [Streptococcus uberis 0140J]
gi|222113705|emb|CAR41656.1| putative RNA pseudouridylate synthase [Streptococcus uberis 0140J]
Length = 296
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 95/310 (30%), Positives = 154/310 (49%), Gaps = 59/310 (19%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLIAL 77
I+ G + V+G V + +++ ++LP +E D+P +E++YED+ L +
Sbjct: 31 IKKGTVLVNGEPVKAKYTVKEG--DIISYQLPEEEILDYEAEDIP--IEIVYEDEYLAII 86
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK G+ V P T++N L + K S+++ P VHR+ + TSG+L+ AK
Sbjct: 87 NKAQGMVVHPSAGHSSGTLVNALLYHI-KDLSTING-VVRPGIVHRIDKDTSGLLMIAKN 144
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
DK I AD EL +K + Y A+VHG + D+ +I+ PIG R
Sbjct: 145 ------------DKAHHILAD----ELKAKKSLRKYLAIVHGNLPNDRGMIEAPIG--RS 186
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
K V + GK A+++ V+ER + TLV++ +++GR HQIR+H+A++GHP+ G
Sbjct: 187 EKDRKKQAVTA-KGKDAITRFQVVER--FGDFTLVELSLETGRTHQIRVHMAYIGHPVAG 243
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DPLY P + G+ G +LHA L +HP+T E++
Sbjct: 244 DPLY-------------------------GPRKTLAGN-GQFLHAQTLGFTHPSTGEMVT 277
Query: 318 ITAPLPSVLK 327
TA P + +
Sbjct: 278 FTAEPPIIFR 287
>gi|350530310|ref|ZP_08909251.1| 23S rRNA pseudouridine synthase D [Vibrio rotiferianus DAT722]
Length = 325
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 95/313 (30%), Positives = 150/313 (47%), Gaps = 50/313 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL +G++ V+G V+ P + G E+ W+ D+P L+++YED
Sbjct: 36 LKEWLL---DGKVQVNGEVITKPRTKVMGGEEITLQAELEDEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
+D+I +NKP V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 EDIIVINKPRDFVVHPGAGTPDGTVLNALLHHYPD-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R IT+ Y A+ G + + QP
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRNITREYEAIAIGRMTAGGKV-DQP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L +P GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 189 IG--RH-STKRTLMAVAPLGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD Y GG+ + + ++ A G++R LHA L HP
Sbjct: 244 QHPLLGDTAY--GGRAR-IPTGASEELTAMIRGFDRQA----------LHAVMLRFEHPI 290
Query: 312 TNEVIKITAPLPS 324
T E ++ AP+P
Sbjct: 291 TGEELEFHAPVPD 303
>gi|307729591|ref|YP_003906815.1| RluA family pseudouridine synthase [Burkholderia sp. CCGE1003]
gi|307584126|gb|ADN57524.1| pseudouridine synthase, RluA family [Burkholderia sp. CCGE1003]
Length = 430
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 103/316 (32%), Positives = 158/316 (50%), Gaps = 56/316 (17%)
Query: 17 LQGWLQRIQNGQITVDGR--VVNDPNIILSAGSELVYHRLPWK---EPDVPYLLEVLYED 71
LQ W I+ ++ +DG+ + P + L A ELV LP + P+ P LE+++ED
Sbjct: 95 LQSW---IEAERVRIDGKPAKIRQP-VPLGASIELVPDLLPEQLAFTPE-PVPLEIVFED 149
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
D L+ +NKP+G+ V P TVLN L +R ++ L VHRL + TSG+
Sbjct: 150 DTLVVINKPAGMVVHPAAGNWSGTVLNGLLYRYGDAAAGLPRAGI----VHRLDKETSGL 205
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ A+T A+T + V +L R + + Y ALV G + E+ I P
Sbjct: 206 MVVARTLEAQTDL----------------VRQLQARTVKRRYLALVWGNMPEEGTI-DAP 248
Query: 192 IGIVRYPGVAKGLYVAS-PSGKPALSKVDVLERDV-QRN-CTLVQVEIQSGRPHQIRIHL 248
IG R P + V + SGKPA + ++ + QR T + ++++GR HQIR+H
Sbjct: 249 IG--RDPRERTRMAVVTGASGKPARTHFRRVDTAIWQRQPVTAIHCDLETGRTHQIRVHC 306
Query: 249 AFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY-YLHAYQLFL 307
A +GHPLLGDP+Y G+ + +R V P+PG+ LHA++L L
Sbjct: 307 AHIGHPLLGDPVY---GRARG----------------KRSVTPLPGEFARQALHAWRLGL 347
Query: 308 SHPTTNEVIKITAPLP 323
HP T ++ A +P
Sbjct: 348 IHPKTGRSMQWRADVP 363
>gi|257095460|ref|YP_003169101.1| RluA family pseudouridine synthase [Candidatus Accumulibacter
phosphatis clade IIA str. UW-1]
gi|257047984|gb|ACV37172.1| pseudouridine synthase, RluA family [Candidatus Accumulibacter
phosphatis clade IIA str. UW-1]
Length = 375
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 104/326 (31%), Positives = 156/326 (47%), Gaps = 68/326 (20%)
Query: 9 TKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAG-----SELVYHRLPWKEPD-VP 62
++H S LQ W I+ G++ V G V +P L G +E R P+ +P
Sbjct: 51 SQHSRSR-LQDW---IREGRVAVGGAVTVEPRFRLWGGETIALTESTDERAEASAPEEIP 106
Query: 63 YLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP-- 120
L +++EDD LI L+K +GL V PG + T+LN L A + + VP
Sbjct: 107 --LRIVFEDDTLIVLDKQAGLVVHPGSGNWRGTLLNGLLHHAPQLAR---------VPRA 155
Query: 121 --VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHRL + T+G+++ AKT A+T + V +L R + + Y+ALV
Sbjct: 156 GIVHRLDKDTTGLMVVAKTLEAQTDL----------------VRQLQARSVKRCYQALVR 199
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
GIV E I+ PIG R+P V + V S G+PA + VLER V CTL++ +++
Sbjct: 200 GIV-EGAGIVDAPIG--RHPTVRTRMAVVS-GGRPARTHYRVLERFVA--CTLIECALET 253
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+ + HPL+GDP+Y G Q + R
Sbjct: 254 GRTHQIRVHMTSIAHPLVGDPIYGGGAS-----------RVPQGAVFPR----------Q 292
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA +L L HP + + + + +P+
Sbjct: 293 ALHACRLALVHPASGKAMLWRSGVPA 318
>gi|167031685|ref|YP_001666916.1| RluA family pseudouridine synthase [Pseudomonas putida GB-1]
gi|166858173|gb|ABY96580.1| pseudouridine synthase, RluA family [Pseudomonas putida GB-1]
Length = 352
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 106/322 (32%), Positives = 160/322 (49%), Gaps = 71/322 (22%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L W I+ G++TVDG VV P ++ GS L + W D+ L+++YED
Sbjct: 68 LTSW---IKEGRLTVDGAVVR-PRDLVYGGSLLALEAEQEAQGEWIAEDIE--LDIVYED 121
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----------V 121
D ++ +NKP+GL V P T+LN L H VP V
Sbjct: 122 DHIMVINKPAGLVVHPAAGHASGTLLNALL---------------HHVPDIVNVPRAGIV 166
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + T+G+++ AKT A+T + V ++ RK+++IY +V G+V
Sbjct: 167 HRLDKDTTGLMVVAKTLQAQTKL----------------VEQMQARKVSRIYECIVIGVV 210
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
I PIG R+ G+ + + V + GKPA+S VL+R R+ T V+V++++GR
Sbjct: 211 TAGGKI-DAPIG--RHGGMRQRMAV-TDGGKPAVSHYRVLKRF--RSHTHVRVKLETGRT 264
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+A +G PL+GD Y GG+ + + A T + V P LH
Sbjct: 265 HQIRVHMAHVGFPLVGDQTY--GGRFRIPPA--ASPTMVE------AVKTFPRQA---LH 311
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
A L L+HP T E++K +PLP
Sbjct: 312 ARFLALAHPITGEIMKWESPLP 333
>gi|421567147|ref|ZP_16012883.1| pseudouridine synthase [Neisseria meningitidis NM3001]
gi|402344158|gb|EJU79299.1| pseudouridine synthase [Neisseria meningitidis NM3001]
Length = 374
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 127/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIIYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QIPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLSAQ----------------NSLVRQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLTH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL GDP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAGDPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 301 AYRLSFTHPESGETVSFEAPIP 322
>gi|418939767|ref|ZP_13493154.1| pseudouridine synthase, RluA family [Rhizobium sp. PDO1-076]
gi|375053486|gb|EHS49878.1| pseudouridine synthase, RluA family [Rhizobium sp. PDO1-076]
Length = 341
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 100/331 (30%), Positives = 146/331 (44%), Gaps = 43/331 (12%)
Query: 14 SAPLQGWLQR------IQNGQITVDGRVVNDPNIILSAGSELVYHRLPW-----KEPDVP 62
+A L+G R I+ G I ++G+ V +P + G L K ++P
Sbjct: 30 TAQLEGEFSRNRVKALIEQGAIKINGQAVTEPKRKIKPGDTLTIELPEPEDPEPKGENIP 89
Query: 63 YLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVH 122
L+VLYED DLI + KP GL V PG T++N L + S + P VH
Sbjct: 90 --LDVLYEDADLIVIAKPPGLVVHPGAGNWTGTLVNALIYHCGDSLSGIGG-VKRPGIVH 146
Query: 123 RLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVD 182
RL + TSG+++ AK LA +A FAD + + YRA+V G
Sbjct: 147 RLDKDTSGVMVVAKNDLAHRHLADQFADHGRT------------GPLERAYRAIVWGRPR 194
Query: 183 EDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLER-----DVQRNCTLVQVEIQ 237
I P+G + + A++ V+ER D +LV+ ++
Sbjct: 195 TLTGTIDAPLGRAGDRTKRTVKKEDTDDAREAITHYTVIERYGEKPDATCLASLVECRLE 254
Query: 238 SGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCG 297
+GR HQIR+H+A +GHPL+GD Y G K+ + D A G+ R
Sbjct: 255 TGRTHQIRVHMAHIGHPLIGDQDY--GMAFKTKVNLLPDAAKAIVNGFHRQA-------- 304
Query: 298 YYLHAYQLFLSHPTTNEVIKITAPLPSVLKT 328
LHAY L HP+T E + AP+P L+T
Sbjct: 305 --LHAYLLAFEHPSTGETMHFEAPIPEDLQT 333
>gi|322514978|ref|ZP_08067990.1| ribosomal large subunit pseudouridine synthase D [Actinobacillus
ureae ATCC 25976]
gi|322119031|gb|EFX91195.1| ribosomal large subunit pseudouridine synthase D [Actinobacillus
ureae ATCC 25976]
Length = 325
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 97/316 (30%), Positives = 155/316 (49%), Gaps = 56/316 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYED 71
L+ W I++ + V+G +VN + G + + + ++ D+P L ++YED
Sbjct: 36 LKVW---IESDLVKVNGNIVNKAREKVFGGELIEVQAEIEEEVRFEPQDIP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD++ +NKP L V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 DDILVINKPKDLVVHPGAGNPDGTVLNALL-----HYYPPIAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AK A+T + V L +R+IT+ Y A+ G++ + + +P
Sbjct: 146 MVVAKNIPAQTHL----------------VTALQKRRITREYEAVTSGVMTQGGKV-DEP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
+ R+P + V P GKPA++ ++ER RN T +++ +++GR HQIR+H+ +
Sbjct: 189 MA--RHPTKRTAMAV-HPMGKPAVTHYRIMER--FRNYTRLRLRLETGRTHQIRVHMTHI 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD LY GG+ PK EF A G++R LHA L L
Sbjct: 244 AHPLLGDQLY--GGRPRPPKGASEEF----LAVLRGFQRQA----------LHATMLRLE 287
Query: 309 HPTTNEVIKITAPLPS 324
HP T E+++ APLP
Sbjct: 288 HPITGELMEWHAPLPD 303
>gi|449883372|ref|ZP_21785130.1| putative pseudouridylate synthase [Streptococcus mutans SA38]
gi|449925690|ref|ZP_21800365.1| putative pseudouridylate synthase [Streptococcus mutans 4SM1]
gi|449161300|gb|EMB64499.1| putative pseudouridylate synthase [Streptococcus mutans 4SM1]
gi|449249930|gb|EMC48020.1| putative pseudouridylate synthase [Streptococcus mutans SA38]
Length = 296
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 93/312 (29%), Positives = 154/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+G+ + +++++ P +E ++P LE++YED+D+
Sbjct: 29 EQIKAGLVWVNGKTQKAKYAVKEG--DIIHYECPQEEVLDCVAQNIP--LEIVYEDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL ++K + Y ALVHG + D+ +I+ PIG
Sbjct: 143 KNDQAHQALA----------------KELKEKKSLRQYIALVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GK A++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQTVTA-KGKSAVTHFKVLERFDQ--YSLVELTLETGRTHQIRVHMAYIGHPV 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T E+
Sbjct: 242 AGDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGEL 275
Query: 316 IKITAPLPSVLK 327
++ T +P + +
Sbjct: 276 MQFTTEVPVIFQ 287
>gi|319775954|ref|YP_004138442.1| 23S rRNA pseudouridine synthase [Haemophilus influenzae F3047]
gi|329123818|ref|ZP_08252376.1| ribosomal large subunit pseudouridine synthase D [Haemophilus
aegyptius ATCC 11116]
gi|317450545|emb|CBY86762.1| 23S rRNA pseudouridine synthase [Haemophilus influenzae F3047]
gi|327469305|gb|EGF14776.1| ribosomal large subunit pseudouridine synthase D [Haemophilus
aegyptius ATCC 11116]
Length = 324
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 99/333 (29%), Positives = 159/333 (47%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G + V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRITNIPREKVLGGERIEIIVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + +
Sbjct: 77 EAENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIVEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRMHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLAHPITGEMMEWYAPLPD 302
>gi|421537655|ref|ZP_15983838.1| pseudouridine synthase [Neisseria meningitidis 93003]
gi|402318322|gb|EJU53845.1| pseudouridine synthase [Neisseria meningitidis 93003]
Length = 374
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 127/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWSGTLLNGLLAHCPELS-----QIPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLSAQ----------------NSLVRQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL GDP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAGDPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 301 AYRLSFTHPESGETVSFEAPIP 322
>gi|449909060|ref|ZP_21794129.1| putative pseudouridylate synthase [Streptococcus mutans OMZ175]
gi|450088979|ref|ZP_21854975.1| putative pseudouridylate synthase [Streptococcus mutans NV1996]
gi|450126371|ref|ZP_21868162.1| putative pseudouridylate synthase [Streptococcus mutans U2A]
gi|450134559|ref|ZP_21871082.1| putative pseudouridylate synthase [Streptococcus mutans NLML8]
gi|449149299|gb|EMB53107.1| putative pseudouridylate synthase [Streptococcus mutans NLML8]
gi|449216064|gb|EMC16217.1| putative pseudouridylate synthase [Streptococcus mutans NV1996]
gi|449231604|gb|EMC30777.1| putative pseudouridylate synthase [Streptococcus mutans U2A]
gi|449261781|gb|EMC59245.1| putative pseudouridylate synthase [Streptococcus mutans OMZ175]
Length = 296
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 93/312 (29%), Positives = 154/312 (49%), Gaps = 59/312 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLI 75
++I+ G + V+G+ + +++++ P +E ++P LE++YED+D+
Sbjct: 29 EQIKAGLVWVNGKTQKAKYAVKEG--DIIHYERPQEEVLDCVAQNIP--LEIVYEDEDVA 84
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ A
Sbjct: 85 VINKPQGMVVHPSVGHPSGTLVNALLFHI-KDLSSING-VIRPGIVHRIDKDTSGLLMIA 142
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A EL ++K + Y ALVHG + D+ +I+ PIG
Sbjct: 143 KNDQAHQALA----------------KELKEKKSLRQYIALVHGNLPNDRGVIEAPIG-- 184
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R K V + GK A++ VLER Q +LV++ +++GR HQIR+H+A++GHP+
Sbjct: 185 RSEKDRKKQTVTA-KGKSAVTHFKVLERFGQ--YSLVELTLETGRTHQIRVHMAYIGHPI 241
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
GDPLY P + G G +LHA L +HP T E+
Sbjct: 242 AGDPLYA-------------------------PKKTLKGQ-GQFLHAKTLGFTHPKTGEL 275
Query: 316 IKITAPLPSVLK 327
++ T +P + +
Sbjct: 276 MQFTTEVPVIFQ 287
>gi|292669557|ref|ZP_06602983.1| ribosomal large subunit pseudouridine synthase D [Selenomonas noxia
ATCC 43541]
gi|292648766|gb|EFF66738.1| ribosomal large subunit pseudouridine synthase D [Selenomonas noxia
ATCC 43541]
Length = 302
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 95/314 (30%), Positives = 145/314 (46%), Gaps = 58/314 (18%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLP------WKEPDVPYLLEVLYE 70
+ + QR I+ ++TVDG N L G E V LP + ++P L++LYE
Sbjct: 27 RSYAQRLIEEKRVTVDG-TPRKANYKLRGG-ECVACDLPPVEEVSVRAENIP--LDILYE 82
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D D+I +NKP G+ V P T++N L + S + A P VHRL + TSG
Sbjct: 83 DADIIVVNKPRGMVVHPAAGISGGTLVNALLYHCRDLSGI--NGALRPGIVHRLDKDTSG 140
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
++ AK A +A ++ +++ + YRA+V+G + E II
Sbjct: 141 VMAAAKNDAAHRSLA----------------EQIQKKEARREYRAIVYGNIAERAGIITG 184
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
IG R+P K + + +GK A + +VLER T V +++GR HQIR+H+
Sbjct: 185 DIG--RHPTDRKRMAIVRENGKHATTHFEVLER--FGGYTFVACRLETGRTHQIRVHMTS 240
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHPL+GD Y + P + G LH+ L L+HP
Sbjct: 241 IGHPLVGDAKYTSKKNPFAI-------------------------AGQALHSLTLTLAHP 275
Query: 311 TTNEVIKITAPLPS 324
+ E + TAPLP+
Sbjct: 276 RSGEEMAFTAPLPA 289
>gi|228922645|ref|ZP_04085945.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar huazhongensis BGSC 4BD1]
gi|423582102|ref|ZP_17558213.1| RluA family pseudouridine synthase [Bacillus cereus VD014]
gi|423635337|ref|ZP_17610990.1| RluA family pseudouridine synthase [Bacillus cereus VD156]
gi|228837074|gb|EEM82415.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar huazhongensis BGSC 4BD1]
gi|401212981|gb|EJR19722.1| RluA family pseudouridine synthase [Bacillus cereus VD014]
gi|401278088|gb|EJR84024.1| RluA family pseudouridine synthase [Bacillus cereus VD156]
Length = 302
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 84/263 (31%), Positives = 127/263 (48%), Gaps = 49/263 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
LE+ YED D++ +NKP G+ V P T++N L + S + P VHR+
Sbjct: 81 LEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGIMRPGIVHRI 138
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK +A +S V +L + +T+ Y+A+VHG++ D
Sbjct: 139 DKDTSGLLMVAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHD 182
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PI R + + V +GK A++ VLER ++ TLV+ +++GR HQI
Sbjct: 183 KGTIDAPIA--RDKKERQSMTV-DENGKNAVTHFQVLER--FKDFTLVECRLETGRTHQI 237
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G+PL GDP Y G K+ D G LHA
Sbjct: 238 RVHMKYIGYPLAGDPKY---GPKKTLDMN-----------------------GQALHAGI 271
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T E I+ AP+P V +
Sbjct: 272 LGFDHPRTGEYIQFEAPIPEVFE 294
>gi|334340921|ref|YP_004545901.1| RluA family pseudouridine synthase [Desulfotomaculum ruminis DSM
2154]
gi|334092275|gb|AEG60615.1| pseudouridine synthase, RluA family [Desulfotomaculum ruminis DSM
2154]
Length = 309
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 95/314 (30%), Positives = 148/314 (47%), Gaps = 52/314 (16%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+ ++Q+ I+ G++TV+ + N L AG + P +E V L++ YED D
Sbjct: 30 RSYVQKLIEEGRVTVNDNP-SKANYKLRAGDRVQLEVPPAEELRVEPEKIPLDIYYEDAD 88
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NK G+ V P T++N L + S + P VHRL + TSG+++
Sbjct: 89 VVVVNKVRGMVVHPAEGNHSGTLVNALLYHCRDLSGI--NGILRPGIVHRLDKDTSGLIM 146
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK A C+ D+T +T+ Y AL HG++ E+K I PIG
Sbjct: 147 VAKNDHAHQCLTQQLKDRT----------------VTRRYTALAHGVIKEEKGTIDAPIG 190
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R P + + V + K A++ VLER + TL + +++GR HQIR+H+A++ H
Sbjct: 191 --RDPRERQRMAVVEKNSKSAVTHYRVLER--FQYYTLAECRLETGRTHQIRVHMAYIKH 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL+GDP Y G K+ F D G LHA L +HP+T
Sbjct: 247 PLVGDPKY---GPAKAH--------FGLD--------------GQLLHAGVLGFTHPSTG 281
Query: 314 EVIKITAPLPSVLK 327
+ +APLP V +
Sbjct: 282 AYLSFSAPLPDVFE 295
>gi|307127518|ref|YP_003879549.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae 670-6B]
gi|306484580|gb|ADM91449.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pneumoniae 670-6B]
Length = 295
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 91/311 (29%), Positives = 152/311 (48%), Gaps = 57/311 (18%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHR-----LPWKEPDVPYLLEVLYEDDDLIA 76
++I++GQ+ V+G+V + G + YH L + D+P LE++Y+D+D+
Sbjct: 29 EQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVAEDLP--LEIVYQDEDVAV 85
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
+NKP G+ V P T++N L + K S ++ P VHR+ + TSG+L+ AK
Sbjct: 86 VNKPQGMVVHPSAGHTSGTLVNALMYHI-KDLSGING-VLRPGIVHRIDKDTSGLLMIAK 143
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
A +A DK S+ + Y A+VHG + D+ +I+ IG R
Sbjct: 144 NDDAHLALAQELKDKKSL----------------RKYWAIVHGNLPNDRGVIEASIG--R 185
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
K V + GKPA+++ VLER + +LV++++++GR HQIR+H+A++GH +
Sbjct: 186 SEKDRKKQAVTA-KGKPAVTRFHVLER--FGDYSLVELQLETGRTHQIRVHMAYIGHSVA 242
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ G +LHA L +HP T + +
Sbjct: 243 GDEVY---GPRKTLKGH-----------------------GQFLHAKTLGFTHPRTGKTL 276
Query: 317 KITAPLPSVLK 327
+ A +P + K
Sbjct: 277 EFKADIPEIFK 287
>gi|229918562|ref|YP_002887208.1| RluA family pseudouridine synthase [Exiguobacterium sp. AT1b]
gi|229469991|gb|ACQ71763.1| pseudouridine synthase, RluA family [Exiguobacterium sp. AT1b]
Length = 303
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 95/313 (30%), Positives = 144/313 (46%), Gaps = 59/313 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
+Q W I+ G + V+G V N L G E+ + L D+P LE+++ED
Sbjct: 29 VQEW---IKTGALLVNGSAVK-ANYKLQVGDEVEVNVPEAVELEVLPEDIP--LEIVFED 82
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
+D+I +NK G+ V P T++N L + S + P VHR+ + T+G+
Sbjct: 83 EDVIVVNKARGMVVHPAAGHTSGTLVNALLYHCDDLSGI--NGVKRPGIVHRIDKDTTGL 140
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK LA +A DKT I + Y ALVHG + + I+ P
Sbjct: 141 LMVAKNDLAHESLASQLKDKT----------------IKREYIALVHGELVHELGTIEAP 184
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R + + V + K A++ +LER ++ TLV+ ++++GR HQIR+H+ ++
Sbjct: 185 IG--RDTNDRQRMTVTDRNAKEAVTHFRLLER--YKDFTLVECKLETGRTHQIRVHMRYI 240
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPL GDP Y G ++ D G LHA L HP
Sbjct: 241 GHPLAGDPKY---GPRRTIDL-----------------------GGQALHAATLGFHHPR 274
Query: 312 TNEVIKITAPLPS 324
T E ++ APLP
Sbjct: 275 TKEWMEFEAPLPE 287
>gi|85860531|ref|YP_462733.1| ribosomal large subunit pseudouridine synthase D [Syntrophus
aciditrophicus SB]
gi|85723622|gb|ABC78565.1| ribosomal large subunit pseudouridine synthase D [Syntrophus
aciditrophicus SB]
Length = 333
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 95/314 (30%), Positives = 151/314 (48%), Gaps = 45/314 (14%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYE 70
+ LQR I++G++T+ G+ + L G ++V P P D+P L +LYE
Sbjct: 34 RARLQRLIESGRVTISGKAAIRASQKLRTG-DIVMLEEPPATPLELIPQDIP--LSILYE 90
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
D DL+ L+KP+GL V P T++N L + + P VHRL + TSG
Sbjct: 91 DHDLLVLDKPAGLVVHPAAGHVSGTLVNALLFHCRDLAGI--GGVMRPGIVHRLDKDTSG 148
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+L+ AKT A +A ++ + ++ K Y+ALV+G E I
Sbjct: 149 LLVVAKTDAAHQGLA----------------LQFKKHQVGKTYQALVYGDPREKTGQIDL 192
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
P+G R+P K + S GK A ++ + ER TL+ V+I +GR HQIR+HLA
Sbjct: 193 PVG--RHPVERKKMSTKSRRGKEAATRWRIAER--FGVATLLNVDIVTGRTHQIRVHLAA 248
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHP++GD +Y + + + G + LHA +L +HP
Sbjct: 249 IGHPVVGDAVYGSSKRATTLTDPAVKGRLKEMSRQA-------------LHAARLSFTHP 295
Query: 311 TTNEVIKITAPLPS 324
T+++++ APLP+
Sbjct: 296 VTHKILEFHAPLPA 309
>gi|341584457|ref|YP_004764948.1| Ribosomal large subunit pseudouridine synthases RluD subfamily
protein [Rickettsia heilongjiangensis 054]
gi|340808682|gb|AEK75270.1| Ribosomal large subunit pseudouridine synthases RluD subfamily
protein [Rickettsia heilongjiangensis 054]
Length = 313
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 81/311 (26%), Positives = 151/311 (48%), Gaps = 52/311 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD------VPYLLEVLYEDDDLIAL 77
I++ Q+ V+ +++DP++++ + + +KEP+ L+++YEDDDLI +
Sbjct: 35 IKDSQVLVNDVIISDPDVLVKENDSIFF---SFKEPEELKIATANVALDIIYEDDDLIVI 91
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK +G+ V PG T++N L S SS+ P VHRL + T+G+++ AK
Sbjct: 92 NKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSE--RPGIVHRLDKDTTGLMVVAKN 149
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ QR++ + Y+ LV G+++ + +IK IG R
Sbjct: 150 NKAHMLLAN----------------QIEQRQVIRKYKVLVWGVINPLEGVIKNNIG--RS 191
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + + GK A++ LE + + ++V+ ++ +GR HQIR+ L+ L H ++G
Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKTLELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSVVG 251
Query: 258 DPLYVAGGQ-----PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
D Y + P ++ D ++R LH++ L HPT+
Sbjct: 252 DQTYGNNDRKIAHSPPELKAKLID--------FKRQA----------LHSWYLSFIHPTS 293
Query: 313 NEVIKITAPLP 323
NE+++ + LP
Sbjct: 294 NEIMEFSCELP 304
>gi|416183900|ref|ZP_11612806.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis M13399]
gi|421556926|ref|ZP_16002835.1| pseudouridine synthase [Neisseria meningitidis 80179]
gi|325133782|gb|EGC56438.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis M13399]
gi|402335611|gb|EJU70875.1| pseudouridine synthase [Neisseria meningitidis 80179]
Length = 356
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 127/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 84 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QIPRAGIV 138
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 139 HRLDKETSGLMVVAKTLSAQ----------------NSLVRQLQERTVKRIYRAVANGIV 182
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 183 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLTH--SYIECSLETGRT 237
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL GDP+Y G P+ + G + LH
Sbjct: 238 HQIRVHMREANHPLAGDPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 282
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 283 AYRLSFTHPESGETVSFEAPIP 304
>gi|424885737|ref|ZP_18309348.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM2012]
gi|393177499|gb|EJC77540.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM2012]
Length = 341
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 94/315 (29%), Positives = 147/315 (46%), Gaps = 44/315 (13%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLIAL 77
I++GQ+ + G V DP + G LP E D+P L++L+ED+D+I +
Sbjct: 46 IKDGQVFLRGEPVTDPQRKVRNGDSFEI-TLPEPEDPTPQGEDIP--LDILHEDEDVIVI 102
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
+KPSGL V PG T++N L + S + P VHRL + T+G+++ AK
Sbjct: 103 SKPSGLVVHPGAGNWTGTLVNALIYHCGDTLSGIGG-VRRPGIVHRLDKDTTGVMVVAKN 161
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+A ++ FAD + + + Y+A+V G + P+G R
Sbjct: 162 DIAHRHLSLQFADHGRTM------------PLERAYQAVVWGRPRSLTGTVDAPLG--RA 207
Query: 198 PGVAKGLYVASPS---GKPALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIRIHLA 249
G V P A++ +V+ER D +LV+ +++GR HQIR+H+A
Sbjct: 208 TGDRTRRAVKRPDSHDADEAITHYEVIERFQENPDATALASLVECHLETGRTHQIRVHMA 267
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
+GHPLLGD +Y AG + K+ + + G+ R LHA+ L H
Sbjct: 268 HIGHPLLGDTVYGAGFKTKA--NRLPEDIRKVVNGFNRQA----------LHAFMLQFEH 315
Query: 310 PTTNEVIKITAPLPS 324
P T E++ APLP
Sbjct: 316 PRTGEIMHFEAPLPE 330
>gi|294660309|ref|NP_852991.2| pseudouridine synthase [Mycoplasma gallisepticum str. R(low)]
gi|385325310|ref|YP_005879748.1| Pseudouridine synthase [Mycoplasma gallisepticum str. R(high)]
gi|284811965|gb|AAP56559.2| Pseudouridine synthase [Mycoplasma gallisepticum str. R(low)]
gi|284930466|gb|ADC30405.1| Pseudouridine synthase [Mycoplasma gallisepticum str. R(high)]
Length = 311
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 85/302 (28%), Positives = 144/302 (47%), Gaps = 70/302 (23%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGS--ELVYHR----------LPWKEPDVPYLLEVLYED 71
I N + V+ ++VN N +L G EL Y LP+ + L+++YED
Sbjct: 35 ILNDLVKVNKKLVNKNNFVLKVGDVVELEYEESIFNKVSNEILPFNKK-----LDIVYED 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DDLI +NKP+ + P + T+LN L + KQ L+ HRL + T+G+
Sbjct: 90 DDLIIVNKPTNMLSHPTTHNEPDTLLNCLMYHNKKQKVYLA---------HRLDKDTTGL 140
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ K A I ++++R + + Y A+VH +E + +I P
Sbjct: 141 IVATKNFKALEKIQE----------------QITKRIMKRYYLAIVHYPFNELRAVIDAP 184
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG ++ + G+ + + K A++K+ VL+++ + L++ E+ +GR HQIR+H+ F+
Sbjct: 185 IGYLKDHDLKFGV-ENTKNPKNAITKIYVLDQN--KKYALIKCELLTGRTHQIRVHMDFI 241
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
H ++ DPLY G+ ++ D +LHAYQL L+HPT
Sbjct: 242 KHNIINDPLYGVKGEQRT-------------------------DYKQFLHAYQLELTHPT 276
Query: 312 TN 313
TN
Sbjct: 277 TN 278
>gi|157964996|ref|YP_001499820.1| ribosomal large subunit pseudouridine synthases RluD subfamily
protein [Rickettsia massiliae MTU5]
gi|157844772|gb|ABV85273.1| Ribosomal large subunit pseudouridine synthases RluD subfamily
protein [Rickettsia massiliae MTU5]
Length = 313
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 81/311 (26%), Positives = 152/311 (48%), Gaps = 52/311 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD------VPYLLEVLYEDDDLIAL 77
I++ Q+ V+ +++DP++++ +++ +KEP+ L+++YEDDDLI +
Sbjct: 35 IKDSQVLVNDVIISDPDVLVKENDIILF---SFKEPEELKIAAANVALDIIYEDDDLIVI 91
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK +G+ V PG T++N L S SS+ P VHRL + T+G+++ AK
Sbjct: 92 NKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSE--RPGIVHRLDKDTTGLMVVAKN 149
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ QR++ + Y+ LV G+++ + +IK IG R
Sbjct: 150 NKAHMLLAN----------------QIEQRQVIRKYKVLVWGVINPLEGVIKNNIG--RS 191
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + + GK A++ LE + + ++V+ ++ +GR HQIR+ L+ L H ++G
Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKTLELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSVVG 251
Query: 258 DPLYVAGGQ-----PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
D Y + P ++ D ++R LH++ L +HPT+
Sbjct: 252 DQTYGNNDRKIAHSPPELKAKLID--------FKRQA----------LHSWYLSFTHPTS 293
Query: 313 NEVIKITAPLP 323
NE++ + LP
Sbjct: 294 NEIMAFSCKLP 304
>gi|408411254|ref|ZP_11182423.1| Pseudouridine synthase [Lactobacillus sp. 66c]
gi|407874547|emb|CCK84229.1| Pseudouridine synthase [Lactobacillus sp. 66c]
Length = 302
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 92/308 (29%), Positives = 150/308 (48%), Gaps = 57/308 (18%)
Query: 25 QNGQITVDGRVVNDPNIILSAGSELVYHRLPWK----EPD-VPYLLEVLYEDDDLIALNK 79
Q GQ+ V+G+ + + AG ++ + LP + EP+ +P L+++YEDDD+I +NK
Sbjct: 36 QAGQVLVNGKKAK-VSYKVEAGDQIEVNILPLEPLDLEPENIP--LDIVYEDDDVIVVNK 92
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
P G+ V P T++N L + + S + P VHR+ + TSG+L+ AK
Sbjct: 93 PQGMVVHPAAGHPNHTLVNALLYHTRDLADS--PEGFRPGIVHRIDKDTSGLLMVAKNAK 150
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPG 199
A+ +S +L+Q+ +IY ++VHG E + PI R P
Sbjct: 151 AR----------------ESLEAQLAQKSNKRIYLSIVHGNFAEKSGTVDAPIA--RNPR 192
Query: 200 VAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDP 259
K + V +GK A++ VLE+ +L++ ++++GR HQIR+H+A++GHPL GDP
Sbjct: 193 DRKQMAVVE-NGKNAVTHFKVLEQ--YPGYSLIECQLETGRTHQIRVHMAYIGHPLAGDP 249
Query: 260 LYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKIT 319
LY P +PG G +LHA L PTT + ++ +
Sbjct: 250 LY-------------------------GPRKTLPGH-GQFLHAQTLGFEQPTTGQWLEFS 283
Query: 320 APLPSVLK 327
P V +
Sbjct: 284 VEPPEVFQ 291
>gi|282850533|ref|ZP_06259912.1| pseudouridine synthase, RluA family [Veillonella parvula ATCC
17745]
gi|282580026|gb|EFB85430.1| pseudouridine synthase, RluA family [Veillonella parvula ATCC
17745]
Length = 307
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 96/313 (30%), Positives = 146/313 (46%), Gaps = 61/313 (19%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--------DVPYLLEVLYEDDDLI 75
I+ G +TV G+V N+ L+ + + R+ EP D+P L+ LYED D++
Sbjct: 34 IKGGHVTVGGKV-GKANLRLTPDTII---RVEIPEPESIEVKPEDIP--LDYLYEDHDIV 87
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP G+ V P T++N L + K S ++ + P VHRL + TSG+++ A
Sbjct: 88 IVNKPRGMVVHPAVGNYSGTLVNALLFHC-KDLSGINGEIR-PGIVHRLDKDTSGVMMVA 145
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K A +A ++ + Y ALV G + E+K IK PIG
Sbjct: 146 KNDAAHIGLA----------------EQVKTHSARRTYWALVQGNIVEEKGTIKAPIG-- 187
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R+P + V + K A++ VLER + TLV+ +++GR HQIR+H A +GHP+
Sbjct: 188 RHPKDRMKMAVVFENSKDAVTHFKVLERYGHQ--TLVECNLETGRTHQIRVHFAHIGHPV 245
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
+ DP Y GY R P+ G LH+ L + HP T E
Sbjct: 246 VNDPFY----------------------GYRRMDFPIEGQA---LHSKSLDVKHPITGEE 280
Query: 316 IKITAPLPSVLKT 328
+ AP+P+ K
Sbjct: 281 MHFEAPIPADFKA 293
>gi|91783470|ref|YP_558676.1| ribosomal large subunit pseudouridine synthase D [Burkholderia
xenovorans LB400]
gi|91687424|gb|ABE30624.1| ribosomal large subunit pseudouridine synthase D [Burkholderia
xenovorans LB400]
Length = 438
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 105/324 (32%), Positives = 160/324 (49%), Gaps = 62/324 (19%)
Query: 17 LQGWLQRIQNGQITVDGR--VVNDPNIILSAGSELVYHRLPWK---EPDVPYLLEVLYED 71
LQ W I+ ++ +DG+ + P + L A ELV LP + P+ P LE++YED
Sbjct: 95 LQSW---IEAERVRIDGKPAKIRQP-VPLGATIELVPDLLPEQLAFTPE-PVPLEIIYED 149
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
D L+ +NKP+G+ V P T+LN L +R ++ L VHRL + TSG+
Sbjct: 150 DTLVVINKPAGMVVHPAAGNWSGTLLNGLLYRYGDAAAGLPRAGI----VHRLDKETSGL 205
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ A+T A+T + V +L R + + Y ALV G + E+ I P
Sbjct: 206 MVVARTLEAQTDL----------------VRQLQARTVKRRYLALVWGNMPEEGTI-DAP 248
Query: 192 IGIVRYP-GVAKGLYVASPSGKPA---LSKVD--VLERDVQRNCTLVQVEIQSGRPHQIR 245
IG R P + V S +GKPA +VD + ER + T + ++++GR HQIR
Sbjct: 249 IG--RDPRERTRMAVVTSAAGKPARTHFRRVDSAIWER---QPVTAIHCDLETGRTHQIR 303
Query: 246 IHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY-YLHAYQ 304
+H A +GHPLLGDP+Y G+ + +R V P+PG LHA++
Sbjct: 304 VHCAHIGHPLLGDPVY---GRARG----------------KRSVTPLPGGFARQALHAWR 344
Query: 305 LFLSHPTTNEVIKITAPLPSVLKT 328
L L HP T ++ A +P ++
Sbjct: 345 LGLIHPKTGRTMQWRADVPEDMEA 368
>gi|153810897|ref|ZP_01963565.1| hypothetical protein RUMOBE_01281 [Ruminococcus obeum ATCC 29174]
gi|149833293|gb|EDM88375.1| pseudouridine synthase, RluA family [Ruminococcus obeum ATCC 29174]
Length = 304
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 88/311 (28%), Positives = 144/311 (46%), Gaps = 51/311 (16%)
Query: 18 QGWLQRI-QNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP---YLLEVLYEDDD 73
+ +LQ++ ++G ++V+ R+V N G ++ + + PD+ L++LYED
Sbjct: 30 RSYLQKLLKDGAVSVNTRIVK-ANYKTQPGDHVILNIPDLQTPDIKPENIPLDILYEDQW 88
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
L+ +NKP + V P + T++N + S ++ P VHR+ + T+G LL
Sbjct: 89 LMVVNKPKDMVVHPSAGHMEGTLVNAVMAHCGDNLSGING-VMRPGIVHRIDKDTTGALL 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
K + +A +L + I + YRA+V G + ED+ + PIG
Sbjct: 148 ICKDDMVHRNLAE----------------QLKEHSIKRRYRAIVQGNIKEDEGTVDAPIG 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P K + + +GK A++ VLER Q T ++ +++GR HQIR+H+A LGH
Sbjct: 192 --RHPIDRKKMAINHKNGKEAVTHYKVLERFGQ--TTYIECRLETGRTHQIRVHMASLGH 247
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PLLGD +Y + P G LHA L HP T
Sbjct: 248 PLLGDTVYGSSKNPYHLQ-------------------------GQALHAMILGFIHPVTG 282
Query: 314 EVIKITAPLPS 324
E ++ AP+P
Sbjct: 283 EYMEFEAPIPE 293
>gi|315655527|ref|ZP_07908426.1| ribosomal large subunit pseudouridine synthase D [Mobiluncus
curtisii ATCC 51333]
gi|315490182|gb|EFU79808.1| ribosomal large subunit pseudouridine synthase D [Mobiluncus
curtisii ATCC 51333]
Length = 304
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 104/320 (32%), Positives = 148/320 (46%), Gaps = 54/320 (16%)
Query: 21 LQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD----VPYL-----LEVLYED 71
L R + G + G V+ D + + +V + L P+ VP + L +LY D
Sbjct: 26 LSRAKAGALLESGAVIQDGETLKKSDQLVVGNLLEIDIPEPTGYVPEVTRVDNLGILYAD 85
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DDL+ ++KP+G+ G ++ TV+ L RA+ S S VHRL GTSG
Sbjct: 86 DDLVVVDKPAGVAAHTGPGWEGPTVVGAL--RAAGIRVSTSGPVEREGIVHRLDAGTSGA 143
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AK++LA + F ++ KIY AL G V I P
Sbjct: 144 MVVAKSELAYGKLKNEF----------------RYHRVEKIYTALATGGVKPPVGTIDAP 187
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R PG + V S GKPA++ DV+E TL++V++++GR HQIR+HLA +
Sbjct: 188 IG--RAPGREFKMAVVS-GGKPAVTHYDVIEE--LPGATLLKVQLETGRTHQIRVHLAAI 242
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPL+GD Y AD A G ER +LHA +L HP
Sbjct: 243 GHPLVGDTEY------------GADRKTAARLGLER----------QWLHASRLAFKHPR 280
Query: 312 TNEVIKITAPLPSVLKTREE 331
T + + APLP+ L T E
Sbjct: 281 TGLEVAVQAPLPADLATAVE 300
>gi|206976765|ref|ZP_03237669.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus H3081.97]
gi|423374310|ref|ZP_17351648.1| RluA family pseudouridine synthase [Bacillus cereus AND1407]
gi|206745075|gb|EDZ56478.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus H3081.97]
gi|401094222|gb|EJQ02304.1| RluA family pseudouridine synthase [Bacillus cereus AND1407]
Length = 302
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 94/314 (29%), Positives = 148/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDNVVTVNGKAVKG-NYKVRENDEITVTIPEPEELDIQPEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PI
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIA 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKHAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
+ I+ AP+P V +
Sbjct: 281 KYIQFEAPIPEVFE 294
>gi|386316769|ref|YP_006012933.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
dysgalactiae subsp. equisimilis ATCC 12394]
gi|323127056|gb|ADX24353.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
dysgalactiae subsp. equisimilis ATCC 12394]
Length = 297
Score = 119 bits (299), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 91/282 (32%), Positives = 142/282 (50%), Gaps = 52/282 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L ++ D+P L ++YED+ L +NKP G+ V P T++N L + K SS++
Sbjct: 65 LEYQAQDIP--LNIIYEDEALAIINKPQGMVVHPSAGHPSGTMVNALMYHI-KDLSSING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AKT A +A EL +K + Y
Sbjct: 122 -VVRPGIVHRIDKDTSGLLMVAKTDEAHQALAA----------------ELKAKKSLRKY 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ +I+ PIG R K V + GK A+++ VLER + +LV+
Sbjct: 165 LAIVHGNLPNDRGMIEAPIG--RSEKDRKKQAVTA-KGKEAVTRFTVLERF--GDYSLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+++++GR HQIR+H+A++GHP+ GDPLY G K+
Sbjct: 220 LQLETGRTHQIRVHMAYIGHPVAGDPLY---GPRKTLSGH-------------------- 256
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVL-KTREEGRE 334
G +LHA L L+HP T E + T P++ KT ++ R+
Sbjct: 257 ---GQFLHAETLGLTHPLTGEDMLFTVAPPAIFHKTLQQLRQ 295
>gi|421565110|ref|ZP_16010896.1| pseudouridine synthase [Neisseria meningitidis NM3081]
gi|402345439|gb|EJU80556.1| pseudouridine synthase [Neisseria meningitidis NM3081]
Length = 374
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 127/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QIPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLSAQ----------------NSLVRQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLTH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL GDP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAGDPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 301 AYRLSFTHPESGETVSFEAPIP 322
>gi|291519437|emb|CBK74658.1| ribosomal large subunit pseudouridine synthase D [Butyrivibrio
fibrisolvens 16/4]
Length = 305
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 93/313 (29%), Positives = 145/313 (46%), Gaps = 57/313 (18%)
Query: 20 WLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE-----PDVPYLLEVLYEDDDL 74
+ + I NG + V+G+ + G E++ P KE D+P +++LYED D+
Sbjct: 34 YQKAIDNGFVLVNGKQIKS-KYQTKLGDEIIVSIEPVKEIDILPEDIP--IDILYEDSDV 90
Query: 75 IALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLC 134
I +NKP G+ V P T++N L + S ++ + P VHR+ T+G LL
Sbjct: 91 IVVNKPKGMVVHPAPGHYSGTLVNALMYHCKDSLSGINGEIR-PGIVHRIDMNTTGSLLV 149
Query: 135 AKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGI 194
K A IA ++ + +IY+ +V G E++ I IG
Sbjct: 150 CKNDKAHNDIAA----------------QIKVHSVNRIYKGIVVGNFKEEEGTINANIG- 192
Query: 195 VRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHP 254
R P K + V S G+ A++ VLE+ + + VQ ++++GR HQIR+H+A +GHP
Sbjct: 193 -RNPKDRKKMAVVS-DGREAITHYTVLEQ--YKGFSYVQFKLETGRTHQIRVHMAHIGHP 248
Query: 255 LLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNE 314
LLGD +Y G+ PV G G LHA L PTT E
Sbjct: 249 LLGDDVY---GK------------------------PVKGLEGQTLHAQTLGFVQPTTGE 281
Query: 315 VIKITAPLPSVLK 327
+++ APLP+ +
Sbjct: 282 YVEVNAPLPAYFE 294
>gi|251782204|ref|YP_002996506.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
dysgalactiae subsp. equisimilis GGS_124]
gi|417752365|ref|ZP_12400577.1| pseudouridine synthase, RluA family [Streptococcus dysgalactiae
subsp. equisimilis SK1249]
gi|242390833|dbj|BAH81292.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
dysgalactiae subsp. equisimilis GGS_124]
gi|333771893|gb|EGL48794.1| pseudouridine synthase, RluA family [Streptococcus dysgalactiae
subsp. equisimilis SK1249]
Length = 297
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 91/282 (32%), Positives = 142/282 (50%), Gaps = 52/282 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L ++ D+P L ++YED+ L +NKP G+ V P T++N L + K SS++
Sbjct: 65 LEYQAQDIP--LNIIYEDEALAIINKPQGMVVHPSAGHPSGTMVNALMYHI-KDLSSING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AKT A +A EL +K + Y
Sbjct: 122 -VVRPGIVHRIDKDTSGLLMVAKTDEAHQALAA----------------ELKAKKSLRKY 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ +I+ PIG R K V + GK A+++ VLER + +LV+
Sbjct: 165 LAIVHGNLPNDRGMIEAPIG--RSEKDRKKQAVTA-KGKEAVTRFTVLERF--GDYSLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+++++GR HQIR+H+A++GHP+ GDPLY G K+
Sbjct: 220 LQLETGRTHQIRVHMAYIGHPVAGDPLY---GPRKTLSGH-------------------- 256
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVL-KTREEGRE 334
G +LHA L L+HP T E + T P++ KT ++ R+
Sbjct: 257 ---GQFLHAETLGLTHPLTGEDMLFTVAPPAIFQKTLQQLRQ 295
>gi|424883104|ref|ZP_18306736.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WU95]
gi|392519467|gb|EIW44199.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WU95]
Length = 341
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 94/314 (29%), Positives = 146/314 (46%), Gaps = 44/314 (14%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP------YLLEVLYEDDDLIAL 77
I++GQ+ + G V DP + G L EP+ P L++L+EDDD+I +
Sbjct: 46 IKDGQVFLRGEPVTDPQRKVRTGDSF---ELTLPEPEDPTPQGEDIPLDILHEDDDVIVI 102
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
+KPSGL V PG T++N L S S + P VHRL + T+G+++ AK
Sbjct: 103 SKPSGLVVHPGAGNWTGTLVNALIHHCSDTLSGIGG-VRRPGIVHRLDKDTTGVMVVAKN 161
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+A ++ FAD + + + Y+A+V G ++ P+G R
Sbjct: 162 DIAHRHLSLQFADHGRTM------------PLERAYQAIVWGRPRSLSGMVDAPLG--RA 207
Query: 198 PGVAKGLYVASPSGK---PALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIRIHLA 249
G V P + A++ V+ER D +LV+ +++GR HQIR+H+A
Sbjct: 208 TGDRTRRAVKRPDSQDADEAITHYQVIERFHEKPDATAFASLVECRLETGRTHQIRVHMA 267
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
+GHPLLGD +Y AG + K+ + + G+ R LHA+ L H
Sbjct: 268 HIGHPLLGDTVYGAGFKTKA--NLLPEEIRKVVNGFGRQA----------LHAFMLQFEH 315
Query: 310 PTTNEVIKITAPLP 323
P T E++ PLP
Sbjct: 316 PRTGEIMHFEVPLP 329
>gi|385342295|ref|YP_005896166.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis M01-240149]
gi|385856859|ref|YP_005903371.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis NZ-05/33]
gi|325202501|gb|ADY97955.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis M01-240149]
gi|325207748|gb|ADZ03200.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis NZ-05/33]
Length = 374
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 127/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QIPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLSAQ----------------NSLVRQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL GDP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAGDPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 301 AYRLSFTHPESGETVSFEAPIP 322
>gi|415728858|ref|ZP_11472196.1| hypothetical protein CGSMWGv6119V5_03694 [Gardnerella vaginalis
6119V5]
gi|388064858|gb|EIK87373.1| hypothetical protein CGSMWGv6119V5_03694 [Gardnerella vaginalis
6119V5]
Length = 331
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 84/274 (30%), Positives = 134/274 (48%), Gaps = 45/274 (16%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
+++ Y+D+D++ ++KP G+ + TV L+ R S + + + V RL
Sbjct: 102 MKIAYKDEDIVVVDKPVGMAAHKAQGWCGPTVGEALEKRGISISHTAGDENRRGI-VSRL 160
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
GTSG++L +T LA + FA+ T + K Y ALV G + ++
Sbjct: 161 DAGTSGLMLVCRTDLAYEEMKKQFANHT----------------VKKTYHALVQGDLTQN 204
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I+ PIG + V+ + +P GKPA++ DVLER Q TL V +++GR HQI
Sbjct: 205 KATIEAPIGRAK---VSDFRFTITPDGKPAVTHWDVLERFGQ--ATLASVNLETGRTHQI 259
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H +GHPL+GD +Y G P A+ G R +LH+ +
Sbjct: 260 RVHFTSIGHPLVGDSMY--GANP----------VLAKKLGLTRQ----------WLHSME 297
Query: 305 LFLSHPTTNEVIKITAPLPSVLK-TREEGREVDK 337
L +HP T ++I++ + PS L+ E RE+ K
Sbjct: 298 LIFTHPRTGKIIRVESNYPSDLQHALEAMRELSK 331
>gi|416163151|ref|ZP_11606941.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis N1568]
gi|433473105|ref|ZP_20430469.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
97021]
gi|433481654|ref|ZP_20438919.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2006087]
gi|433483638|ref|ZP_20440868.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2002038]
gi|433485839|ref|ZP_20443040.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
97014]
gi|325127790|gb|EGC50698.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis N1568]
gi|432210706|gb|ELK66662.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
97021]
gi|432217485|gb|ELK73353.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2006087]
gi|432221763|gb|ELK77568.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2002038]
gi|432222885|gb|ELK78667.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
97014]
Length = 374
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 127/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QVPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLPAQ----------------NSLVRQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLTH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL GDP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAGDPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 301 AYRLSFTHPESGETVSFEAPIP 322
>gi|304389307|ref|ZP_07371272.1| ribosomal large subunit pseudouridine synthase D [Mobiluncus
curtisii subsp. curtisii ATCC 35241]
gi|304327425|gb|EFL94658.1| ribosomal large subunit pseudouridine synthase D [Mobiluncus
curtisii subsp. curtisii ATCC 35241]
Length = 304
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 105/321 (32%), Positives = 149/321 (46%), Gaps = 56/321 (17%)
Query: 21 LQRIQNGQITVDGRVVNDPNII-----LSAGSELVYHRLPWKEPDVPYL-----LEVLYE 70
L R + G + G V+ D + L+AG+ L+ +P VP L +LY
Sbjct: 26 LSRAKTGALLESGAVIQDGETLKKSDQLAAGN-LLEIDIPEPTGYVPEATRVDNLGILYA 84
Query: 71 DDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSG 130
DDDL+ ++KP+G+ G ++ TV+ L RA+ S S VHRL GTSG
Sbjct: 85 DDDLVVVDKPAGVAAHTGPGWEGPTVVGAL--RAAGIRVSTSGPVEREGIVHRLDAGTSG 142
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
++ AK++LA + F ++ KIY AL G V I
Sbjct: 143 AMVVAKSELAYGKLKNEF----------------RYHRVEKIYTALATGKVKPPVGTIDA 186
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R PG + V S GKPA++ D++E TL++V++++GR HQIR+HLA
Sbjct: 187 PIG--RAPGREFKMAVVS-GGKPAVTHYDIIEE--LPGATLLKVQLETGRTHQIRVHLAA 241
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
+GHPL+GD Y AD A G ER +LHA +L HP
Sbjct: 242 IGHPLVGDTEY------------GADRKTAARLGLER----------QWLHASRLAFKHP 279
Query: 311 TTNEVIKITAPLPSVLKTREE 331
T + + APLP+ L T E
Sbjct: 280 RTGLEVAVQAPLPADLATAVE 300
>gi|449094239|ref|YP_007426730.1| hypothetical protein C663_1590 [Bacillus subtilis XF-1]
gi|449028154|gb|AGE63393.1| hypothetical protein C663_1590 [Bacillus subtilis XF-1]
Length = 303
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 95/307 (30%), Positives = 146/307 (47%), Gaps = 55/307 (17%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-DV---PYLLEVLYEDDDLIAL 77
Q +++GQ+ V+G V N + G ++ +P E DV P L++ YED D++ +
Sbjct: 35 QWVKDGQVVVNGSAVK-ANYKIQPGDQVTV-TVPEPEALDVLAEPMDLDIYYEDQDVLVV 92
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 NKPRGMVVHPAPGHLTGTLVNGLMAHCTDLSGI--NGVMRPGIVHRIDKDTSGLLMVAKN 150
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+A +S V +L + +T+ Y A+VHG++ D I PIG R
Sbjct: 151 DMAH----------------ESLVNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIG--RD 192
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + V + GK A++ VLER ++ TLV+ ++++GR HQIR+H+ ++G PL G
Sbjct: 193 KKDRQSMTV-TRDGKSAVTHFHVLER--FQDFTLVECQLETGRTHQIRVHMKYIGFPLAG 249
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP Y G K+ D G LHA L HP T E ++
Sbjct: 250 DPKY---GPRKTIDFN-----------------------GQALHAGVLGFDHPRTGEYVE 283
Query: 318 ITAPLPS 324
APLP
Sbjct: 284 FEAPLPE 290
>gi|398304126|ref|ZP_10507712.1| pseudouridylate synthase [Bacillus vallismortis DV1-F-3]
Length = 303
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 97/307 (31%), Positives = 146/307 (47%), Gaps = 55/307 (17%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-DV---PYLLEVLYEDDDLIAL 77
Q +++GQI V+G V N + G ++ +P E DV P L++ YED D++ +
Sbjct: 35 QWVKDGQIVVNGSPVK-SNYKIQPGDQVTV-TVPEPEALDVLAEPMDLDIYYEDQDVLVV 92
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 NKPRGMVVHPAPGHLTGTLVNGLMAHCTDLSGI--NGVMRPGIVHRIDKDTSGLLMVAKN 150
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+A +S V +L + +T+ Y A+VHG++ D I PIG R
Sbjct: 151 DMAH----------------ESLVNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIG--RD 192
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + VA GK A++ VLER ++ TLV+ ++++GR HQIR+H+ ++G PL G
Sbjct: 193 KKDRQSMTVAR-DGKNAVTHFHVLER--FQDFTLVECQLETGRTHQIRVHMKYIGFPLAG 249
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP Y G K+ D G LHA L HP T E ++
Sbjct: 250 DPKY---GPRKTIDFN-----------------------GQALHAGILGFDHPRTGEYVE 283
Query: 318 ITAPLPS 324
APLP
Sbjct: 284 FEAPLPD 290
>gi|425445524|ref|ZP_18825552.1| putative enzyme [Microcystis aeruginosa PCC 9443]
gi|389734479|emb|CCI01876.1| putative enzyme [Microcystis aeruginosa PCC 9443]
Length = 308
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 95/311 (30%), Positives = 140/311 (45%), Gaps = 57/311 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL--------LEVLYEDDDLI 75
I+ G I ++G++ + N ++ G RL PD L LE+LYEDD LI
Sbjct: 35 IEQGYIQLNGQICTNKNTKVAQGD-----RLKITIPDSQPLQLSAEAIDLEILYEDDYLI 89
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCA 135
+NKP+ L V P + T++N L + Q P VHRL + T+G ++ A
Sbjct: 90 IINKPADLVVHPAPGHESGTLVNALLHHCPNLAGIGGIQ--RPGIVHRLDKDTTGAIVIA 147
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
KT A + KT+ + Y ALVHG+ + I PIG
Sbjct: 148 KTDQAHQHLQAQLKTKTA----------------RREYMALVHGVPKSETGTIDLPIGRH 191
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
R + G+ A++ + ER N TL++ +++GR HQIR+H + +GHP+
Sbjct: 192 RSDRQKMAIIAVEKGGRNAVTHWQIKER--LGNYTLMEFRLETGRTHQIRVHSSHIGHPI 249
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
LGDPLY +G + G P G LHAY+L L HP T E
Sbjct: 250 LGDPLYSSG----------------RSIGINLP--------GQLLHAYRLILIHPVTGES 285
Query: 316 IKITAPLPSVL 326
++ APLP++
Sbjct: 286 LEAIAPLPAIF 296
>gi|219670033|ref|YP_002460468.1| pseudouridine synthase [Desulfitobacterium hafniense DCB-2]
gi|219540293|gb|ACL22032.1| pseudouridine synthase, RluA family [Desulfitobacterium hafniense
DCB-2]
Length = 334
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 88/273 (32%), Positives = 133/273 (48%), Gaps = 48/273 (17%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
LE+LYED+D++ +NK G+ V P +T++N L + S + P VHR+
Sbjct: 107 LEILYEDEDVLVVNKSQGMVVHPAPGAWTKTLVNALLYHCRNLSGI--NGVLRPGIVHRI 164
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK LA +A ++ + + Y A+VHG+V E
Sbjct: 165 DKDTSGLLVVAKNDLAHQGLA----------------EQIKAHSMARRYLAIVHGVVFEP 208
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
++ PIG R P K + V + K A++ +VLER R+ TL++ +++GR HQI
Sbjct: 209 SGTVEAPIG--RDPADRKKMAVVFQNAKEAVTHYEVLER--FRDFTLLEARLETGRTHQI 264
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+A+L HP+LGDPLY P+ NP G G LHA
Sbjct: 265 RVHMAYLKHPVLGDPLY----GPRK--------------------NPF-GLQGQMLHAQL 299
Query: 305 LFLSHPTTNEVIKITAPLPSVL-KTREEGREVD 336
L HP + E ++ +AP + K EE R D
Sbjct: 300 LGFQHPRSGEYMEFSAPASGMFQKVLEEIRRDD 332
>gi|421892164|ref|ZP_16322866.1| Ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes NS88.2]
gi|379982094|emb|CCG26588.1| Ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes NS88.2]
Length = 296
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 97/310 (31%), Positives = 152/310 (49%), Gaps = 57/310 (18%)
Query: 23 RIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPY-----LLEVLYEDDDLIAL 77
+I+ G + V+G+ + AG + + LP KE + Y LL+++YEDD L +
Sbjct: 30 QIKQGLVLVNGQQ-KKAKYTVQAGDVICF-ELP-KEEVLEYQAQNILLDIIYEDDALAII 86
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + K SS++ P VHR+ + TSG+L+ AKT
Sbjct: 87 NKPQGMVVHPSAGHPSGTMVNALMYHI-KDLSSING-VVRPGIVHRIDKDTSGLLMVAKT 144
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A EL +K + Y A+VHG + D+ +I+ PIG R
Sbjct: 145 DAAHQALA----------------EELKAKKSLRKYLAIVHGNLPNDRGMIEAPIG--RS 186
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
K V + GK A+++ VLER + +LV++++++GR HQIR+H+A++GHP+ G
Sbjct: 187 EKDRKKQAVTA-KGKEAVTRFTVLERF--GDYSLVELQLETGRTHQIRVHMAYIGHPVAG 243
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DPLY G K+ G +LHA L L+HP T + +
Sbjct: 244 DPLY---GPRKTLSGH-----------------------GQFLHAKTLGLTHPMTGKEMI 277
Query: 318 ITAPLPSVLK 327
T P + +
Sbjct: 278 FTVEAPEIFQ 287
>gi|254976188|ref|ZP_05272660.1| putative pseudouridylate synthase [Clostridium difficile QCD-66c26]
gi|255093577|ref|ZP_05323055.1| putative pseudouridylate synthase [Clostridium difficile CIP
107932]
gi|255315322|ref|ZP_05356905.1| putative pseudouridylate synthase [Clostridium difficile QCD-76w55]
gi|255517989|ref|ZP_05385665.1| putative pseudouridylate synthase [Clostridium difficile QCD-97b34]
gi|255651105|ref|ZP_05398007.1| putative pseudouridylate synthase [Clostridium difficile QCD-37x79]
gi|384361812|ref|YP_006199664.1| pseudouridylate synthase [Clostridium difficile BI1]
Length = 315
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 90/318 (28%), Positives = 152/318 (47%), Gaps = 60/318 (18%)
Query: 18 QGWLQRI-QNGQITVDGRV-------VNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLY 69
+ ++Q+I ++G++ V+ +V + NI++ V LP D+P ++++Y
Sbjct: 43 RSYIQKIIKDGKVKVNNKVEKAKYLVKEEDNIVIEIPEPKVLEVLPQ---DIP--IDIVY 97
Query: 70 EDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTS 129
EDDD++ +NKP + V P + T++N + + + SS++ P VHR+ + TS
Sbjct: 98 EDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHCKDKLSSING-VIRPGIVHRIDKDTS 156
Query: 130 GILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIK 189
G+L+ AK A +A +L + IT+ Y + +G+V EDK+ +
Sbjct: 157 GLLMIAKNNYAHNFLAE----------------QLKEHTITREYEFICYGVVKEDKITVD 200
Query: 190 QPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLA 249
+PIG R P + V GK A++ +V+ER T ++ +++GR HQIR+H
Sbjct: 201 KPIG--RNPKDRLKMAVVK-DGKNAITHFEVVER--FDKFTHMRARLETGRTHQIRVHAL 255
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
+ HPLLGD +V G + F + G LHA +L H
Sbjct: 256 SINHPLLGD--FVYGPKETKFKLK-----------------------GQTLHAKKLGFIH 290
Query: 310 PTTNEVIKITAPLPSVLK 327
PTT E I+ + LP K
Sbjct: 291 PTTKEYIEFNSELPEYFK 308
>gi|145631295|ref|ZP_01787067.1| SfhB [Haemophilus influenzae R3021]
gi|144983080|gb|EDJ90580.1| SfhB [Haemophilus influenzae R3021]
Length = 324
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 99/333 (29%), Positives = 159/333 (47%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G + V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRIANIPREKVLGGERIEIIVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + +
Sbjct: 77 EAENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIVEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRILMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLAHPITGEMMEWYAPLPD 302
>gi|409437905|ref|ZP_11265004.1| 23S rRNA pseudouridine synthase [Rhizobium mesoamericanum STM3625]
gi|408750371|emb|CCM76164.1| 23S rRNA pseudouridine synthase [Rhizobium mesoamericanum STM3625]
Length = 316
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 95/322 (29%), Positives = 147/322 (45%), Gaps = 52/322 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP----YLLEVLYEDDDLIALNK 79
I+ GQ++ G+VV DP + G ++ LP E P L++LYED+DLI ++K
Sbjct: 18 IKEGQVSAAGKVVADPQKKVRPG-DIFEILLPDPEDPTPQGENIPLDILYEDEDLIVISK 76
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
P+GL V P T++N L S + P VHRL + T+G+++ AK +
Sbjct: 77 PAGLVVHPAAGNWTGTLVNALIHHCGDSLSGIGG-VRRPGIVHRLDKDTTGVMVVAKNDI 135
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG------ 193
+ ++ F+D + + + Y+A+V G I P+G
Sbjct: 136 SHRHLSLQFSDHGRTM------------PLERAYQAIVWGRPRSLTGTINAPLGRAFGDR 183
Query: 194 ---IVRYPGVAKGLYVASPSGKPALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIR 245
VR PG + A++ +VLER D +LV+ +++GR HQIR
Sbjct: 184 TRRAVRRPG--------TQDADEAITHYEVLERFHENPDATSLASLVECHLETGRTHQIR 235
Query: 246 IHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQL 305
+H+A +GHPLLGD +Y AG + K+ + D + R LHAY L
Sbjct: 236 VHMAHIGHPLLGDTVYGAGFKTKA--NLLPDAAKKTVNAFARQA----------LHAYML 283
Query: 306 FLSHPTTNEVIKITAPLPSVLK 327
HP T EV+ PLP ++
Sbjct: 284 QFEHPRTGEVMHFEVPLPEDME 305
>gi|209965021|ref|YP_002297936.1| ribosomal large subunit pseudouridine synthase D [Rhodospirillum
centenum SW]
gi|209958487|gb|ACI99123.1| ribosomal large subunit pseudouridine synthase D, putative
[Rhodospirillum centenum SW]
Length = 364
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 97/316 (30%), Positives = 152/316 (48%), Gaps = 39/316 (12%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL----LEVLYEDDDLIALNK 79
I G ++ G ++D + + G ++V +P EP VP L +++ED+DL+ ++K
Sbjct: 81 IDQGCVSSGGETIDDASRRVKPG-QIVEVLVPAAEPAVPLPQAIPLAIVHEDEDLLVIDK 139
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
+ + V P T++N L + S + P VHRL +GTSG+L+ AKT
Sbjct: 140 AAEMVVHPAAGNPDGTLVNALLAHCGDRLSGIGG-VRRPGIVHRLDKGTSGLLVAAKTDR 198
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPG 199
A + FAD R +++ Y A+V G+ + +I+ IG R+PG
Sbjct: 199 AHQGLTAQFAD----------------RSLSRTYLAVVWGVPAAREGVIEGNIG--RHPG 240
Query: 200 VAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDP 259
K + V S GKPA+++ V+ R +LV+ ++ +GR HQIR+H+A +GHPL+GDP
Sbjct: 241 DRKRMAVLSRGGKPAVTRYRVV-RSFGLLASLVECKLLTGRTHQIRVHMAHVGHPLVGDP 299
Query: 260 LYVAGGQPKSFDSEFADGTFAQDGGYERPV-NPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
LY P+ G PV + G LHA L HP ++ +
Sbjct: 300 LYGRLRPPRK-------------GTAPEPVLRALAGFPRQALHAAALEFRHPASDLKLGF 346
Query: 319 TAPLPSVLKTREEGRE 334
TA LP L +G E
Sbjct: 347 TAALPEDLAGLIQGLE 362
>gi|417989705|ref|ZP_12630206.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei A2-362]
gi|417996323|ref|ZP_12636604.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei M36]
gi|418015330|ref|ZP_12654905.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei Lpc-37]
gi|410535634|gb|EKQ10251.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei M36]
gi|410537450|gb|EKQ12024.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei A2-362]
gi|410551806|gb|EKQ25849.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei Lpc-37]
Length = 306
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 101/350 (28%), Positives = 167/350 (47%), Gaps = 64/350 (18%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--- 59
+I + T H S +Q WLQ +G +TV+G+ N +++G +++ +P +P
Sbjct: 17 VITAHETTHTRSQ-VQKWLQ---DGLVTVNGQPTK-ANYKVASG-DVIAISIPEAKPLEA 70
Query: 60 -DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
P L+++YEDD +I ++KP G+ V P T++N L + + P
Sbjct: 71 IPEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLPGIN---GVIRP 127
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHR+ + TSG+L+ AKT+ A+ ++ KTS+ + Y ALV
Sbjct: 128 GIVHRIDKDTSGLLMVAKTEKAQLSLSAQLKAKTSI----------------REYLALVR 171
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G ED+ I P+G R P K V + +G+ A++ VLER + T ++ +++
Sbjct: 172 GTFKEDEGTIDAPLG--RDPRDRKRQAVVA-AGRHAVTHFQVLER--FEHYTFIKCILET 226
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+A++ HP+ GDPLY P +PG G
Sbjct: 227 GRTHQIRVHMAYIHHPVAGDPLY-------------------------GPKRTLPGK-GQ 260
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLKTREEGREVDKSVGSERIRGIQ 348
+LHA +L HPTT +++ AP+P + E D G ++ R ++
Sbjct: 261 FLHAAKLGFVHPTTGQLLVFEAPVPPIF----EKTLADLRAGIDKTRNVR 306
>gi|410462720|ref|ZP_11316282.1| dephospho-CoA kinase [Desulfovibrio magneticus str. Maddingley
MBC34]
gi|409984172|gb|EKO40499.1| dephospho-CoA kinase [Desulfovibrio magneticus str. Maddingley
MBC34]
Length = 570
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 91/308 (29%), Positives = 142/308 (46%), Gaps = 48/308 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL-------LEVLYEDDDLIA 76
I+ G + VDG + P + L G L P+ P L++LY D D++
Sbjct: 66 IEAGLVLVDGEICRKPGLKLRGGETLTL-----TLPETPSEAKAEDGDLKLLYLDGDVLV 120
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAK 136
LNKP+GL + P + T++N+L + + P VHRL + TSG+LL A
Sbjct: 121 LNKPAGLTIHPAPSQPEGTLVNRLLHHFPDMRAMAGDR---PGIVHRLDKDTSGLLLVAL 177
Query: 137 TKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVR 196
T+ A+ +A FA +R+++K Y ALVHG + +I+ PIG R
Sbjct: 178 TESARLALAADFA----------------ERRVSKTYLALVHGRPERPDGVIELPIG--R 219
Query: 197 YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
P + V + G+ A S + + +L++V I +GR HQIR+H+A +GHP++
Sbjct: 220 DPKHPTKMAVVAKGGREARSSWKLAWTAPDGSASLLEVTIATGRTHQIRVHMAAMGHPIV 279
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G + D G A+ + LHA++L HP T E +
Sbjct: 280 GDAVY---GARQHSDWTRRGGALARLAKRQ------------MLHAWKLSFEHPGTGEEL 324
Query: 317 KITAPLPS 324
P P+
Sbjct: 325 SFCQPPPA 332
>gi|392307909|ref|ZP_10270443.1| 23S rRNA pseudouridine synthase D [Pseudoalteromonas citrea NCIMB
1889]
Length = 325
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 101/326 (30%), Positives = 156/326 (47%), Gaps = 62/326 (19%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRL-----PWKEPDVPYLLEVLYEDDDLIALN 78
I + +ITVDG V+N P L G + L ++ D+P L ++YEDDD++ +N
Sbjct: 40 ILDDKITVDGEVLNTPREKLLGGEVVAIETLIEAPREYEAQDIP--LNIVYEDDDILVIN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP----VP----VHRLGRGTSG 130
K GL V PG TVLN L HP VP VHRL + T+G
Sbjct: 98 KSMGLVVHPGAGNPDGTVLNALLHH-------------HPDIINVPRAGIVHRLDKDTTG 144
Query: 131 ILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQ 190
+++ AKT A+T + ++ T+ Y AL +G + ++++
Sbjct: 145 LMVVAKTIQAQTHLVKNLQ---------------ARENFTREYEALCNGTMTAGG-MVEK 188
Query: 191 PIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAF 250
PIG R+ + GKPA++ V E+ R T +++ +++GR HQIR+H+A
Sbjct: 189 PIG--RH-ATKRTHMAIHEMGKPAITHYRVAEK--FRAHTRLRLRLETGRTHQIRVHMAH 243
Query: 251 LGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHP 310
L HPL+GD LY GG+P+ + + FAQ ++R LHA +L ++HP
Sbjct: 244 LNHPLIGDQLY--GGRPRPPRNATPE-LFAQLRDFKRQA----------LHAIKLSIAHP 290
Query: 311 TTNEVIKITAPLPSVLKTREEGREVD 336
T EV+ AP+P ++ E D
Sbjct: 291 ITGEVMTWEAPIPDDMQIVTEALRAD 316
>gi|153834660|ref|ZP_01987327.1| ribosomal large subunit pseudouridine synthase D [Vibrio harveyi
HY01]
gi|156973324|ref|YP_001444231.1| 23S rRNA pseudouridine synthase D [Vibrio harveyi ATCC BAA-1116]
gi|388600529|ref|ZP_10158925.1| 23S rRNA pseudouridine synthase D [Vibrio campbellii DS40M4]
gi|444428931|ref|ZP_21224217.1| 23S rRNA pseudouridine synthase D [Vibrio campbellii CAIM 519 =
NBRC 15631]
gi|148868912|gb|EDL67970.1| ribosomal large subunit pseudouridine synthase D [Vibrio harveyi
HY01]
gi|156524918|gb|ABU70004.1| hypothetical protein VIBHAR_01005 [Vibrio harveyi ATCC BAA-1116]
gi|444237840|gb|ELU49491.1| 23S rRNA pseudouridine synthase D [Vibrio campbellii CAIM 519 =
NBRC 15631]
Length = 325
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 96/313 (30%), Positives = 145/313 (46%), Gaps = 50/313 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL G++ V+G VV P + G E+ W+ D+P L+++YED
Sbjct: 36 LKEWLL---AGKVQVNGEVVTKPRTRVMGGEEITLQAELEDEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
+D+I +NKP V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 EDIIVINKPRDFVVHPGAGTPDGTVLNALLHHYPD-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R IT+ Y A+ G + + K P
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRNITREYEAIAIGRMTAGGKVDK-P 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L +P GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 189 IG--RH-STKRTLMAVAPMGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD Y GG+ + G E + G LHA L HP
Sbjct: 244 QHPLLGDTAY--GGRAR-----------IPTGASEELTEMIRGFDRQALHAVMLRFDHPV 290
Query: 312 TNEVIKITAPLPS 324
T E ++ AP+P
Sbjct: 291 TGEELEFHAPVPD 303
>gi|417927830|ref|ZP_12571218.1| pseudouridine synthase, RluA family [Streptococcus dysgalactiae
subsp. equisimilis SK1250]
gi|340765704|gb|EGR88230.1| pseudouridine synthase, RluA family [Streptococcus dysgalactiae
subsp. equisimilis SK1250]
Length = 244
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 91/282 (32%), Positives = 142/282 (50%), Gaps = 52/282 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L ++ D+P L ++YED+ L +NKP G+ V P T++N L + K SS++
Sbjct: 12 LEYQAQDIP--LNIIYEDEALAIINKPQGMVVHPSAGHPSGTMVNALMYHI-KDLSSING 68
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AKT A +A EL +K + Y
Sbjct: 69 -VVRPGIVHRIDKDTSGLLMVAKTDEAHQALAA----------------ELKAKKSLRKY 111
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ +I+ PIG R K V + GK A+++ VLER + +LV+
Sbjct: 112 LAIVHGNLPNDRGMIEAPIG--RSEKDRKKQAVTA-KGKEAVTRFTVLERF--GDYSLVE 166
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+++++GR HQIR+H+A++GHP+ GDPLY G K+
Sbjct: 167 LQLETGRTHQIRVHMAYIGHPVAGDPLY---GPRKTLSGH-------------------- 203
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVL-KTREEGRE 334
G +LHA L L+HP T E + T P++ KT ++ R+
Sbjct: 204 ---GQFLHAETLGLTHPLTGEDMLFTVAPPAIFQKTLQQLRQ 242
>gi|392957456|ref|ZP_10322979.1| hypothetical protein A374_11980 [Bacillus macauensis ZFHKF-1]
gi|391876419|gb|EIT85016.1| hypothetical protein A374_11980 [Bacillus macauensis ZFHKF-1]
Length = 303
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 101/317 (31%), Positives = 154/317 (48%), Gaps = 59/317 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWK-----EPDVPYLLEVLYED 71
+Q W I+ G ITVDG+ + N +SAG E+V +P EP+ LE++YED
Sbjct: 33 VQTW---IKEGAITVDGKQIK-TNYKVSAG-EVVTIIVPDPVTLDVEPE-EMNLEIVYED 86
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
D++ +NKP G+ V P T++N L A + S + P VHR+ + T+G+
Sbjct: 87 GDVLVVNKPRGMVVHPAPGNYSGTLVNGLM--AHCRDLSGINGVLRPGIVHRIDKDTTGL 144
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK +A +S V +L + T+ Y+A+VHG + D+ I P
Sbjct: 145 LMVAKNDMAH----------------ESLVNQLKAKTTTRKYKAIVHGNMPHDRGTIDAP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R + + V + + A++ VLER + T V+ ++++GR HQIR+HL ++
Sbjct: 189 IG--RDKSDRQRMTVTDENSRDAITHFRVLER--FPDFTFVECQLETGRTHQIRVHLKYI 244
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
G PL GDP Y G K+ D +N G LHA L HP
Sbjct: 245 GFPLAGDPKY---GPKKTLD-----------------IN------GQALHAGVLGFDHPR 278
Query: 312 TNEVIKITAPLPSVLKT 328
T E ++ PLPS ++T
Sbjct: 279 TGEYMEFEVPLPSDMET 295
>gi|294790528|ref|ZP_06755686.1| ribosomal large subunit pseudouridine synthase D [Scardovia
inopinata F0304]
gi|294458425|gb|EFG26778.1| ribosomal large subunit pseudouridine synthase D [Scardovia
inopinata F0304]
Length = 311
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 94/309 (30%), Positives = 144/309 (46%), Gaps = 46/309 (14%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD-VPYLLEVLYEDDDLIALNKPSG 82
I GQI++ GR + S S V K P+ + Y + ++YED DL+ ++KP G
Sbjct: 35 IDQGQISLIGRCGLKSEKLQSGDSIRVSLTTSEKAPEPIDYDMGIVYEDGDLVVVDKPVG 94
Query: 83 LQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKT 142
+ + TVL L+ R + Q + V RL GTSG++L K+++A
Sbjct: 95 MAAHQSVGWTGSTVLGSLKARGV-HITDYGPQGRQGI-VSRLDVGTSGLMLVCKSQMAYK 152
Query: 143 CIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAK 202
+ F SQ ++ K Y AL G + EDK + PIG A
Sbjct: 153 EMRRQF----------------SQHEVKKTYYALAQGNLKEDKATVDAPIG---RDSAAD 193
Query: 203 GLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYV 262
+ +P+GKPA++ DV+ER Q T + V +++GR HQIR+H++ LGHPL+GD +Y
Sbjct: 194 FRFTITPAGKPAITHWDVIERFGQ--ATYISVNLETGRTHQIRVHMSSLGHPLVGDSMY- 250
Query: 263 AGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPL 322
G P A+ G R +LH+ +L HP T+ + + + L
Sbjct: 251 -GANP----------VLAEQLGLSRQ----------WLHSMKLDFRHPRTHCPVHLESTL 289
Query: 323 PSVLKTREE 331
P+ L T E
Sbjct: 290 PTDLATALE 298
>gi|227813199|ref|YP_002813208.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. CDC 684]
gi|227006370|gb|ACP16113.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. CDC 684]
Length = 239
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 84/263 (31%), Positives = 127/263 (48%), Gaps = 49/263 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
LE+ YED D++ +NKP G+ V P T++N L + S + P VHR+
Sbjct: 18 LEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRI 75
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK +A +S V +L + +T+ Y+A+VHG++ D
Sbjct: 76 DKDTSGLLMVAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHD 119
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PI R + + V +GK A++ VLER ++ TLV+ +++GR HQI
Sbjct: 120 KGTIDAPIA--RDKKERQSMTV-DENGKHAVTHFQVLER--FKDFTLVECRLETGRTHQI 174
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G+PL GDP Y G K+ D G LHA
Sbjct: 175 RVHMKYIGYPLAGDPKY---GPKKTLDMN-----------------------GQALHAGI 208
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T E I+ AP+P V +
Sbjct: 209 LGFDHPRTGEYIQFEAPIPEVFE 231
>gi|260684170|ref|YP_003215455.1| pseudouridylate synthase [Clostridium difficile CD196]
gi|260687829|ref|YP_003218963.1| pseudouridylate synthase [Clostridium difficile R20291]
gi|260210333|emb|CBA64669.1| putative pseudouridylate synthase [Clostridium difficile CD196]
gi|260213846|emb|CBE05842.1| putative pseudouridylate synthase [Clostridium difficile R20291]
Length = 303
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 90/318 (28%), Positives = 152/318 (47%), Gaps = 60/318 (18%)
Query: 18 QGWLQRI-QNGQITVDGRV-------VNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLY 69
+ ++Q+I ++G++ V+ +V + NI++ V LP D+P ++++Y
Sbjct: 31 RSYIQKIIKDGKVKVNNKVEKAKYLVKEEDNIVIEIPEPKVLEVLPQ---DIP--IDIVY 85
Query: 70 EDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTS 129
EDDD++ +NKP + V P + T++N + + + SS++ P VHR+ + TS
Sbjct: 86 EDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHCKDKLSSING-VIRPGIVHRIDKDTS 144
Query: 130 GILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIK 189
G+L+ AK A +A +L + IT+ Y + +G+V EDK+ +
Sbjct: 145 GLLMIAKNNYAHNFLAE----------------QLKEHTITREYEFICYGVVKEDKITVD 188
Query: 190 QPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLA 249
+PIG R P + V GK A++ +V+ER T ++ +++GR HQIR+H
Sbjct: 189 KPIG--RNPKDRLKMAVVK-DGKNAITHFEVVER--FDKFTHMRARLETGRTHQIRVHAL 243
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
+ HPLLGD +V G + F + G LHA +L H
Sbjct: 244 SINHPLLGD--FVYGPKETKFKLK-----------------------GQTLHAKKLGFIH 278
Query: 310 PTTNEVIKITAPLPSVLK 327
PTT E I+ + LP K
Sbjct: 279 PTTKEYIEFNSELPEYFK 296
>gi|379019751|ref|YP_005295985.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
rickettsii str. Hlp#2]
gi|376332331|gb|AFB29565.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
rickettsii str. Hlp#2]
Length = 313
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 80/311 (25%), Positives = 153/311 (49%), Gaps = 52/311 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD------VPYLLEVLYEDDDLIAL 77
I++ Q+ V+ +++DP++++ +++ +KEP+ L+++YEDDDLI +
Sbjct: 35 IKDSQVLVNDVIISDPDVLVKENDIILF---SFKEPEELKIAAANVALDIIYEDDDLIVI 91
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK +G+ V PG T++N L S SS+ P VHRL + T+G+++ AK
Sbjct: 92 NKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSE--RPGIVHRLDKDTTGLMVVAKN 149
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ Q+++ + Y+ LV G+++ + +IK IG R
Sbjct: 150 NKAHMLLAN----------------QIEQKQVIRKYKVLVWGVINPLEGVIKNNIG--RS 191
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + + GK A++ LE + + ++V+ ++ +GR HQIR+ L+ L H ++G
Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKTLELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSVVG 251
Query: 258 DPLYVAGGQ-----PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
D Y + P ++ D ++R LH++ L +HPT+
Sbjct: 252 DQTYGNNDRKIAYSPPELKTKLID--------FKRQA----------LHSWYLSFTHPTS 293
Query: 313 NEVIKITAPLP 323
NE+++ + LP
Sbjct: 294 NEIMEFSCELP 304
>gi|414152988|ref|ZP_11409315.1| Uncharacterized RNA pseudouridine synthase ylyB [Desulfotomaculum
hydrothermale Lam5 = DSM 18033]
gi|411455370|emb|CCO07217.1| Uncharacterized RNA pseudouridine synthase ylyB [Desulfotomaculum
hydrothermale Lam5 = DSM 18033]
Length = 307
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 97/315 (30%), Positives = 148/315 (46%), Gaps = 56/315 (17%)
Query: 18 QGWLQR-IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE-----PDVPYLLEVLYED 71
+ ++Q+ I +TVD R V N L AG ++ P E ++P L++ YED
Sbjct: 30 RSYIQKLIDEAMVTVDDRPVK-ANHKLKAGEKVCLIVPPAAELKVEPENIP--LDIYYED 86
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
LI +NKP G+ V P T++N L + Q S + P VHRL + TSG+
Sbjct: 87 SHLIVVNKPRGMVVHPADGTVSGTLVNALLYHC--QDLSGINGVMRPGIVHRLDKDTSGL 144
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
L+ AK A +A D+T +T+ Y ALVH + E++ + P
Sbjct: 145 LMVAKNDNAHQALAQQLKDRT----------------VTRRYLALVHNNLKEEQGTVNAP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R P + + V + KPA++ V+ER + TL++ +++GR HQIR+H+++L
Sbjct: 189 IG--RDPRDRQKMAVIERNSKPAVTHYRVVERFGR--YTLIECRLETGRTHQIRVHMSYL 244
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
G PL+GDP Y G F+ + G LHA L HP
Sbjct: 245 GFPLVGDPKY--GPSKPHFNLD-----------------------GQLLHAMVLGFRHPV 279
Query: 312 TNEVIKITAPLPSVL 326
++ ++ TAPLP V
Sbjct: 280 SDTYLEFTAPLPRVF 294
>gi|421542110|ref|ZP_15988220.1| pseudouridine synthase [Neisseria meningitidis NM255]
gi|421544076|ref|ZP_15990154.1| pseudouridine synthase [Neisseria meningitidis NM140]
gi|421546186|ref|ZP_15992235.1| pseudouridine synthase [Neisseria meningitidis NM183]
gi|421548455|ref|ZP_15994480.1| pseudouridine synthase [Neisseria meningitidis NM2781]
gi|421552480|ref|ZP_15998454.1| pseudouridine synthase [Neisseria meningitidis NM576]
gi|421558622|ref|ZP_16004500.1| pseudouridine synthase [Neisseria meningitidis 92045]
gi|402318046|gb|EJU53571.1| pseudouridine synthase [Neisseria meningitidis NM255]
gi|402323921|gb|EJU59359.1| pseudouridine synthase [Neisseria meningitidis NM183]
gi|402324188|gb|EJU59624.1| pseudouridine synthase [Neisseria meningitidis NM140]
gi|402326116|gb|EJU61521.1| pseudouridine synthase [Neisseria meningitidis NM2781]
gi|402331112|gb|EJU66453.1| pseudouridine synthase [Neisseria meningitidis NM576]
gi|402337365|gb|EJU72613.1| pseudouridine synthase [Neisseria meningitidis 92045]
Length = 374
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 126/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIIYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QVPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLPAQ----------------NSLVQQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL DP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAADPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP T E + AP+P
Sbjct: 301 AYRLSFTHPKTGETVSFEAPIP 322
>gi|121587761|ref|ZP_01677521.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
2740-80]
gi|121730333|ref|ZP_01682696.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
V52]
gi|147673459|ref|YP_001216201.1| 23S rRNA pseudouridine synthase D [Vibrio cholerae O395]
gi|153215116|ref|ZP_01949823.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
1587]
gi|153801880|ref|ZP_01956466.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
MZO-3]
gi|153818725|ref|ZP_01971392.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
NCTC 8457]
gi|153826766|ref|ZP_01979433.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
MZO-2]
gi|153829371|ref|ZP_01982038.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
623-39]
gi|227117084|ref|YP_002818980.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
O395]
gi|229525359|ref|ZP_04414764.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
bv. albensis VL426]
gi|229530513|ref|ZP_04419901.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
12129(1)]
gi|254224983|ref|ZP_04918597.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
V51]
gi|254291985|ref|ZP_04962765.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
AM-19226]
gi|262170005|ref|ZP_06037695.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
RC27]
gi|262191805|ref|ZP_06049976.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CT 5369-93]
gi|297580830|ref|ZP_06942756.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
RC385]
gi|384423953|ref|YP_005633311.1| Ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
LMA3984-4]
gi|417819561|ref|ZP_12466177.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HE39]
gi|417823826|ref|ZP_12470418.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HE48]
gi|419835626|ref|ZP_14359071.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-46B1]
gi|421342220|ref|ZP_15792627.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-43B1]
gi|421350538|ref|ZP_15800904.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HE-25]
gi|422921934|ref|ZP_16955139.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
BJG-01]
gi|423733988|ref|ZP_17707204.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-41B1]
gi|423947663|ref|ZP_17733622.1| pseudouridine synthase, RluA family protein [Vibrio cholerae HE-40]
gi|423976933|ref|ZP_17737170.1| pseudouridine synthase, RluA family protein [Vibrio cholerae HE-46]
gi|424008273|ref|ZP_17751223.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-44C1]
gi|424589952|ref|ZP_18029399.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1037(10)]
gi|429887939|ref|ZP_19369444.1| Ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
PS15]
gi|121547988|gb|EAX58068.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
2740-80]
gi|121627915|gb|EAX60491.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
V52]
gi|124114907|gb|EAY33727.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
1587]
gi|124122591|gb|EAY41334.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
MZO-3]
gi|125622370|gb|EAZ50690.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
V51]
gi|126510747|gb|EAZ73341.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
NCTC 8457]
gi|146315342|gb|ABQ19881.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
O395]
gi|148875154|gb|EDL73289.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
623-39]
gi|149739417|gb|EDM53657.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
MZO-2]
gi|150422124|gb|EDN14091.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
AM-19226]
gi|227012534|gb|ACP08744.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
O395]
gi|229332286|gb|EEN97774.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
12129(1)]
gi|229338940|gb|EEO03957.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
bv. albensis VL426]
gi|262021739|gb|EEY40450.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
RC27]
gi|262032292|gb|EEY50859.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CT 5369-93]
gi|297535246|gb|EFH74081.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
RC385]
gi|327483506|gb|AEA77913.1| Ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
LMA3984-4]
gi|340041123|gb|EGR02091.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HE39]
gi|340048455|gb|EGR09377.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HE48]
gi|341647479|gb|EGS71558.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
BJG-01]
gi|395945723|gb|EJH56388.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-43B1]
gi|395954660|gb|EJH65270.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HE-25]
gi|408036141|gb|EKG72588.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
CP1037(10)]
gi|408631758|gb|EKL04286.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-41B1]
gi|408661620|gb|EKL32604.1| pseudouridine synthase, RluA family protein [Vibrio cholerae HE-40]
gi|408666031|gb|EKL36834.1| pseudouridine synthase, RluA family protein [Vibrio cholerae HE-46]
gi|408859039|gb|EKL98709.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-46B1]
gi|408866143|gb|EKM05532.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-44C1]
gi|429225107|gb|EKY31393.1| Ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
PS15]
Length = 324
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 100/316 (31%), Positives = 150/316 (47%), Gaps = 56/316 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL G+I V+G V+ P + G + W+ D+P L ++YED
Sbjct: 36 LKEWLL---EGKIAVNGDVITKPRTKVMGGEVITVQAELEDEQRWEAQDLP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP V PG +TVLN L + ++ VHRL + T+G+
Sbjct: 91 DDIIVINKPRDFVVHPGAGQADKTVLNALLFHYPP-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R +T+ Y A+V G + +I K P
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRDVTREYEAIVIGTMTAGGMIDK-P 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GK A++ V E R T +++ +++GR HQIR+H+A+L
Sbjct: 189 IG--RH-STKRTLMSVSPMGKHAVTHYRVAEH--FREHTRLRLRLETGRTHQIRVHMAYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ PK E + +D ++R LHA L
Sbjct: 244 QHPLLGDTAY--GGRARIPKGATEELTE--MIRD--FDRQA----------LHAVMLKFE 287
Query: 309 HPTTNEVIKITAPLPS 324
HP T E ++ AP+P
Sbjct: 288 HPVTGEELEFHAPVPD 303
>gi|417001126|ref|ZP_11941040.1| pseudouridine synthase, RluA family [Veillonella parvula
ACS-068-V-Sch12]
gi|333975609|gb|EGL76488.1| pseudouridine synthase, RluA family [Veillonella parvula
ACS-068-V-Sch12]
Length = 307
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 94/307 (30%), Positives = 146/307 (47%), Gaps = 57/307 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I+ G +TV G+V N+ L+ + +++ +P E D+P L+ LYED D++ +
Sbjct: 34 IKGGHVTVGGKV-GKANLRLTPDT-VIHVEIPEPESIEVKPEDIP--LDYLYEDHDIVIV 89
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + K S ++ + P VHRL + TSG+++ AK
Sbjct: 90 NKPRGMVVHPAVGNYSGTLVNALLFHC-KDLSGINGEIR-PGIVHRLDKDTSGVMMVAKN 147
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ + Y ALV G + E+K IK PIG R+
Sbjct: 148 DAAHIGLA----------------EQVKAHSARRTYWALVQGNIVEEKGTIKAPIG--RH 189
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P + V + K A++ VLER + TLV+ +++GR HQIR+H A +GHP++
Sbjct: 190 PKDRMKMAVVFENSKDAVTHFKVLERYGHQ--TLVECNLETGRTHQIRVHFAHIGHPVVN 247
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP Y GY R P+ G LH+ L + HP T E +
Sbjct: 248 DPFY----------------------GYRRMDFPIEGQA---LHSKSLDVKHPITGEEMH 282
Query: 318 ITAPLPS 324
AP+P+
Sbjct: 283 FEAPVPA 289
>gi|21910093|ref|NP_664361.1| ribosomal large subunit pseudouridine synthase [Streptococcus
pyogenes MGAS315]
gi|28896209|ref|NP_802559.1| hypothetical protein SPs1297 [Streptococcus pyogenes SSI-1]
gi|71903284|ref|YP_280087.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes MGAS6180]
gi|94994123|ref|YP_602221.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes MGAS10750]
gi|383479819|ref|YP_005388713.1| Ribosomal large subunit pseudouridine synthase protein RluA
[Streptococcus pyogenes MGAS15252]
gi|383493736|ref|YP_005411412.1| Ribosomal large subunit pseudouridine synthase protein RluA
[Streptococcus pyogenes MGAS1882]
gi|21904284|gb|AAM79164.1| putative ribosomal large subunit pseudouridine synthase
[Streptococcus pyogenes MGAS315]
gi|28811460|dbj|BAC64392.1| conserved hypothetical protein [Streptococcus pyogenes SSI-1]
gi|71802379|gb|AAX71732.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes MGAS6180]
gi|94547631|gb|ABF37677.1| Ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes MGAS10750]
gi|378927809|gb|AFC66015.1| Ribosomal large subunit pseudouridine synthase protein RluA
[Streptococcus pyogenes MGAS15252]
gi|378929464|gb|AFC67881.1| Ribosomal large subunit pseudouridine synthase protein RluA
[Streptococcus pyogenes MGAS1882]
Length = 296
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 87/274 (31%), Positives = 137/274 (50%), Gaps = 51/274 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L ++ ++P L+++YEDD L +NKP G+ V P T++N L + K SS++
Sbjct: 65 LEYQAQNIP--LDIIYEDDTLAIINKPQGMVVHPSAGHPSGTMVNALMYHI-KDLSSING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AKT A +A EL +K + Y
Sbjct: 122 -VVRPGIVHRIDKDTSGLLMVAKTDAAHQALA----------------EELKAKKSLRKY 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ +I+ PIG R K V + GK A+++ VLER + +LV+
Sbjct: 165 LAIVHGNLPNDRGMIEAPIG--RSEKDRKKQAVTA-KGKEAVTRFTVLERF--GDYSLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+++++GR HQIR+H+A++GHP+ GDPLY G K+
Sbjct: 220 LQLETGRTHQIRVHMAYIGHPVAGDPLY---GPRKTLSGH-------------------- 256
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G +LHA L L+HP T + + T P + +
Sbjct: 257 ---GQFLHAKTLGLTHPMTGKEMIFTVEAPEIFQ 287
>gi|284048156|ref|YP_003398495.1| RluA family pseudouridine synthase [Acidaminococcus fermentans DSM
20731]
gi|283952377|gb|ADB47180.1| pseudouridine synthase, RluA family [Acidaminococcus fermentans DSM
20731]
Length = 294
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 92/316 (29%), Positives = 150/316 (47%), Gaps = 70/316 (22%)
Query: 20 WLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD----VPYLLEVLYEDDDLI 75
W + NG ITV+G V+ P+ L AG LV+ W+E V L +LYED+DL+
Sbjct: 31 WRKIKWNGTITVNGSPVSSPSHRLEAGDRLVFR---WEEKAAVIPVHLPLSLLYEDEDLL 87
Query: 76 ALNKPSGLQVLPGGLFQQRTVLNQL--QWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++KP+G+ + P + T++ + +R + Q + P++RL R T+G+L+
Sbjct: 88 VVDKPAGMLIHPTWSGARDTLVQAVGGYFRRTGQHCGIH-------PLYRLDRDTTGVLM 140
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK+ AK + +I + Y A+ G + I+ PIG
Sbjct: 141 VAKSAFAKHALT------------------RDHSQIYREYLAVCEGRWGIPQGRIEHPIG 182
Query: 194 IVRYPGVAKGL--YVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
VA+G+ + P G+PA+++ +LE + + T++++ + +GR HQIR+H A
Sbjct: 183 -----RVAEGVDRWTVRPDGRPAVTEYRILEEN--QEWTVLKIHLLTGRTHQIRVHFAHE 235
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
GHPL+GDPLY DG A+ LHA+ + HP
Sbjct: 236 GHPLVGDPLYGT-----------KDGRIARQA----------------LHAWTVRFRHPR 268
Query: 312 TNEVIKITAPLPSVLK 327
T E I +TAP+P ++
Sbjct: 269 TGEEILLTAPMPGDME 284
>gi|389606225|emb|CCA45138.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis alpha522]
Length = 392
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 126/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 120 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QVPRAGIV 174
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 175 HRLDKETSGLMVVAKTLPAQ----------------NSLVQQLQERTVKRIYRAVANGIV 218
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 219 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 273
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL DP+Y G P+ + G + LH
Sbjct: 274 HQIRVHMREANHPLAADPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 318
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP T E + AP+P
Sbjct: 319 AYRLSFTHPKTGETVSFEAPIP 340
>gi|308173508|ref|YP_003920213.1| pseudouridylate synthase [Bacillus amyloliquefaciens DSM 7]
gi|384159472|ref|YP_005541545.1| pseudouridylate synthase [Bacillus amyloliquefaciens TA208]
gi|384164092|ref|YP_005545471.1| pseudouridylate synthase [Bacillus amyloliquefaciens LL3]
gi|384168520|ref|YP_005549898.1| pseudouridylate synthase [Bacillus amyloliquefaciens XH7]
gi|307606372|emb|CBI42743.1| pseudouridylate synthase [Bacillus amyloliquefaciens DSM 7]
gi|328553560|gb|AEB24052.1| pseudouridylate synthase [Bacillus amyloliquefaciens TA208]
gi|328911647|gb|AEB63243.1| pseudouridylate synthase [Bacillus amyloliquefaciens LL3]
gi|341827799|gb|AEK89050.1| putative pseudouridylate synthase [Bacillus amyloliquefaciens XH7]
Length = 304
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 93/309 (30%), Positives = 144/309 (46%), Gaps = 52/309 (16%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDDLIALN 78
Q ++ G ++V+G+ V N + G ++ +E DV P L++ YED D++ +N
Sbjct: 35 QWVKEGLVSVNGKSVK-ANYKMQPGDQVNVTIPEPEELDVLAEPMDLDIYYEDQDVLVVN 93
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 94 KPRGMVVHPAPGHVTGTLVNGLMAHCNDLSGI--NGVMRPGIVHRIDKDTSGLLMVAKND 151
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
+A +S V +L + +T+ Y A+VHG++ D I PIG R
Sbjct: 152 MAH----------------ESLVNQLVNKTVTRKYTAVVHGVISHDDGTIDAPIG--RDK 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ + V K A++ VLER ++ TLV+ +++GR HQIR+H+ ++G PL GD
Sbjct: 194 KDRQSMTVTREGSKNAVTHFHVLER--FQDFTLVECRLETGRTHQIRVHMKYIGFPLAGD 251
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y G K+ D G LHA L HP T E ++
Sbjct: 252 PKY---GPRKTVDFN-----------------------GQALHAGILGFDHPRTGEYMEF 285
Query: 319 TAPLPSVLK 327
APLP +K
Sbjct: 286 EAPLPEDMK 294
>gi|221309420|ref|ZP_03591267.1| hypothetical protein Bsubs1_08546 [Bacillus subtilis subsp.
subtilis str. 168]
gi|221313745|ref|ZP_03595550.1| hypothetical protein BsubsN3_08482 [Bacillus subtilis subsp.
subtilis str. NCIB 3610]
gi|221318669|ref|ZP_03599963.1| hypothetical protein BsubsJ_08416 [Bacillus subtilis subsp.
subtilis str. JH642]
gi|221322942|ref|ZP_03604236.1| hypothetical protein BsubsS_08522 [Bacillus subtilis subsp.
subtilis str. SMY]
gi|255767360|ref|NP_389429.3| pseudouridylate synthase [Bacillus subtilis subsp. subtilis str.
168]
gi|430755971|ref|YP_007209751.1| Signal peptidase II lsp [Bacillus subtilis subsp. subtilis str.
BSP1]
gi|452914367|ref|ZP_21962994.1| pseudouridine synthase, RluA family protein [Bacillus subtilis
MB73/2]
gi|254763395|sp|Q45480.3|YLYB_BACSU RecName: Full=Uncharacterized RNA pseudouridine synthase YlyB;
AltName: Full=RNA pseudouridylate synthase; AltName:
Full=RNA-uridine isomerase
gi|1373157|gb|AAB57767.1| orf-X; hypothetical protein; Method: conceptual translation
supplied by author [Bacillus subtilis subsp. subtilis
str. 168]
gi|225184987|emb|CAB13420.3| pseudouridylate synthase [Bacillus subtilis subsp. subtilis str.
168]
gi|407958953|dbj|BAM52193.1| pseudouridylate synthase [Synechocystis sp. PCC 6803]
gi|407964530|dbj|BAM57769.1| pseudouridylate synthase [Bacillus subtilis BEST7003]
gi|430020491|gb|AGA21097.1| Signal peptidase II lsp [Bacillus subtilis subsp. subtilis str.
BSP1]
gi|452116787|gb|EME07182.1| pseudouridine synthase, RluA family protein [Bacillus subtilis
MB73/2]
Length = 303
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 95/307 (30%), Positives = 146/307 (47%), Gaps = 55/307 (17%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-DV---PYLLEVLYEDDDLIAL 77
Q +++GQ+ V+G V N + G ++ +P E DV P L++ YED D++ +
Sbjct: 35 QWVKDGQVVVNGSAVK-ANYKIQPGDQVTV-TVPEPEALDVLAEPMDLDIYYEDQDVLVV 92
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 NKPRGMVVHPAPGHLTGTLVNGLMAHCTDLSGI--NGVMRPGIVHRIDKDTSGLLMVAKN 150
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+A +S V +L + +T+ Y A+VHG++ D I PIG R
Sbjct: 151 DMAH----------------ESLVNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIG--RD 192
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + V + GK A++ VLER ++ TLV+ ++++GR HQIR+H+ ++G PL G
Sbjct: 193 KKDRQSMTV-TRDGKNAVTHFHVLER--FQDFTLVECQLETGRTHQIRVHMKYIGFPLAG 249
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP Y G K+ D G LHA L HP T E ++
Sbjct: 250 DPKY---GPRKTIDFN-----------------------GQALHAGVLGFDHPRTGEYVE 283
Query: 318 ITAPLPS 324
APLP
Sbjct: 284 FEAPLPE 290
>gi|374319827|ref|YP_005066326.1| Ribosomal large subunit pseudouridine synthases RluD subfamily
protein [Rickettsia slovaca 13-B]
gi|383751920|ref|YP_005427021.1| Ribosomal large subunit pseudouridine synthases RluD subfamily
protein [Rickettsia slovaca str. D-CWPP]
gi|360042376|gb|AEV92758.1| Ribosomal large subunit pseudouridine synthases RluD subfamily
protein [Rickettsia slovaca 13-B]
gi|379774934|gb|AFD20290.1| Ribosomal large subunit pseudouridine synthases RluD subfamily
protein [Rickettsia slovaca str. D-CWPP]
Length = 313
Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 80/311 (25%), Positives = 153/311 (49%), Gaps = 52/311 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD------VPYLLEVLYEDDDLIAL 77
I++ Q+ V+ +++DP++++ +++ +KEP+ L+++YEDDDLI +
Sbjct: 35 IKDSQVLVNDVIISDPDVLVKENDIILF---SFKEPEELKIAAANVALDIIYEDDDLIVI 91
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK +G+ V PG T++N L S SS+ P VHRL + T+G+++ AK
Sbjct: 92 NKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSE--RPGIVHRLDKDTTGLMVVAKN 149
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ QR++ + Y+ LV G+++ + +IK IG R
Sbjct: 150 NKAHMLLAN----------------QIKQRQVIRKYKVLVWGVINPLEGVIKNNIG--RS 191
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + + GK A++ LE + + ++++ ++ +GR HQIR+ L+ L H ++G
Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKTLELFYKGSISMLECKLSTGRTHQIRVQLSHLKHSVVG 251
Query: 258 DPLYVAGGQ-----PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
D Y + P ++ D ++R LH++ L +HPT+
Sbjct: 252 DQTYGNNDRKIAHSPPELKAKLID--------FKRQA----------LHSWYLSFTHPTS 293
Query: 313 NEVIKITAPLP 323
NE+++ + LP
Sbjct: 294 NEIMEFSCELP 304
>gi|86358939|ref|YP_470831.1| pseudouridylate synthase, ribosomal large subunit D protein
[Rhizobium etli CFN 42]
gi|86283041|gb|ABC92104.1| pseudouridylate synthase, ribosomal large subunit D protein
[Rhizobium etli CFN 42]
Length = 354
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 96/314 (30%), Positives = 147/314 (46%), Gaps = 44/314 (14%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE------PDVPYLLEVLYEDDDLIAL 77
I++GQ+++ G V DP + G LP E D+P LE+L+EDDDLI +
Sbjct: 59 IKDGQVSLRGEQVTDPQRKVRVGDSFEI-TLPEPEDPTPKGEDIP--LEILHEDDDLIVI 115
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
+KP+GL V PG T++N L S + P VHRL + T+G+++ AK
Sbjct: 116 SKPAGLVVHPGSGNWTGTLVNALIHHCGDTLSGIGG-VRRPGIVHRLDKDTTGVMVVAKN 174
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+A ++ FAD + + + YRA+V G I P+G R
Sbjct: 175 DVAHRHLSLQFADHGRTM------------PLERAYRAVVWGRPRTLSGTIDAPLG--RA 220
Query: 198 PGVAKGLYVASPSGK---PALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIRIHLA 249
G V P + A++ +V+ER D +LV+ +++GR HQIR+H+A
Sbjct: 221 TGDRTRRAVKRPDSQDADAAITHYEVIERFQENPDATALASLVECHLETGRTHQIRVHMA 280
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
+GHPL+GD +Y AG + K+ + + G+ R LHA+ L H
Sbjct: 281 HIGHPLVGDTVYGAGFRTKA--NLLPEEIRKVVNGFGRQA----------LHAFMLQFEH 328
Query: 310 PTTNEVIKITAPLP 323
P T E++ PLP
Sbjct: 329 PRTGELMHFEVPLP 342
>gi|332686651|ref|YP_004456425.1| ribosomal large subunit pseudouridine synthase D [Melissococcus
plutonius ATCC 35311]
gi|332370660|dbj|BAK21616.1| ribosomal large subunit pseudouridine synthase D [Melissococcus
plutonius ATCC 35311]
Length = 302
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 80/264 (30%), Positives = 128/264 (48%), Gaps = 49/264 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+++YED D++ +NKP G+ V P + T+++ L + SS + P VHR+
Sbjct: 79 LDIVYEDQDVVVINKPQGMVVHPSAGHFKGTMVHALLYHIKDLSSI--NDVIRPGIVHRI 136
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A +A DKT I + Y ALVHG V +
Sbjct: 137 DKDTSGLLIVAKNNQAHEALAKQLKDKT----------------ILRKYIALVHGEVPHE 180
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ I PIG + + + G+ A++ VLE+ TL+++++++GR HQI
Sbjct: 181 QGTIDAPIGRSK---TNRKMQAIIKDGRSAVTHFKVLEKFT--GYTLIELQLETGRTHQI 235
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++GHP+ GDP+Y G K+ E G +LHA
Sbjct: 236 RVHMKYIGHPVAGDPVY---GPKKTLKGE-----------------------GQFLHAKV 269
Query: 305 LFLSHPTTNEVIKITAPLPSVLKT 328
L +HPTT+E + APLP + +
Sbjct: 270 LGFTHPTTHERMVFEAPLPEIFQN 293
>gi|165933873|ref|YP_001650662.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
rickettsii str. Iowa]
gi|378721954|ref|YP_005286841.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
rickettsii str. Colombia]
gi|378723298|ref|YP_005288184.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
rickettsii str. Arizona]
gi|378724653|ref|YP_005289537.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
rickettsii str. Hauke]
gi|379017130|ref|YP_005293365.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
rickettsii str. Brazil]
gi|379018438|ref|YP_005294673.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
rickettsii str. Hino]
gi|165908960|gb|ABY73256.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
rickettsii str. Iowa]
gi|376325654|gb|AFB22894.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
rickettsii str. Brazil]
gi|376326978|gb|AFB24217.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
rickettsii str. Colombia]
gi|376328322|gb|AFB25560.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
rickettsii str. Arizona]
gi|376331004|gb|AFB28240.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
rickettsii str. Hino]
gi|376333668|gb|AFB30901.1| ribosomal large subunit pseudouridine synthase D [Rickettsia
rickettsii str. Hauke]
Length = 313
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 80/311 (25%), Positives = 153/311 (49%), Gaps = 52/311 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD------VPYLLEVLYEDDDLIAL 77
I++ Q+ V+ +++DP++++ +++ +KEP+ L+++YEDDDLI +
Sbjct: 35 IKDSQVLVNDVIISDPDVLVKENDIILF---SFKEPEELKIAAANVALDIIYEDDDLIVI 91
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NK +G+ V PG T++N L S SS+ P VHRL + T+G+++ AK
Sbjct: 92 NKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSE--RPGIVHRLDKDTTGLMVVAKN 149
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A +A ++ Q+++ + Y+ LV G+++ + +IK IG R
Sbjct: 150 NKAHMLLAN----------------QIEQKQVIRKYKVLVWGVINPLEGVIKNNIG--RS 191
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + + GK A++ LE + + ++V+ ++ +GR HQIR+ L+ L H ++G
Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKTLELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSVVG 251
Query: 258 DPLYVAGGQ-----PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTT 312
D Y + P ++ D ++R LH++ L +HPT+
Sbjct: 252 DQTYGNNDRKIAYSPPELKAKLID--------FKRQA----------LHSWYLSFTHPTS 293
Query: 313 NEVIKITAPLP 323
NE+++ + LP
Sbjct: 294 NEIMEFSCELP 304
>gi|433536386|ref|ZP_20492895.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
77221]
gi|432274814|gb|ELL29900.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
77221]
Length = 374
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 127/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIIYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QVPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLPAQ----------------NSLVQQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKVAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL GDP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAGDPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 301 AYRLSFTHPESGETVSFEAPIP 322
>gi|225572138|ref|ZP_03781002.1| hypothetical protein RUMHYD_00432 [Blautia hydrogenotrophica DSM
10507]
gi|225040404|gb|EEG50650.1| pseudouridine synthase, RluA family [Blautia hydrogenotrophica DSM
10507]
Length = 307
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 87/314 (27%), Positives = 149/314 (47%), Gaps = 51/314 (16%)
Query: 18 QGWLQRI-QNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP---YLLEVLYEDDD 73
+ + Q++ ++G + +DG+V + L G E+ + +EPD+ L++LYED
Sbjct: 33 RSYFQKLLKDGGVFIDGKVAKASDR-LQCGDEIYFQMPKSREPDIEPEDLSLDILYEDPY 91
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
L+ +NKP G+ V P T++N + + Q S ++ P VHR+ + T+G L+
Sbjct: 92 LLVINKPKGMVVHPCPGHYSGTLVNGVLFHCKGQLSGING-VLRPGIVHRIDKDTTGALV 150
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
K +A ++L++ IT+ YRA+V G + D+ ++ PIG
Sbjct: 151 VCKDDQTHRNLA----------------VQLAEHTITRRYRAIVTGNLSADEGTVEGPIG 194
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+P K + + +GK A++ VLER + T ++ +++GR HQIR+HL+ +GH
Sbjct: 195 --RHPVDRKKMSINFKNGKDAVTHYRVLERFGK--ATYIECRLETGRTHQIRVHLSSIGH 250
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PLLGD +Y + P G LHA L +HP
Sbjct: 251 PLLGDTVYGSSKNPYELQ-------------------------GQTLHAMVLGFTHPYYE 285
Query: 314 EVIKITAPLPSVLK 327
+ ++ APLP +
Sbjct: 286 KYVEFEAPLPEYFQ 299
>gi|15895383|ref|NP_348732.1| pseudouridylate synthase [Clostridium acetobutylicum ATCC 824]
gi|337737331|ref|YP_004636778.1| pseudouridylate synthase [Clostridium acetobutylicum DSM 1731]
gi|384458840|ref|YP_005671260.1| pseudouridylate synthase [Clostridium acetobutylicum EA 2018]
gi|15025103|gb|AAK80072.1|AE007712_8 Predicted pseudouridylate synthase, YLYB B.subtilis ortholog
[Clostridium acetobutylicum ATCC 824]
gi|325509529|gb|ADZ21165.1| pseudouridylate synthase [Clostridium acetobutylicum EA 2018]
gi|336291055|gb|AEI32189.1| pseudouridylate synthase [Clostridium acetobutylicum DSM 1731]
Length = 305
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 82/271 (30%), Positives = 135/271 (49%), Gaps = 50/271 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L + ++P L+++YED D++ +NK G+ V P T++N L + K S ++
Sbjct: 71 LKIEAENIP--LDIVYEDRDIVVVNKAQGMVVHPAPGNYNGTLVNALLYHC-KDLSGING 127
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSGIL+ AK A +A +L + + ++Y
Sbjct: 128 -VLRPGIVHRIDKDTSGILVVAKNDAAHKNLAN----------------QLKEHSMNRVY 170
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
RA+V GI+ ED+ + +P+ R+P V + G+ A++ VLER RN TL++
Sbjct: 171 RAVVEGIIKEDEGTVDKPLA--RHP-VERVKIAVVKGGRNAVTHYKVLER--YRNSTLIE 225
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
++++GR HQIR+H+A++GH L+GDPLY G + + F+ E
Sbjct: 226 CKLETGRTHQIRVHMAYIGHALVGDPLY--GYKKQRFNLE-------------------- 263
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
G LHA +L HPT + ++ PS
Sbjct: 264 ---GQMLHAQKLGFIHPTKGKYMEFEREAPS 291
>gi|229031524|ref|ZP_04187524.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH1271]
gi|228729813|gb|EEL80793.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH1271]
Length = 302
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 83/263 (31%), Positives = 127/263 (48%), Gaps = 49/263 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
LE+ YED D++ +NKP G+ V P T++N L + S + P VHR+
Sbjct: 81 LEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRI 138
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK +A +S V +L + +T+ Y+A+VHG++ D
Sbjct: 139 DKDTSGLLMVAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHD 182
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
K I PI R + + V +GK A++ V+ER ++ TLV+ +++GR HQI
Sbjct: 183 KGTIDAPIA--RDKKERQSMTV-DENGKHAVTHFQVIER--FKDFTLVECRLETGRTHQI 237
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++G+PL GDP Y G K+ D G LHA
Sbjct: 238 RVHMKYIGYPLAGDPKY---GPKKTLDMN-----------------------GQALHAGI 271
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L HP T E I+ AP+P V +
Sbjct: 272 LGFDHPRTGEYIQFEAPIPEVFE 294
>gi|167855786|ref|ZP_02478539.1| ribosomal large subunit pseudouridine synthase D [Haemophilus
parasuis 29755]
gi|167853065|gb|EDS24326.1| ribosomal large subunit pseudouridine synthase D [Haemophilus
parasuis 29755]
Length = 325
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 95/307 (30%), Positives = 156/307 (50%), Gaps = 49/307 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLP-----WKEPDVPYLLEVLYEDDDLIALN 78
I++ ++V+G++VN + G + ++ ++P L ++YEDDD++ +N
Sbjct: 40 IESDLVSVNGKIVNKAREKVFGGELIEIQAEIEEEIRFEPQNIP--LNIVYEDDDILVIN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP L V PG TVLN L + + + VHRL + T+G+++ AKT
Sbjct: 98 KPKDLVVHPGAGNPDGTVLNALLHHYPQIAEVPRAGI-----VHRLDKDTTGLMVVAKTV 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A+T + V L +R+IT+ Y A+ GI+ + + +P+ R+P
Sbjct: 153 PAQTHL----------------VTALQKREITREYEAVASGIMTQGGKV-DEPMA--RHP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ V P GKPA++ ++ER RN T +++ +++GR HQIR+H+A + HPLLGD
Sbjct: 194 TKRTAMAV-HPMGKPAVTHYRIMER--FRNYTRLRLRLETGRTHQIRVHMAHIAHPLLGD 250
Query: 259 PLYVAGGQPKSFDSEFADGTFAQD-GGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
LY GG+P+ + A G F + ++R LHA L L HP T E+++
Sbjct: 251 QLY--GGRPRP--PKGASGEFLEVLRNFKRQA----------LHATMLRLHHPITGELME 296
Query: 318 ITAPLPS 324
APLP
Sbjct: 297 WHAPLPD 303
>gi|85711025|ref|ZP_01042085.1| Pseudouridylate synthase [Idiomarina baltica OS145]
gi|85694938|gb|EAQ32876.1| Pseudouridylate synthase [Idiomarina baltica OS145]
Length = 322
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 97/314 (30%), Positives = 158/314 (50%), Gaps = 54/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
++ W I G+++VD +V+ P L G+ + +E P L+++YED+D
Sbjct: 36 MKKW---ITEGKVSVDAQVIEKPREKLEFGALVAIDAELEREERYQAQPIELDIVYEDED 92
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRGTS 129
++ +NKP+GL V PG T+LN L H VP +HRL + T+
Sbjct: 93 ILIINKPAGLVVHPGAGAPDGTLLNGLL--------HYDPDIDH-VPRAGIIHRLDKDTT 143
Query: 130 GILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIK 189
G+++ A+ A+T + V + +R+IT+ Y A+ +G++ ++
Sbjct: 144 GLMVVARNIPAQTQL----------------VDMMQKREITREYEAVCNGVMTAGG-MVD 186
Query: 190 QPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLA 249
+PIG R+P + V S SGKPA++ V+ER R TL+++ ++SGR HQIR+H+A
Sbjct: 187 EPIG--RHPTKRTHMAVVS-SGKPAVTHYRVVER--FRAHTLLRLRLESGRTHQIRVHMA 241
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
+ HPL+GD Y GG+P+ + +D A G+ R LHA +L L H
Sbjct: 242 HIRHPLVGDLTY--GGRPRP-PKQASDEFLASLRGFSRQA----------LHAAKLSLHH 288
Query: 310 PTTNEVIKITAPLP 323
P T + + AP P
Sbjct: 289 PITGDWMSFEAPRP 302
>gi|94543711|gb|ABF33759.1| Ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes MGAS10270]
Length = 296
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 87/274 (31%), Positives = 137/274 (50%), Gaps = 51/274 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L ++ ++P L+++YEDD L +NKP G+ V P T++N L + K SS++
Sbjct: 65 LEYQAQNIP--LDIIYEDDALAIINKPQGMVVHPSAGHPSGTMVNALMYHI-KDLSSING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AKT A +A EL +K + Y
Sbjct: 122 -VVRPGIVHRIDKDTSGLLMVAKTDAAHQALAE----------------ELKAKKSLRKY 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ +I+ PIG R K V + GK A+++ VLER + +LV+
Sbjct: 165 LAIVHGNLPNDRGMIEAPIG--RSEKDRKKQAVTA-KGKEAVTRFTVLER--FGDYSLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+++++GR HQIR+H+A++GHP+ GDPLY G K+
Sbjct: 220 LQLETGRTHQIRVHMAYIGHPVAGDPLY---GPRKTLSGH-------------------- 256
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G +LHA L L+HP T + + T P + +
Sbjct: 257 ---GQFLHAKTLGLTHPMTGKEMIFTVEAPEIFQ 287
>gi|218767826|ref|YP_002342338.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis Z2491]
gi|433479325|ref|ZP_20436620.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
63041]
gi|433519428|ref|ZP_20476149.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
65014]
gi|34395831|sp|Q9JVB6.1|RLUD_NEIMA RecName: Full=Ribosomal large subunit pseudouridine synthase D;
AltName: Full=23S rRNA pseudouridine(1911/1915/1917)
synthase; AltName: Full=rRNA pseudouridylate synthase D;
AltName: Full=rRNA-uridine isomerase D
gi|121051834|emb|CAM08140.1| putative ribosomal large subunit pseudouridine synthase D
[Neisseria meningitidis Z2491]
gi|432217725|gb|ELK73592.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
63041]
gi|432255419|gb|ELL10748.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
65014]
Length = 374
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 127/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QIPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLPAQ----------------NSLVWQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL GDP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAGDPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 301 AYRLSFTHPESGETVSFEAPIP 322
>gi|86747580|ref|YP_484076.1| pseudouridine synthase RluD [Rhodopseudomonas palustris HaA2]
gi|86570608|gb|ABD05165.1| ribosomal large subunit pseudouridine synthase D [Rhodopseudomonas
palustris HaA2]
Length = 324
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 94/310 (30%), Positives = 147/310 (47%), Gaps = 35/310 (11%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDDLIALNKP 80
I +G++ + G V DP S G + P P+ LE+++EDDD+I +NKP
Sbjct: 32 ILDGRVAIAGSAVRDPAYHASPGETITIDVPPPVAPEPEGEAIALEIVHEDDDIIVINKP 91
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
GL V P + T++N L + S + P VHRL + T+G+++ AK A
Sbjct: 92 RGLVVHPAAGHETGTLVNALIAHCGESLSGIGG-VRRPGIVHRLDKDTTGLMVAAKNDRA 150
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGV 200
++ FAD ++ + Y A V G+ + + I+ PI R+P
Sbjct: 151 HQSLSAQFADHGRT------------GELRRGYYAFVWGVPNRARGTIEAPID--RHP-Y 195
Query: 201 AKGLYVASPSGKPALSKVDVLERDVQRN----CTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
A+ G+ A++ +VLE R+ +L+ ++++GR HQIR+HLA LGHPLL
Sbjct: 196 AREKMAVRDGGREAITHWEVLETFTGRSGGEIVSLIACQLETGRTHQIRVHLAHLGHPLL 255
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ S+ + A R LHAY L L HP++ EV+
Sbjct: 256 GDDVY--GPHFKTKASQLSPAARAALADLGRQA----------LHAYLLVLEHPSSGEVM 303
Query: 317 KITAPLPSVL 326
+ LP+ L
Sbjct: 304 AWESGLPADL 313
>gi|418287917|ref|ZP_12900449.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis NM233]
gi|372202896|gb|EHP16652.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis NM233]
Length = 374
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 126/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QVPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLPAQ----------------NSLVQQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL DP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAADPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP T E + AP+P
Sbjct: 301 AYRLSFTHPKTGETVSFEAPIP 322
>gi|304387998|ref|ZP_07370170.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis ATCC 13091]
gi|304337997|gb|EFM04135.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis ATCC 13091]
Length = 374
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 127/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QIPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLPAQ----------------NSLVRQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLTH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL GDP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAGDPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 301 AYRLSFTHPESGETVSFEAPIP 322
>gi|229519979|ref|ZP_04409409.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
TM 11079-80]
gi|419829324|ref|ZP_14352812.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-1A2]
gi|419832126|ref|ZP_14355591.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-61A2]
gi|421353513|ref|ZP_15803846.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HE-45]
gi|422306201|ref|ZP_16393385.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
CP1035(8)]
gi|422916497|ref|ZP_16950835.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-02A1]
gi|423817407|ref|ZP_17715438.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-55C2]
gi|423849444|ref|ZP_17719226.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-59A1]
gi|423879097|ref|ZP_17722832.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-60A1]
gi|423996919|ref|ZP_17740182.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-02C1]
gi|424015622|ref|ZP_17755469.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-55B2]
gi|424020732|ref|ZP_17760512.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-59B1]
gi|424624103|ref|ZP_18062580.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-50A1]
gi|424628598|ref|ZP_18066903.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-51A1]
gi|424632632|ref|ZP_18070748.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-52A1]
gi|424635720|ref|ZP_18073741.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-55A1]
gi|424639635|ref|ZP_18077531.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-56A1]
gi|424647718|ref|ZP_18085394.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-57A1]
gi|443528618|ref|ZP_21094652.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-78A1]
gi|229343031|gb|EEO08019.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
TM 11079-80]
gi|341640130|gb|EGS64725.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-02A1]
gi|395954860|gb|EJH65469.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HE-45]
gi|408015388|gb|EKG52974.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-50A1]
gi|408020655|gb|EKG57945.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-52A1]
gi|408026615|gb|EKG63614.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-56A1]
gi|408027021|gb|EKG64007.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-55A1]
gi|408036501|gb|EKG72930.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-57A1]
gi|408058573|gb|EKG93365.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-51A1]
gi|408621958|gb|EKK94950.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-1A2]
gi|408627164|gb|EKK99983.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
CP1035(8)]
gi|408636630|gb|EKL08767.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-55C2]
gi|408643805|gb|EKL15522.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-60A1]
gi|408644843|gb|EKL16517.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-59A1]
gi|408652027|gb|EKL23266.1| pseudouridine synthase, RluA family protein [Vibrio cholerae
HC-61A2]
gi|408854297|gb|EKL94061.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-02C1]
gi|408861837|gb|EKM01404.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-55B2]
gi|408866597|gb|EKM05977.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-59B1]
gi|443453192|gb|ELT17025.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HC-78A1]
Length = 324
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 100/316 (31%), Positives = 150/316 (47%), Gaps = 56/316 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL G+I V+G V+ P + G + W+ D+P L ++YED
Sbjct: 36 LKEWLL---EGKIAVNGDVITKPRTKVMGGEVITVQAELEDEQRWEAQDLP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP V PG +TVLN L + ++ VHRL + T+G+
Sbjct: 91 DDIIVINKPRDFVVHPGAGQADKTVLNALLFHYPP-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R +T+ Y A+V G + +I K P
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRDVTREYEAIVIGTMTAGGMIDK-P 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GK A++ V E R T +++ +++GR HQIR+H+A+L
Sbjct: 189 IG--RH-STKRTLMSVSPMGKHAVTHYRVAEH--FREHTRLRLRLETGRTHQIRVHMAYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ PK E + +D ++R LHA L
Sbjct: 244 QHPLLGDTAY--GGRARIPKGATEELTE--MIRD--FDRQA----------LHAVMLKFD 287
Query: 309 HPTTNEVIKITAPLPS 324
HP T E ++ AP+P
Sbjct: 288 HPVTGEELEFHAPVPD 303
>gi|384175288|ref|YP_005556673.1| ribosomal large subunit pseudouridine synthase D [Bacillus subtilis
subsp. subtilis str. RO-NN-1]
gi|349594512|gb|AEP90699.1| ribosomal large subunit pseudouridine synthase D [Bacillus subtilis
subsp. subtilis str. RO-NN-1]
Length = 303
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 95/307 (30%), Positives = 146/307 (47%), Gaps = 55/307 (17%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-DV---PYLLEVLYEDDDLIAL 77
Q +++GQ+ V+G V N + G ++ +P E DV P L++ YED D++ +
Sbjct: 35 QWVKDGQVVVNGSAVK-ANYKIQPGDQVTV-TVPEPEALDVLAEPMDLDIYYEDQDVLVV 92
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 NKPRGMVVHPAPGHLTGTLVNGLMAHCTDLSGI--NGVMRPGIVHRIDKDTSGLLMVAKN 150
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+A +S V +L + +T+ Y A+VHG++ D I PIG R
Sbjct: 151 DMAH----------------ESLVNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIG--RD 192
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + V + GK A++ VLER ++ TLV+ ++++GR HQIR+H+ ++G PL G
Sbjct: 193 KKDRQSMTV-TRDGKNAVTHFHVLER--FQDFTLVECQLETGRTHQIRVHMKYIGFPLAG 249
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP Y G K+ D G LHA L HP T E ++
Sbjct: 250 DPKY---GPRKTIDFN-----------------------GQALHAGVLGFDHPRTGEYVE 283
Query: 318 ITAPLPS 324
APLP
Sbjct: 284 FEAPLPE 290
>gi|428279141|ref|YP_005560876.1| hypothetical protein BSNT_02552 [Bacillus subtilis subsp. natto
BEST195]
gi|291484098|dbj|BAI85173.1| hypothetical protein BSNT_02552 [Bacillus subtilis subsp. natto
BEST195]
Length = 303
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 95/307 (30%), Positives = 146/307 (47%), Gaps = 55/307 (17%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-DV---PYLLEVLYEDDDLIAL 77
Q +++GQ+ V+G V N + G ++ +P E DV P L++ YED D++ +
Sbjct: 35 QWVKDGQVVVNGSAVK-ANYKIQPGDQVTV-TVPEPEALDVLAEPMDLDIYYEDQDVLVV 92
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 NKPRGMVVHPAPGHLTGTLVNGLMAHCTDLSGI--NGVMRPGIVHRIDKDTSGLLMVAKN 150
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+A +S V +L + +T+ Y A+VHG++ D I PIG R
Sbjct: 151 DMAH----------------ESLVNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIG--RD 192
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + V + GK A++ VLER ++ TLV+ ++++GR HQIR+H+ ++G PL G
Sbjct: 193 KKDRQSMTV-TRDGKSAVTHFHVLER--FQDFTLVECQLETGRTHQIRVHMRYIGFPLAG 249
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP Y G K+ D G LHA L HP T E ++
Sbjct: 250 DPKY---GPRKTIDFN-----------------------GQALHAGVLGFDHPRTGEYVE 283
Query: 318 ITAPLPS 324
APLP
Sbjct: 284 FEAPLPE 290
>gi|15674865|ref|NP_269039.1| hypothetical protein SPy_0827 [Streptococcus pyogenes SF370]
gi|50914002|ref|YP_059974.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes MGAS10394]
gi|71910451|ref|YP_282001.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes MGAS5005]
gi|94988324|ref|YP_596425.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes MGAS9429]
gi|306827571|ref|ZP_07460852.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes ATCC 10782]
gi|410680318|ref|YP_006932720.1| RluA family pseudouridine synthase [Streptococcus pyogenes A20]
gi|417857153|ref|ZP_12502212.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes HKU QMH11M0907901]
gi|13622001|gb|AAK33760.1| conserved hypothetical protein [Streptococcus pyogenes M1 GAS]
gi|50903076|gb|AAT86791.1| Ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes MGAS10394]
gi|71853233|gb|AAZ51256.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes MGAS5005]
gi|94541832|gb|ABF31881.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes MGAS9429]
gi|304430223|gb|EFM33251.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes ATCC 10782]
gi|387934108|gb|EIK42221.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes HKU QMH11M0907901]
gi|395453691|dbj|BAM30030.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
pyogenes M1 476]
gi|409692907|gb|AFV37767.1| pseudouridine synthase, RluA family protein [Streptococcus pyogenes
A20]
Length = 296
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 87/274 (31%), Positives = 137/274 (50%), Gaps = 51/274 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L ++ ++P L+++YEDD L +NKP G+ V P T++N L + K SS++
Sbjct: 65 LEYQAQNIP--LDIIYEDDALAIINKPQGMVVHPSAGHPSGTMVNALMYHI-KDLSSING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AKT A +A EL +K + Y
Sbjct: 122 -VVRPGIVHRIDKDTSGLLMVAKTDAAHQALA----------------EELKAKKSLRKY 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ +I+ PIG R K V + GK A+++ VLER + +LV+
Sbjct: 165 LAIVHGNLPNDRGMIEAPIG--RSEKDRKKQAVTA-KGKEAVTRFTVLERF--GDYSLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+++++GR HQIR+H+A++GHP+ GDPLY G K+
Sbjct: 220 LQLETGRTHQIRVHMAYIGHPVAGDPLY---GPRKTLSGH-------------------- 256
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G +LHA L L+HP T + + T P + +
Sbjct: 257 ---GQFLHAKTLGLTHPMTGKEMIFTVEAPEIFQ 287
>gi|386758269|ref|YP_006231485.1| pseudouridylate synthase [Bacillus sp. JS]
gi|384931551|gb|AFI28229.1| pseudouridylate synthase [Bacillus sp. JS]
Length = 303
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 95/307 (30%), Positives = 146/307 (47%), Gaps = 55/307 (17%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-DV---PYLLEVLYEDDDLIAL 77
Q +++GQ+ V+G V N + G ++ +P E DV P L++ YED D++ +
Sbjct: 35 QWVKDGQVVVNGSAVK-ANYKIQPGDQVTV-TVPEPEALDVLAEPMDLDIYYEDQDVLVV 92
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 NKPRGMVVHPAPGHLTGTLVNGLMAHCTDLSGI--NGVMRPGIVHRIDKDTSGLLMVAKN 150
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+A +S V +L + +T+ Y A+VHG++ D I PIG R
Sbjct: 151 DMAH----------------ESLVNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIG--RD 192
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + V + GK A++ VLER ++ TLV+ ++++GR HQIR+H+ ++G PL G
Sbjct: 193 KKDRQSMTV-TRDGKNAVTHFHVLER--FQDFTLVECQLETGRTHQIRVHMKYIGFPLAG 249
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP Y G K+ D G LHA L HP T E ++
Sbjct: 250 DPKY---GPRKTIDFN-----------------------GQALHAGVLGFDHPRTGEYVE 283
Query: 318 ITAPLPS 324
APLP
Sbjct: 284 FEAPLPD 290
>gi|229098363|ref|ZP_04229309.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock3-29]
gi|423441376|ref|ZP_17418282.1| RluA family pseudouridine synthase [Bacillus cereus BAG4X2-1]
gi|423464450|ref|ZP_17441218.1| RluA family pseudouridine synthase [Bacillus cereus BAG6O-1]
gi|423533792|ref|ZP_17510210.1| RluA family pseudouridine synthase [Bacillus cereus HuB2-9]
gi|423540952|ref|ZP_17517343.1| RluA family pseudouridine synthase [Bacillus cereus HuB4-10]
gi|228685068|gb|EEL39000.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock3-29]
gi|401172140|gb|EJQ79361.1| RluA family pseudouridine synthase [Bacillus cereus HuB4-10]
gi|402418037|gb|EJV50337.1| RluA family pseudouridine synthase [Bacillus cereus BAG4X2-1]
gi|402420717|gb|EJV52988.1| RluA family pseudouridine synthase [Bacillus cereus BAG6O-1]
gi|402464011|gb|EJV95711.1| RluA family pseudouridine synthase [Bacillus cereus HuB2-9]
Length = 302
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 94/314 (29%), Positives = 148/314 (47%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDDVVTVNGKSVK-VNYKVKENDEITVTIPDPEELDIQAEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PI
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIA 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VL+R ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKHAVTHFQVLDR--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIQFEAPIPEVFE 294
>gi|385851630|ref|YP_005898145.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis M04-240196]
gi|325206453|gb|ADZ01906.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis M04-240196]
Length = 374
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 126/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QIPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLSAQ----------------NSLVRQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL DP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAADPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP T E + AP+P
Sbjct: 301 AYRLSFTHPKTGETVSFEAPIP 322
>gi|418290178|ref|ZP_12902354.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis NM220]
gi|372202059|gb|EHP15920.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis NM220]
Length = 374
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 126/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QVPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLPAQ----------------NSLVQQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL DP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAADPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP T E + AP+P
Sbjct: 301 AYRLSFTHPKTGETVSFEAPIP 322
>gi|323487164|ref|ZP_08092469.1| pseudouridine synthase [Clostridium symbiosum WAL-14163]
gi|323399516|gb|EGA91909.1| pseudouridine synthase [Clostridium symbiosum WAL-14163]
Length = 298
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 89/298 (29%), Positives = 139/298 (46%), Gaps = 56/298 (18%)
Query: 27 GQITVDGRVVNDPNII-LSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQV 85
G++ RV+ + NI+ + E R+ VP L VLYED+DL+ +NK +G+ V
Sbjct: 46 GELAYTTRVLKEGNILSVRLSEETSSERII----PVPMELSVLYEDEDLMVINKAAGMPV 101
Query: 86 LPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIA 145
P T+ N L W ++ + +A V+RL R T+G+LL AK L+ ++
Sbjct: 102 HPSQGNFDNTLANGLAWYFKEKGEAFVFRA-----VNRLDRDTTGLLLIAKNMLSGAILS 156
Query: 146 GYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLY 205
++KT I + YRA+V G+ +E+ I + I R G
Sbjct: 157 SMVSEKT----------------IRREYRAIVSGLTEEEGCICRP---IARAEGSTIERC 197
Query: 206 VASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGG 265
V G+ A ++ L D ++C+L+ + + +GR HQIR+H+ ++GHPLLGD LY
Sbjct: 198 VDPERGEYACTRYRRLGYDRDKDCSLLLITLDTGRTHQIRVHMKYIGHPLLGDFLY---- 253
Query: 266 QPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLP 323
P D F + LH+ +L +HP T E + TAPLP
Sbjct: 254 NP--------DYRFIKRQS---------------LHSCRLTFTHPLTGEAMDFTAPLP 288
>gi|241206033|ref|YP_002977129.1| RluA family pseudouridine synthase [Rhizobium leguminosarum bv.
trifolii WSM1325]
gi|240859923|gb|ACS57590.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM1325]
Length = 341
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 94/314 (29%), Positives = 146/314 (46%), Gaps = 44/314 (14%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP------YLLEVLYEDDDLIAL 77
I++GQ+ + G V DP + G L EP+ P L++L+EDDD+I +
Sbjct: 46 IKDGQVFLRGEPVTDPQRKVRTGDSF---ELTLPEPEDPTPQGEDIPLDILHEDDDVIVI 102
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
+KPSGL V PG T++N L S S + P VHRL + T+G+++ AK
Sbjct: 103 SKPSGLVVHPGAGNWTGTLVNALIHHCSNTLSGIGG-VRRPGIVHRLDKDTTGVMVVAKN 161
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+A ++ FAD + + + Y+A+V G ++ P+G R
Sbjct: 162 DIAHRHLSLQFADHGRTM------------PLERAYQAVVWGRPRSLSGMVDAPLG--RA 207
Query: 198 PGVAKGLYVASPSGK---PALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIRIHLA 249
G V P + A++ V+ER D +LV+ +++GR HQIR+H+A
Sbjct: 208 TGDRTRRAVKRPDSQDADEAITHYQVVERFHEKPDATAFASLVECRLETGRTHQIRVHMA 267
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
+GHPLLGD +Y AG + K+ + + G+ R LHA+ L H
Sbjct: 268 HIGHPLLGDTVYGAGFKTKA--NLLPEEIRKIVNGFGRQA----------LHAFMLQFEH 315
Query: 310 PTTNEVIKITAPLP 323
P T E++ PLP
Sbjct: 316 PRTGEIMHFEVPLP 329
>gi|385337662|ref|YP_005891535.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis WUE 2594]
gi|319410076|emb|CBY90410.1| K06180 ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis WUE 2594]
Length = 392
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 127/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 120 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QIPRAGIV 174
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 175 HRLDKETSGLMVVAKTLPAQ----------------NSLVRQLQERTVKRIYRAVANGIV 218
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 219 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 273
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL GDP+Y G P+ + G + LH
Sbjct: 274 HQIRVHMREANHPLAGDPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 318
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 319 AYRLSFTHPESGETVSFEAPIP 340
>gi|321315311|ref|YP_004207598.1| pseudouridylate synthase [Bacillus subtilis BSn5]
gi|320021585|gb|ADV96571.1| pseudouridylate synthase [Bacillus subtilis BSn5]
Length = 303
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 95/307 (30%), Positives = 146/307 (47%), Gaps = 55/307 (17%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-DV---PYLLEVLYEDDDLIAL 77
Q +++GQ+ V+G V N + G ++ +P E DV P L++ YED D++ +
Sbjct: 35 QWVKDGQVVVNGSAVK-ANYKIQPGDQVTV-TVPEPEALDVLAEPLDLDIYYEDQDVLVV 92
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 NKPRGMVVHPAPGHLTGTLVNGLMAHCTDLSGI--NGVMRPGIVHRIDKDTSGLLMVAKN 150
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+A +S V +L + +T+ Y A+VHG++ D I PIG R
Sbjct: 151 DMAH----------------ESLVNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIG--RD 192
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + V + GK A++ VLER ++ TLV+ ++++GR HQIR+H+ ++G PL G
Sbjct: 193 KKDRQSMTV-TRDGKNAVTHFHVLER--FQDFTLVECQLETGRTHQIRVHMKYIGFPLAG 249
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP Y G K+ D G LHA L HP T E ++
Sbjct: 250 DPKY---GPRKTIDFN-----------------------GQALHAGVLGFDHPRTGEYVE 283
Query: 318 ITAPLPS 324
APLP
Sbjct: 284 FEAPLPE 290
>gi|395791384|ref|ZP_10470842.1| RluA family pseudouridine synthase [Bartonella alsatica IBS 382]
gi|395408747|gb|EJF75357.1| RluA family pseudouridine synthase [Bartonella alsatica IBS 382]
Length = 334
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 84/314 (26%), Positives = 148/314 (47%), Gaps = 44/314 (14%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP----YLLEVLYEDDDLIALNK 79
I+ G + VDG+++ +P L ++++ +P P +L++L+EDD +I +NK
Sbjct: 37 IREGYLKVDGQLIKEPKTKLKP-NQIIELTMPVLRDLAPSGEAIVLDILFEDDHVIVINK 95
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
P+GL V PG T++N L + K S + P VHRL + TSG+++ AK
Sbjct: 96 PAGLVVHPGNGNWTGTLVNALIYHCGKSLSGIGG-VRRPGIVHRLDKNTSGVMIVAKNDF 154
Query: 140 AKTCIAGYFAD--KTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A ++ F+D +TS +D + Y AL+ G + I +G +
Sbjct: 155 AHKSLSAQFSDHGRTSALD--------------RRYHALIWGSPSHNVWTINASLGRSPH 200
Query: 198 PGVAKGL-YVASPSGKPALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
+ + + + P + A++ +LE+ D +L++ +++GR HQIR+H+A +
Sbjct: 201 NRIKQAVVHNQHPHARHAVTHFSLLEKYGIYADTTSVASLLECRLETGRTHQIRVHMAHM 260
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPV--NPVPGDCGYYLHAYQLFLSH 309
GHPL+GD +Y F P+ N + LHA L H
Sbjct: 261 GHPLIGDTVY--------------GNAFKTKSNMLNPIIKNAINQFNRQALHAASLTFEH 306
Query: 310 PTTNEVIKITAPLP 323
P T++++ ++PLP
Sbjct: 307 PATDKIMTFSSPLP 320
>gi|429745053|ref|ZP_19278502.1| ribosomal large subunit pseudouridine synthase D [Neisseria sp.
oral taxon 020 str. F0370]
gi|429161439|gb|EKY03840.1| ribosomal large subunit pseudouridine synthase D [Neisseria sp.
oral taxon 020 str. F0370]
Length = 372
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 101/317 (31%), Positives = 146/317 (46%), Gaps = 60/317 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKE-----PDVPYLLEVLYED 71
L W I+ G ++VDG+ P L G +L E P+ P L+++YED
Sbjct: 57 LADW---IKEGAVSVDGKPAK-PKDKLIGGEKLAVQVQESNETLAFTPE-PMDLDIVYED 111
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRG 127
D +I LNKP+GL V P T+LN L A VP VHRL +
Sbjct: 112 DSVIVLNKPAGLVVHPAAGNWSGTLLNGLLAHCP---------ALQNVPRAGIVHRLDKD 162
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
TSG+++ AKT A+ + V ++ +R + ++YRA+ GIV D I
Sbjct: 163 TSGLMVVAKTLSAQNHL----------------VKQMQERTVKRVYRAVADGIVPFDGKI 206
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
Q I R P + V GK A++ V VLER + + ++ ++++GR HQIR+H
Sbjct: 207 ETQ---IGRDPHNRVKMAVVKFGGKEAVTHVKVLER--YQAHSYIECQLETGRTHQIRVH 261
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
+ HPL GDP+Y G P+ S+ T Q G LHAY+L
Sbjct: 262 MREANHPLSGDPVY---GNPRHACSDTVKSTVRQLGRQA-------------LHAYRLSF 305
Query: 308 SHPTTNEVIKITAPLPS 324
HP + E + APLP+
Sbjct: 306 VHPQSGETVHFEAPLPA 322
>gi|433521529|ref|ZP_20478224.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
61103]
gi|432260302|gb|ELL15561.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
61103]
Length = 374
Score = 118 bits (296), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 126/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QIPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLSAQ----------------NSLVRQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL DP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAADPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP T E + AP+P
Sbjct: 301 AYRLSFTHPKTGETVSFEAPIP 322
>gi|167037761|ref|YP_001665339.1| RluA family pseudouridine synthase [Thermoanaerobacter
pseudethanolicus ATCC 33223]
gi|320116174|ref|YP_004186333.1| RluA family pseudouridine synthase [Thermoanaerobacter brockii
subsp. finnii Ako-1]
gi|166856595|gb|ABY95003.1| pseudouridine synthase, RluA family [Thermoanaerobacter
pseudethanolicus ATCC 33223]
gi|319929265|gb|ADV79950.1| pseudouridine synthase, RluA family [Thermoanaerobacter brockii
subsp. finnii Ako-1]
Length = 305
Score = 118 bits (296), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 94/307 (30%), Positives = 150/307 (48%), Gaps = 58/307 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I +G + V+G+ V P+ + E+V + +P E D+P L++LYEDDD+I +
Sbjct: 39 IVDGLVFVNGKTVK-PSYKVKENDEVVLN-VPEAEKIDVLPEDIP--LDILYEDDDIIVI 94
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + S + P VHRL + TSG+++ AK
Sbjct: 95 NKPQGMVVHPAPGNYSGTLVNALLYHCKNLSGI--NGILRPGIVHRLDKDTSGVMVVAKN 152
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A ++ ++ +R + K Y A+V G++ +++ I+ PIG R+
Sbjct: 153 DKAHISLSN----------------QIKERSVFKKYVAIVEGVIKDEEGKIEAPIG--RH 194
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P K + V G+ AL+ VLER + TLV+ I++GR HQIR+H+A++GHP++G
Sbjct: 195 PVDRKKMAVIE-DGRYALTLYKVLER--FKENTLVEAVIKTGRTHQIRVHMAYIGHPIVG 251
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
D +Y G + + F E G LH+ L HPT ++
Sbjct: 252 DHVY--GFKRQKFKLE-----------------------GQALHSSVLGFMHPTKGVYME 286
Query: 318 ITAPLPS 324
APLP
Sbjct: 287 FEAPLPE 293
>gi|372210267|ref|ZP_09498069.1| ribosomal large subunit pseudouridine synthase D [Flavobacteriaceae
bacterium S85]
Length = 337
Score = 118 bits (296), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 95/313 (30%), Positives = 146/313 (46%), Gaps = 43/313 (13%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGS--ELVYHRLPWKEPDVPYL--LEVLYEDDDLIAL 77
Q +++G + V+ VV N + AG +V+ P + +P L++++EDD +I +
Sbjct: 45 QAVKDGNVLVNDEVVK-ANHKVKAGDVVRVVFEYAPRETEILPENIPLDIVHEDDAVIVV 103
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP+G+ V PG T++N L + + P VHR+ + TSG+L+ AKT
Sbjct: 104 NKPAGMVVHPGHGNYTGTLVNALMHHFKNLPENADGR---PGLVHRIDKDTSGLLVIAKT 160
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+ A ++ F DKTS ++Y ALV G ++ED+ I+ IG
Sbjct: 161 EHALAHLSQQFKDKTS----------------ERLYYALVWGNIEEDEGTIEGHIGRHLK 204
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + ++ GKPA++ VLER TLVQ E+++GR HQIR H +GH L
Sbjct: 205 NRLMQDVFTDGEHGKPAVTHFKVLERFTY--VTLVQCELETGRTHQIRAHFKHIGHTLFN 262
Query: 258 DPLY----VAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
D Y V G + +F D F +P LHA L HPTT
Sbjct: 263 DERYGGNTVLKGTTYTKYKQFVDNCFK----------LIPRQA---LHAKTLGFEHPTTG 309
Query: 314 EVIKITAPLPSVL 326
E ++ +P L
Sbjct: 310 EFLRFDCGVPQDL 322
>gi|433475311|ref|ZP_20432652.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
88050]
gi|433513060|ref|ZP_20469854.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
63049]
gi|433515499|ref|ZP_20472271.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2004090]
gi|433517207|ref|ZP_20473956.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
96023]
gi|433523591|ref|ZP_20480256.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
97020]
gi|433527816|ref|ZP_20484427.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM3652]
gi|433529990|ref|ZP_20486583.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM3642]
gi|433532248|ref|ZP_20488814.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2007056]
gi|433534133|ref|ZP_20490678.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2001212]
gi|433540560|ref|ZP_20497015.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
63006]
gi|432211129|gb|ELK67084.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
88050]
gi|432248737|gb|ELL04161.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
63049]
gi|432254087|gb|ELL09423.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2004090]
gi|432254216|gb|ELL09551.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
96023]
gi|432260490|gb|ELL15748.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
97020]
gi|432266123|gb|ELL21311.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM3652]
gi|432267918|gb|ELL23090.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM3642]
gi|432268193|gb|ELL23364.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2007056]
gi|432272643|gb|ELL27750.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2001212]
gi|432277575|gb|ELL32621.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
63006]
Length = 374
Score = 118 bits (296), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 127/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QIPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLPAQ----------------NSLVRQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL GDP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAGDPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 301 AYRLSFTHPESGETVSFEAPIP 322
>gi|254804587|ref|YP_003082808.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis alpha14]
gi|254668128|emb|CBA04722.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis alpha14]
Length = 374
Score = 118 bits (296), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 125/262 (47%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIIYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QVPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLPAQ----------------NSLVQHLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL DP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAADPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP T E + AP+P
Sbjct: 301 AYRLSFTHPKTGETVSFEAPIP 322
>gi|421873629|ref|ZP_16305241.1| pseudouridine synthase, RluA family protein [Brevibacillus
laterosporus GI-9]
gi|372457416|emb|CCF14790.1| pseudouridine synthase, RluA family protein [Brevibacillus
laterosporus GI-9]
Length = 298
Score = 118 bits (296), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 94/315 (29%), Positives = 152/315 (48%), Gaps = 55/315 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL---LEVLYEDDD 73
+Q W ++ G++TV+ + + N ++ E+ P KE + L+++YED D
Sbjct: 26 VQAW---VKEGRVTVNDAPIKN-NYKVAMDDEISLRVPPPKELKIEAQAMDLDIVYEDSD 81
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP GL V P T++N L + K S ++ P VHR+ + TSG+L+
Sbjct: 82 VVVVNKPRGLVVHPALGHYTGTLVNGLMYHC-KDLSGING-VMRPGIVHRIDKDTSGLLM 139
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK A +A +L + + + Y ALVHG + + I PIG
Sbjct: 140 IAKNDKAHASLAA----------------QLKEHTVNRKYVALVHGEIPHEMGTIDAPIG 183
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R P + + V + KPA++ VLER ++ TLV++++++GR HQIR+H+ ++G+
Sbjct: 184 --RDPKNRQQMAVVFGNSKPAVTHFVVLER--MKDFTLVELKLETGRTHQIRVHMKYIGY 239
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D +N G LHA L HP+T
Sbjct: 240 PLAGDPKY---GPRKTLD-----------------IN------GQALHAKTLGFIHPSTG 273
Query: 314 EVIKITAPLPSVLKT 328
E ++ A LP L+
Sbjct: 274 EYMEFEADLPQELQA 288
>gi|416214106|ref|ZP_11622701.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis M01-240013]
gi|325143909|gb|EGC66219.1| ribosomal large subunit pseudouridine synthase D [Neisseria
meningitidis M01-240013]
Length = 356
Score = 118 bits (296), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 126/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 84 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QIPRAGIV 138
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 139 HRLDKETSGLMVVAKTLSAQ----------------NSLVRQLQERTVKRIYRAVANGIV 182
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 183 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 237
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL DP+Y G P+ + G + LH
Sbjct: 238 HQIRVHMREANHPLAADPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 282
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP T E + AP+P
Sbjct: 283 AYRLSFTHPKTGETVSFEAPIP 304
>gi|209559192|ref|YP_002285664.1| ribosomal large subunit pseudouridine synthase [Streptococcus
pyogenes NZ131]
gi|209540393|gb|ACI60969.1| Putative ribosomal large subunit pseudouridine synthase
[Streptococcus pyogenes NZ131]
Length = 296
Score = 118 bits (296), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 87/274 (31%), Positives = 137/274 (50%), Gaps = 51/274 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L ++ ++P L+++YEDD L + KP G+ V P G T++N L + K SS++
Sbjct: 65 LEYQAQNIP--LDIIYEDDTLAIITKPQGMVVHPSGGHPSGTMVNALMYHI-KDLSSING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AKT A +A EL +K + Y
Sbjct: 122 -VVRPGIVHRIDKDTSGLLMVAKTDAAHQALA----------------EELKAKKSLRKY 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ +I+ PIG R K V + GK A+++ VLER + +LV+
Sbjct: 165 LAIVHGNLPNDRGMIEAPIG--RSEKDRKKQAVTA-KGKEAVTRFTVLERF--GDYSLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+++++GR HQIR+H+A++GHP+ GDPLY G K+
Sbjct: 220 LQLETGRTHQIRVHMAYIGHPVAGDPLY---GPRKTLSGH-------------------- 256
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G +LHA L L+HP T + + T P + +
Sbjct: 257 ---GQFLHAKTLGLTHPMTGKEMIFTVEAPEIFQ 287
>gi|410494539|ref|YP_006904385.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
dysgalactiae subsp. equisimilis AC-2713]
gi|410439699|emb|CCI62327.1| K06180 ribosomal large subunit pseudouridine synthase D
[Streptococcus dysgalactiae subsp. equisimilis AC-2713]
Length = 297
Score = 118 bits (296), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 91/282 (32%), Positives = 142/282 (50%), Gaps = 52/282 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L ++ D+P L ++YED+ L +NKP G+ V P T++N L + K SS++
Sbjct: 65 LEYQAQDIP--LNIIYEDEALAIINKPQGMVVHPSAGHPSGTMVNALMYHI-KDLSSING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AKT A +A EL +K + Y
Sbjct: 122 -VVRPGIVHRIDKDTSGLLMVAKTDAAHQALA----------------EELKAKKSLRKY 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ +I+ PIG R K V + GK A+++ VLER + +LV+
Sbjct: 165 LAIVHGNLPNDRGMIEAPIG--RSEKDRKKQAVIA-KGKEAVTRFTVLERF--GDYSLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+++++GR HQIR+H+A++GHP+ GDPLY G K+
Sbjct: 220 LQLETGRTHQIRVHMAYIGHPVAGDPLY---GPRKTLSGH-------------------- 256
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVL-KTREEGRE 334
G +LHA L L+HP T E + T P++ KT ++ R+
Sbjct: 257 ---GQFLHAETLGLTHPLTGEDMLFTVAPPAIFQKTLQQLRQ 295
>gi|192288803|ref|YP_001989408.1| RluA family pseudouridine synthase [Rhodopseudomonas palustris
TIE-1]
gi|192282552|gb|ACE98932.1| pseudouridine synthase, RluA family [Rhodopseudomonas palustris
TIE-1]
Length = 334
Score = 118 bits (296), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 96/310 (30%), Positives = 144/310 (46%), Gaps = 35/310 (11%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDDLIALNKP 80
I +G++ + G V DP S G + P + L+++YED D+I LNKP
Sbjct: 42 ILDGRVAIAGTPVRDPAYHASPGETITIDVPPPVPAEPAGEAIALDIVYEDADIIVLNKP 101
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
GL V P + T++N L S + P VHRL + T+G+++ AK A
Sbjct: 102 RGLVVHPAAGHETGTLVNALIAHCGASLSGIGG-VRRPGIVHRLDKDTTGLMVAAKNDKA 160
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGV 200
++ FAD ++ + Y A V G+ I PI R+P
Sbjct: 161 HQSLSAQFADHGRT------------GELRRGYLAFVWGVPGRKYGTIDAPID--RHPHA 206
Query: 201 AKGLYVASPSGKPALSKVDVLE----RDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
+ + V G+ A++ +VLE +D + L+ ++++GR HQIR+HLA LGHPLL
Sbjct: 207 REKMAVRQ-GGREAITHWEVLENFAGKDGKPVAALIACQLETGRTHQIRVHLAHLGHPLL 265
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G K+ ++ A A G R LHAY L L HP+T EV+
Sbjct: 266 GDDVY--GPHFKTKANQLAPAGRAALAGLGRQA----------LHAYLLTLEHPSTGEVL 313
Query: 317 KITAPLPSVL 326
+PLP+ L
Sbjct: 314 TWESPLPADL 323
>gi|422337112|ref|ZP_16418084.1| ribosomal large subunit pseudouridine synthase D [Aggregatibacter
aphrophilus F0387]
gi|353345664|gb|EHB89955.1| ribosomal large subunit pseudouridine synthase D [Aggregatibacter
aphrophilus F0387]
Length = 324
Score = 118 bits (296), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 97/328 (29%), Positives = 161/328 (49%), Gaps = 52/328 (15%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I++ + V+G V N P + + + +
Sbjct: 22 TLAELFPDYSRSR--LKTW---IEDDLVLVNGVVQNVPRTKVYGDEHIEITVEIEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD++ +NKP L V PG + TVLN L + + + +
Sbjct: 77 EPENIP--LNIVYEDDDILVINKPKDLVVHPGAGNPKGTVLNALLYHYPQIAEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTQL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + +P+ R+P + V P GKPA++ ++ER R+ T +++ +
Sbjct: 174 ACGIMTKGGTV-DEPMA--RHPTKRTHMAV-HPMGKPAITHYRIMER--FRDYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDC 296
++GR HQIR+H+A L HPLLGD Y GG+P+ E +N +
Sbjct: 228 ETGRTHQIRVHMAHLAHPLLGDQTY--GGRPRP-----------PKNASEELMNVLRNFK 274
Query: 297 GYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L HP + E+++ APLP
Sbjct: 275 RQALHAIMLRLQHPISGEMMEWYAPLPE 302
>gi|422009844|ref|ZP_16356826.1| 23S rRNA pseudouridine synthase D [Providencia rettgeri Dmel1]
gi|414092017|gb|EKT53696.1| 23S rRNA pseudouridine synthase D [Providencia rettgeri Dmel1]
Length = 325
Score = 118 bits (296), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 92/302 (30%), Positives = 151/302 (50%), Gaps = 47/302 (15%)
Query: 28 QITVDGRVVNDPNIILSAGSELVYHRL-----PWKEPDVPYLLEVLYEDDDLIALNKPSG 82
++ V+G+V+N P + +++ L W+ D+P L V+YED+D++ +NKP
Sbjct: 44 RVQVNGKVINKPKEKVFGSEQILIDALIEEDNRWEPQDIP--LNVIYEDEDILIINKPRD 101
Query: 83 LQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKT 142
L V PG T+LN L +R + + + VHRL + T+G+++ AKT A+T
Sbjct: 102 LVVHPGAGNPDGTILNALLYRYPEIADVPRAGI-----VHRLDKDTTGLMVVAKTVPAQT 156
Query: 143 CIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAK 202
+ V L +R+IT+ Y A+ G + ++++PI R+P
Sbjct: 157 HL----------------VEALQRREITREYEAVAVGRMTAGG-MVEEPIS--RHPTKRT 197
Query: 203 GLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYV 262
+ V P GKPA++ V+E R T +++ +++GR HQIR+H+A + HPL+GDPLY
Sbjct: 198 HMAV-HPMGKPAITHYRVMEH--FRAHTRLRLRLETGRTHQIRVHMAHINHPLIGDPLY- 253
Query: 263 AGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPL 322
GG+P+ G E + + LHA L L HP + ++ APL
Sbjct: 254 -GGRPRPL-----------KGATEEFLEVMRNFDRQALHATMLRLYHPISGIQMEWHAPL 301
Query: 323 PS 324
P
Sbjct: 302 PD 303
>gi|379727342|ref|YP_005319527.1| ribosomal large subunit pseudouridine synthase D [Melissococcus
plutonius DAT561]
gi|376318245|dbj|BAL62032.1| ribosomal large subunit pseudouridine synthase D [Melissococcus
plutonius DAT561]
Length = 302
Score = 118 bits (296), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 79/264 (29%), Positives = 128/264 (48%), Gaps = 49/264 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+++YED D++ +NKP G+ V P + T+++ L + SS + P VHR+
Sbjct: 79 LDIVYEDQDVVVINKPQGMVVHPSAGHFKGTMVHALLYHIKDLSSI--NDVIRPGIVHRI 136
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ TSG+L+ AK A +A DKT I + Y AL+HG V +
Sbjct: 137 DKDTSGLLIVAKNNQAHEALAKQLKDKT----------------ILRKYIALIHGEVPHE 180
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ I PIG + + + G+ A++ VLE+ TL+++++++GR HQI
Sbjct: 181 QGTIDAPIGRSK---TNRKMQAIIKDGRSAVTHFKVLEKFT--GYTLIELQLETGRTHQI 235
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++GHP+ GDP+Y G K+ E G +LHA
Sbjct: 236 RVHMKYIGHPVAGDPVY---GPKKTLKGE-----------------------GQFLHAKV 269
Query: 305 LFLSHPTTNEVIKITAPLPSVLKT 328
L +HPTT+E + APLP + +
Sbjct: 270 LGFTHPTTHERMVFEAPLPEIFQN 293
>gi|78066563|ref|YP_369332.1| ribosomal large subunit pseudouridine synthase D [Burkholderia sp.
383]
gi|77967308|gb|ABB08688.1| ribosomal large subunit pseudouridine synthase D [Burkholderia sp.
383]
Length = 402
Score = 118 bits (296), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 106/321 (33%), Positives = 158/321 (49%), Gaps = 56/321 (17%)
Query: 17 LQGWLQRIQNGQITVDGR--VVNDPNIILSAGSELVYHRLPWK---EPDVPYLLEVLYED 71
LQ W I+ ++ VDG + P + L A +LV LP + P+ P L+V+YED
Sbjct: 87 LQSW---IEAQRVLVDGAPAKIRQP-VPLGAKIQLVPDLLPEQLAFTPE-PVPLDVIYED 141
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
D L+ +NKP+GL V P T+LN L R ++ L VHRL + TSG+
Sbjct: 142 DALVVINKPAGLVVHPAAGNWSGTILNGLLHRYGDAAAGLPRAGI----VHRLDKETSGL 197
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ A+T A+T + V +L R + + Y ALV G + E+ I P
Sbjct: 198 MVVARTLAAQTDL----------------VRQLQARTVKRRYFALVWGTMPEEGTI-DAP 240
Query: 192 IGIVRYPGVAKGLYVAS-PSGKPALSKVDVLERDV-QRN-CTLVQVEIQSGRPHQIRIHL 248
IG R P + V + SGKPA + ++ + QR + +Q ++++GR HQIR+H
Sbjct: 241 IG--RDPRERTRMAVVTGASGKPARTHFRTVDTCLWQRQPVSAIQCDLETGRTHQIRVHC 298
Query: 249 AFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP-GDCGYYLHAYQLFL 307
A GHPLLGDP+Y G+ + +R V P+P G LHA++L L
Sbjct: 299 AHAGHPLLGDPVY---GRARG----------------KRSVTPLPDGFARQALHAWRLGL 339
Query: 308 SHPTTNEVIKITAPLPSVLKT 328
HP T + ++ PLP + T
Sbjct: 340 VHPVTGKAMQWRCPLPDDMNT 360
>gi|355629663|ref|ZP_09050494.1| hypothetical protein HMPREF1020_04573 [Clostridium sp. 7_3_54FAA]
gi|354819056|gb|EHF03512.1| hypothetical protein HMPREF1020_04573 [Clostridium sp. 7_3_54FAA]
Length = 310
Score = 118 bits (296), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 89/298 (29%), Positives = 139/298 (46%), Gaps = 56/298 (18%)
Query: 27 GQITVDGRVVNDPNII-LSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIALNKPSGLQV 85
G++ RV+ + NI+ + E R+ VP L VLYED+DL+ +NK +G+ V
Sbjct: 58 GELAYTTRVLKEGNILSVRLSEETSSERII----PVPMELSVLYEDEDLMVINKAAGMPV 113
Query: 86 LPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIA 145
P T+ N L W ++ + +A V+RL R T+G+LL AK L+ ++
Sbjct: 114 HPSQGNFDNTLANGLAWYFKEKGEAFVFRA-----VNRLDRDTTGLLLIAKNMLSGAILS 168
Query: 146 GYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAKGLY 205
++KT I + YRA+V G+ +E+ I + I R G
Sbjct: 169 SMVSEKT----------------IRREYRAIVSGLTEEEGCICRP---IARAEGSTIERC 209
Query: 206 VASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGG 265
V G+ A ++ L D ++C+L+ + + +GR HQIR+H+ ++GHPLLGD LY
Sbjct: 210 VDPERGEYACTRYRRLGYDRDKDCSLLLITLDTGRTHQIRVHMKYIGHPLLGDFLY---- 265
Query: 266 QPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLP 323
P D F + LH+ +L +HP T E + TAPLP
Sbjct: 266 NP--------DYRFIKRQS---------------LHSCRLTFTHPLTGEAMDFTAPLP 300
>gi|65321221|ref|ZP_00394180.1| COG0564: Pseudouridylate synthases, 23S RNA-specific [Bacillus
anthracis str. A2012]
gi|229600532|ref|YP_002868128.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0248]
gi|270000606|ref|YP_003329045.1| ribosomal large subunit pseudouridine synthase [Bacillus anthracis
str. Ames]
gi|291612221|ref|YP_003541035.1| ribosomal large subunit pseudouridine synthase [Bacillus anthracis
str. 'Ames Ancestor']
gi|224552855|gb|ACN55066.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. 'Ames Ancestor']
gi|229264940|gb|ACQ46577.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0248]
gi|269850243|gb|ACZ49983.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. Ames]
Length = 302
Score = 118 bits (296), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 94/314 (29%), Positives = 147/314 (46%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDDVVTVNGKAVKG-NYKVRENDEITVTIPEPEELDIQPEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP + V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRSMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + +T+ Y+A+VHG++ DK I PI
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPIA 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKHAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIQFEAPIPEVFE 294
>gi|417992968|ref|ZP_12633319.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei CRF28]
gi|410532377|gb|EKQ07085.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei CRF28]
Length = 291
Score = 118 bits (296), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 97/329 (29%), Positives = 160/329 (48%), Gaps = 60/329 (18%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP--- 59
+I + T H S +Q WLQ +G +TV+G+ N +++G +++ +P +P
Sbjct: 17 VITAHETTHTRSQ-VQKWLQ---DGLVTVNGQPTK-ANYKVASG-DVIAISIPEAKPLEA 70
Query: 60 -DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
P L+++YEDD +I ++KP G+ V P T++N L + + P
Sbjct: 71 IPEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLPGIN---GVIRP 127
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
VHR+ + TSG+L+ AKT+ A+ ++ KTS+ + Y ALV
Sbjct: 128 GIVHRIDKDTSGLLMVAKTEKAQLSLSAQLKAKTSI----------------REYLALVR 171
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G ED+ I P+G R P K V + +G+ A++ VLER + T ++ +++
Sbjct: 172 GTFKEDEGTIDAPLG--RDPRDRKRQAVVA-AGRHAVTHFQVLER--FEHYTFIKCILET 226
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQIR+H+A++ HP+ GDPLY P +PG G
Sbjct: 227 GRTHQIRVHMAYIHHPVAGDPLY-------------------------GPKRTLPGK-GQ 260
Query: 299 YLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
+LHA +L HPTT +++ AP+P + +
Sbjct: 261 FLHAAKLGFVHPTTGQLLVFEAPVPPIFE 289
>gi|196038675|ref|ZP_03105983.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus NVH0597-99]
gi|196030398|gb|EDX68997.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus NVH0597-99]
Length = 302
Score = 118 bits (296), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 94/314 (29%), Positives = 147/314 (46%), Gaps = 56/314 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV---PYLLEVLYEDDD 73
+Q W I++ +TV+G+ V N + E+ +E D+ LE+ YED D
Sbjct: 34 VQQW---IKDDVVTVNGKAVKG-NYKVRENDEITVTIPEPEELDIQPEDMNLEIYYEDAD 89
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILL 133
++ +NKP G+ V P T++N L + S + P VHR+ + TSG+L+
Sbjct: 90 VLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI--NGVMRPGIVHRIDKDTSGLLM 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK +A +S V +L + + + Y+A+VHG++ DK I PI
Sbjct: 148 VAKNDMAH----------------ESLVNQLVAKTVIRRYKAIVHGVIPHDKGTIDAPIA 191
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R + + V +GK A++ VLER ++ TLV+ +++GR HQIR+H+ ++G+
Sbjct: 192 --RDKKERQSMTV-DENGKHAVTHFQVLER--FKDFTLVECRLETGRTHQIRVHMKYIGY 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL GDP Y G K+ D G LHA L HP T
Sbjct: 247 PLAGDPKY---GPKKTLDMN-----------------------GQALHAGILGFDHPRTG 280
Query: 314 EVIKITAPLPSVLK 327
E I+ AP+P V +
Sbjct: 281 EYIQFEAPIPEVFE 294
>gi|422327552|ref|ZP_16408579.1| RluA family pseudouridine synthase [Erysipelotrichaceae bacterium
6_1_45]
gi|371663392|gb|EHO28582.1| RluA family pseudouridine synthase [Erysipelotrichaceae bacterium
6_1_45]
Length = 304
Score = 118 bits (296), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 80/259 (30%), Positives = 123/259 (47%), Gaps = 48/259 (18%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L+V YED+D+I +NKP + V P Q T++N L + K S ++ P VHR+
Sbjct: 79 LDVRYEDEDVIVINKPKNIVVHPAAGNQSGTLVNGLLYHC-KDLSGINGTLR-PGIVHRI 136
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ T+G+L+ AK LA ++ KT + ++Y ALVHG++ D
Sbjct: 137 DKDTTGLLIIAKNDLAHASLSKQLQSKT----------------VNRLYYALVHGVIQHD 180
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
I PIG R + + V + + K A + V+ER N TLV+ +++GR HQI
Sbjct: 181 FGTIDAPIG--RDVKDRQKMAVTATNSKDARTHFQVIER--FENYTLVECRLETGRTHQI 236
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+ ++GHP++GD Y Y + + G LH +Q
Sbjct: 237 RVHMQYIGHPVVGDEKY----------------------SYRKTMQT----NGQLLHVHQ 270
Query: 305 LFLSHPTTNEVIKITAPLP 323
L HP T EV+ + A LP
Sbjct: 271 LTFQHPRTGEVMTVEAELP 289
>gi|407697523|ref|YP_006822311.1| pseudouridine synthase [Alcanivorax dieselolei B5]
gi|407254861|gb|AFT71968.1| Pseudouridine synthase [Alcanivorax dieselolei B5]
Length = 323
Score = 118 bits (296), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 104/325 (32%), Positives = 154/325 (47%), Gaps = 48/325 (14%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL--LEVLYEDDDL 74
LQ W I+ G +TV+GR + ++ S + L + D P L V+YED+DL
Sbjct: 40 LQTW---IKQGALTVNGRKARPKDKLVGGESLTLEAELAPELEDQPEAISLPVVYEDEDL 96
Query: 75 IALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLC 134
I +NKP+GL V P T+LN L ++ SSL VHRL R T+G+++
Sbjct: 97 IVINKPAGLVVHPAAGHADGTLLNGL-LHLDERLSSLPRAGI----VHRLDRDTTGLMVV 151
Query: 135 AKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGI 194
A++ A + DK+ + + Y A+ G++ + PIG
Sbjct: 152 ARSLEAHNGLVAQLQDKS----------------LHREYEAIAVGVMTGGGTV-DAPIG- 193
Query: 195 VRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHP 254
R+P K V + GKPA++ V++R R T +QV +++GR HQIR+H+A +P
Sbjct: 194 -RHPVDRKRQAVVAQGGKPAVTHFRVMDR--YRAHTRIQVRLETGRTHQIRVHMAHRHYP 250
Query: 255 LLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNE 314
L+GDPLY GG+ K F G + P LHA +L L HP + E
Sbjct: 251 LMGDPLY--GGRLK-----FPAGATE---ALREALRRFPRQA---LHARRLGLVHPVSGE 297
Query: 315 VIKITAPLPSVLKT----REEGREV 335
++ PLP L+T EE RE
Sbjct: 298 YLEFETPLPEDLQTLIRVLEEDREA 322
>gi|448237306|ref|YP_007401364.1| pseudouridylate synthase [Geobacillus sp. GHH01]
gi|445206148|gb|AGE21613.1| pseudouridylate synthase [Geobacillus sp. GHH01]
Length = 304
Score = 118 bits (296), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 97/305 (31%), Positives = 146/305 (47%), Gaps = 52/305 (17%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELV---YHRLPWKEPDVPYLLEVLYEDDDLIALN 78
Q I++G +TV+G+ V N AG + P + P L++ YED+D++ +N
Sbjct: 35 QWIKSGLVTVNGKTVK-ANYKCEAGDAVAVSPPEPEPLEVEPEPIPLDIYYEDEDVLVVN 93
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP G+ V P + T++N L A + S + P VHR+ + TSG+L+ AK
Sbjct: 94 KPRGMVVHPAPGHMRGTLVNALL--AHCRDLSGINGVLRPGIVHRIDKDTSGLLMVAKND 151
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A S V +L + +T+ Y+A+VHG++ D I PIG R
Sbjct: 152 AAHR----------------SLVEQLVNKTVTRRYKAIVHGVIPHDYGTIDAPIG--RDK 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
K + V +GK A++ VLER R+ T V+ ++++GR HQIR+H+ ++G+PL GD
Sbjct: 194 RDRKKMAVTEENGKEAVTHFRVLER--FRHYTYVECQLETGRTHQIRVHMKYIGYPLAGD 251
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P Y PK T A D G LHA L HP + E ++
Sbjct: 252 PQY----GPKK--------TLAID--------------GQALHAGVLGFRHPRSGEYLEF 285
Query: 319 TAPLP 323
APLP
Sbjct: 286 EAPLP 290
>gi|385209738|ref|ZP_10036606.1| pseudouridine synthase, RluA family [Burkholderia sp. Ch1-1]
gi|385182076|gb|EIF31352.1| pseudouridine synthase, RluA family [Burkholderia sp. Ch1-1]
Length = 431
Score = 118 bits (295), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 105/323 (32%), Positives = 159/323 (49%), Gaps = 62/323 (19%)
Query: 17 LQGWLQRIQNGQITVDGR--VVNDPNIILSAGSELVYHRLPWK---EPDVPYLLEVLYED 71
LQ W I+ ++ +DG+ + P + L A ELV LP + P+ P L ++YED
Sbjct: 95 LQSW---IEAERVRIDGKPAKIRQP-VPLGATIELVPDLLPEQLAFTPE-PVPLAIVYED 149
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
D L+ +NKP+G+ V P T+LN L +R ++ L VHRL + TSG+
Sbjct: 150 DTLVVINKPAGMVVHPAAGNWSGTLLNGLLYRYGDAAAGLPRAGI----VHRLDKETSGL 205
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ A+T A+T + V +L R + + Y ALV G + E+ I P
Sbjct: 206 MVVARTLEAQTDL----------------VRQLQARTVKRRYLALVWGNMPEEGTI-DAP 248
Query: 192 IGIVRYP-GVAKGLYVASPSGKPA---LSKVD--VLERDVQRNCTLVQVEIQSGRPHQIR 245
IG R P + V S SGKPA +VD + ER + T + ++++GR HQIR
Sbjct: 249 IG--RDPRERTRMAVVTSASGKPARTHFRRVDSAIWER---QPVTAIHCDLETGRTHQIR 303
Query: 246 IHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY-YLHAYQ 304
+H A +GHPLLGDP+Y G+ + +R V P+PG LHA++
Sbjct: 304 VHCAHIGHPLLGDPVY---GRARG----------------KRSVTPLPGGFARQALHAWR 344
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L L HP T ++ A +P ++
Sbjct: 345 LGLIHPKTGRTMQWRADVPEDME 367
>gi|254670508|emb|CBA06264.1| ribosomal large subunit pseudouridine synthase D, partial
[Neisseria meningitidis alpha153]
Length = 373
Score = 118 bits (295), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 85/262 (32%), Positives = 126/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 120 PMALDIIYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QVPRAGIV 174
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 175 HRLDKETSGLMVVAKTLPAQ----------------NSLVQQLQERTVKRIYRAVANGIV 218
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 219 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 273
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL DP+Y G P+ + G + LH
Sbjct: 274 HQIRVHMREANHPLAADPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 318
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 319 AYRLSFTHPESGETVSFEAPIP 340
>gi|213691700|ref|YP_002322286.1| RluA family pseudouridine synthase [Bifidobacterium longum subsp.
infantis ATCC 15697 = JCM 1222]
gi|213523161|gb|ACJ51908.1| pseudouridine synthase, RluA family [Bifidobacterium longum subsp.
infantis ATCC 15697 = JCM 1222]
Length = 320
Score = 118 bits (295), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 95/302 (31%), Positives = 141/302 (46%), Gaps = 47/302 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL--LEVLYEDDDLIALNKPS 81
+ +GQ V GR V + L AG + + + P + V+YEDDD+I ++KP
Sbjct: 35 VDSGQARVLGREVARSST-LQAGETVEFDLAEEQAGPEPIATDMAVVYEDDDVIVVDKPV 93
Query: 82 GLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAK 141
G+ + TVL L+ R +S A V RL GTSG++L K+ LA
Sbjct: 94 GVAAHASVGWTGPTVLGSLRDRGVHIASY--GAAGREGIVSRLDVGTSGLMLVCKSDLAY 151
Query: 142 TCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVA 201
T + FA + ++ K Y ALV G + E+K I+ PIG + V+
Sbjct: 152 TEMRRQFA----------------EHEVKKTYHALVQGGLKENKATIEAPIGRAK---VS 192
Query: 202 KGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLY 261
+ +P+GKPA++ DVLER TLV V +++GR HQIR+H + +GHPL GDP+Y
Sbjct: 193 DFRFCVTPAGKPAVTHWDVLER-FGHEATLVSVNLETGRTHQIRVHFSSIGHPLCGDPMY 251
Query: 262 VAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
G P ++ G +R +LHA +L HP T + +
Sbjct: 252 --GANP----------VLSEALGLDR----------QWLHAMKLEFRHPRTRVWTTVRSQ 289
Query: 322 LP 323
P
Sbjct: 290 YP 291
>gi|405980842|ref|ZP_11039171.1| RluA family pseudouridine synthase [Actinomyces neuii BVS029A5]
gi|404392861|gb|EJZ87918.1| RluA family pseudouridine synthase [Actinomyces neuii BVS029A5]
Length = 304
Score = 118 bits (295), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 87/270 (32%), Positives = 130/270 (48%), Gaps = 45/270 (16%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P+ +E+L+ED D++ +NKP G+ G ++ TV+ L AS + + S V
Sbjct: 76 PFGMEILFEDPDIVVVNKPVGVAAHTGPGWEGPTVIGALI--ASGRRVATSGPVERQGIV 133
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL GTSG ++ K++ A T + F RK+ KIY ALV G
Sbjct: 134 HRLDVGTSGAMVVTKSERAYTVMKNAF----------------RYRKVKKIYHALVSGHP 177
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D ++ PIG R+PG + V GK A++ D +E +L++V +++GR
Sbjct: 178 DPSSGTVEAPIG--RHPGREFKMGVVE-GGKMAVTHYDTIE--AMPGASLLRVHLETGRT 232
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ +GHP++GDP Y GG P T A+ G R +LH
Sbjct: 233 HQIRVHMQAIGHPIVGDPTY--GGNP----------TEAERLGLVR----------QWLH 270
Query: 302 AYQLFLSHPTTNEVIKITAPLPSVLKTREE 331
A QL +HP T + + AP P L+ E
Sbjct: 271 AVQLSFAHPITGRTLTVDAPYPEDLENALE 300
>gi|116253506|ref|YP_769344.1| ribosomal large subunit pseudouridine synthase D [Rhizobium
leguminosarum bv. viciae 3841]
gi|115258154|emb|CAK09255.1| putative ribosomal large subunit pseudouridine synthase D
[Rhizobium leguminosarum bv. viciae 3841]
Length = 341
Score = 118 bits (295), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 94/315 (29%), Positives = 145/315 (46%), Gaps = 44/315 (13%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP------YLLEVLYEDDDLIAL 77
I++GQ+ + G V DP + G L EP+ P L++L+EDDD+I +
Sbjct: 46 IKDGQVLLRGEPVTDPQRKVRTGDSF---ELTLPEPEDPTPQGEDIPLDILHEDDDVIVI 102
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
+KPSGL V PG T++N L S S + P VHRL + T+G+++ AK
Sbjct: 103 SKPSGLVVHPGAGNWTGTLVNALIHHCSDTLSGIGG-VRRPGIVHRLDKDTTGVMVVAKN 161
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+A ++ FAD + + + Y+A+V G + P+G R
Sbjct: 162 DIAHRHLSLQFADHGRTM------------PLERAYQAIVWGRPRTLSGTVDAPLG--RA 207
Query: 198 PGVAKGLYVASPSGK---PALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIRIHLA 249
G V P + A++ V+ER D +LV+ +++GR HQIR+H+A
Sbjct: 208 TGDRTRRAVKRPDSQDADEAITHYQVIERFHEKPDATAFASLVECRLETGRTHQIRVHMA 267
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
+GHPLLGD +Y AG + K+ + + G+ R LHA+ L H
Sbjct: 268 HIGHPLLGDTVYGAGFKTKA--NLLPEEIRKVVNGFGRQA----------LHAFMLQFEH 315
Query: 310 PTTNEVIKITAPLPS 324
P T E++ PLP
Sbjct: 316 PRTGEIMHFEVPLPD 330
>gi|424872040|ref|ZP_18295702.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
viciae WSM1455]
gi|393167741|gb|EJC67788.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
viciae WSM1455]
Length = 341
Score = 118 bits (295), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 94/315 (29%), Positives = 145/315 (46%), Gaps = 44/315 (13%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP------YLLEVLYEDDDLIAL 77
I++GQ+ + G V DP + G L EP+ P L++L+EDDD+I +
Sbjct: 46 IKDGQVFLRGEPVTDPQRKVRTGDSF---ELTLPEPEDPTPQGEDIPLDILHEDDDVIVI 102
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
+KPSGL V PG T++N L S S + P VHRL + T+G+++ AK
Sbjct: 103 SKPSGLVVHPGAGNWTGTLVNALIHHCSDTLSGIGG-VRRPGIVHRLDKDTTGVMVVAKN 161
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+A ++ FAD + + + Y+A+V G + P+G R
Sbjct: 162 DIAHRHLSLQFADHGRTM------------PLERAYQAIVWGRPRTLSGTVDAPLG--RA 207
Query: 198 PGVAKGLYVASPSGK---PALSKVDVLER-----DVQRNCTLVQVEIQSGRPHQIRIHLA 249
G V P + A++ V+ER D +LV+ +++GR HQIR+H+A
Sbjct: 208 TGDRTRRAVKRPDSQDADEAITHYQVIERFHEKPDATAFASLVECRLETGRTHQIRVHMA 267
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
+GHPLLGD +Y AG + K+ + + G+ R LHA+ L H
Sbjct: 268 HIGHPLLGDTVYGAGFKTKA--NLLPEEIRKVVNGFGRQA----------LHAFMLQFEH 315
Query: 310 PTTNEVIKITAPLPS 324
P T E++ PLP
Sbjct: 316 PRTGEIMHFEVPLPD 330
>gi|384198839|ref|YP_005584582.1| hypothetical protein [Bifidobacterium longum subsp. infantis ATCC
15697 = JCM 1222]
gi|320457791|dbj|BAJ68412.1| conserved hypothetical protein [Bifidobacterium longum subsp.
infantis ATCC 15697 = JCM 1222]
Length = 317
Score = 118 bits (295), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 95/302 (31%), Positives = 141/302 (46%), Gaps = 47/302 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL--LEVLYEDDDLIALNKPS 81
+ +GQ V GR V + L AG + + + P + V+YEDDD+I ++KP
Sbjct: 32 VDSGQARVLGREVARSST-LQAGETVEFDLAEEQAGPEPIATDMAVVYEDDDVIVVDKPV 90
Query: 82 GLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAK 141
G+ + TVL L+ R +S A V RL GTSG++L K+ LA
Sbjct: 91 GVAAHASVGWTGPTVLGSLRDRGVHIASY--GAAGREGIVSRLDVGTSGLMLVCKSDLAY 148
Query: 142 TCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVA 201
T + FA + ++ K Y ALV G + E+K I+ PIG + V+
Sbjct: 149 TEMRRQFA----------------EHEVKKTYHALVQGGLKENKATIEAPIGRAK---VS 189
Query: 202 KGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLY 261
+ +P+GKPA++ DVLER TLV V +++GR HQIR+H + +GHPL GDP+Y
Sbjct: 190 DFRFCVTPAGKPAVTHWDVLER-FGHEATLVSVNLETGRTHQIRVHFSSIGHPLCGDPMY 248
Query: 262 VAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
G P ++ G +R +LHA +L HP T + +
Sbjct: 249 --GANP----------VLSEALGLDR----------QWLHAMKLEFRHPRTRVWTTVRSQ 286
Query: 322 LP 323
P
Sbjct: 287 YP 288
>gi|416217936|ref|ZP_11624604.1| ribosomal large subunit pseudouridine synthase D [Moraxella
catarrhalis 7169]
gi|416242382|ref|ZP_11633418.1| ribosomal large subunit pseudouridine synthase D [Moraxella
catarrhalis BC7]
gi|416246991|ref|ZP_11635360.1| ribosomal large subunit pseudouridine synthase D [Moraxella
catarrhalis BC8]
gi|421780079|ref|ZP_16216569.1| ribosomal large subunit pseudouridine synthase D [Moraxella
catarrhalis RH4]
gi|326560261|gb|EGE10649.1| ribosomal large subunit pseudouridine synthase D [Moraxella
catarrhalis 7169]
gi|326570229|gb|EGE20274.1| ribosomal large subunit pseudouridine synthase D [Moraxella
catarrhalis BC8]
gi|326570966|gb|EGE20990.1| ribosomal large subunit pseudouridine synthase D [Moraxella
catarrhalis BC7]
gi|407812873|gb|EKF83657.1| ribosomal large subunit pseudouridine synthase D [Moraxella
catarrhalis RH4]
Length = 355
Score = 118 bits (295), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 94/309 (30%), Positives = 154/309 (49%), Gaps = 46/309 (14%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRL-PWKEPDVP--YLLEVLYEDDDLIALNKP 80
I GQ+TV+G+VV P + G L + D+P ++++YED+ +I +NKP
Sbjct: 77 IDEGQLTVNGKVVK-PKYAVKVGDILTLEAVHESHSEDLPENIDIDIIYEDEAVIIINKP 135
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
+G+ V PG + T++N L + KQ+ + VHR+ + T+G+L+ A+TK A
Sbjct: 136 AGMVVHPGAGNRTGTLVNALLYHFPKQAHLPRAGL-----VHRIDKDTTGLLVIARTKSA 190
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDE--DKVIIKQPIGIVRYP 198
+ S+ID +L + + + Y+ + G V E I PIG R+
Sbjct: 191 QL----------SLID------QLKDKSVYRHYQCIALGAVHEVLRHAQIDAPIG--RHS 232
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ V +GKPAL+ + V + + +L+ + +++GR HQIR+HL+++GHPL+GD
Sbjct: 233 THRTKMAVKQ-TGKPALTHI-VNAKYLHERYSLLDIHLKTGRTHQIRVHLSYVGHPLVGD 290
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P+Y GT + G +R + LHAY L HP T E +K
Sbjct: 291 PVY---------------GTSPRSGLSDRQRCAILDFGRQALHAYMLGFIHPVTGEAMKF 335
Query: 319 TAPLPSVLK 327
APLP ++
Sbjct: 336 HAPLPKDMQ 344
>gi|423349330|ref|ZP_17326986.1| RluA family pseudouridine synthase [Scardovia wiggsiae F0424]
gi|393702878|gb|EJD65080.1| RluA family pseudouridine synthase [Scardovia wiggsiae F0424]
Length = 315
Score = 118 bits (295), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 87/269 (32%), Positives = 133/269 (49%), Gaps = 46/269 (17%)
Query: 58 EPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASH 117
EP V Y + ++YEDDDL+ ++KP G+ P + TVL L+ R + Q
Sbjct: 75 EP-VDYGMRIVYEDDDLVIVDKPVGMAAHPSVGWTGPTVLGTLKARGV-HITEYGPQGRQ 132
Query: 118 PVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALV 177
+ V RL GTSG++L K++LA + F S+ ++TKIY A+
Sbjct: 133 GI-VSRLDAGTSGLMLVCKSELAYREMRRQF----------------SEHEVTKIYYAVA 175
Query: 178 HGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQ 237
G + +DK + PIG R P VA + P G+PA++ DV+ER + T + V ++
Sbjct: 176 QGSLKQDKATVDAPIG--RDP-VADFRFTIMPDGRPAITHWDVMERFGE--TTYISVNLE 230
Query: 238 SGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCG 297
+GR HQIR+H++ +GHPL+GD +Y G P A+ G R
Sbjct: 231 TGRTHQIRVHMSSIGHPLVGDTMY--GANP----------VLARGLGIGR---------- 268
Query: 298 YYLHAYQLFLSHPTTNEVIKITAPLPSVL 326
+LH+ +L HP T V+ + + LP L
Sbjct: 269 QWLHSMKLEFKHPHTRLVVHVESELPGDL 297
>gi|158425878|ref|YP_001527170.1| pseudouridine synthase [Azorhizobium caulinodans ORS 571]
gi|158332767|dbj|BAF90252.1| pseudouridine synthase [Azorhizobium caulinodans ORS 571]
Length = 354
Score = 118 bits (295), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 97/310 (31%), Positives = 147/310 (47%), Gaps = 36/310 (11%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL---LEVLYEDDDLIALNKP 80
+ +G+++V GRVV DP ++AG E + L + YEDD LI ++KP
Sbjct: 64 VADGRVSVGGRVVGDPAERVNAGDEWTVRVPAPEPAAPVPEKMDLSIAYEDDFLIVVDKP 123
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
+GL V P T++N L S + P VHRL + TSG+L+ AKT A
Sbjct: 124 AGLVVHPAPGNWSGTLVNGLLAHCGASLSGIGG-VKRPGIVHRLDKDTSGLLVVAKTDAA 182
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGV 200
+A FAD + + Y A V G+ D+ + + PI R+P
Sbjct: 183 HAGLAAQFADHGRT------------GPLERAYYAFVWGVPDQ-RGTVDAPID--RHPTH 227
Query: 201 AKGLYVASPSGKPALSKVDVLE----RDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLL 256
+ + V SG+ A++ + LE D +L++ ++++GR HQIR+HLA +GHPLL
Sbjct: 228 RQKMAVRQ-SGREAITHWERLEVFAGADGAPLASLIECQLETGRTHQIRVHLAHVGHPLL 286
Query: 257 GDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVI 316
GD +Y G + K+ S +G A R LHA +L +HP T+E +
Sbjct: 287 GDEVYGQGFRTKA--SRLPEGARALLAALGRQA----------LHAARLGFAHPVTDEEL 334
Query: 317 KITAPLPSVL 326
+PLP L
Sbjct: 335 LFESPLPEDL 344
>gi|56964104|ref|YP_175835.1| pseudouridine synthase [Bacillus clausii KSM-K16]
gi|56910347|dbj|BAD64874.1| pseudouridine synthase [Bacillus clausii KSM-K16]
Length = 302
Score = 118 bits (295), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 84/268 (31%), Positives = 134/268 (50%), Gaps = 50/268 (18%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P L+V+YED D+I +NKP GL V P + T++N L + K S ++ + P
Sbjct: 75 DIP--LDVVYEDSDVIVVNKPRGLVVHPAPGHESGTLVNALLFHC-KDLSGINGEIR-PG 130
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHR+ + TSG+++ AK A +A KT+ +R+ Y+A+VHG
Sbjct: 131 IVHRIDKDTSGLIMAAKHDAAHEHLAAQLKAKTT------------ERR----YKAIVHG 174
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
++ K I PIG R P + + V + +PA++ + E + + + E+++G
Sbjct: 175 VIPHAKGTIDAPIG--RDPKDRQKMAVTHVNSRPAVTHFSLEE--TFKQYSYISCELETG 230
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H ++GHPL GDP Y G K+ P+N G
Sbjct: 231 RTHQIRVHFNYIGHPLAGDPKY---GPKKTL-----------------PIN------GQA 264
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVLK 327
LHA L +HP T E ++ +APLP+ ++
Sbjct: 265 LHAETLGFTHPRTGERLRFSAPLPAEME 292
>gi|422110409|ref|ZP_16380432.1| unnamed protein product [Neisseria lactamica Y92-1009]
gi|309378792|emb|CBX22618.1| unnamed protein product [Neisseria lactamica Y92-1009]
Length = 374
Score = 118 bits (295), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 89/264 (33%), Positives = 125/264 (47%), Gaps = 45/264 (17%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QVPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLPAQ----------------NSLVQQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY--Y 299
HQIR+H+ HPL GDP+Y P S PV G
Sbjct: 256 HQIRVHMREANHPLAGDPVYGNLRHPCS-----------------EPVKEAVKSLGARQA 298
Query: 300 LHAYQLFLSHPTTNEVIKITAPLP 323
LHAY+L HP T E + AP+P
Sbjct: 299 LHAYRLSFVHPKTGETVSFEAPIP 322
>gi|121601705|ref|YP_988611.1| RluA family pseudouridine synthase [Bartonella bacilliformis KC583]
gi|421760423|ref|ZP_16197240.1| ribosomal large subunit pseudouridine synthase D [Bartonella
bacilliformis INS]
gi|120613882|gb|ABM44483.1| pseudouridine synthase, RluA family [Bartonella bacilliformis
KC583]
gi|411175707|gb|EKS45732.1| ribosomal large subunit pseudouridine synthase D [Bartonella
bacilliformis INS]
Length = 336
Score = 118 bits (295), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 94/334 (28%), Positives = 158/334 (47%), Gaps = 43/334 (12%)
Query: 4 IEFYSTKHKNSAPLQGWLQR-IQNGQITVDGRVVNDPNIILSAGS--ELVYHRLPWKEPD 60
I+ + KH + + LQ I+ G + +DG++V +P + + EL L P+
Sbjct: 15 IDQWLAKHYQNELSRSRLQTLIREGYLKIDGKLVTEPKTKIKSNQTIELTIPTLNNAYPE 74
Query: 61 VPYL-LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
+ L +L+EDD +I +NKP+GL V PG T++N L + S + P
Sbjct: 75 GEAIPLHILFEDDHIIVVNKPAGLVVHPGHGNWTGTLVNALIYHCGDSLSGIGG-VRRPG 133
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFAD--KTSVIDADSTVMELSQRKITKIYRALV 177
VHRL + TSG+++ AK LA ++ F+D +T V+D + Y AL+
Sbjct: 134 IVHRLDKNTSGVIVVAKNDLAHKGLSAQFSDHGRTGVLD--------------RRYHALI 179
Query: 178 HGIVDEDKVIIKQPIGIVRYPGVAKG-LYVASPSGKPALSKVDVLER-----DVQRNCTL 231
G + + +I +G RY + ++ + + A++ V+E+ D +L
Sbjct: 180 WGSPNRNIGVITASLGRARYDRTKQAVIHSHNIYARHAVTHFSVIEKYQTCADKIPFASL 239
Query: 232 VQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKS--FDSEFADGTFAQDGGYERPV 289
++ +++GR HQIR+H+A +GHPL+GD +Y + KS FDS + + R
Sbjct: 240 LECRLETGRTHQIRVHMAHIGHPLVGDTVYGNAFKTKSNRFDSTIKEAIDL----FNRQA 295
Query: 290 NPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLP 323
LHA L HP ++ +APLP
Sbjct: 296 ----------LHAASLTFEHPAKGNIMSFSAPLP 319
>gi|427392578|ref|ZP_18886583.1| RluA family pseudouridine synthase [Alloiococcus otitis ATCC 51267]
gi|425731258|gb|EKU94077.1| RluA family pseudouridine synthase [Alloiococcus otitis ATCC 51267]
Length = 304
Score = 118 bits (295), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 92/307 (29%), Positives = 145/307 (47%), Gaps = 52/307 (16%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL---LEVLYEDDDLIALNKP 80
IQ Q+TV+G+ V N ++ G ++V P +E ++ + ++Y+D DL +NKP
Sbjct: 36 IQTDQVTVNGQAVK-ANYQVAKGDKVVLTIPPVQEVNLEAEAIPVPIVYQDSDLAVVNKP 94
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
+ V P T++N L ++ S + P VHR+ + TSG+L+ AK LA
Sbjct: 95 QNMVVHPSLGHPDHTLVNALLYQLDNLSGI--NGELRPGIVHRIDKDTSGLLVVAKNDLA 152
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGV 200
++ DKT + + Y ALVHG V K I PIG
Sbjct: 153 HQSLSKQLKDKT----------------VDRHYLALVHGHVPHPKGTIDAPIG---RDSK 193
Query: 201 AKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPL 260
+ Y + +GK A++ D++ R ++ +L+Q ++++GR HQIR+HLA++G PL GDPL
Sbjct: 194 DRKKYAVTENGKEAITHFDLI-RYFGQDYSLIQCQLETGRTHQIRVHLAYIGFPLAGDPL 252
Query: 261 YVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITA 320
Y G K+ + G YLHA L HP T + + T+
Sbjct: 253 Y---GPKKTLEGP-----------------------GQYLHAKTLGFDHPRTGQRLSFTS 286
Query: 321 PLPSVLK 327
LP V +
Sbjct: 287 DLPQVFQ 293
>gi|452994430|emb|CCQ93949.1| Uncharacterized RNA pseudouridine synthase YhcT [Clostridium
ultunense Esp]
Length = 311
Score = 118 bits (295), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 87/269 (32%), Positives = 142/269 (52%), Gaps = 54/269 (20%)
Query: 69 YEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGT 128
YED+ L+ ++KP+G+ V P + Q+ T+ N L + ++ L ++ H VHRL R T
Sbjct: 90 YEDEHLLIVDKPAGISVHPTEVGQKGTLANALAYHYFQEG--LRTKVRH---VHRLDRET 144
Query: 129 SGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVII 188
SG+LL AK LA S++D EL +R++ +IY A++ G + + + I
Sbjct: 145 SGLLLVAKHALAH-----------SILDE-----ELRERRVKRIYLAIIAGTLPKKEETI 188
Query: 189 KQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHL 248
PIG R+ + + S +G+ A++ V+E Q +L+++E+++GR HQIR+HL
Sbjct: 189 HFPIGRDRHHPTRRRV---SKTGERAVTHYQVVEEYSQ--GSLLRLELETGRTHQIRVHL 243
Query: 249 AFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
+ LGHPLLGDPLY GG +R + LHA+QL
Sbjct: 244 SHLGHPLLGDPLY---------------------GGDQRWIRRQA------LHAHQLSFF 276
Query: 309 HPTTNEVIKITAPLPSVLKTR-EEGREVD 336
HP + ++ T+PLP +++ + RE+D
Sbjct: 277 HPFLEQEMRFTSPLPQDMESVIRQWREMD 305
>gi|414175172|ref|ZP_11429576.1| RluA family pseudouridine synthase [Afipia broomeae ATCC 49717]
gi|410889001|gb|EKS36804.1| RluA family pseudouridine synthase [Afipia broomeae ATCC 49717]
Length = 335
Score = 118 bits (295), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 94/312 (30%), Positives = 148/312 (47%), Gaps = 39/312 (12%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWK--EP---DVPYLLEVLYEDDDLIALN 78
I GQ++V V DP + AG + P EP D+P L++++EDDD+I ++
Sbjct: 43 ILAGQVSVGPAPVRDPAYHVKAGDTITIDVPPAAPAEPEGEDIP--LDIVFEDDDIIVID 100
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP L V P + T++N L S + P VHRL + T+G+++ AK
Sbjct: 101 KPKNLVVHPAAGHETGTLVNALIAHCGASLSGIGG-VRRPGIVHRLDKDTTGLMVAAKND 159
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A ++ FAD ++ + Y A V G+ + I QPI R+P
Sbjct: 160 RAHQSLSAQFADHGRT------------GEMRRGYMAFVWGVPNRKSGTIDQPID--RHP 205
Query: 199 GVAKGLYVASPSGKPALSKVDVLE----RDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHP 254
+ + V G+ A++ +V+E +D + L+ ++++GR HQIR+HLA LGHP
Sbjct: 206 HTREKMAVRQ-GGRDAVTHWEVIESFTGKDGKPVAALLACQLETGRTHQIRVHLAHLGHP 264
Query: 255 LLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNE 314
LLGD +Y +G + K+ + + A R LHAY L L HP + E
Sbjct: 265 LLGDDVYGSGFKTKA--RQLGPQSQAALAALGR----------QALHAYLLVLEHPASGE 312
Query: 315 VIKITAPLPSVL 326
++ +PLP L
Sbjct: 313 ILHWESPLPEDL 324
>gi|421597794|ref|ZP_16041336.1| pseudouridine synthase-like protein [Bradyrhizobium sp. CCGE-LA001]
gi|404270096|gb|EJZ34234.1| pseudouridine synthase-like protein [Bradyrhizobium sp. CCGE-LA001]
Length = 326
Score = 118 bits (295), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 90/311 (28%), Positives = 144/311 (46%), Gaps = 37/311 (11%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP----YLLEVLYEDDDLIALNK 79
I G +++ V DP +++G + +P P P L++++EDDD+I +NK
Sbjct: 34 ILAGAVSLRASAVRDPAYHVASGDTITI-DVPEASPAEPQGEDIALDIVFEDDDIIVINK 92
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
P GL V P + T++N L S + P VHRL + T+G+++ AK L
Sbjct: 93 PKGLVVHPAAGHETGTLVNALIAHCGASLSGIGG-VRRPGIVHRLDKDTTGLMVVAKNDL 151
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPG 199
A ++ FAD ++ + Y A G+ + + PI R+P
Sbjct: 152 AHASLSAQFADHGRT------------GEMRRGYMAFAWGVPHRHRGTVDAPID--RHPH 197
Query: 200 VAKGLYVASPSGKPALSKVDVLER----DVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
+ + V G+ A++ ++LE D + L+ E+++GR HQIR+HLA +GHPL
Sbjct: 198 AREKMAVRQ-GGREAVTHWEILESFAGPDGKGVAALLACELETGRTHQIRVHLAHIGHPL 256
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
+GD +Y G K+ ++ + A R LHAY L L HP T E+
Sbjct: 257 MGDAVY--GPHFKTKANQLGPQSQAALAALGRQA----------LHAYLLVLKHPRTGEL 304
Query: 316 IKITAPLPSVL 326
+ APLP L
Sbjct: 305 LHWEAPLPEDL 315
>gi|19745906|ref|NP_607042.1| hypothetical protein spyM18_0889 [Streptococcus pyogenes MGAS8232]
gi|19748060|gb|AAL97541.1| conserved hypothetical protein [Streptococcus pyogenes MGAS8232]
Length = 296
Score = 118 bits (295), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 86/274 (31%), Positives = 136/274 (49%), Gaps = 51/274 (18%)
Query: 54 LPWKEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSS 113
L ++ ++P L+++YEDD L +NKP G+ V P T++N L + K SS++
Sbjct: 65 LEYQAQNIP--LDIIYEDDALAIINKPQGMVVHPSAGHPSETMVNALMYHI-KDLSSING 121
Query: 114 QASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIY 173
P VHR+ + TSG+L+ AKT A + EL +K + Y
Sbjct: 122 -VVRPGIVHRIDKDTSGLLMVAKTDAAHQALTE----------------ELKAKKSLRKY 164
Query: 174 RALVHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQ 233
A+VHG + D+ +I+ PIG R K V + GK A+++ VLER + +LV+
Sbjct: 165 LAIVHGNLPNDRGMIEAPIG--RSEKDRKKQAVTA-KGKEAVTRFTVLERF--GDYSLVE 219
Query: 234 VEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVP 293
+++++GR HQIR+H+A++GHP+ GDPLY G K+
Sbjct: 220 LQLETGRTHQIRVHMAYIGHPVAGDPLY---GPRKTLSGH-------------------- 256
Query: 294 GDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLK 327
G +LHA L L+HP T + + T P + +
Sbjct: 257 ---GQFLHAKTLGLTHPMTGKEMIFTVEAPEIFQ 287
>gi|331001807|ref|ZP_08325329.1| hypothetical protein HMPREF0491_00191 [Lachnospiraceae oral taxon
107 str. F0167]
gi|330412781|gb|EGG92164.1| hypothetical protein HMPREF0491_00191 [Lachnospiraceae oral taxon
107 str. F0167]
Length = 304
Score = 118 bits (295), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 92/310 (29%), Positives = 146/310 (47%), Gaps = 57/310 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I+ G+ T+ G+ + N L G ++V +P EP ++P L+++YED+D+I +
Sbjct: 37 IKKGKATIGGKTIK-ANYRLREG-DIVALAIPKPEPLEILPENIP--LDIVYEDNDVILV 92
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + S ++ P VHR+ T+GI++ K
Sbjct: 93 NKPKGMVVHPAAGHYSGTLVNALLYHCKDNLSGING-VLRPGIVHRIDMDTTGIIIVCKN 151
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A IA +L++ IT+ Y A+V G + ED+ ++ I R
Sbjct: 152 DNAHQHIAK----------------QLAEHSITRKYVAIVSGNIKEDEGVVDA--AIARS 193
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
K + V GK A++ VLER N T ++ +++GR HQIR+H+++L HPLLG
Sbjct: 194 KNDRKKMTV-DKDGKRAVTHFKVLER--LNNYTYIECVLETGRTHQIRVHMSYLHHPLLG 250
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
D +Y ++ + G C LHA L HP+TNE ++
Sbjct: 251 DEVY----------------------SNKKENTKLKGQC---LHAKVLGFIHPSTNEYME 285
Query: 318 ITAPLPSVLK 327
APLP K
Sbjct: 286 FEAPLPEYFK 295
>gi|268593137|ref|ZP_06127358.1| ribosomal large subunit pseudouridine synthase D [Providencia
rettgeri DSM 1131]
gi|291311410|gb|EFE51863.1| ribosomal large subunit pseudouridine synthase D [Providencia
rettgeri DSM 1131]
Length = 325
Score = 118 bits (295), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 92/302 (30%), Positives = 151/302 (50%), Gaps = 47/302 (15%)
Query: 28 QITVDGRVVNDPNIILSAGSELVYHRL-----PWKEPDVPYLLEVLYEDDDLIALNKPSG 82
++ V+G+V+N P + +++ L W+ D+P L V+YED+D++ +NKP
Sbjct: 44 RVQVNGKVINKPKEKVFGSEQILIDALIEEDNRWEPQDIP--LNVIYEDEDILIINKPRD 101
Query: 83 LQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKT 142
L V PG T+LN L +R + + + VHRL + T+G+++ AKT A+T
Sbjct: 102 LVVHPGAGNPDGTILNALLYRYPEIADVPRAGI-----VHRLDKDTTGLMVVAKTVPAQT 156
Query: 143 CIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAK 202
+ V L +R+IT+ Y A+ G + ++++PI R+P
Sbjct: 157 HL----------------VEALQRREITREYEAVAVGRMTAGG-MVEEPIS--RHPTKRT 197
Query: 203 GLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYV 262
+ V P GKPA++ V+E R T +++ +++GR HQIR+H+A + HPL+GDPLY
Sbjct: 198 HMAV-HPMGKPAVTHYRVMEH--FRAHTRLRLRLETGRTHQIRVHMAHINHPLIGDPLY- 253
Query: 263 AGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPL 322
GG+P+ G E + + LHA L L HP + ++ APL
Sbjct: 254 -GGRPRPL-----------KGATEEFLEVMRNFDRQALHATMLRLYHPISGIQMEWHAPL 301
Query: 323 PS 324
P
Sbjct: 302 PD 303
>gi|385324537|ref|YP_005878976.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D; rRNA pseudouridylate synthase D) [Neisseria
meningitidis 8013]
gi|261392924|emb|CAX50509.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine
isomerase D; rRNA pseudouridylate synthase D) [Neisseria
meningitidis 8013]
Length = 374
Score = 118 bits (295), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 85/262 (32%), Positives = 126/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIIYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QVPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLPAQ----------------NSLVQQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL DP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAADPVY---GNPRHPCGDTVKEAVKSLGARQA------------LH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 301 AYRLSFTHPESGETVSFEAPIP 322
Database: nr
Posted date: Mar 3, 2013 10:45 PM
Number of letters in database: 999,999,864
Number of sequences in database: 2,912,245
Database: /local_scratch/syshi//blastdatabase/nr.01
Posted date: Mar 3, 2013 10:52 PM
Number of letters in database: 999,999,666
Number of sequences in database: 2,912,720
Database: /local_scratch/syshi//blastdatabase/nr.02
Posted date: Mar 3, 2013 10:58 PM
Number of letters in database: 999,999,938
Number of sequences in database: 3,014,250
Database: /local_scratch/syshi//blastdatabase/nr.03
Posted date: Mar 3, 2013 11:03 PM
Number of letters in database: 999,999,780
Number of sequences in database: 2,805,020
Database: /local_scratch/syshi//blastdatabase/nr.04
Posted date: Mar 3, 2013 11:08 PM
Number of letters in database: 999,999,551
Number of sequences in database: 2,816,253
Database: /local_scratch/syshi//blastdatabase/nr.05
Posted date: Mar 3, 2013 11:13 PM
Number of letters in database: 999,999,897
Number of sequences in database: 2,981,387
Database: /local_scratch/syshi//blastdatabase/nr.06
Posted date: Mar 3, 2013 11:18 PM
Number of letters in database: 999,999,649
Number of sequences in database: 2,911,476
Database: /local_scratch/syshi//blastdatabase/nr.07
Posted date: Mar 3, 2013 11:24 PM
Number of letters in database: 999,999,452
Number of sequences in database: 2,920,260
Database: /local_scratch/syshi//blastdatabase/nr.08
Posted date: Mar 3, 2013 11:25 PM
Number of letters in database: 64,230,274
Number of sequences in database: 189,558
Lambda K H
0.318 0.137 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,893,744,976
Number of Sequences: 23463169
Number of extensions: 266725542
Number of successful extensions: 610828
Number of sequences better than 100.0: 1000
Number of HSP's better than 100.0 without gapping: 10161
Number of HSP's successfully gapped in prelim test: 3609
Number of HSP's that attempted gapping in prelim test: 561028
Number of HSP's gapped (non-prelim): 18540
length of query: 353
length of database: 8,064,228,071
effective HSP length: 143
effective length of query: 210
effective length of database: 9,003,962,200
effective search space: 1890832062000
effective search space used: 1890832062000
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 77 (34.3 bits)