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= 018524
(354 letters)
Database: nr
23,463,169 sequences; 8,064,228,071 total letters
Searching..................................................done
>gi|449454141|ref|XP_004144814.1| PREDICTED: RNA pseudourine synthase 1-like [Cucumis sativus]
Length = 366
Score = 479 bits (1232), Expect = e-132, Method: Compositional matrix adjust.
Identities = 237/353 (67%), Positives = 278/353 (78%), Gaps = 16/353 (4%)
Query: 6 SFHPTFTLTPKAVPRFRKT-------FFSLA-SMSNPTEPTSQNAPQTQQNYPTPLSPPL 57
S HP F+++PK F T F S++ SM++ +EP + N P T +NYP PLSPPL
Sbjct: 6 SLHPNFSISPKTFTEFPFTKSFCFHRFKSVSNSMTDSSEPVTGNCPSTAENYPVPLSPPL 65
Query: 58 PAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAG 117
PAISK++EL RAM ASSKSSLY LS +DV+YEDEWL+AVNKPQG+YCE+VLA+VP LL G
Sbjct: 66 PAISKNLELARAMVASSKSSLYALSANDVIYEDEWLIAVNKPQGIYCENVLAAVPRLL-G 124
Query: 118 DSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTY 177
DSA + G K +L ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH VSK+Y
Sbjct: 125 DSANA-------GIKTSLPELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHTVSKSY 177
Query: 178 IALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNG 237
IA C+G +PKWK+I + SGHGRSKFG WRVYAA+DVGR LPGGSVVRDM T FEVLSVNG
Sbjct: 178 IAFCVGTSPKWKKINVKSGHGRSKFGVWRVYAAADVGRSLPGGSVVRDMETYFEVLSVNG 237
Query: 238 EGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISI 297
+ + +E + + EE IVV K+++D D+ K+EIL+RA PRSGRTHQIRLHCQYLGI I
Sbjct: 238 KNTMEELQKFRRGEEETIVVHTKSLVDIDSHKDEILIRARPRSGRTHQIRLHCQYLGIPI 297
Query: 298 RGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
RGDVKYEGV EWN K YD HELHAESL F HPVTG P+ +QAPLP W ++ALQ
Sbjct: 298 RGDVKYEGVTEWNEKIYDSHELHAESLYFVHPVTGIPLKLQAPLPSWASQALQ 350
>gi|449490929|ref|XP_004158751.1| PREDICTED: LOW QUALITY PROTEIN: RNA pseudourine synthase 1-like
[Cucumis sativus]
Length = 366
Score = 476 bits (1226), Expect = e-132, Method: Compositional matrix adjust.
Identities = 236/353 (66%), Positives = 277/353 (78%), Gaps = 16/353 (4%)
Query: 6 SFHPTFTLTPKAVPRFRKT-------FFSLA-SMSNPTEPTSQNAPQTQQNYPTPLSPPL 57
S HP F+++PK F T F S++ SM++ +EP + N P T +NYP PLSPPL
Sbjct: 6 SLHPNFSISPKTFTEFPFTKSFCFHRFKSVSNSMTDSSEPVTGNCPSTAENYPVPLSPPL 65
Query: 58 PAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAG 117
PAISK++EL RAM ASSKSSLY LS +DV+YEDEWL+AVNKPQG+YCE+VLA+VP LL G
Sbjct: 66 PAISKNLELARAMVASSKSSLYALSANDVIYEDEWLIAVNKPQGIYCENVLAAVPRLL-G 124
Query: 118 DSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTY 177
DSA + G K +L ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH VSK+Y
Sbjct: 125 DSANA-------GIKTSLPELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHTVSKSY 177
Query: 178 IALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNG 237
IA C+G +PKW +I + SGHGRSKFG WRVYAA+DVGR LPGGSVVRDM T FEVLSVNG
Sbjct: 178 IAFCVGTSPKWXKINVKSGHGRSKFGVWRVYAAADVGRSLPGGSVVRDMETYFEVLSVNG 237
Query: 238 EGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISI 297
+ + +E + + EE IVV K+++D D+ K+EIL+RA PRSGRTHQIRLHCQYLGI I
Sbjct: 238 KNTMEELQKFRRGEEETIVVHTKSLVDIDSHKDEILIRARPRSGRTHQIRLHCQYLGIPI 297
Query: 298 RGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
RGDVKYEGV EWN K YD HELHAESL F HPVTG P+ +QAPLP W ++ALQ
Sbjct: 298 RGDVKYEGVTEWNEKIYDSHELHAESLYFVHPVTGIPLKLQAPLPSWASQALQ 350
>gi|255542880|ref|XP_002512503.1| ribosomal pseudouridine synthase, putative [Ricinus communis]
gi|223548464|gb|EEF49955.1| ribosomal pseudouridine synthase, putative [Ricinus communis]
Length = 321
Score = 447 bits (1149), Expect = e-123, Method: Compositional matrix adjust.
Identities = 244/323 (75%), Positives = 274/323 (84%), Gaps = 7/323 (2%)
Query: 31 MSNP---TEPTSQNAPQTQQNYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVL 87
MS+P PTSQN P T QNYPTPLSPPLP+ISK IEL RA+SASS+SSL+ LSRSDVL
Sbjct: 1 MSSPPGNINPTSQNDPLTLQNYPTPLSPPLPSISKQIELARALSASSRSSLFTLSRSDVL 60
Query: 88 YEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRD 147
YED+WL+AVNKPQGVYCE+VL SVP +LA A ++ SEG + N E HLANRLDRD
Sbjct: 61 YEDQWLIAVNKPQGVYCETVLESVPRVLA---ASAELTDPSEGAEGNPHEFHLANRLDRD 117
Query: 148 TSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRV 207
TSGVMVITKSHKVASKLVKAFTDHK+ KTYIALCIG APKW++ITI SGHGRSKFG WRV
Sbjct: 118 TSGVMVITKSHKVASKLVKAFTDHKIKKTYIALCIGLAPKWEKITIKSGHGRSKFGVWRV 177
Query: 208 YAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADA 267
YAASDVG+ LPGGS V+DM TSFE+LSVNG+GSFKE SE E +EN +VVE+KA +AD
Sbjct: 178 YAASDVGQTLPGGSTVKDMETSFELLSVNGQGSFKELSEF-EKDENILVVEEKAAKNADV 236
Query: 268 KKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFD 327
KK EILVRAFP+SGRTHQIRLHCQYLGISIRGDVKYEGVYEW G+ YDGHELHAE+LSF+
Sbjct: 237 KKVEILVRAFPQSGRTHQIRLHCQYLGISIRGDVKYEGVYEWEGRTYDGHELHAETLSFE 296
Query: 328 HPVTGCPVMVQAPLPLWGTEALQ 350
HPVTG PVM++APLP W +A Q
Sbjct: 297 HPVTGVPVMLRAPLPSWAIQASQ 319
>gi|359487663|ref|XP_002278016.2| PREDICTED: RNA pseudourine synthase 1-like [Vitis vinifera]
Length = 348
Score = 431 bits (1107), Expect = e-118, Method: Compositional matrix adjust.
Identities = 219/323 (67%), Positives = 264/323 (81%), Gaps = 11/323 (3%)
Query: 30 SMSNPTEPTSQNAPQTQQNYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYE 89
+M+ +P S++APQ NYP P+SPPLPAISK IE +RAMSASS+SSL+ L RSD+L+E
Sbjct: 35 TMAEYIDPNSKDAPQILTNYPKPISPPLPAISKHIEQSRAMSASSRSSLFSLCRSDILFE 94
Query: 90 DEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTS 149
D+WL+AVNKPQGVYCE++L SV +L DS S R LHLANRLDRDTS
Sbjct: 95 DQWLMAVNKPQGVYCETILLSVSRML-DDSDGHDSCR----------SLHLANRLDRDTS 143
Query: 150 GVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYA 209
GVMVITKSH+VA+KL+KAF+D KV+KTY+ALCIG AP W++ITI SGHGRSKFGAWRVYA
Sbjct: 144 GVMVITKSHQVAAKLMKAFSDRKVTKTYLALCIGAAPTWEKITIKSGHGRSKFGAWRVYA 203
Query: 210 ASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKK 269
ASDVGR LP ++DMVTSFEVLSVNG+G+ KE E ++ +E +VVE+++V+D++A++
Sbjct: 204 ASDVGRALPNAPAIKDMVTSFEVLSVNGQGNVKELPESRKADETVLVVEERSVIDSNARQ 263
Query: 270 NEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHP 329
+EILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGV+EW GK YDGHELHAESLSF+HP
Sbjct: 264 DEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVHEWKGKIYDGHELHAESLSFEHP 323
Query: 330 VTGCPVMVQAPLPLWGTEALQSS 352
VTG V +APLP W +ALQ S
Sbjct: 324 VTGVDVAFRAPLPSWAVQALQPS 346
>gi|224122944|ref|XP_002318955.1| predicted protein [Populus trichocarpa]
gi|222857331|gb|EEE94878.1| predicted protein [Populus trichocarpa]
Length = 261
Score = 418 bits (1074), Expect = e-114, Method: Compositional matrix adjust.
Identities = 204/277 (73%), Positives = 230/277 (83%), Gaps = 25/277 (9%)
Query: 70 MSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSE 129
MSASS+SSL+ LS+SDVLY+D+WL+AVNKPQGVYCE+VL SVP
Sbjct: 1 MSASSRSSLFALSKSDVLYQDQWLIAVNKPQGVYCETVLDSVP----------------- 43
Query: 130 GTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWK 189
+LHLANRLDRDTSGVMVITK HKVASKLVKAFTDHKV KTYIALCIG APKW+
Sbjct: 44 -------QLHLANRLDRDTSGVMVITKLHKVASKLVKAFTDHKVRKTYIALCIGSAPKWE 96
Query: 190 RITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQE 249
+ITI SGHGRSKFGA+RVYAASDVGR LPGGS V+DM TSFEVLS+NG+GSF+EPSE
Sbjct: 97 KITIKSGHGRSKFGAFRVYAASDVGRSLPGGSTVKDMETSFEVLSINGQGSFREPSEFNS 156
Query: 250 HEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEW 309
++N +VVE+KAV+D DAKK+EILVRAFPRSGRTHQIRLHCQYLGI IRGDVKYEGV EW
Sbjct: 157 -DKNILVVEEKAVIDTDAKKDEILVRAFPRSGRTHQIRLHCQYLGIPIRGDVKYEGVCEW 215
Query: 310 NGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGT 346
G+ YDGHELHAESLS +HPVTG P+M +APLP+W T
Sbjct: 216 KGRTYDGHELHAESLSLEHPVTGQPLMFRAPLPVWAT 252
>gi|357441873|ref|XP_003591214.1| Lon protease-like protein [Medicago truncatula]
gi|355480262|gb|AES61465.1| Lon protease-like protein [Medicago truncatula]
Length = 1262
Score = 401 bits (1030), Expect = e-109, Method: Compositional matrix adjust.
Identities = 207/322 (64%), Positives = 241/322 (74%), Gaps = 18/322 (5%)
Query: 31 MSNPTEPTSQNAPQTQQNYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYED 90
MS+P S+N P NYP PLSP LPAISK IEL RA A+S S L+ L+++ ++YED
Sbjct: 1 MSSPPH-LSENTPTVLSNYPIPLSPQLPAISKQIELNRATIATSNSELFSLAQTHIIYED 59
Query: 91 EWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSG 150
E+L+AVNKPQG+YC++VL S+ ++S G ELHLANRLDRDTSG
Sbjct: 60 EYLLAVNKPQGIYCDNVLTSL-------QSQSTVGS----------ELHLANRLDRDTSG 102
Query: 151 VMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAA 210
VM+ITKSHK+ASKLVKAFTD +V KTYIA C G P WK IT+ SGHGRSKFGAWRVY
Sbjct: 103 VMLITKSHKIASKLVKAFTDREVKKTYIAFCTGRVPDWKTITVKSGHGRSKFGAWRVYGF 162
Query: 211 SDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKN 270
SD GR LPGGSVVR+M TSFE LSVNG+G F+E +EL E N +VVE+KAV +N
Sbjct: 163 SDSGRGLPGGSVVREMETSFEFLSVNGKGGFREVTELGFEEGNVVVVEEKAVKMEGDDEN 222
Query: 271 EILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPV 330
EI+VRA+PRSGRTHQIRLHCQYLGISI GDVKYEGVYEW G+ YDGH LHAE+LSFDHPV
Sbjct: 223 EIVVRAYPRSGRTHQIRLHCQYLGISIIGDVKYEGVYEWKGRVYDGHHLHAETLSFDHPV 282
Query: 331 TGCPVMVQAPLPLWGTEALQSS 352
TG VM +APLP W +AL S
Sbjct: 283 TGVRVMFRAPLPQWANQALLRS 304
Score = 130 bits (327), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 82/201 (40%), Positives = 96/201 (47%), Gaps = 70/201 (34%)
Query: 151 VMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAA 210
VM+I KSHKVASKLVKAFTDHKV KTYI+LC G P W+ IT+ S +GRSKFG RVY
Sbjct: 937 VMLIIKSHKVASKLVKAFTDHKVQKTYISLCTGQTPNWETITVRSCYGRSKFGTRRVYV- 995
Query: 211 SDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKN 270
F E +EL + +VVE+KAV
Sbjct: 996 ------------------------------FLEVAELGFEVSDGVVVEEKAV-------- 1017
Query: 271 EILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPV 330
+ I+ HCQYLGISI GDVKYEG FDH V
Sbjct: 1018 -----------KMEGIQFHCQYLGISIIGDVKYEG--------------------FDHLV 1046
Query: 331 TGCPVMVQAPLPLWGTEALQS 351
TG VM+ A LP W + L +
Sbjct: 1047 TGVRVMLCASLPQWVNQVLSN 1067
Score = 59.7 bits (143), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/34 (76%), Positives = 28/34 (82%)
Query: 295 ISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDH 328
ISI DVKYEGVYE G+ YDGH LHAE+LSFDH
Sbjct: 796 ISIFRDVKYEGVYECKGRVYDGHHLHAETLSFDH 829
>gi|296089768|emb|CBI39587.3| unnamed protein product [Vitis vinifera]
Length = 274
Score = 390 bits (1002), Expect = e-106, Method: Compositional matrix adjust.
Identities = 188/272 (69%), Positives = 224/272 (82%), Gaps = 11/272 (4%)
Query: 81 LSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL 140
L RSD+L+ED+WL+AVNKPQGVYCE++L SV +L DS S R LHL
Sbjct: 12 LCRSDILFEDQWLMAVNKPQGVYCETILLSVSRML-DDSDGHDSCR----------SLHL 60
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
ANRLDRDTSGVMVITKSH+VA+KL+KAF+D KV+KTY+ALCIG AP W++ITI SGHGRS
Sbjct: 61 ANRLDRDTSGVMVITKSHQVAAKLMKAFSDRKVTKTYLALCIGAAPTWEKITIKSGHGRS 120
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
KFGAWRVYAASDVGR LP ++DMVTSFEVLSVNG+G+ KE E ++ +E +VVE++
Sbjct: 121 KFGAWRVYAASDVGRALPNAPAIKDMVTSFEVLSVNGQGNVKELPESRKADETVLVVEER 180
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELH 320
+V+D++A+++EILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGV+EW GK YDGHELH
Sbjct: 181 SVIDSNARQDEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVHEWKGKIYDGHELH 240
Query: 321 AESLSFDHPVTGCPVMVQAPLPLWGTEALQSS 352
AESLSF+HPVTG V +APLP W +ALQ S
Sbjct: 241 AESLSFEHPVTGVDVAFRAPLPSWAVQALQPS 272
>gi|326492367|dbj|BAK01967.1| predicted protein [Hordeum vulgare subsp. vulgare]
Length = 346
Score = 380 bits (976), Expect = e-103, Method: Compositional matrix adjust.
Identities = 184/306 (60%), Positives = 225/306 (73%), Gaps = 16/306 (5%)
Query: 49 YPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVL 108
YP P+SPP PA+SKD+EL RAM+AS++S Y S + V++EDEWL V+KP GVYCE++L
Sbjct: 52 YPCPVSPPYPAVSKDVELRRAMTASARSGAY--SSAAVVFEDEWLAVVDKPAGVYCEALL 109
Query: 109 ASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAF 168
+++PC A S G + LHLANRLDRDTSG+MVITK +KVA+KLVKAF
Sbjct: 110 SALPCSTA-----------SSGDPSSKPNLHLANRLDRDTSGLMVITKCNKVAAKLVKAF 158
Query: 169 TDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVT 228
T+HKV KTY+ALCIG P W+++ + SGHGRSK GAWRVYA SDVGR LPGGS VRDM T
Sbjct: 159 TEHKVKKTYLALCIGYLPAWEKVKVCSGHGRSKHGAWRVYAMSDVGRTLPGGSSVRDMST 218
Query: 229 SFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA---VLDADAKKNEILVRAFPRSGRTHQ 285
FEVL +G+G ++EPS + + +I V++KA + D K + + VRA+P+SGRTHQ
Sbjct: 219 KFEVLGTDGKGQYREPSNVDIDDIESITVQEKAADQTSNVDVKSHMVFVRAYPQSGRTHQ 278
Query: 286 IRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWG 345
IRLHCQYLGI IRGDVKY GV EWNG DGH LHAESLSF HPVTG PV QAPLP W
Sbjct: 279 IRLHCQYLGIPIRGDVKYGGVIEWNGVDCDGHALHAESLSFVHPVTGLPVTFQAPLPSWA 338
Query: 346 TEALQS 351
E + +
Sbjct: 339 NEIIST 344
>gi|357162113|ref|XP_003579309.1| PREDICTED: RNA pseudourine synthase 1-like [Brachypodium
distachyon]
Length = 308
Score = 375 bits (962), Expect = e-101, Method: Compositional matrix adjust.
Identities = 188/309 (60%), Positives = 229/309 (74%), Gaps = 21/309 (6%)
Query: 49 YPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVL 108
YP P+SPP PA+SKD+EL RAM+AS++S Y + + V++EDEWL V+KP GVYC+++L
Sbjct: 13 YPCPVSPPYPAVSKDVELRRAMTASARSGAY--ASAAVVFEDEWLSVVDKPAGVYCDALL 70
Query: 109 ASVPCLLA---GDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLV 165
+++PC A GD A TK NL HLANRLDRDTSG+MVITK +KVA+KLV
Sbjct: 71 SALPCYAAAAAGDPA----------TKPNL---HLANRLDRDTSGLMVITKCNKVAAKLV 117
Query: 166 KAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRD 225
KAFT+HKV KTY+ALCIG P W++I I SGHGRSK GAWRVYA SDVGR LPGGS VRD
Sbjct: 118 KAFTEHKVKKTYLALCIGYPPTWEKIRICSGHGRSKHGAWRVYAMSDVGRTLPGGSSVRD 177
Query: 226 MVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA---DAKKNEILVRAFPRSGR 282
M T FEVL +NG+G F+EPS + + +I V++KA + D K + ILVRA+P+SGR
Sbjct: 178 MSTKFEVLGINGKGQFREPSNVNIDDIESITVQEKAADHSSTDDLKNHMILVRAYPQSGR 237
Query: 283 THQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
THQIRLHCQYLG IRGDVKY GV EWNG DGH LH+ESLSF HPVTG P+ +APLP
Sbjct: 238 THQIRLHCQYLGFPIRGDVKYGGVIEWNGVDCDGHALHSESLSFVHPVTGLPITFRAPLP 297
Query: 343 LWGTEALQS 351
W E + +
Sbjct: 298 SWANEVIST 306
>gi|297853522|ref|XP_002894642.1| pseudouridine synthase family protein [Arabidopsis lyrata subsp.
lyrata]
gi|297340484|gb|EFH70901.1| pseudouridine synthase family protein [Arabidopsis lyrata subsp.
lyrata]
Length = 321
Score = 374 bits (961), Expect = e-101, Method: Compositional matrix adjust.
Identities = 185/284 (65%), Positives = 220/284 (77%), Gaps = 23/284 (8%)
Query: 63 DIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAES 122
DIEL RAM ASSKSSL+ L+R VLYEDE+L+AVNKP+GVYCE+VL S P ++ S+E
Sbjct: 54 DIELRRAMEASSKSSLFNLTRDHVLYEDEYLMAVNKPKGVYCEAVLRSAPQIVLDSSSE- 112
Query: 123 KSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCI 182
HLANRLDRDTSGVM+ITKSHKVA+KLVKAFT+HK+ K+YIALCI
Sbjct: 113 ---------------FHLANRLDRDTSGVMIITKSHKVAAKLVKAFTEHKIRKSYIALCI 157
Query: 183 GPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFK 242
G +P W++IT+ SGHGRSK GAWRVYAA DVGRVLPGGS VRDM T+FEV+SVNG +
Sbjct: 158 GSSPNWRKITVSSGHGRSKHGAWRVYAALDVGRVLPGGSFVRDMETTFEVVSVNGVET-- 215
Query: 243 EPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVK 302
E E+ EN IVVE++ L A + ++VRAFPRSGRTHQIRLHCQYLGISIRGDVK
Sbjct: 216 ESCEV----ENVIVVEREQELSC-AGDDVVVVRAFPRSGRTHQIRLHCQYLGISIRGDVK 270
Query: 303 YEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGT 346
Y G+YEW G+ ++GHELHAE LS DHPVT P++++APLP W T
Sbjct: 271 YHGMYEWRGRTFEGHELHAECLSLDHPVTDDPIVIRAPLPCWAT 314
>gi|30696108|ref|NP_176031.2| RNA pseudourine synthase 1 [Arabidopsis thaliana]
gi|75140931|sp|Q7XA65.1|PUS1_ARATH RecName: Full=RNA pseudourine synthase 1; AltName: Full=RNA
pseudouridylate synthase 1; AltName: Full=RNA-uridine
isomerase 1
gi|33589806|gb|AAQ22669.1| At1g56345 [Arabidopsis thaliana]
gi|110736414|dbj|BAF00174.1| hypothetical protein [Arabidopsis thaliana]
gi|332195260|gb|AEE33381.1| RNA pseudourine synthase 1 [Arabidopsis thaliana]
Length = 322
Score = 367 bits (943), Expect = 3e-99, Method: Compositional matrix adjust.
Identities = 197/335 (58%), Positives = 241/335 (71%), Gaps = 32/335 (9%)
Query: 23 KTFFSLASMSNP--TEP-------TSQNAPQTQQNYPTPLSPPLPAISKDIELTRAMSAS 73
+ FFS +N T+P + + NYP P+S P P ISKDIEL RAM AS
Sbjct: 5 RNFFSFTFSANSIITKPYFAIPIKAMEATSELNLNYPKPISAPPPPISKDIELRRAMEAS 64
Query: 74 SKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKL 133
SKSSL+ L+R D+LYEDE+L+AVNKP+GVYCE+VL S P ++ S+E
Sbjct: 65 SKSSLFNLTRDDILYEDEYLMAVNKPKGVYCEAVLRSAPQIVLDSSSE------------ 112
Query: 134 NLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
HLANRLDRDTSGVM+ITKSHKVA+KLVKAFT+HK+ K+YIALCIG +P W+R+T+
Sbjct: 113 ----YHLANRLDRDTSGVMIITKSHKVAAKLVKAFTEHKIRKSYIALCIGSSPNWRRVTV 168
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
SGHGRSK GAWRVYAA DVGRVLPGGS VRDM T+FEV+SVN + E EL+ + N
Sbjct: 169 SSGHGRSKHGAWRVYAALDVGRVLPGGSFVRDMETTFEVVSVNSVKN--ESCELE--DVN 224
Query: 254 NIVV---EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
+++V E++ D ++VRAFPRSGRTHQIRLHCQYLGI IRGDVKY GVYEWN
Sbjct: 225 HVIVAEGERELSCGGDDDDVVVVVRAFPRSGRTHQIRLHCQYLGIPIRGDVKYHGVYEWN 284
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWG 345
G+ ++GHELHAE LS DHPVTG ++++APLP W
Sbjct: 285 GRTFEGHELHAECLSLDHPVTGDSIVIRAPLPYWA 319
>gi|12323024|gb|AAG51501.1|AC058785_4 unknown protein [Arabidopsis thaliana]
Length = 293
Score = 365 bits (938), Expect = 1e-98, Method: Compositional matrix adjust.
Identities = 191/300 (63%), Positives = 230/300 (76%), Gaps = 23/300 (7%)
Query: 48 NYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESV 107
NYP P+S P P ISKDIEL RAM ASSKSSL+ L+R D+LYEDE+L+AVNKP+GVYCE+V
Sbjct: 10 NYPKPISAPPPPISKDIELRRAMEASSKSSLFNLTRDDILYEDEYLMAVNKPKGVYCEAV 69
Query: 108 LASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKA 167
L S P ++ S+E HLANRLDRDTSGVM+ITKSHKVA+KLVKA
Sbjct: 70 LRSAPQIVLDSSSE----------------YHLANRLDRDTSGVMIITKSHKVAAKLVKA 113
Query: 168 FTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMV 227
FT+HK+ K+YIALCIG +P W+R+T+ SGHGRSK GAWRVYAA DVGRVLPGGS VRDM
Sbjct: 114 FTEHKIRKSYIALCIGSSPNWRRVTVSSGHGRSKHGAWRVYAALDVGRVLPGGSFVRDME 173
Query: 228 TSFEVLSVNGEGSFKEPSELQEHEENNIVV---EKKAVLDADAKKNEILVRAFPRSGRTH 284
T+FEV+SVN + E EL+ + N+++V E++ D ++VRAFPRSGRTH
Sbjct: 174 TTFEVVSVNSVKN--ESCELE--DVNHVIVAEGERELSCGGDDDDVVVVVRAFPRSGRTH 229
Query: 285 QIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLW 344
QIRLHCQYLGI IRGDVKY GVYEWNG+ ++GHELHAE LS DHPVTG ++++APLP W
Sbjct: 230 QIRLHCQYLGIPIRGDVKYHGVYEWNGRTFEGHELHAECLSLDHPVTGDSIVIRAPLPYW 289
>gi|356574089|ref|XP_003555184.1| PREDICTED: RNA pseudourine synthase 1-like [Glycine max]
Length = 320
Score = 363 bits (931), Expect = 8e-98, Method: Compositional matrix adjust.
Identities = 204/325 (62%), Positives = 243/325 (74%), Gaps = 26/325 (8%)
Query: 29 ASMSNPTEPTSQNAPQTQQNYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLY 88
S S +P S P +NYP PLSPPLP ISK +EL+RAMSA+S SSL+ LS +D+LY
Sbjct: 18 GSHSQQAQPKS---PIPTENYPVPLSPPLPPISKQLELSRAMSAASNSSLFSLSPADILY 74
Query: 89 EDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDT 148
D+ L+AVNK G+YCE++L+S LA S + LHLANRLDRDT
Sbjct: 75 HDDHLIAVNKHPGIYCETLLSS----LASQSHQ----------------LHLANRLDRDT 114
Query: 149 SGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVY 208
+GV+++TKSHKVA+KLVKAFTDHKV KTYIALC GP P W+R+T+ SGHGRSKFGAWRVY
Sbjct: 115 TGVLLLTKSHKVAAKLVKAFTDHKVKKTYIALCTGPPPNWERVTLRSGHGRSKFGAWRVY 174
Query: 209 AASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKE--PSELQEHE-ENNIVVEKKAVLDA 265
AASDVGR LPGGSVVR M TSFE+LSVN +G+F+E SE E EN +VVE+KAV +
Sbjct: 175 AASDVGRALPGGSVVRSMETSFELLSVNRKGNFREVSDSEFGNVEGENVLVVEEKAVKED 234
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
++EI+VRA+PRSGRTHQIRLHCQYLGISI GDVKYEGVYEW G + H LHAE+LS
Sbjct: 235 GNNESEIVVRAYPRSGRTHQIRLHCQYLGISIVGDVKYEGVYEWKGTTHHAHHLHAETLS 294
Query: 326 FDHPVTGCPVMVQAPLPLWGTEALQ 350
F+HPVTG V ++APLP W T A Q
Sbjct: 295 FEHPVTGLHVKLRAPLPPWATHAFQ 319
>gi|222617295|gb|EEE53427.1| hypothetical protein OsJ_36505 [Oryza sativa Japonica Group]
Length = 423
Score = 360 bits (924), Expect = 6e-97, Method: Compositional matrix adjust.
Identities = 186/298 (62%), Positives = 221/298 (74%), Gaps = 20/298 (6%)
Query: 59 AISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLA-- 116
A SKD+EL RAM+AS++S+ S + V++EDEWL V+KP GVYC+++L+++PC A
Sbjct: 139 AASKDVELRRAMTASARSA--AYSSAPVVFEDEWLAVVDKPAGVYCDALLSALPCSAATL 196
Query: 117 GDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKT 176
GD E TK NL HLANRLDRDTSG+MVITK +KVA KLVKAFT+HKV KT
Sbjct: 197 GD----------EATKPNL---HLANRLDRDTSGLMVITKCNKVAGKLVKAFTEHKVKKT 243
Query: 177 YIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVN 236
Y+ALCIG P W++I I SGHGRSK GAWRVYA SDVGR LPGGSVVRDM T FEVL +N
Sbjct: 244 YLALCIGYPPAWEKIKICSGHGRSKHGAWRVYAMSDVGRSLPGGSVVRDMSTRFEVLGIN 303
Query: 237 GEGSFKEPSELQEHEENNIVVEKKA---VLDADAKKNEILVRAFPRSGRTHQIRLHCQYL 293
G+G F+EPS + E +I V++KA D D K + ILVRA+P+SGRTHQIRLHCQYL
Sbjct: 304 GKGQFREPSNFEVDETESITVQEKAADLTSDGDEKNSIILVRAYPQSGRTHQIRLHCQYL 363
Query: 294 GISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
G IRGDVKY GV EWNG YDGH LHAESLSF HPVTG PV ++PLP W E + +
Sbjct: 364 GFPIRGDVKYSGVIEWNGVDYDGHALHAESLSFVHPVTGLPVTFRSPLPSWANEFIST 421
Score = 56.6 bits (135), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 32/64 (50%), Positives = 48/64 (75%), Gaps = 6/64 (9%)
Query: 59 AISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPC----L 114
A SKD+EL RAM+AS++S+ S + V++EDEWL V+KP GVYC+++L+++PC L
Sbjct: 18 AASKDVELRRAMTASARSA--AYSSAPVVFEDEWLAVVDKPAGVYCDALLSALPCSAATL 75
Query: 115 LAGD 118
+A D
Sbjct: 76 VAND 79
>gi|115489062|ref|NP_001067018.1| Os12g0560500 [Oryza sativa Japonica Group]
gi|122203511|sp|Q2QNM3.1|PUS1_ORYSJ RecName: Full=RNA pseudourine synthase 1; AltName: Full=RNA
pseudouridylate synthase 1; AltName: Full=RNA-uridine
isomerase 1
gi|77556134|gb|ABA98930.1| RNA pseudouridylate synthase, putative, expressed [Oryza sativa
Japonica Group]
gi|113649525|dbj|BAF30037.1| Os12g0560500 [Oryza sativa Japonica Group]
gi|125537021|gb|EAY83509.1| hypothetical protein OsI_38723 [Oryza sativa Indica Group]
gi|215692563|dbj|BAG87983.1| unnamed protein product [Oryza sativa Japonica Group]
Length = 345
Score = 358 bits (920), Expect = 1e-96, Method: Compositional matrix adjust.
Identities = 186/298 (62%), Positives = 221/298 (74%), Gaps = 20/298 (6%)
Query: 59 AISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLA-- 116
A SKD+EL RAM+AS++S+ S + V++EDEWL V+KP GVYC+++L+++PC A
Sbjct: 61 AASKDVELRRAMTASARSA--AYSSAPVVFEDEWLAVVDKPAGVYCDALLSALPCSAATL 118
Query: 117 GDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKT 176
GD E TK NL HLANRLDRDTSG+MVITK +KVA KLVKAFT+HKV KT
Sbjct: 119 GD----------EATKPNL---HLANRLDRDTSGLMVITKCNKVAGKLVKAFTEHKVKKT 165
Query: 177 YIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVN 236
Y+ALCIG P W++I I SGHGRSK GAWRVYA SDVGR LPGGSVVRDM T FEVL +N
Sbjct: 166 YLALCIGYPPAWEKIKICSGHGRSKHGAWRVYAMSDVGRSLPGGSVVRDMSTRFEVLGIN 225
Query: 237 GEGSFKEPSELQEHEENNIVVEKKA---VLDADAKKNEILVRAFPRSGRTHQIRLHCQYL 293
G+G F+EPS + E +I V++KA D D K + ILVRA+P+SGRTHQIRLHCQYL
Sbjct: 226 GKGQFREPSNFEVDETESITVQEKAADLTSDGDEKNSIILVRAYPQSGRTHQIRLHCQYL 285
Query: 294 GISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
G IRGDVKY GV EWNG YDGH LHAESLSF HPVTG PV ++PLP W E + +
Sbjct: 286 GFPIRGDVKYSGVIEWNGVDYDGHALHAESLSFVHPVTGLPVTFRSPLPSWANEFIST 343
>gi|414878129|tpg|DAA55260.1| TPA: hypothetical protein ZEAMMB73_192305 [Zea mays]
Length = 348
Score = 348 bits (894), Expect = 2e-93, Method: Compositional matrix adjust.
Identities = 183/300 (61%), Positives = 221/300 (73%), Gaps = 17/300 (5%)
Query: 59 AISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGD 118
A SKD+EL RAM+AS++S+ + +DV++EDEWL V+KP GVYC+++L S PC
Sbjct: 57 ATSKDLELRRAMTASARSA--AFASADVVFEDEWLAVVDKPAGVYCDALLTSFPC----- 109
Query: 119 SAESKSG--RLSE--GTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVS 174
SA S RL+E TK NL HLANRLDRDTSG+MVITK +KVA KLVKAFTDHKV
Sbjct: 110 SAVSGKHFLRLAENPATKPNL---HLANRLDRDTSGLMVITKCNKVAGKLVKAFTDHKVK 166
Query: 175 KTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLS 234
KTY+ALCIG P W++I I SGHGRSK GAWRVYA SDVGR LPGGSVVRDM T FEVL
Sbjct: 167 KTYLALCIGFPPAWEKIKICSGHGRSKHGAWRVYAMSDVGRSLPGGSVVRDMSTRFEVLG 226
Query: 235 VNGEGSFKEPSELQEHEENNIVVEKKA---VLDADAKKNEILVRAFPRSGRTHQIRLHCQ 291
VNG+G F+EP L + I V++KA DA + ILVRA+P+SGRTHQIRLHCQ
Sbjct: 227 VNGKGQFREPYSLDTDDIEPITVQEKATDQTCGGDANSSVILVRAYPQSGRTHQIRLHCQ 286
Query: 292 YLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
YLG+ IRGDVKY GV EW+G +GH LHAESLSF HP+TG P+ +++PLP W + + +
Sbjct: 287 YLGLPIRGDVKYGGVIEWDGVECEGHALHAESLSFVHPITGLPITLRSPLPPWAKDCISA 346
>gi|414878128|tpg|DAA55259.1| TPA: hypothetical protein ZEAMMB73_192305 [Zea mays]
Length = 340
Score = 348 bits (894), Expect = 2e-93, Method: Compositional matrix adjust.
Identities = 180/296 (60%), Positives = 219/296 (73%), Gaps = 17/296 (5%)
Query: 59 AISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGD 118
A SKD+EL RAM+AS++S+ + +DV++EDEWL V+KP GVYC+++L S PC
Sbjct: 57 ATSKDLELRRAMTASARSA--AFASADVVFEDEWLAVVDKPAGVYCDALLTSFPC----- 109
Query: 119 SAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYI 178
SA S++ TK NL HLANRLDRDTSG+MVITK +KVA KLVKAFTDHKV KTY+
Sbjct: 110 SAVSEN----PATKPNL---HLANRLDRDTSGLMVITKCNKVAGKLVKAFTDHKVKKTYL 162
Query: 179 ALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGE 238
ALCIG P W++I I SGHGRSK GAWRVYA SDVGR LPGGSVVRDM T FEVL VNG+
Sbjct: 163 ALCIGFPPAWEKIKICSGHGRSKHGAWRVYAMSDVGRSLPGGSVVRDMSTRFEVLGVNGK 222
Query: 239 GSFKEPSELQEHEENNIVVEKKA---VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGI 295
G F+EP L + I V++KA DA + ILVRA+P+SGRTHQIRLHCQYLG+
Sbjct: 223 GQFREPYSLDTDDIEPITVQEKATDQTCGGDANSSVILVRAYPQSGRTHQIRLHCQYLGL 282
Query: 296 SIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
IRGDVKY GV EW+G +GH LHAESLSF HP+TG P+ +++PLP W + + +
Sbjct: 283 PIRGDVKYGGVIEWDGVECEGHALHAESLSFVHPITGLPITLRSPLPPWAKDCISA 338
>gi|223946633|gb|ACN27400.1| unknown [Zea mays]
Length = 315
Score = 347 bits (891), Expect = 4e-93, Method: Compositional matrix adjust.
Identities = 183/300 (61%), Positives = 221/300 (73%), Gaps = 17/300 (5%)
Query: 59 AISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGD 118
A SKD+EL RAM+AS++S+ + +DV++EDEWL V+KP GVYC+++L S PC
Sbjct: 24 ATSKDLELRRAMTASARSA--AFASADVVFEDEWLAVVDKPAGVYCDALLTSFPC----- 76
Query: 119 SAESKSG--RLSE--GTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVS 174
SA S RL+E TK NL HLANRLDRDTSG+MVITK +KVA KLVKAFTDHKV
Sbjct: 77 SAVSGKHFLRLAENPATKPNL---HLANRLDRDTSGLMVITKCNKVAGKLVKAFTDHKVK 133
Query: 175 KTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLS 234
KTY+ALCIG P W++I I SGHGRSK GAWRVYA SDVGR LPGGSVVRDM T FEVL
Sbjct: 134 KTYLALCIGFPPAWEKIKICSGHGRSKHGAWRVYAMSDVGRSLPGGSVVRDMSTRFEVLG 193
Query: 235 VNGEGSFKEPSELQEHEENNIVVEKKA---VLDADAKKNEILVRAFPRSGRTHQIRLHCQ 291
VNG+G F+EP L + I V++KA DA + ILVRA+P+SGRTHQIRLHCQ
Sbjct: 194 VNGKGQFREPYSLDTDDIEPITVQEKATDQTCGGDANSSVILVRAYPQSGRTHQIRLHCQ 253
Query: 292 YLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
YLG+ IRGDVKY GV EW+G +GH LHAESLSF HP+TG P+ +++PLP W + + +
Sbjct: 254 YLGLPIRGDVKYGGVIEWDGVECEGHALHAESLSFVHPITGLPITLRSPLPPWAKDCISA 313
>gi|223944597|gb|ACN26382.1| unknown [Zea mays]
Length = 307
Score = 347 bits (891), Expect = 4e-93, Method: Compositional matrix adjust.
Identities = 180/296 (60%), Positives = 219/296 (73%), Gaps = 17/296 (5%)
Query: 59 AISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGD 118
A SKD+EL RAM+AS++S+ + +DV++EDEWL V+KP GVYC+++L S PC
Sbjct: 24 ATSKDLELRRAMTASARSA--AFASADVVFEDEWLAVVDKPAGVYCDALLTSFPC----- 76
Query: 119 SAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYI 178
SA S++ TK NL HLANRLDRDTSG+MVITK +KVA KLVKAFTDHKV KTY+
Sbjct: 77 SAVSEN----PATKPNL---HLANRLDRDTSGLMVITKCNKVAGKLVKAFTDHKVKKTYL 129
Query: 179 ALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGE 238
ALCIG P W++I I SGHGRSK GAWRVYA SDVGR LPGGSVVRDM T FEVL VNG+
Sbjct: 130 ALCIGFPPAWEKIKICSGHGRSKHGAWRVYAMSDVGRSLPGGSVVRDMSTRFEVLGVNGK 189
Query: 239 GSFKEPSELQEHEENNIVVEKKA---VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGI 295
G F+EP L + I V++KA DA + ILVRA+P+SGRTHQIRLHCQYLG+
Sbjct: 190 GQFREPYSLDTDDIEPITVQEKATDQTCGGDANSSVILVRAYPQSGRTHQIRLHCQYLGL 249
Query: 296 SIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
IRGDVKY GV EW+G +GH LHAESLSF HP+TG P+ +++PLP W + + +
Sbjct: 250 PIRGDVKYGGVIEWDGVECEGHALHAESLSFVHPITGLPITLRSPLPPWAKDCISA 305
>gi|242083792|ref|XP_002442321.1| hypothetical protein SORBIDRAFT_08g018120 [Sorghum bicolor]
gi|241943014|gb|EES16159.1| hypothetical protein SORBIDRAFT_08g018120 [Sorghum bicolor]
Length = 315
Score = 345 bits (886), Expect = 2e-92, Method: Compositional matrix adjust.
Identities = 181/302 (59%), Positives = 216/302 (71%), Gaps = 21/302 (6%)
Query: 59 AISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGD 118
A SKD+EL RAM+AS++S+ + +DV++EDEWL V+KP GVYC++ L S+P
Sbjct: 24 AASKDVELRRAMTASARSA--AFASADVVFEDEWLAVVDKPAGVYCDAFLTSLP------ 75
Query: 119 SAESKSG----RLSE--GTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHK 172
+ SG RL+E TK NL HLANRLDRDTSG+MVITK +KVA KLVKAFTDHK
Sbjct: 76 -SSVVSGKYFLRLAEDPATKPNL---HLANRLDRDTSGLMVITKCNKVAGKLVKAFTDHK 131
Query: 173 VSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEV 232
V KTY+ALCIG P W++I I SGHGRSK GAWRVYA SDVGR LPGGSVVRDM T FEV
Sbjct: 132 VKKTYLALCIGCPPTWEKIKICSGHGRSKHGAWRVYAMSDVGRSLPGGSVVRDMSTQFEV 191
Query: 233 LSVNGEGSFKEPSELQEHEENNIVVEKKA---VLDADAKKNEILVRAFPRSGRTHQIRLH 289
L VNG+ F+EP + +I V++KA D + ILVRA+P+SGRTHQIRLH
Sbjct: 192 LGVNGKCQFREPYNFDTDDIESITVQEKAADQTCSGDVNNSAILVRAYPQSGRTHQIRLH 251
Query: 290 CQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
CQYLG IRGDVKY GV EWNG DGH LHAESLSF HP+TG P+ ++PLP W E +
Sbjct: 252 CQYLGFPIRGDVKYGGVIEWNGVECDGHALHAESLSFVHPITGLPITFRSPLPSWAKECI 311
Query: 350 QS 351
+
Sbjct: 312 ST 313
>gi|12321745|gb|AAG50905.1|AC069159_6 RNA pseudouridylate synthase, putative [Arabidopsis thaliana]
Length = 254
Score = 342 bits (878), Expect = 1e-91, Method: Compositional matrix adjust.
Identities = 172/278 (61%), Positives = 209/278 (75%), Gaps = 31/278 (11%)
Query: 70 MSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSE 129
M ASSKSSL+ L+R D+LYEDE+L+AVNKP+GVYCE+VL S P
Sbjct: 1 MEASSKSSLFNLTRDDILYEDEYLMAVNKPKGVYCEAVLRSAP----------------- 43
Query: 130 GTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWK 189
++ LANRLDRDTSGVM+ITKSHKVA+KLVKAFT+HK+ K+YIALCIG +P W+
Sbjct: 44 -------QIVLANRLDRDTSGVMIITKSHKVAAKLVKAFTEHKIRKSYIALCIGSSPNWR 96
Query: 190 RITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQE 249
R+T+ SGHGRSK GAWRVYAA DVGRVLPGGS VRDM T+FEV+SVN + E EL+
Sbjct: 97 RVTVSSGHGRSKHGAWRVYAALDVGRVLPGGSFVRDMETTFEVVSVNSVKN--ESCELE- 153
Query: 250 HEENNIVV---EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGV 306
+ N+++V E++ D ++VRAFPRSGRTHQIRLHCQYLGI IRGDVKY GV
Sbjct: 154 -DVNHVIVAEGERELSCGGDDDDVVVVVRAFPRSGRTHQIRLHCQYLGIPIRGDVKYHGV 212
Query: 307 YEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLW 344
YEWNG+ ++GHELHAE LS DHPVTG ++++APLP W
Sbjct: 213 YEWNGRTFEGHELHAECLSLDHPVTGDSIVIRAPLPYW 250
>gi|148910624|gb|ABR18382.1| unknown [Picea sitchensis]
Length = 358
Score = 330 bits (846), Expect = 6e-88, Method: Compositional matrix adjust.
Identities = 175/340 (51%), Positives = 218/340 (64%), Gaps = 42/340 (12%)
Query: 46 QQNYPTPLSPPLPAISKDIELTRAMSASSK-SSLYKLSRSDVLYEDEWLVAVNKPQGVYC 104
+++P PLS P P +S+ +E RAM A + + LSR++ +YEDEW++AVNKP GVYC
Sbjct: 23 NEDFPKPLSQPPPELSRQVEYDRAMRAEAAVKAGPALSRNEFIYEDEWMIAVNKPSGVYC 82
Query: 105 ESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKL 164
E VL+S+P LLA + + + +N LELHLANRLDRDTSGVMVITK HK+A +L
Sbjct: 83 EHVLSSIPELLASSPSSAGAA-----NDVNPLELHLANRLDRDTSGVMVITKLHKIAGQL 137
Query: 165 VKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVR 224
VKAFTD KV KTY+ALCIGPAPKW I I SGHGRSKFGAWRVY+ +DVGR+LPGG+VVR
Sbjct: 138 VKAFTDRKVRKTYLALCIGPAPKWNNIYIESGHGRSKFGAWRVYSRTDVGRILPGGTVVR 197
Query: 225 DMVTSFEVLSVNGEGSFKEPS-------------ELQEHEENNI-------VVEKKAVLD 264
+M T +VL+VN S +L+E + +EK V +
Sbjct: 198 EMATHLKVLAVNANHRMHRDSVDKAQNSSQGIAFDLKEDRFATVGDNGSTDSIEKVVVTE 257
Query: 265 ADA----------------KKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYE 308
++ K +E+L+RA P SGRTHQIRLHCQY+G+ IRGDVKYEG +
Sbjct: 258 QNSKAPGQDRDIVSSPNIRKNDEVLIRASPLSGRTHQIRLHCQYMGLPIRGDVKYEGPHI 317
Query: 309 WNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEA 348
W G Y H LHAESL F+HPVT V APLP W EA
Sbjct: 318 WKGITYANHALHAESLCFEHPVTNNMVKFHAPLPQWVMEA 357
>gi|168037108|ref|XP_001771047.1| predicted protein [Physcomitrella patens subsp. patens]
gi|162677735|gb|EDQ64202.1| predicted protein [Physcomitrella patens subsp. patens]
Length = 324
Score = 293 bits (750), Expect = 9e-77, Method: Compositional matrix adjust.
Identities = 152/316 (48%), Positives = 205/316 (64%), Gaps = 28/316 (8%)
Query: 44 QTQQNYPTPLSPPLPAISKDIELTRAMSA-SSKSSLYKLSRSDVLYEDEWLVAVNKPQGV 102
+ + +YP PLSP +SK++EL RA+ A ++ + + + VL+ED+WL+ VNKP+G+
Sbjct: 13 EQEMDYPIPLSPFAGELSKEVELQRALVAEAAMKAGPAIGQESVLFEDDWLMIVNKPRGL 72
Query: 103 YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVAS 162
YCE VLA++P L S+E++ L LH+ANRLDRDTSG+MVITK + A+
Sbjct: 73 YCEHVLATIPSLCR--SSETQ------------LHLHMANRLDRDTSGIMVITKCKEAAA 118
Query: 163 KLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSV 222
KL +AFT+ +V KTY+A C P W++ I SGHGRS++GAWRVYA D+GR LPGGS
Sbjct: 119 KLTRAFTNREVQKTYLAQCARAKPTWRKTRIESGHGRSRYGAWRVYAKHDIGRRLPGGST 178
Query: 223 VRDMVTSFEVLSVNGEGSFKE-PSELQEHE--------ENNIVVEKKAVLDADAKKNEIL 273
VRDMVT E+++ G S K+ P EH+ E+ + + K V D ++ + L
Sbjct: 179 VRDMVTRVEIIA--GTNSLKQDPQPSPEHDFVEVVVGREDEVRLGKDEVEDGSLRETQEL 236
Query: 274 --VRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVT 331
VRAFP +GRTHQIRLHCQYLG+S+ GDVKY G W G YD H LHAESL+F HP+T
Sbjct: 237 TVVRAFPETGRTHQIRLHCQYLGLSLCGDVKYGGPLVWQGLSYDSHALHAESLAFRHPIT 296
Query: 332 GCPVMVQAPLPLWGTE 347
P+ V P P W +
Sbjct: 297 KEPISVVTPCPSWAAQ 312
>gi|356533542|ref|XP_003535322.1| PREDICTED: LOW QUALITY PROTEIN: RNA pseudourine synthase 1-like
[Glycine max]
Length = 259
Score = 283 bits (725), Expect = 7e-74, Method: Compositional matrix adjust.
Identities = 154/290 (53%), Positives = 194/290 (66%), Gaps = 40/290 (13%)
Query: 64 IELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESK 123
L R + L+ LS D+L +AVNK + +YC+++L+S
Sbjct: 6 FRLNRTRAEQGHERLFSLSPVDIL------IAVNKHREIYCQNLLSS------------- 46
Query: 124 SGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG 183
LANRLDRDT G+++++KSHKVA+KLV AFTDHKV KTYIALC G
Sbjct: 47 ----------------LANRLDRDTIGILLLSKSHKVAAKLVNAFTDHKVKKTYIALCTG 90
Query: 184 PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKE 243
PKW ++T+ SGHG SKFGAWRVYAASDVGR LPGGSVVR M TSFE+ S+NG GSF+E
Sbjct: 91 LHPKWPKVTVRSGHGXSKFGAWRVYAASDVGRTLPGGSVVRSMETSFEIFSINGNGSFRE 150
Query: 244 PSELQ----EHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRG 299
+ + E N IVVE KAV + + ++EI+VRA+P+SGRTHQIRLHCQYLGISI G
Sbjct: 151 VLDFEFGNAEEGGNVIVVEGKAVKE-EGNESEIVVRAYPQSGRTHQIRLHCQYLGISIIG 209
Query: 300 DVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
DVKY+GV+E G + H LHAE+LSF+HPV+ V ++APLP W T+A
Sbjct: 210 DVKYKGVHEXKGATHHAHHLHAETLSFEHPVSDFHVKLRAPLPPWATQAF 259
>gi|226505766|ref|NP_001140548.1| uncharacterized protein LOC100272613 [Zea mays]
gi|194699944|gb|ACF84056.1| unknown [Zea mays]
gi|414878126|tpg|DAA55257.1| TPA: hypothetical protein ZEAMMB73_192305 [Zea mays]
gi|414878127|tpg|DAA55258.1| TPA: hypothetical protein ZEAMMB73_192305 [Zea mays]
Length = 205
Score = 272 bits (696), Expect = 2e-70, Method: Compositional matrix adjust.
Identities = 131/203 (64%), Positives = 154/203 (75%), Gaps = 3/203 (1%)
Query: 152 MVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAAS 211
MVITK +KVA KLVKAFTDHKV KTY+ALCIG P W++I I SGHGRSK GAWRVYA S
Sbjct: 1 MVITKCNKVAGKLVKAFTDHKVKKTYLALCIGFPPAWEKIKICSGHGRSKHGAWRVYAMS 60
Query: 212 DVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA---VLDADAK 268
DVGR LPGGSVVRDM T FEVL VNG+G F+EP L + I V++KA DA
Sbjct: 61 DVGRSLPGGSVVRDMSTRFEVLGVNGKGQFREPYSLDTDDIEPITVQEKATDQTCGGDAN 120
Query: 269 KNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDH 328
+ ILVRA+P+SGRTHQIRLHCQYLG+ IRGDVKY GV EW+G +GH LHAESLSF H
Sbjct: 121 SSVILVRAYPQSGRTHQIRLHCQYLGLPIRGDVKYGGVIEWDGVECEGHALHAESLSFVH 180
Query: 329 PVTGCPVMVQAPLPLWGTEALQS 351
P+TG P+ +++PLP W + + +
Sbjct: 181 PITGLPITLRSPLPPWAKDCISA 203
>gi|302755728|ref|XP_002961288.1| hypothetical protein SELMODRAFT_75008 [Selaginella moellendorffii]
gi|300172227|gb|EFJ38827.1| hypothetical protein SELMODRAFT_75008 [Selaginella moellendorffii]
Length = 318
Score = 261 bits (668), Expect = 3e-67, Method: Compositional matrix adjust.
Identities = 143/309 (46%), Positives = 189/309 (61%), Gaps = 20/309 (6%)
Query: 48 NYPTPLSPPLPAISKDIELTRAMSA-SSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES 106
YP P++P A K+IE RA+ A +S S ++ DV+++DEW++ +NKP GVY E
Sbjct: 24 RYPIPVTPLTGA--KEIEYERALVAEASMKSGPAITIDDVVFQDEWILVINKPCGVYSEH 81
Query: 107 VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVK 166
VL SVP LL GDS G HLANRLDRDTSG++VI + A KL
Sbjct: 82 VLVSVPSLL-GDSYSPHRGFF-----------HLANRLDRDTSGIIVIARDKVAAGKLTN 129
Query: 167 AFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDM 226
F ++ K+Y+ALC+G AP+WKR + SGHG+S+ G WRVY+ DV R LP GSVV+DM
Sbjct: 130 IFKSRELRKSYVALCVGKAPEWKRAVVESGHGKSRRGCWRVYSKHDVERSLPDGSVVKDM 189
Query: 227 VTSFEVLSVNGEGSFKEPSELQEHE-ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQ 285
T EV+ S E + +E + E IVVE K V +E+ +RA P +GRTHQ
Sbjct: 190 ATKIEVIP----SSLDEVKDGEEDDREQRIVVEAKMVDPEPGTGDEVFIRAVPLTGRTHQ 245
Query: 286 IRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWG 345
IRLHCQ+LG+ + GDVKY G WNG++ H LH+ES++F HP+TG V V AP P W
Sbjct: 246 IRLHCQFLGLPLVGDVKYGGPLHWNGEKCQSHFLHSESIAFQHPMTGEVVEVIAPHPSWA 305
Query: 346 TEALQSSSK 354
+ +SK
Sbjct: 306 AKLKFQASK 314
>gi|302803025|ref|XP_002983266.1| hypothetical protein SELMODRAFT_118202 [Selaginella moellendorffii]
gi|300148951|gb|EFJ15608.1| hypothetical protein SELMODRAFT_118202 [Selaginella moellendorffii]
Length = 312
Score = 261 bits (667), Expect = 4e-67, Method: Compositional matrix adjust.
Identities = 142/300 (47%), Positives = 184/300 (61%), Gaps = 20/300 (6%)
Query: 49 YPTPLSPPLPAISKDIELTRAMSA-SSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESV 107
YP P++P A K+IE RA+ A +S S ++ DV+++DEW++ +NKP GVY E V
Sbjct: 25 YPIPVTPLTGA--KEIEYERALVAEASMKSGPAITIDDVVFQDEWILVINKPCGVYSEHV 82
Query: 108 LASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKA 167
L SVP LL GDS G HLANRLDRDTSG++VI + A KL
Sbjct: 83 LVSVPSLL-GDSYSPHRGFF-----------HLANRLDRDTSGIIVIARDKVAAGKLTNI 130
Query: 168 FTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMV 227
F ++ K+Y+ALC+G AP WKR I SGHG+S+ G WRVY+ DV R LP GSVV+DM
Sbjct: 131 FKSRELRKSYVALCVGKAPHWKRAVIESGHGKSRRGCWRVYSKHDVERSLPDGSVVKDMS 190
Query: 228 TSFEVLSVNGEGSFKEPSELQEHE-ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQI 286
T EV+ S E + +E + E IVVE K V +E+ +RA P +GRTHQI
Sbjct: 191 TKIEVMP----SSLDEAKDSEEDDGEQRIVVEAKMVDPEPGTGDEVFIRAVPLTGRTHQI 246
Query: 287 RLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGT 346
RLHCQ+LG+ + GDVKY G WNG++ H LH+ES++F HP+TG V V AP P W
Sbjct: 247 RLHCQFLGLPLVGDVKYGGPLHWNGEKCQSHFLHSESIAFQHPMTGEVVEVIAPHPSWAA 306
>gi|168024645|ref|XP_001764846.1| predicted protein [Physcomitrella patens subsp. patens]
gi|162683882|gb|EDQ70288.1| predicted protein [Physcomitrella patens subsp. patens]
Length = 327
Score = 251 bits (642), Expect = 3e-64, Method: Compositional matrix adjust.
Identities = 140/313 (44%), Positives = 188/313 (60%), Gaps = 28/313 (8%)
Query: 48 NYPTPLSPPLPAISKDIELTRAMSA-SSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES 106
+YP PLSP +S ++EL RA+ A ++ S + R VL+EDEWL+ VNKP+G+Y
Sbjct: 17 DYPVPLSPVPSQLSNEVELQRALVAEAAMKSRPAIGRESVLFEDEWLIIVNKPRGLYSGH 76
Query: 107 VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVK 166
V ++P L S SG L LH+ANRLDRDTSG+M+ITK A+ L +
Sbjct: 77 VFETMPSLC------SSSGETP-------LHLHMANRLDRDTSGIMIITKCKVAAANLTR 123
Query: 167 AFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGS-VVRD 225
++ + KV KTYIA C P W++ I SGHGRS++GAW VYA D+GR LP + VR+
Sbjct: 124 SYMNRKVHKTYIAQCAQSQPTWRKSRIESGHGRSRYGAWHVYAKHDIGRRLPVKTETVRE 183
Query: 226 MVTSFEVLSVNGEGSFKEPSELQ-EHEENNIVV----EKKAVLD------ADAKKNEILV 274
M+T E+ V+G S + +EL EH+ ++V E + V + +D + LV
Sbjct: 184 MITRLEI--VSGPDSLRWDNELSVEHDCLEVIVGSEDEVRLVSNEVTKRCSDVDEEVTLV 241
Query: 275 RAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCP 334
RAFP +GRTHQIRLHCQYLG+ + GDVKY G W YD H LHAESL+ HP+T
Sbjct: 242 RAFPETGRTHQIRLHCQYLGLPLCGDVKYGGPLFWQSVHYDSHTLHAESLALRHPMTNQL 301
Query: 335 VMVQAPLPLWGTE 347
+ V AP P W +
Sbjct: 302 LQVVAPYPSWAVQ 314
>gi|148656758|ref|YP_001276963.1| pseudouridine synthase [Roseiflexus sp. RS-1]
gi|148568868|gb|ABQ91013.1| pseudouridine synthase [Roseiflexus sp. RS-1]
Length = 299
Score = 161 bits (408), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 100/259 (38%), Positives = 135/259 (52%), Gaps = 38/259 (14%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ L+A+NKP Y E+ L +A ++ L GT LHLA+RLD
Sbjct: 77 ILYEDDDLIALNKPIDTYVEATPWDAEGHL--RAALARFLALRNGTAP---PLHLAHRLD 131
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV++I+K+ V + L + F D KTY+A+C G P + I I +GHGR + G +
Sbjct: 132 RDTSGVLLISKTPDVNAALQRVFRDGAAHKTYLAICAG-LPSFDEIEIETGHGRGRGGMF 190
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
RV+ +GR LP G V+ M T F V+ LD
Sbjct: 191 RVFPPEAIGRTLPQGGTVKSMRTRFRVVR---------------------------RLD- 222
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
+ LVRA+P +GRTHQIRLH +LG + GD KY G+ W G H LHAE L
Sbjct: 223 ----DAALVRAWPLTGRTHQIRLHLAFLGHPLIGDSKYGGLSIWRGTPAFHHHLHAERLE 278
Query: 326 FDHPVTGCPVMVQAPLPLW 344
HP +G P+++ AP P W
Sbjct: 279 LPHPQSGAPLVIVAPAPEW 297
>gi|156742179|ref|YP_001432308.1| pseudouridine synthase [Roseiflexus castenholzii DSM 13941]
gi|156233507|gb|ABU58290.1| pseudouridine synthase [Roseiflexus castenholzii DSM 13941]
Length = 309
Score = 146 bits (368), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 91/259 (35%), Positives = 126/259 (48%), Gaps = 38/259 (14%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED L+A++KP Y E+ L A R L HLA+RLD
Sbjct: 77 ILYEDADLIALDKPIDTYVEATPWDAEGHLRAALAHFLEVRDGSAPPL-----HLAHRLD 131
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV++++K+ V + L +AF + V KTY+ALC G P + I I +GHGR + G +
Sbjct: 132 RDTSGVLLLSKAPDVNAALQRAFREGAVRKTYLALCAG-LPAFDEIEIETGHGRGRGGVF 190
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
RV+ ++GR LP G V+ M T V+ + +
Sbjct: 191 RVFPHEEIGRALPQGGTVKAMRTRLRVVRRMDDAA------------------------- 225
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
L A P +GRTHQIRLH +LG + GDVKY G W G H LHA L
Sbjct: 226 -------LACATPLTGRTHQIRLHLAFLGHPLIGDVKYGGPSTWRGVVVQHHHLHAWRLE 278
Query: 326 FDHPVTGCPVMVQAPLPLW 344
HP +G +++++P P W
Sbjct: 279 LPHPRSGTALIIESPAPTW 297
>gi|303277319|ref|XP_003057953.1| RNA pseudouridylate synthase [Micromonas pusilla CCMP1545]
gi|226460610|gb|EEH57904.1| RNA pseudouridylate synthase [Micromonas pusilla CCMP1545]
Length = 348
Score = 140 bits (352), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 122/358 (34%), Positives = 162/358 (45%), Gaps = 83/358 (23%)
Query: 49 YPTPLSPP-LPAI-SKDIELTRAMSASSKSSLYKLSRSDVLYEDEW-----------LVA 95
YP P + P LP +++IE RA+ A ++ S VL D+ V
Sbjct: 15 YPRPCARPGLPGDDAREIESRRAVRAKARGESLAASDVPVLRRDDADADADGDGGGAFVV 74
Query: 96 VNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVIT 155
V KP GVY + VLA+ L D++ S S S + LHLA+RLDRDTSG +V+
Sbjct: 75 VRKPAGVYVDDVLAA----LERDASASASASPSPSPR----RLHLAHRLDRDTSGCLVVA 126
Query: 156 KSHKVASKLVKAFTDHKVSKTYIALCI---------------GPAPKW---KRITIISGH 197
S + + L +AF D KV K Y+A C P+P + +T+ +GH
Sbjct: 127 TSTRACAALTRAFADGKVRKEYLAHCSSAAASSSSEPREPDPSPSPSLDGARPLTLRTGH 186
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GRS+ G WRVY SDVGR LP RD ++ + E ++VV
Sbjct: 187 GRSRNGLWRVYPLSDVGRALP-----RDPGRKTTLVKIA---------------ETSLVV 226
Query: 258 EKKAVLDADAKKNE----ILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG-------- 305
A E VRA P +GRTHQIRLHC + G +I GDVKY G
Sbjct: 227 VATAAARGGGGGGERSRCAYVRATPTTGRTHQIRLHCAHAGAAIVGDVKYGGPRVVEEEE 286
Query: 306 --------VYEWNG---KRYDGHELHAESLSFDHPVT-GCPVMVQAPLPLWGTEALQS 351
E + R+DG LHA ++F HP G V V+ P P W EA +S
Sbjct: 287 EEEEKEKETQEDDALIDTRFDGFRLHAAKIAFPHPTREGQTVEVECPPPGWWREAGES 344
>gi|145354358|ref|XP_001421454.1| predicted protein [Ostreococcus lucimarinus CCE9901]
gi|144581691|gb|ABO99747.1| predicted protein [Ostreococcus lucimarinus CCE9901]
Length = 318
Score = 130 bits (326), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 102/333 (30%), Positives = 149/333 (44%), Gaps = 61/333 (18%)
Query: 49 YPTPLSPPLPA--ISKDIELTRAMSASSKSSLYKLSRSDVL--YEDEWLVAVNKPQGVYC 104
YP P P P ++ IE RA S + + +L Y D+ + +NKP Y
Sbjct: 5 YPKPTLRPGPPSDAARAIEGERAESCERAARADAAAGVPLLAVYVDDDVYVLNKPAQTYV 64
Query: 105 ESVLASVP-CLLAGDSAESKSGR-LSEGTKLNLLE-LHLANRLDRDTSGVMVITKSHKVA 161
+ V ++ D A + R + N E + +RLDRDTSG +V+ ++
Sbjct: 65 HDIERLVERGMVKCDDATTVDNRATTRDVPFNASESARVVHRLDRDTSGCLVVARNRDAI 124
Query: 162 SKLVKAFTDHKVSKTYIALCIGPAP-----KWKRITIISGHGRSKFGAWRVYAASDVGRV 216
L F D V KTY+ALC A +R+ +G GR+K+G +R+Y A+D+GR
Sbjct: 125 RSLSAQFADGTVQKTYVALCAATADYDGVEDHRRV--FTGWGRAKYGLFRLYDAADIGRA 182
Query: 217 LPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK-------------KAVL 263
LPG V+ +H E I+VE+
Sbjct: 183 LPGNKKVK-----------------------VKHAETTIIVERVITDGVALRFCEPPTAD 219
Query: 264 DADAKKNEI-LVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYE----------WNGK 312
DAD +++ + L R P +GRTHQIRLHC LG+ + GDV+Y G ++ +
Sbjct: 220 DADRRRHRVALARCSPLTGRTHQIRLHCASLGLPLVGDVRYGGPIAATRDGPIDAPFSAR 279
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLPLWG 345
R G LHAE ++F HP + V V AP P W
Sbjct: 280 RVAGALLHAERVAFRHPKSNLRVDVHAPRPPWA 312
>gi|159897698|ref|YP_001543945.1| pseudouridine synthase [Herpetosiphon aurantiacus DSM 785]
gi|159890737|gb|ABX03817.1| pseudouridine synthase [Herpetosiphon aurantiacus DSM 785]
Length = 312
Score = 126 bits (316), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 82/263 (31%), Positives = 126/263 (47%), Gaps = 40/263 (15%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
+D+L+EDEW++ +NKP Y + L G R E + HL +R
Sbjct: 65 ADILFEDEWILVLNKPAAWYSVATPWDTFGHLEGALQRFFLERDGEA-----VPFHLVHR 119
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD TSG ++++K+ + S+ + F + +V KTY+ALC G P W ++ +++GH R +FG
Sbjct: 120 LDHGTSGALIVSKNPSLNSRFQRMFNEGRVQKTYLALCSG-LPDWTKLEVVTGHSRGEFG 178
Query: 204 AWRVYAASDVGRVL-PGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
W VY A+ + ++ P VR TSF V +V G+ + H
Sbjct: 179 LWSVYPAAMIDQLYGPKDRRVRRAHTSFTVQAV---GNAAALLAARLH------------ 223
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
+GRTHQIRLH +++G + GD +Y GV ++ LHA
Sbjct: 224 -----------------TGRTHQIRLHAKHIGHPLVGDQRYGGVTQFGNLSIPDQLLHAA 266
Query: 323 SLSFDHPVTGCPVMVQAPLP-LW 344
L F HP G + + AP+P LW
Sbjct: 267 WLQFPHPRYGSMLELIAPVPSLW 289
>gi|163848084|ref|YP_001636128.1| pseudouridine synthase [Chloroflexus aurantiacus J-10-fl]
gi|222525978|ref|YP_002570449.1| pseudouridine synthase [Chloroflexus sp. Y-400-fl]
gi|163669373|gb|ABY35739.1| pseudouridine synthase [Chloroflexus aurantiacus J-10-fl]
gi|222449857|gb|ACM54123.1| pseudouridine synthase [Chloroflexus sp. Y-400-fl]
Length = 306
Score = 119 bits (297), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 89/270 (32%), Positives = 122/270 (45%), Gaps = 55/270 (20%)
Query: 81 LSRSDVLYEDEWLVAVNKPQGVYCE--------SVLASVPCLLAGDSAESKSGRLSEGTK 132
L+ +++YED ++ VNKP Y SVLA V LL + +G
Sbjct: 72 LTLENIIYEDNDVLVVNKPPACYVGDTPWDTQGSVLAVVQRLLT----------VRDGVP 121
Query: 133 LNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRIT 192
LHLA++LD TSG++V++K+ + + L AF K Y+A+C G P
Sbjct: 122 P---VLHLAHQLDFGTSGILVLSKTPRANAPLQTAFARGLAMKQYLAVCSGHPPVTA--D 176
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
+++GHGR+ G WR+Y +D+GRVLP G VR T F + F
Sbjct: 177 LVTGHGRAAGGRWRLYDQADIGRVLPDGQRVRLAHTRFTL-----RRQF----------- 220
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
N LV A P +GRTHQIRLH LG I GD +Y GV + G
Sbjct: 221 ----------------ANAALVEAMPLTGRTHQIRLHLAALGCPILGDERYGGVVDVAGL 264
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP+ G + + P P
Sbjct: 265 HLTHPLLHAAELQLPHPIHGRSLHLFCPPP 294
>gi|219846960|ref|YP_002461393.1| pseudouridine synthase [Chloroflexus aggregans DSM 9485]
gi|219541219|gb|ACL22957.1| pseudouridine synthase [Chloroflexus aggregans DSM 9485]
Length = 307
Score = 116 bits (291), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 84/269 (31%), Positives = 122/269 (45%), Gaps = 53/269 (19%)
Query: 81 LSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE--- 137
L+ + ++YED+ L+ +NKP Y GD+ G + + L E
Sbjct: 74 LTLNHIIYEDDDLLVINKPPACY------------TGDTPWDTQGSVLAVARRLLTERDG 121
Query: 138 ----LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
LHLA++LD TSG++VI+K + + L AF +V K Y+ALC G P +
Sbjct: 122 LVPTLHLAHQLDAGTSGILVISKHPRANAPLQAAFNHGQVDKRYLALCAGHPPTATE--L 179
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
I+GHGR+ G WR+Y +++G+VLP G V+ T E+ G+ +
Sbjct: 180 ITGHGRAAAGRWRLYEQAEIGKVLPNGQRVKRAHTQIELRRQYGDVA------------- 226
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
LV A P +GRTHQIRLH LG + GD +Y G G
Sbjct: 227 -------------------LVWAKPLTGRTHQIRLHLVALGCPLLGDERYGGPTTVAGML 267
Query: 314 YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L+ HP +G + + P P
Sbjct: 268 IPHPLLHAAELALPHPRSGRLLNIFCPPP 296
>gi|308811949|ref|XP_003083282.1| pseudouridine synthase family protein (ISS) [Ostreococcus tauri]
gi|116055161|emb|CAL57557.1| pseudouridine synthase family protein (ISS) [Ostreococcus tauri]
Length = 267
Score = 115 bits (288), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 89/276 (32%), Positives = 122/276 (44%), Gaps = 39/276 (14%)
Query: 88 YEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEG---TKLNLLELHLANRL 144
Y D+ + + KP Y + V+ +V D EG TKL E +RL
Sbjct: 8 YADDDVFVLVKPTRAYVDDVIDAVRT----DGVVRVIRDAREGGRETKLCGEEARCCHRL 63
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCI-------GPAPKWKRITIISGH 197
DRDTSG ++ ++ L F V+K Y+ALC G + + SGH
Sbjct: 64 DRDTSGALIFARNGNAVKSLAGQFARGTVTKRYVALCAVVDDADEGTWGSGDLVRVESGH 123
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+++G +R+Y +DV R LPG + V+ VT+ V V EG E E + N +
Sbjct: 124 GRARYGLYRLYDVNDVDRDLPGNNRVKRCVTTIRVERVV-EGVELEYCEPERDGSNARLA 182
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG------ 311
L R P +GRTHQIRLHC LG+ + GDV+Y G
Sbjct: 183 ---------------LARCSPITGRTHQIRLHCASLGLPLAGDVRYGGPIRVKSCASAST 227
Query: 312 ---KRYDGHELHAESLSFDHPVTGCPVMVQAPLPLW 344
G LHAE+++F HP TG V V P W
Sbjct: 228 SAIGDLPGALLHAEAITFRHPRTGEDVTVTVDPPDW 263
>gi|309791057|ref|ZP_07685593.1| pseudouridine synthase [Oscillochloris trichoides DG-6]
gi|308226912|gb|EFO80604.1| pseudouridine synthase [Oscillochloris trichoides DG6]
Length = 301
Score = 112 bits (280), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 94/272 (34%), Positives = 127/272 (46%), Gaps = 58/272 (21%)
Query: 81 LSRSDVLYEDEWLVAVNKPQGVYCES--------VLASVPCLL-AGDSAESKSGRLSEGT 131
L SD+LYED WL+A NK G Y + VLA++ L A D A
Sbjct: 69 LQASDILYEDAWLIATNKRLGWYVNATPWDAQGHVLAALQRYLHARDGAAPP-------- 120
Query: 132 KLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
LHLA++LDRDTSGV++I++ + + L AF V+KTY + G +
Sbjct: 121 ------LHLAHQLDRDTSGVLLISREPAINAALTAAFAGGHVAKTYTCIVAGVPDASGEV 174
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLP-GGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
SGHGRS G WR Y +VGR LP GG V+ TS+
Sbjct: 175 R--SGHGRSAKGLWRTYPLEEVGRELPSGGGRVKLAHTSYL------------------- 213
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
++ +L+ A+ V+ P +GRTHQIRLH LG + GD +Y G +
Sbjct: 214 --------RQRILEDAAQ-----VQCTPHTGRTHQIRLHMALLGHPLLGDSRYGGPSVYA 260
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G GH LHA L+ HP T + + +PLP
Sbjct: 261 GISLPGHLLHAAHLALKHPHTQEVLAISSPLP 292
>gi|94984711|ref|YP_604075.1| pseudouridine synthase [Deinococcus geothermalis DSM 11300]
gi|94554992|gb|ABF44906.1| Pseudouridine synthase, RluD [Deinococcus geothermalis DSM 11300]
Length = 341
Score = 107 bits (268), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 86/271 (31%), Positives = 124/271 (45%), Gaps = 65/271 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLS----------EGTKLN 134
DVLYEDE L+AVNKP G+ P + +G + GRL+ +G +
Sbjct: 98 DVLYEDEHLIAVNKPPGMVTHPA----PGVTSGTLVNALLGRLTLPEQPGAVGPDGYRPG 153
Query: 135 LLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR---I 191
++ +RLD+DTSGV+V+ K+ + ++L AF D KTY+A+ G WK +
Sbjct: 154 IV-----HRLDKDTSGVIVVAKTVEAHARLAAAFKDRSTHKTYLAIAAG---MWKAQGPV 205
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
++ + GR R+ VG V P R+ T F L+ + +G
Sbjct: 206 SVNAPVGRHPTARQRMT----VGGVGP-----REAQTLFTPLATHPDGH----------- 245
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
+ LVRA P +GRTHQIR+H +LG I GD VY
Sbjct: 246 ----------------GRTLALVRAQPHTGRTHQIRVHLAHLGSPILGDA----VYGRAS 285
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
H LHA+ L+ HPVTG + + AP+P
Sbjct: 286 AVMPRHALHAQFLTLPHPVTGETLHLHAPVP 316
>gi|255075765|ref|XP_002501557.1| predicted protein [Micromonas sp. RCC299]
gi|226516821|gb|ACO62815.1| predicted protein [Micromonas sp. RCC299]
Length = 372
Score = 104 bits (260), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 109/371 (29%), Positives = 153/371 (41%), Gaps = 95/371 (25%)
Query: 47 QNYPTPLSPPLPAI--SKDIELTRAMSASSKS-SLYK----LSRSDVLYED--EWLVAVN 97
+++P P + P P ++ IE RA ++ SL+ LS VLY D VN
Sbjct: 12 EDWPRPSNCPAPQDENARWIEAGRAERCKRRTESLHCRDVVLSDGFVLYVDPRARFFVVN 71
Query: 98 KPQGVYCESVLASVPCLLAG-------DSAESKSGRLSEGTKLNLLE-----------LH 139
KP G+Y E+VL + + S SK + ++ E
Sbjct: 72 KPAGMYVENVLDFIERYMEEVRRAPERHSERSKRAKTCSDGATSIREAFDSLAKVGERFQ 131
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGP------APKWK---- 189
L +RLDRDT+G + I + L +AF + +V K Y+A CI KWK
Sbjct: 132 LLHRLDRDTTGCLGIACDKETNRILSRAFQEGRVKKHYVAHCINTKFADDFQKKWKDWEV 191
Query: 190 --------------------RITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTS 229
R+ +GHGRSK G WR+YA DVGR LPGGS V++ T+
Sbjct: 192 DEPFEDGSRAMTWPQRFCNFRLECHTGHGRSKHGLWRLYAKEDVGRELPGGSKVKEARTN 251
Query: 230 FEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLH 289
+ + K + L+E + +V E P +GRTHQIR+H
Sbjct: 252 L-YRGFDSDSDSKRLAHLRELQSFPVVAE-------------------PITGRTHQIRMH 291
Query: 290 C-QYLGISIRGDVKY--------EGVYEWNGKRYDGHELHAESLSFDHPVTGC----PVM 336
C QY I GD KY + V E +R G+ LH+ SL + +
Sbjct: 292 CSQYFPIV--GDYKYGYDDTADDDVVQE---EREKGYRLHSFSLELPIKIPDGNGFRDTL 346
Query: 337 VQAPLPLWGTE 347
V AP P W E
Sbjct: 347 VLAPPPSWWNE 357
>gi|226356664|ref|YP_002786404.1| ribosomal large subunit pseudouridine synthase D [Deinococcus
deserti VCD115]
gi|226318654|gb|ACO46650.1| putative ribosomal large subunit pseudouridine synthase D
[Deinococcus deserti VCD115]
Length = 321
Score = 104 bits (260), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 82/263 (31%), Positives = 122/263 (46%), Gaps = 49/263 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNL-----LELH 139
DV+YED++L+AVNKP G+ V P +L+G + GR+ + +
Sbjct: 78 DVIYEDDYLIAVNKPPGM----VTHPAPGVLSGTLVNALLGRMPLPEQPDYDSEAGYRPG 133
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
+ +RLD+DTSGV+V+ K+ ++L AF D + KTY+A+ G +W+ G
Sbjct: 134 IVHRLDKDTSGVIVVAKTVGAHARLAAAFKDRETRKTYLAIAAG---QWR------ADGP 184
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
++ A R+ GG+ R+ T F L+ + +G
Sbjct: 185 ARVEAPIGRHPVQRQRMTVGGANPREAQTLFTPLAAHPDGH------------------- 225
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
+ LVRA PR+GRTHQIR+H +LG I GD VY + + H L
Sbjct: 226 --------GRTLALVRAQPRTGRTHQIRVHLAHLGSPILGDA----VYGRSSETMLRHAL 273
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA LS HP TG + + AP P
Sbjct: 274 HAHFLSVPHPGTGRLLHLHAPAP 296
>gi|15806790|ref|NP_295512.1| ribosomal large subunit pseudouridine synthase D [Deinococcus
radiodurans R1]
gi|6459564|gb|AAF11343.1|AE002020_2 ribosomal large subunit pseudouridine synthase D [Deinococcus
radiodurans R1]
Length = 338
Score = 102 bits (253), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 79/263 (30%), Positives = 122/263 (46%), Gaps = 49/263 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNL-----LELH 139
DV++EDE L+A+NKP G+ V P +++G + GR+S + +
Sbjct: 97 DVIFEDEHLIAINKPPGM----VTHPAPGVISGTLVNALLGRMSLPEQQDFDGPDGYRPG 152
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
+ +RLD+DTSGV+V+ K+ ++L AF D + KTY+A+ G + + + + GR
Sbjct: 153 IVHRLDKDTSGVIVVAKTVAAHARLAAAFKDRETKKTYLAIAAGAWKAERPVQVDAPIGR 212
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
+ R+ GG+ R+ T F L + +G
Sbjct: 213 HQIQRQRMTV---------GGAGAREAQTLFTPLDAHPDGH------------------- 244
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
+ LVRA PR+GRTHQIR+H +LG I GD Y E + H L
Sbjct: 245 --------GRTLALVRAQPRTGRTHQIRVHLAHLGSPILGDAVYGRASEIMPR----HAL 292
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA+ L HPV+G + +QA +P
Sbjct: 293 HAQFLEVPHPVSGDILHLQAAVP 315
>gi|320333612|ref|YP_004170323.1| RluA family pseudouridine synthase [Deinococcus maricopensis DSM
21211]
gi|319754901|gb|ADV66658.1| pseudouridine synthase, RluA family [Deinococcus maricopensis DSM
21211]
Length = 323
Score = 100 bits (250), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 82/265 (30%), Positives = 119/265 (44%), Gaps = 53/265 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRL----SEGTK-LNLLELH 139
DVLYED+ L+A+NKP G+ P + G + GR+ +G + +
Sbjct: 80 DVLYEDDALIAINKPPGMTTHPA----PGVTTGTLVNALLGRMPLPEQDGARGPDGYRPG 135
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
+ +RLD+DTSGV+V+ K+ + +KL AF + KTY+AL G K + I + GR
Sbjct: 136 IVHRLDKDTSGVIVVAKTVEAHAKLADAFKARETRKTYLALAGGSWSAQKPLNIDAPIGR 195
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSV--NGEGSFKEPSELQEHEENNIVV 257
D R+ GG R+ T F L+ NG G
Sbjct: 196 HPV---------DRQRMTVGGVNPREAQTRFVPLAAHPNGRG------------------ 228
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
+ LVR PR+GRTHQ+R+H Q+ G I GD Y + ++
Sbjct: 229 -----------QTLALVRCEPRTGRTHQLRVHLQHAGSPILGDAVYGRASDVMPRQ---- 273
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA +L HP TG P+ + AP+P
Sbjct: 274 ALHAWALVIPHPTTGEPLHLHAPVP 298
>gi|344943140|ref|ZP_08782427.1| pseudouridine synthase, RluA family [Methylobacter tundripaludum
SV96]
gi|344260427|gb|EGW20699.1| pseudouridine synthase, RluA family [Methylobacter tundripaludum
SV96]
Length = 319
Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 90/264 (34%), Positives = 120/264 (45%), Gaps = 62/264 (23%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH---LAN 142
+L+EDE + VNKP G A S + EG +L E H L +
Sbjct: 98 ILFEDEGFLIVNKPAG-------------FAVHGGSGVSSGIIEGLRLIRPEAHFLELVH 144
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD+DTSG ++I K L + F D+ + KTY+AL G +W R +
Sbjct: 145 RLDKDTSGCLIIAKKRSALKLLHELFRDNHIHKTYLALLAG---QWARKKL--------- 192
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
V A + V GG MV V+S +G KE L ++
Sbjct: 193 ----VVTAPLLKNVAKGGE---RMV----VISQSG----KEAETLF----------RRVK 227
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHE 318
L +D+ LV A P++GRTHQIR+H LG I GD +Y G + N G+ Y
Sbjct: 228 LFSDS----TLVEASPKTGRTHQIRVHAASLGHPIVGDERY-GRDDINRGFKGRGYKRMF 282
Query: 319 LHAESLSFDHPVTGCPVMVQAPLP 342
LHAE L F HPVTG P+ + APLP
Sbjct: 283 LHAEKLKFQHPVTGEPLTILAPLP 306
>gi|325283365|ref|YP_004255906.1| pseudouridine synthase, RluA family [Deinococcus proteolyticus MRP]
gi|324315174|gb|ADY26289.1| pseudouridine synthase, RluA family [Deinococcus proteolyticus MRP]
Length = 319
Score = 97.4 bits (241), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 82/266 (30%), Positives = 118/266 (44%), Gaps = 55/266 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRL-----SEGTKLNLLELH 139
DVLYED+ L+AVNKP G+ V P +++G + GRL S+
Sbjct: 81 DVLYEDDALIAVNKPPGM----VTHPAPGVVSGTLVNALLGRLELPQQSDHDSPAGYRPG 136
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRIT---IISG 196
+ +RLD+DTSGV+V+ K+ + + L +F + K Y+A+ G +WK T + +
Sbjct: 137 IVHRLDKDTSGVIVVAKTVQAHAALSASFKARETQKVYLAIAAG---EWKAQTPAKVDAP 193
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
GR ++ GG+ RD T F LS + +G
Sbjct: 194 IGRHPVQRQKMTV---------GGANPRDAQTRFVPLSHHPDGH---------------- 228
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
+ LVR PR+GRTHQIR+H +LG I GD VY +
Sbjct: 229 -----------GRTLALVRCEPRTGRTHQIRVHLAHLGSPIVGD----AVYGRESQAMPR 273
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L+ HPVT P+ + AP P
Sbjct: 274 QALHAWQLTLPHPVTQEPLHLTAPPP 299
>gi|406965558|gb|EKD91180.1| Pseudouridine synthase [uncultured bacterium]
Length = 264
Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 78/276 (28%), Positives = 127/276 (46%), Gaps = 50/276 (18%)
Query: 86 VLYEDEWLVAVNKP-------QGVYC-ESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
+++ED++LV ++KP +GV E +AS+ G AE
Sbjct: 6 IIFEDDFLVVIDKPPNVSVTDEGVKAGEETIASILAKELGIKAERGG------------- 52
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +RLD+ TSG+++ K+++VA KL F + KTY+AL G +I G
Sbjct: 53 --IVHRLDKATSGLLLAAKTNEVAQKLKDQFKGRTIKKTYLALVHGIVQDG---GVIEGS 107
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
R + D GR D VT ++ L F+ + + I++
Sbjct: 108 IRRNPENRFKFTVDDSGR---------DAVTEYKPLQQFQISFFERKFAKANNLKFKIIL 158
Query: 258 E---KKAV--LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGV------ 306
+ K+ + L+ L+ +P++GRTHQIR+H +Y+G I GD KY G
Sbjct: 159 QELNKREINKLELQNYNQFTLLECYPKTGRTHQIRVHLKYIGFPIVGDEKYAGRKTARLD 218
Query: 307 YEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ W +++ LHA L FDHPVTG ++ ++ LP
Sbjct: 219 HHWCPRQF----LHAAKLEFDHPVTGERMVFESQLP 250
>gi|381150267|ref|ZP_09862136.1| pseudouridine synthase, RluA family [Methylomicrobium album BG8]
gi|380882239|gb|EIC28116.1| pseudouridine synthase, RluA family [Methylomicrobium album BG8]
Length = 320
Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 80/276 (28%), Positives = 119/276 (43%), Gaps = 56/276 (20%)
Query: 71 SASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEG 130
+A +L + + +LYEDE + ++KP G +G A G
Sbjct: 84 AAFVPQALRDVLQRGLLYEDEGFMVIDKPAGYPVHGG--------SGVDAGIIEGLRRLR 135
Query: 131 TKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
+ LEL +RLDRDTSG +++ K +L + F D + KTY+AL G +W R
Sbjct: 136 PEATFLEL--VHRLDRDTSGCLIVAKKRSALRRLHELFRDDHIHKTYLALLAG---QWAR 190
Query: 191 ITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
+ MV + +L +G + Q
Sbjct: 191 ---------------------------------KKMVVNAPLLKNVSKGGERMVVVSQAG 217
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
+ V + + KN L+ A P++GRTHQIR+H +LG I GD +Y G+ E N
Sbjct: 218 KAAETVFRRLKLF-----KNATLIEATPKTGRTHQIRVHAAWLGHPIVGDERY-GLAEVN 271
Query: 311 G----KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
K Y LHA L+F+HP+TG P+ +APLP
Sbjct: 272 KAFHRKGYKRMFLHARELAFEHPLTGKPIRFEAPLP 307
>gi|386856293|ref|YP_006260470.1| Pseudouridine synthase [Deinococcus gobiensis I-0]
gi|379999822|gb|AFD25012.1| Pseudouridine synthase [Deinococcus gobiensis I-0]
Length = 304
Score = 96.7 bits (239), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 84/271 (30%), Positives = 120/271 (44%), Gaps = 65/271 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLS----------EGTKLN 134
DVLYEDE LVA+NKP G+ V P + +G + GR+S EG +
Sbjct: 62 DVLYEDEHLVAINKPPGM----VTHPAPGVSSGTLVNALLGRMSLPEQQDFDGPEGYRPG 117
Query: 135 LLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR---I 191
++ +RLD+DTSGV+V+ K+ + L AF D + KTY+A+ G +W+
Sbjct: 118 IV-----HRLDKDTSGVIVVAKTVAAHASLAAAFKDRETRKTYLAIAAG---QWRADHPA 169
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
+ GR R+ GG+ R+ T F L+ + +G
Sbjct: 170 AVDVPIGRHPVQRQRMTV---------GGAQAREAQTLFTPLAAHPDGH----------- 209
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
+ LVRA PR+GRTHQ+R+H +LG I GD VY
Sbjct: 210 ----------------GRTLALVRAQPRTGRTHQLRVHLGHLGSPILGDA----VYGRES 249
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA LS HPV+G + + AP+P
Sbjct: 250 AVMPRQALHAHFLSVPHPVSGEALRLHAPVP 280
>gi|410479981|ref|YP_006767618.1| 23S RNA-specific pseudouridylate synthase [Leptospirillum
ferriphilum ML-04]
gi|406775233|gb|AFS54658.1| pseudouridylate synthase, 23S RNA-specific [Leptospirillum
ferriphilum ML-04]
Length = 339
Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 84/277 (30%), Positives = 119/277 (42%), Gaps = 52/277 (18%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCE--------SVLASVPCLLAGDSAESKSGRLSEGTKLN 134
R ++LYEDE L+ ++KP G+ +++ + E K G E +
Sbjct: 94 RLEILYEDEDLIVISKPPGLVVHPAPGHSSGTLVNGLLFHFQSQGDEQKKGEPEEDEEAE 153
Query: 135 L-LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
L L +RLD+DTSGVMV+ K+ V L+ F D VSK Y+AL G PK KR I
Sbjct: 154 RPLRAGLVHRLDQDTSGVMVVGKTESVVLDLMNQFKDRSVSKKYLALVKGILPK-KRGEI 212
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+ GRS + D + VT + V L+ + EN
Sbjct: 213 NAPIGRSTHDRKKFTVRQD----------GKPSVTRYRV--------------LETYHEN 248
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
++E + +GRTHQIR+H +YLG + GD Y G K
Sbjct: 249 YSLLEVTLL-----------------TGRTHQIRVHFRYLGFPLLGDAVY-GSKGTENKN 290
Query: 314 YDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
+ LHA LSF HP + + +APLP AL+
Sbjct: 291 FPRQMLHAWKLSFQHPSSNSKMEFEAPLPPDFVSALE 327
>gi|424866626|ref|ZP_18290458.1| Pseudouridylate synthase, 23S RNA-specific [Leptospirillum sp.
Group II 'C75']
gi|124516586|gb|EAY58094.1| ribosomal large subunit pseudouridine synthase, RluA family
[Leptospirillum rubarum]
gi|387222715|gb|EIJ77134.1| Pseudouridylate synthase, 23S RNA-specific [Leptospirillum sp.
Group II 'C75']
Length = 339
Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 84/277 (30%), Positives = 119/277 (42%), Gaps = 52/277 (18%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCE--------SVLASVPCLLAGDSAESKSGRLSEGTKLN 134
R ++LYEDE L+ ++KP G+ +++ + E K G E +
Sbjct: 94 RLEILYEDEDLIVISKPPGLVVHPAPGHSSGTLVNGLLFHFQSQGDEQKKGEPEEEEEAE 153
Query: 135 L-LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
L L +RLD+DTSGVMV+ K+ V L+ F D VSK Y+AL G PK KR I
Sbjct: 154 RPLRAGLVHRLDQDTSGVMVVGKTESVVLDLMNQFKDRSVSKKYLALVKGILPK-KRGEI 212
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+ GRS + D + VT + V L+ + EN
Sbjct: 213 NAPIGRSTHDRKKFTVRQD----------GKPSVTRYRV--------------LETYHEN 248
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
++E + +GRTHQIR+H +YLG + GD Y G K
Sbjct: 249 YSLLEVTLL-----------------TGRTHQIRVHFRYLGFPLLGDAVY-GSKGTENKN 290
Query: 314 YDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
+ LHA LSF HP + + +APLP AL+
Sbjct: 291 FPRQMLHAWKLSFQHPSSNSKMEFEAPLPPDFVSALE 327
>gi|251772724|gb|EES53286.1| Ribosomal large subunit pseudouridine synthase, RluA family
[Leptospirillum ferrodiazotrophum]
Length = 313
Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 80/261 (30%), Positives = 117/261 (44%), Gaps = 49/261 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSE---GTKLNLLELHLA 141
D+LYEDE+L+ +NKP + V+ P G G LS G L
Sbjct: 77 DILYEDEFLLVINKPPSL----VVHPAPGHPNGTLLNGLLGHLSREEAGEGEGPARAGLV 132
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD++TSG++V+ K +V L++ F VSK+YIAL IG P +R I + GRS
Sbjct: 133 HRLDQNTSGLLVVGKKSEVVDHLMEQFRGRTVSKSYIALAIG-IPPSRRGLIDAPIGRSN 191
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
G + +A + G + T + V++ EG +
Sbjct: 192 -GDRKKFAVTSGG---------KPSQTRYRVMTAYREGY--------------------S 221
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
+LD +GRTHQIR+H Q+LG + GD Y+ + + LHA
Sbjct: 222 LLDITL-----------LTGRTHQIRVHMQHLGYPLAGDPVYKKKGRKDNLLFPRIMLHA 270
Query: 322 ESLSFDHPVTGCPVMVQAPLP 342
+L F HP+TG + APLP
Sbjct: 271 ANLGFTHPITGEELKFHAPLP 291
>gi|430750755|ref|YP_007213663.1| RluA family pseudouridine synthase [Thermobacillus composti KWC4]
gi|430734720|gb|AGA58665.1| pseudouridine synthase, RluA family [Thermobacillus composti KWC4]
Length = 326
Score = 94.7 bits (234), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 83/274 (30%), Positives = 128/274 (46%), Gaps = 56/274 (20%)
Query: 82 SRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGR--LSEGTKLNLLELH 139
+R++VL+ED+W + + KP G+ V + P + G + + + R L G L + +H
Sbjct: 89 ARAEVLHEDDWCLVLFKPAGM---PVHPAYPGM--GGTLDEAAVRHVLQAGDPLPVRHIH 143
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
RLD DTSG ++ K+ +L +A + ++ + Y+A+ G AP+ + TI + G+
Sbjct: 144 ---RLDADTSGPVLYAKNDLAQLRLDEAMREKRIERRYLAIVHG-APRPRAGTIDAPIGK 199
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
+ S RV PGG VT +E + KE +L
Sbjct: 200 DR-------GRSPRRRVQPGGDRA---VTHYE--------TVKEAGDLA----------- 230
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
LVR +GRTHQIR+H ++G + GD Y + R L
Sbjct: 231 -------------LVRVRLETGRTHQIRVHFSHIGHPLLGDALYGAPPD---SRLSHQAL 274
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSS 353
H ESLSF HP TG PV+V+AP P W +AL+ +
Sbjct: 275 HGESLSFPHPWTGRPVVVEAPRPRWFEDALRRAG 308
>gi|194015110|ref|ZP_03053727.1| pseudouridylate synthase [Bacillus pumilus ATCC 7061]
gi|194014136|gb|EDW23701.1| pseudouridylate synthase [Bacillus pumilus ATCC 7061]
Length = 288
Score = 94.4 bits (233), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 110/262 (41%), Gaps = 59/262 (22%)
Query: 85 DVLYEDEWLVAVNK----PQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL 140
D+L+ED+ ++ +NK P E S+ L AE +S RL+ +HL
Sbjct: 74 DILFEDDHVLVLNKKPYIPSIPSREHPEHSIANGLLHHYAE-QSVRLT---------VHL 123
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
NRLDRDTSGVM++ K S L KA V +TY A G R
Sbjct: 124 VNRLDRDTSGVMLVAKHRFAHSLLSKAQKSGAVKRTYRAFTHGMI-------------RE 170
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
K G R A G S++ MV E V
Sbjct: 171 KHGTIRAKIAR------KGDSIIERMVN----------------------ETGQEAVTHF 202
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELH 320
V DA+ N VR +GRTHQIR+H QYLG + GD Y G E R + LH
Sbjct: 203 TVRAVDAELNMSDVRLTLETGRTHQIRVHMQYLGYPLIGDTLYGGTNE----RMNRQALH 258
Query: 321 AESLSFDHPVTGCPVMVQAPLP 342
+E+L F HP+TG + APLP
Sbjct: 259 SETLVFPHPMTGEEMTFSAPLP 280
>gi|383785597|ref|YP_005470167.1| ribosomal large subunit pseudouridine synthase, RluA family
[Leptospirillum ferrooxidans C2-3]
gi|383084510|dbj|BAM08037.1| putative ribosomal large subunit pseudouridine synthase, RluA
family [Leptospirillum ferrooxidans C2-3]
Length = 356
Score = 94.0 bits (232), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 90/293 (30%), Positives = 127/293 (43%), Gaps = 71/293 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLAS-----VPCLLA--GDSAESKSGRLSE------GTK 132
+LYEDE ++ +NKP G+ V LLA G + ES L+E T
Sbjct: 93 ILYEDEVVLVLNKPAGLVVHPAPGHPNGTLVNGLLAHFGQNNESPVSDLAELAFEAKETD 152
Query: 133 LN----------------LLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKT 176
L L L +RLD+DTSGVMVI K+ + L+ F D VSK
Sbjct: 153 LEEKAPPAEGDDGEAPGKLARAGLVHRLDQDTSGVMVIGKTEHAVNNLMVQFRDRIVSKR 212
Query: 177 YIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVN 236
Y+AL G PK +R I + GRS +++A + G+ T + V++
Sbjct: 213 YLALVSG-IPKKRRGEIDAPLGRSSHD-RKMFAVREDGK---------QSTTRYRVIT-- 259
Query: 237 GEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGIS 296
S++E N LV +GRTHQIR+H +++G
Sbjct: 260 ---SYRE--------------------------NCALVDITLLTGRTHQIRVHFKHIGHP 290
Query: 297 IRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
+ GD Y G + +RY LHA L+F HP TG + +APLP + AL
Sbjct: 291 LLGDKVYAGKNAGSPERYPRQMLHAAKLTFLHPETGVELAFEAPLPDDFSRAL 343
>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 = 94.0 bits (232), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 85/277 (30%), Positives = 118/277 (42%), Gaps = 61/277 (22%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
DV+YED+ ++ VNKP G+ + + L + GDS +G L G
Sbjct: 79 DVVYEDDDVIVVNKPVGLVVHPAPGHPDGTLVNALLYHCGDSLSGINGELRPG------- 131
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+DRDTSG+++ K+ + L DH +++ Y A+ +G K R T+ +
Sbjct: 132 --IVHRIDRDTSGLIIAAKNDRAHLALAAQLQDHTLARVYEAVAVG-GFKEDRGTVNAPI 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR R A D P G R VT ++VL G + + L+ E
Sbjct: 189 GRHPVD--RKKMAVD-----PKG---RPAVTHWKVL-----GRYPGCTHLECRLE----- 228
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
+GRTHQIR+H YLG + GD Y G G
Sbjct: 229 ----------------------TGRTHQIRVHMAYLGHPLLGDTVYGAKKPVPG--LAGQ 264
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
LHA L F HP TG PV V+ PLP W T L S K
Sbjct: 265 CLHARRLRFIHPTTGQPVEVECPLPEWFTNLLFSRKK 301
>gi|381179133|ref|ZP_09887993.1| pseudouridine synthase, RluA family [Treponema saccharophilum DSM
2985]
gi|380768968|gb|EIC02947.1| pseudouridine synthase, RluA family [Treponema saccharophilum DSM
2985]
Length = 330
Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 90/281 (32%), Positives = 125/281 (44%), Gaps = 67/281 (23%)
Query: 79 YKLSRSDVLYEDEWLVAVNKPQGVYCESVL---------ASVPCLLAGDSAESKSGRLSE 129
++LS SDVL+ED+ ++ VNKP E+ + A V L A + A + + R
Sbjct: 89 FELSPSDVLFEDDSVIVVNKPSMFPTEAGMVGSRDNLHDAVVRFLFAREKARNPNMR--- 145
Query: 130 GTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIAL-----CIGP 184
N + + +RLDR+TSG ++ TK+ S F +H KTY A+ C P
Sbjct: 146 ----NPPYVGIMHRLDRETSGAILFTKTRAANSPCHDMFENHTARKTYRAVSTDCGCCFP 201
Query: 185 APKWKRITIISGHGRSKFGAWRVYAASDV---GRVLPGGSVVRDMVTSFEVLSVNGEGSF 241
++ +S F R+ S G+V GG D +T F VL
Sbjct: 202 LSEFPFSFAVS------FPMGRISPKSQAAKWGKVSTGGV---DSLTEFTVL-------- 244
Query: 242 KEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDV 301
+DA KK V P +GRTHQIR+H +G+ I GD
Sbjct: 245 -------------------GRIDAGGKK-AYAVECRPLTGRTHQIRVHLASVGLPILGDE 284
Query: 302 KYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
Y G + +G+ LHA SLSF HPVTG V+V APLP
Sbjct: 285 LYGG--DDSGRIM----LHAASLSFPHPVTGDDVVVSAPLP 319
>gi|406949334|gb|EKD79846.1| hypothetical protein ACD_40C00283G0004 [uncultured bacterium]
Length = 250
Score = 93.2 bits (230), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 84/265 (31%), Positives = 120/265 (45%), Gaps = 43/265 (16%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLS-----EGTKLNLLELHL 140
+L+ED +V ++KP G+ C + L D E K G S E K L L
Sbjct: 5 ILFEDNEIVVIDKPSGIVCNRSETTKDETLQ-DWWEEKYGVSSIEYRDENQKYFLERSGL 63
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGP-APKWKRITIISGH-- 197
+RLD++TSGVMV+ K+ + L+K F +H V+K Y+AL G K +IT+ G
Sbjct: 64 VHRLDKETSGVMVMVKTVEAFVGLLKQFKEHSVAKEYMALTHGYWEAKEGQITLPIGRRR 123
Query: 198 -GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
R KFG V G R+ +T +EV+S G F P EL+
Sbjct: 124 DDRKKFG------------VREDG---RESITGYEVVSEYTNGEF--PKELK-------- 158
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
+D LVR P++GRTHQIR+H + + I GD Y G R G
Sbjct: 159 ------VDDRGYVGFSLVRFKPKTGRTHQIRVHAKQMRHPIVGDFDYAGRKRSREDRKWG 212
Query: 317 HE--LHAESLSFDHPVTGCPVMVQA 339
L A+ + F+HP G + ++
Sbjct: 213 RRVLLQAQRIEFNHPRNGKRIHFES 237
>gi|366162122|ref|ZP_09461877.1| ribosomal large subunit pseudouridine synthase D [Acetivibrio
cellulolyticus CD2]
Length = 304
Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 80/274 (29%), Positives = 120/274 (43%), Gaps = 64/274 (23%)
Query: 86 VLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL 138
VLYEDE ++ VNKP+G+ L + GDS S +G + G
Sbjct: 80 VLYEDEHVLVVNKPKGMVVHPAAGNYSGTLVNALMDYCGDSLSSINGVIRPG-------- 131
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
+ +R+D+DTSGV+V+ KS++ KL DH +++ Y+AL G + + I + G
Sbjct: 132 -IVHRIDKDTSGVLVVAKSNEAHEKLSLKLKDHDINRVYVALVHG-IIREESGKIDAPIG 189
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
R ++ ++ G R VT F+VL FK+ +
Sbjct: 190 RHPVDRKKMAVNTNNG---------RRAVTYFKVLE-----RFKDAT------------- 222
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD--G 316
LV +GRTHQIR+H Y+G I GD VY +YD G
Sbjct: 223 --------------LVEVKLETGRTHQIRVHMSYIGYPIIGDT----VYGKKKDKYDIGG 264
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
LHA++L F HPV + +A LP + + L+
Sbjct: 265 QALHAKTLGFVHPVKNEYMEFEAELPEYFKKLLE 298
>gi|94499595|ref|ZP_01306132.1| ribosomal large subunit pseudouridine synthase C (pseudouridylate
synthase) (uracil hydrolyase) [Bermanella marisrubri]
gi|94428349|gb|EAT13322.1| ribosomal large subunit pseudouridine synthase C (pseudouridylate
synthase) (uracil hydrolyase) [Oceanobacter sp. RED65]
Length = 318
Score = 92.0 bits (227), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 82/272 (30%), Positives = 109/272 (40%), Gaps = 79/272 (29%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE-------- 137
+L+ED++ +AVNKP+G+ G L L+E
Sbjct: 95 ILFEDDYFLAVNKPRGMAVHG---------------------GSGISLGLIEVLRNLRPK 133
Query: 138 ---LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHK-VSKTYIALCIGPAPK-WKRIT 192
L L +RLDRDTSGV+++ K K + + K Y+AL G PK K +
Sbjct: 134 AKRLELVHRLDRDTSGVILVAKRRTALVAFHKMLQRKQGMQKRYLALVYGNWPKHLKDVE 193
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
+ K G V A D +PS
Sbjct: 194 VPLKKNELKSGERLVKVAQD-----------------------------GKPSH------ 218
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
+E+K K LV A P +GRTHQIR+HCQ+ G +I GD KY E G
Sbjct: 219 TRYSIERKF-------KGYTLVNAEPVTGRTHQIRVHCQFSGHNIVGDEKYATDEELQGA 271
Query: 313 RYDGHE---LHAESLSFDHPVTGCPVMVQAPL 341
R G LHA+SL F HP TG + +QAPL
Sbjct: 272 RQQGARRLFLHAQSLRFKHPETGEKMTIQAPL 303
>gi|325109066|ref|YP_004270134.1| pseudouridine synthase [Planctomyces brasiliensis DSM 5305]
gi|324969334|gb|ADY60112.1| pseudouridine synthase, RluA family [Planctomyces brasiliensis DSM
5305]
Length = 410
Score = 91.7 bits (226), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 81/292 (27%), Positives = 118/292 (40%), Gaps = 91/292 (31%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
++ YED W++AVNKP GV +G + GT N L+ H
Sbjct: 154 EIEYEDAWMLAVNKPPGVIAHP-----------------TGNMQSGTLCNYLQAHFDTQS 196
Query: 140 ---------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
+ +RLDR+TSGVM+I K+H+ V AF +VSKTY+AL G
Sbjct: 197 GIPGLLKPGIVHRLDRETSGVMLIAKTHRAHRNFVDAFEHSRVSKTYVALLEGD------ 250
Query: 191 ITIISGHGRSKFGAWRVYAASDVGRV-LPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQE 249
A + G + LP G V S ++S G+ K P +
Sbjct: 251 ------------------VAKEEGTIDLPIGQAT---VDSKVLMSARGDA--KNPKPAKT 287
Query: 250 HEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEW 309
H V+++ + LV A P +GR HQIR+H +G + GD Y+ ++
Sbjct: 288 HWR---VLKRLG--------SHTLVAAKPVTGRNHQIRVHFATIGHPLAGDEFYDRDGQF 336
Query: 310 NGKRYDG-------------------HELHAESLSFDHPVTGCPVMVQAPLP 342
D H LHA ++ HP+TG + +QA LP
Sbjct: 337 KAATRDSLEEGRRMTDTRCARTGLTRHALHASTIQTAHPITGVWMTIQAGLP 388
>gi|159900009|ref|YP_001546256.1| pseudouridine synthase [Herpetosiphon aurantiacus DSM 785]
gi|159893048|gb|ABX06128.1| pseudouridine synthase [Herpetosiphon aurantiacus DSM 785]
Length = 560
Score = 91.7 bits (226), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 78/267 (29%), Positives = 112/267 (41%), Gaps = 55/267 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGR-LSEGTKLNLLELHLANR 143
++LY DE ++ +NKP GV + GD A + R L +L L +H R
Sbjct: 4 EILYRDEQILVINKPTGVATHAP--------QGDLALTDVERALRAQLQLEYLAIH--QR 53
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LDRDTSGVM+ + L AF +H + KTY AL G P + I + + G
Sbjct: 54 LDRDTSGVMLFALDPAANANLATAFAEHTIEKTYQALVYG-VPIQTQGVIDAALAPAGDG 112
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+V +A D + +T + VL + + F
Sbjct: 113 MIQVASAHD--------RRAQSAITHYRVLVSSPDQRFS--------------------- 143
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
L+ P++GRTHQ+R+HC+ LG I GD Y+ + LHA
Sbjct: 144 ---------LLELQPKTGRTHQLRVHCECLGHPIVGDPLYD-----VARAAPRLMLHASE 189
Query: 324 LSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L F HP+T P+ +QAP P T Q
Sbjct: 190 LRFTHPLTQQPLHIQAPTPALFTRVAQ 216
>gi|254476979|ref|ZP_05090365.1| pseudouridine synthase, RluD [Ruegeria sp. R11]
gi|214031222|gb|EEB72057.1| pseudouridine synthase, RluD [Ruegeria sp. R11]
Length = 348
Score = 91.3 bits (225), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 87/304 (28%), Positives = 123/304 (40%), Gaps = 62/304 (20%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLPA D++ A S + K+ R V+Y+D+ ++ +NKP G+ +
Sbjct: 65 PPLPA--SDLKPAEAPSRRISDADAKMIRGCVIYKDDAVIVLNKPAGLAVQ--------- 113
Query: 115 LAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKV 173
G LSE K + E L +RLD+DTSGV+V+ ++ + A L AF H
Sbjct: 114 -GGSGTTKHVDGLSEALKFDAEEKPRLVHRLDKDTSGVLVLARTRQAAQALTAAFRHHAT 172
Query: 174 SKTYIALCIG-PAPKWKRITI----ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVT 228
K Y AL G P P I GHG+S G + +
Sbjct: 173 RKIYWALVAGVPTPYLGEIKCGLVKAPGHGKSGEGEKMI------------------AIH 214
Query: 229 SFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRL 288
S EV S P + H + + V P +GRTHQ+R
Sbjct: 215 SNEVDST--------PGAKRSHTQYATLYR--------VASRAAWVAMEPITGRTHQLRA 258
Query: 289 HCQYLGISIRGDVKYEGVYEWN-----GKRYDG-----HELHAESLSFDHPVTGCPVMVQ 338
H +G I GD KY G + N G + G LH ++F+HP T P+ +
Sbjct: 259 HMAEIGHPIAGDGKYGGSGQENLGDGWGAQLGGIISKKLHLHCRRMAFEHPTTKKPLSIT 318
Query: 339 APLP 342
APLP
Sbjct: 319 APLP 322
>gi|339018077|ref|ZP_08644220.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter tropicalis NBRC 101654]
gi|338752854|dbj|GAA07524.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter tropicalis NBRC 101654]
Length = 327
Score = 91.3 bits (225), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 78/261 (29%), Positives = 114/261 (43%), Gaps = 54/261 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN 142
VLY+D+ ++ +NKP G+ + + V +L G AE+ R L +
Sbjct: 92 VLYQDKQVIVLNKPAGLAVQGGPGITKHVDMMLDGLRAEADDPRP-----------RLVH 140
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHGRSK 201
R+DRDTSG++++ ++ VA+KL +AF V KTY A+ +G P P I R
Sbjct: 141 RIDRDTSGLLLLARTPGVAAKLAEAFRGRDVKKTYWAVVVGRPDPLAGEID--QPLARLG 198
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
GA + A+D ++ E+
Sbjct: 199 AGANAIMVAAD-----------------------------------RKDEDAQYARSTYE 223
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
V+DA A+K L + P +GRTHQ+R+HC+ LG I GD KY G D LHA
Sbjct: 224 VVDAAARKFSWLALS-PLTGRTHQLRVHCESLGTPILGDPKYGGATAHVDGFKDQLHLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPLP 342
L HP G ++V A LP
Sbjct: 283 RELDMPHPAGGR-LVVTAELP 302
>gi|114771239|ref|ZP_01448659.1| ribosomal large subunit pseudouridine synthase C [Rhodobacterales
bacterium HTCC2255]
gi|114548164|gb|EAU51051.1| ribosomal large subunit pseudouridine synthase C [Rhodobacterales
bacterium HTCC2255]
Length = 348
Score = 91.3 bits (225), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 90/303 (29%), Positives = 130/303 (42%), Gaps = 60/303 (19%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLP +KD+ A + +K+ ++ R VLY+D++++A+NKP G+ +
Sbjct: 65 PPLPD-TKDMPRDTATAKITKADA-QMIRDAVLYKDDYIIAINKPAGLAVQ--------- 113
Query: 115 LAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKV 173
G LS K +L L +RLD+DTSGV+++ ++ AS L KAF +
Sbjct: 114 -GGSGQMRHVDGLSAALKFDLENKPKLVHRLDKDTSGVLLLARTGLAASGLTKAFQSRET 172
Query: 174 SKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEV 232
K Y A G P PK G K+G + GG
Sbjct: 173 RKIYWAAVAGCPHPKI---------GTIKYGL-----------IKAGGH----------- 201
Query: 233 LSVNGEGSFKE---PSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLH 289
NG G + PSE+ + + VL+ D K V P +GRTHQ+R H
Sbjct: 202 -GPNGSGEKMQCIHPSEVTDMPDAKHATTDYTVLE-DVGKRASWVALVPITGRTHQLRAH 259
Query: 290 CQYLGISIRGDVKYEGVYEWN-----GKRYDGH-----ELHAESLSFDHPVTGCPVMVQA 339
LG I GD KY + N G + G LHA S++F HP+T + + A
Sbjct: 260 MAELGNPIVGDGKYGTNTQTNDGDGWGAQLGGDISRKMHLHARSITFTHPITKKEIHITA 319
Query: 340 PLP 342
LP
Sbjct: 320 ELP 322
>gi|330993253|ref|ZP_08317189.1| Ribosomal large subunit pseudouridine synthase C [Gluconacetobacter
sp. SXCC-1]
gi|329759655|gb|EGG76163.1| Ribosomal large subunit pseudouridine synthase C [Gluconacetobacter
sp. SXCC-1]
Length = 322
Score = 91.3 bits (225), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 84/295 (28%), Positives = 131/295 (44%), Gaps = 63/295 (21%)
Query: 55 PPLPAISKDIEL-TRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLAS 110
PP+P S+ L + + A + ++ V+Y D+ ++ +NKP G+ + +
Sbjct: 61 PPIPNASRPPPLAVKPLDARQVREINQM----VIYRDDHVIVLNKPAGIAVQGGPGITHH 116
Query: 111 VPCLLAG--DSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAF 168
+ LL G DS + RL +R+DRDTSG++++ ++ VA+KL AF
Sbjct: 117 IDALLDGLRDSPDDPRPRL-------------VHRIDRDTSGLLLVARTPGVAAKLAAAF 163
Query: 169 TDHKVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMV 227
V K Y A+ +G P+P T I ++ GA
Sbjct: 164 RGRDVHKVYWAVVVGRPSPA----TGIIDQPLTRLGA----------------------- 196
Query: 228 TSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIR 287
G G+ +E + + + + E + VLDA A+K L + P +GRTHQ+R
Sbjct: 197 ---------GAGAISVVAERGDADAVHALSEYE-VLDAAARKMSWLALS-PLTGRTHQLR 245
Query: 288 LHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+HC+ LG I GD KY G D LHA L HP G ++V+A LP
Sbjct: 246 VHCEALGNPILGDPKYGGDVAHVAGFADRLHLHARRLELPHPAGGT-LVVEADLP 299
>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 = 91.3 bits (225), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 75/266 (28%), Positives = 115/266 (43%), Gaps = 47/266 (17%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
DV+YEDE L +NKP+G+ + L SGRLS ++ + +RL
Sbjct: 74 DVVYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFSGRLSSIN--GVIRPGIVHRL 131
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG++V+ K+ + KL +A H++ + Y A+C G K + + GR
Sbjct: 132 DKDTSGLLVVAKTDEAHIKLSEALKSHQIKRIYYAICEG-VLKEDSGVVDAPIGRHPVNR 190
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
++ V+P G ++ VT FEVL + +F
Sbjct: 191 LKM-------AVVPNG---KEAVTYFEVLERFDKYTF----------------------- 217
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
V+ ++GRTHQIR+H Y+G + GD Y G + G LHA +
Sbjct: 218 ---------VKLRLKTGRTHQIRVHMSYIGYPLLGDNTYGRAKNEFGVQ--GQVLHAGEI 266
Query: 325 SFDHPVTGCPVMVQAPLPLWGTEALQ 350
F HP+T + A LP + E L
Sbjct: 267 EFVHPITSKVLHFSADLPEYFVEILN 292
>gi|217966766|ref|YP_002352272.1| pseudouridine synthase [Dictyoglomus turgidum DSM 6724]
gi|217335865|gb|ACK41658.1| pseudouridine synthase [Dictyoglomus turgidum DSM 6724]
Length = 226
Score = 91.3 bits (225), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 79/270 (29%), Positives = 115/270 (42%), Gaps = 50/270 (18%)
Query: 81 LSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL 140
L R +++YED L+ VNKP GV + + LL A K G L +
Sbjct: 4 LLRPEIIYEDNHLLVVNKPAGVLVQGDITKSTTLLEISKAYIKEKYQKAGNVF----LAI 59
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
+RLD+ SGV++ ++ K A +L +AF + KV K Y+A+C G K K+ TI S
Sbjct: 60 VHRLDKPVSGVVIFARNSKSAGRLSEAFRERKVEKEYLAICEG-IFKIKKGTI----NES 114
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
F R A + + R +T +EVL
Sbjct: 115 LFWDERERKAK-----ISNKAESRVAITHYEVL--------------------------- 142
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELH 320
+ KN LVR P +GR HQ+R H Y+G I GD KY GV + K + LH
Sbjct: 143 -----EEFKNLSLVRLIPETGRKHQLRAHLSYIGHPILGDEKYGGVRIFKDKIF----LH 193
Query: 321 AESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
+ HPV + + +P + +E L+
Sbjct: 194 CRRMRIPHPVKKEIMEFKTEVPNFWSEFLK 223
>gi|349699577|ref|ZP_08901206.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Gluconacetobacter europaeus LMG 18494]
Length = 325
Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 85/295 (28%), Positives = 130/295 (44%), Gaps = 63/295 (21%)
Query: 55 PPLPAISKDIEL-TRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLAS 110
PP+P S+ L + + A + ++ V+Y D+ ++ +NKP G+ + +
Sbjct: 64 PPIPNASRPPPLAVKPLDARQVREINQM----VVYRDDHVIVLNKPAGIAVQGGPGITHH 119
Query: 111 VPCLLAG--DSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAF 168
+ LL G DS + RL +R+DRDTSG++++ ++ VA+KL AF
Sbjct: 120 IDALLDGLRDSPDDPRPRL-------------VHRIDRDTSGLLLVARTPGVAAKLAAAF 166
Query: 169 TDHKVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMV 227
V K Y A+ +G P+P T I +K GA
Sbjct: 167 RGRDVHKVYWAVVVGRPSPA----TGIIDQPLTKLGA----------------------- 199
Query: 228 TSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIR 287
G G+ +E + + + + E + VLDA +K L + P +GRTHQ+R
Sbjct: 200 ---------GAGAISVVAERGDADAVHALSEYE-VLDAAGRKLSWLALS-PLTGRTHQLR 248
Query: 288 LHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+HC+ LG I GD KY G D LHA L HP G +MV+A LP
Sbjct: 249 VHCEALGNPILGDPKYGGDIAHVTGFTDKLHLHARRLEIPHPAGGT-LMVEADLP 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 = 90.5 bits (223), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 77/267 (28%), Positives = 117/267 (43%), Gaps = 50/267 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+LYEDE ++ +NKPQG+ V+ P +G + + +N +L + +R
Sbjct: 83 DILYEDEDIIVINKPQGM----VVHPAPGNYSGTLVNALLYHCKNLSGINGILRPGIVHR 138
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD+DTSGVMV+ K+ K L + V K Y+A+ G K + I + GR
Sbjct: 139 LDKDTSGVMVVAKNDKAHMSLSNQIKERSVLKKYVAIVEG-VIKEEEGKIEAPIGRHPVD 197
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
R+ D GR +T ++VL
Sbjct: 198 RKRMAVVQD-GRY---------ALTLYKVL------------------------------ 217
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+ KN V A ++GRTHQIR+H Y+G + GD Y Y+ + +G LH++
Sbjct: 218 --ERFKNNTFVEATIKTGRTHQIRVHLSYIGHPVVGDPVYG--YKKQKFKLEGQALHSKV 273
Query: 324 LSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L F HP G + +APLP + T L+
Sbjct: 274 LGFIHPTKGVYMEFEAPLPDYFTRLLE 300
>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 = 90.5 bits (223), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 77/267 (28%), Positives = 117/267 (43%), Gaps = 50/267 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+LYEDE ++ +NKPQG+ V+ P +G + + +N +L + +R
Sbjct: 83 DILYEDEDIIVINKPQGM----VVHPAPGNYSGTLVNALLYHCKNLSGINGILRPGIVHR 138
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD+DTSGVMV+ K+ K L + V K Y+A+ G K + I + GR
Sbjct: 139 LDKDTSGVMVVAKNDKAHMSLSNQIKERSVLKKYVAIVEG-VIKEEEGKIEAPIGRHPVD 197
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
R+ D GR +T ++VL
Sbjct: 198 RKRMAVVQD-GRY---------ALTLYKVL------------------------------ 217
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+ KN V A ++GRTHQIR+H Y+G + GD Y Y+ + +G LH++
Sbjct: 218 --ERFKNNTFVEATIKTGRTHQIRVHFSYIGHPVVGDPVYG--YKKQKFKLEGQALHSKV 273
Query: 324 LSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L F HP G + +APLP + T L+
Sbjct: 274 LGFIHPTKGVYMEFEAPLPDYFTRLLE 300
>gi|206603460|gb|EDZ39940.1| pseudouridylate synthase, 23S RNA-specific [Leptospirillum sp.
Group II '5-way CG']
Length = 340
Score = 90.5 bits (223), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 77/267 (28%), Positives = 113/267 (42%), Gaps = 52/267 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE--------SVLASVPCLLAGDSAESKSGRLSEGTKLNL- 135
++LYED+ L+ ++KP G+ +++ + E K G E +
Sbjct: 96 EILYEDDDLIVISKPPGLVVHPAPGHASGTLVNGLLFHFQSQGDEQKKGEPEEEEEAERP 155
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
L L +RLD+DTSGVMV+ KS V L+ F D VSK Y+AL G PK KR I +
Sbjct: 156 LRAGLVHRLDQDTSGVMVVGKSETVVLDLMNQFKDRSVSKKYLALVKGILPK-KRGEINA 214
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNI 255
GRS + D G+ S L+ + EN
Sbjct: 215 PIGRSTHDRKKFAVRQD------------------------GKPSLTRYRVLETYHENYS 250
Query: 256 VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD 315
++E + +GRTHQIR+H ++LG + GD Y G + +
Sbjct: 251 LLEVTLL-----------------TGRTHQIRVHFRHLGFPLLGDAVY-GSKGMENRNFP 292
Query: 316 GHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L+F HP + + +APLP
Sbjct: 293 RQMLHAWKLAFQHPRSAAKMEFEAPLP 319
>gi|71280214|ref|YP_269010.1| ribosomal large subunit pseudouridine synthase C [Colwellia
psychrerythraea 34H]
gi|71145954|gb|AAZ26427.1| ribosomal large subunit pseudouridine synthase C [Colwellia
psychrerythraea 34H]
Length = 360
Score = 90.5 bits (223), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 78/260 (30%), Positives = 105/260 (40%), Gaps = 55/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+L+ED+ L+ +NKP G+ L+ A R+ L L +RLD
Sbjct: 138 ILFEDDRLIVINKPSGMAVHGGSGLSFGLIEALRALRPEARM----------LELVHRLD 187
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAP-KWKRITIISGHGRSKFGA 204
RDTSG +++ K L + F D V K Y AL G P K R+T K G
Sbjct: 188 RDTSGCLMVAKKRSTLRHLHEQFRDKNVQKFYHALVKGHWPTKLTRVTDALKKNDLKSGE 247
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
V + +G+ + T F VL
Sbjct: 248 RVVVVDNQLGK---------ESETRFRVL------------------------------- 267
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYEWNGKRYDGHELHA 321
+ + LVRAFP +GRTHQIR+HCQ G SI D KY E + K LHA
Sbjct: 268 -ERYRGATLVRAFPVTGRTHQIRVHCQTSGHSIAMDAKYGHEEFDEQMKSKGLKRLFLHA 326
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
S+ F HP T + ++APL
Sbjct: 327 ASIEFTHPNTEQRLKIEAPL 346
>gi|117619994|ref|YP_855705.1| RNA pseudouridine synthase family protein [Aeromonas hydrophila
subsp. hydrophila ATCC 7966]
gi|117561401|gb|ABK38349.1| RNA pseudouridine synthase family protein [Aeromonas hydrophila
subsp. hydrophila ATCC 7966]
Length = 257
Score = 90.5 bits (223), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 83/269 (30%), Positives = 117/269 (43%), Gaps = 45/269 (16%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LY+D+WLVAVNKP G+ D AE++ + ++ +RLD
Sbjct: 16 LLYQDDWLVAVNKPSGLLVHRSWL--------DKAETRFAMQMTRDLIGGRHVYPVHRLD 67
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R TSGV++ VA L +AF +V K Y+AL G AP+ I K
Sbjct: 68 RPTSGVLLFALDPAVARTLTEAFAARQVHKEYLALVRGWAPEQGLIDYPLKEQLDKIAD- 126
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A SD R ++ VT+F L + V AV
Sbjct: 127 ---AMSDPDR------PAQEAVTAFRRL--------------------HQVELPHAVSKK 157
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHE---LHA 321
LVR FP++GR HQ+R H +L I GD + +G + + + G + L A
Sbjct: 158 HPTSRYSLVRLFPKTGRKHQLRRHMDHLFHPIVGDTTHGDGRHNRFFREHYGCDRLLLVA 217
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
+LSF+HPV P+ +QAPL G E LQ
Sbjct: 218 RTLSFEHPVLKVPMRIQAPL---GQEVLQ 243
>gi|339477857|ref|YP_004706677.1| putative pseudouridine synthase, RluA family [Candidatus Moranella
endobia PCIT]
gi|338172408|gb|AEI74809.1| putative pseudouridine synthase, RluA family [Candidatus Moranella
endobia PCIT]
Length = 322
Score = 90.5 bits (223), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 83/263 (31%), Positives = 122/263 (46%), Gaps = 62/263 (23%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKL---NLLELHLAN 142
VLYED++L+ +NKP G A S + EG + N L L L +
Sbjct: 95 VLYEDDYLLILNKPAGT-------------AVHGGSGLSFGVIEGLRALRPNALFLELVH 141
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLDRDTSGV++I K H L + K Y+AL KWK
Sbjct: 142 RLDRDTSGVLLIAKKHSALRSLHTQLRTKGIQKDYLALV---RSKWK------------- 185
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
S++ V ++++++TS E ++ V+ +G +PS E + VE++
Sbjct: 186 --------SNIKTV--SAPLLKNIITSGERIVRVHKDG---KPS------ETHFKVEERF 226
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGV-YEWNGKRYDGHE-- 318
L LVRA P +GRTHQIR+H QY G I D +Y + ++ K H
Sbjct: 227 TLAT-------LVRASPVTGRTHQIRVHAQYAGHPIAFDDRYGDINFDQRLKGCGLHRLF 279
Query: 319 LHAESLSFDHPVTGCPVMVQAPL 341
LHA +L F+HP +G + ++APL
Sbjct: 280 LHAVALCFNHPGSGETLRIEAPL 302
>gi|188585950|ref|YP_001917495.1| RluA family pseudouridine synthase [Natranaerobius thermophilus
JW/NM-WN-LF]
gi|179350637|gb|ACB84907.1| pseudouridine synthase, RluA family [Natranaerobius thermophilus
JW/NM-WN-LF]
Length = 328
Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 75/261 (28%), Positives = 121/261 (46%), Gaps = 46/261 (17%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D++YEDE+L+ VNKP+ + + + ++ LS+GT + +RL
Sbjct: 92 DIVYEDEYLLVVNKPRNMVVHPGAGNYRDTMV-NALLYHCQNLSDGTSYE--RPGIVHRL 148
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG++V+ K ++ L + + +V++TY+AL IG K K+ TI GR
Sbjct: 149 DKDTSGLLVVAKQNETHDILSEEIKNRRVARTYLALVIGDFSK-KKATIDLPIGRDPRNR 207
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
++ V+ GG + +T E+L SF+ P ++
Sbjct: 208 KKM-------AVVHGG---KRAITKVEMLR-----SFQNPEKIS---------------- 236
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN---GKRYDGHELHA 321
++ +GRTHQIR+H +LG + GD Y G N K G LH+
Sbjct: 237 --------YLKCSLETGRTHQIRVHLSHLGYPLLGDPVYRGKTGKNVDIDKNLTGQALHS 288
Query: 322 ESLSFDHPVTGCPVMVQAPLP 342
SL+F HPV ++ +APLP
Sbjct: 289 FSLAFTHPVFKKTMVFRAPLP 309
>gi|291320661|ref|YP_003515926.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma
agalactiae]
gi|290752997|emb|CBH40973.1| Ribosomal large subunit pseudouridine synthaseD [Mycoplasma
agalactiae]
Length = 305
Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 73/259 (28%), Positives = 123/259 (47%), Gaps = 48/259 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D+ YEDE+L+ +NKP G+ + L LS+ LL L + +R+
Sbjct: 77 DIRYEDEYLLILNKPSGLVVHPAPGHLNDTLVNALMYHFKNNLSDTN--GLLRLGIVHRI 134
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG+++I K ++ ++L K +H++ +TY+A+C G P ++T I+
Sbjct: 135 DKDTSGLLIIAKDNETHNELAKMLKNHQIKRTYLAICEGILP--NKVTKIN--------- 183
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
LP + RD + +++S++ +G + S H + ++ K
Sbjct: 184 ------------LP---IQRD-TKNRKLMSIHKDG---KSSVTYVHMLKSFYIDNKPY-- 222
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHELHAES 323
LV+ +GRTHQIR+H Y+ + GD Y + V E+N + LHA
Sbjct: 223 -------SLVKCELETGRTHQIRVHLTYIKHPVYGDSIYGKSVDEFNQR------LHAYK 269
Query: 324 LSFDHPVTGCPVMVQAPLP 342
LSF HPVT + V + +P
Sbjct: 270 LSFIHPVTNKLIEVYSDIP 288
>gi|419808462|ref|ZP_14333366.1| Ribosomal large subunit pseudouridine synthase D [Mycoplasma
agalactiae 14628]
gi|390605865|gb|EIN15238.1| Ribosomal large subunit pseudouridine synthase D [Mycoplasma
agalactiae 14628]
Length = 305
Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 73/259 (28%), Positives = 123/259 (47%), Gaps = 48/259 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D+ YEDE+L+ +NKP G+ + L LS+ LL L + +R+
Sbjct: 77 DIRYEDEYLLILNKPSGLVVHPAPGHLNDTLVNALMYHFKNNLSDTN--GLLRLGIVHRI 134
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG+++I K ++ ++L K +H++ +TY+A+C G P ++T I+
Sbjct: 135 DKDTSGLLIIAKDNETHNELAKMLKNHQIKRTYLAICEGILP--NKVTKIN--------- 183
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
LP + RD + +++S++ +G + S H + ++ K
Sbjct: 184 ------------LP---IQRD-TKNRKLMSIHKDG---KSSVTYVHMLKSFYIDNKPY-- 222
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHELHAES 323
LV+ +GRTHQIR+H Y+ + GD Y + V E+N + LHA
Sbjct: 223 -------SLVKCELETGRTHQIRVHLAYIKHPVYGDSIYGKSVDEFNQR------LHAYK 269
Query: 324 LSFDHPVTGCPVMVQAPLP 342
LSF HPVT + V + +P
Sbjct: 270 LSFMHPVTNKLIEVYSDIP 288
>gi|407771062|ref|ZP_11118425.1| RluA family pseudouridine synthase [Thalassospira xiamenensis M-5 =
DSM 17429]
gi|407285951|gb|EKF11444.1| RluA family pseudouridine synthase [Thalassospira xiamenensis M-5 =
DSM 17429]
Length = 365
Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 77/278 (27%), Positives = 122/278 (43%), Gaps = 58/278 (20%)
Query: 69 AMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLS 128
A S +++ L L R V++ DE ++A+NKP G+ + G + + +
Sbjct: 97 AKSNATEEELQAL-RDSVIFYDEVVLAINKPAGLAVQ----------GGTNTDLHVDGML 145
Query: 129 EGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPK 187
+ KL+ E L +RLD+DTSGV+++ +S A+ L KAF D K Y A+ G AP
Sbjct: 146 DALKLDSKERPKLVHRLDKDTSGVLLLARSASAANALTKAFKDKTTRKLYWAIVTG-APD 204
Query: 188 WKRITI---ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEP 244
+ I ++ HG G+G K
Sbjct: 205 EREGLIDAPLAKHG--------------------------------------GKGGEKMV 226
Query: 245 SELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYE 304
+ +E + + + A A + + P +GRTHQ+R HCQ + I GD KY
Sbjct: 227 IDEKEGKSAQTIYRQLA----RAGRRAAWLALSPLTGRTHQLRAHCQAIECPILGDGKYG 282
Query: 305 GVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G + + LHA ++ F HPVTG V+++AP+P
Sbjct: 283 GAKAFLDGLSNQMHLHARAIDFPHPVTGHRVVIEAPVP 320
>gi|46446340|ref|YP_007705.1| hypothetical protein pc0706 [Candidatus Protochlamydia amoebophila
UWE25]
gi|46399981|emb|CAF23430.1| conserved hypothetical protein [Candidatus Protochlamydia
amoebophila UWE25]
Length = 298
Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 82/265 (30%), Positives = 115/265 (43%), Gaps = 62/265 (23%)
Query: 80 KLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH 139
+L +S +LYEDE L +KP + C+ + LL + + +
Sbjct: 78 QLEQSRILYEDEDLFIYDKPAEMNCDE--QGIIALL----------------RPSFPSIQ 119
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
L +RLDR T+GV+ + K+ LV F KVSK+Y A+ G +T GH
Sbjct: 120 LIHRLDRQTTGVLALAKNKTTFEALVNQFKQLKVSKSYRAIVDGI------LTSSKGHIE 173
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
+ G VY + +P SF+ L + S E + K
Sbjct: 174 NYLGKKHVYQGQSIWGEVP----------SFQGLYASTYWSCLE-------------IGK 210
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYE--WNGKRYDGH 317
KA LVR FP++GRTHQIR+H LG I GD +Y + +N RY
Sbjct: 211 KAS----------LVRCFPKTGRTHQIRVHLAGLGHPILGDYQYGKKFTCLYNPPRY--- 257
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHAE + F HP T ++VQA LP
Sbjct: 258 LLHAEEMGFIHPRTRQKLIVQAILP 282
>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 = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 74/268 (27%), Positives = 117/268 (43%), Gaps = 51/268 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+VLYEDE L +NKP+G+ + L SGRLS ++ + +RL
Sbjct: 74 EVLYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFSGRLSSIN--GVIRPGIVHRL 131
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG++V+ K+ + KL +A H++ + Y A+C G K I + GR
Sbjct: 132 DKDTSGLLVVAKTDEAHIKLSEALKSHQIKRIYYAICEG-VLKEDSGVINAPIGRHPVNR 190
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
++ V+P G ++ VT FEVL + +F
Sbjct: 191 LKM-------AVVPNG---KEAVTYFEVLERFDKYTF----------------------- 217
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--DGHELHAE 322
++ ++GRTHQIR+H Y+G + GD G+Y + +G LHA
Sbjct: 218 ---------IKLRLKTGRTHQIRVHISYIGYPLLGD----GIYGRAKNEFGVEGQVLHAG 264
Query: 323 SLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
+ F HP+T + A LP + + L
Sbjct: 265 EIEFVHPITSEVLHFSAELPEYFLKILN 292
>gi|89901092|ref|YP_523563.1| pseudouridine synthase RluD [Rhodoferax ferrireducens T118]
gi|89345829|gb|ABD70032.1| ribosomal large subunit pseudouridine synthase D [Rhodoferax
ferrireducens T118]
Length = 334
Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 76/259 (29%), Positives = 117/259 (45%), Gaps = 47/259 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+V++EDE L+ +NKP G+ V+ P +G R + +NL + +RL
Sbjct: 107 NVVFEDEHLMVINKPAGL----VVHPAPGNWSGTLLNGLLAR--DAKAMNLPRAGIVHRL 160
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG+MV+ ++ V L+++ +VS+ Y+AL GP +R+ I + GR
Sbjct: 161 DKDTSGLMVVARTRPVMDALIRSIAAREVSRQYVALAHGPWTGNRRVEINAPIGRDPRNR 220
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
R+ A D+ R G + R T E+L +G +
Sbjct: 221 LRM-AVVDLAR--NPGKLAR---TDVELLQNCDQGCW----------------------- 251
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
V +GRTHQIR+H +G + DV Y G E +R LHA L
Sbjct: 252 ---------VLCTLHTGRTHQIRVHMAMIGHPLVADVLYGGRAEAGMQR---QALHACRL 299
Query: 325 SFDHPVTGCPVMVQAPLPL 343
+F HPVT ++ QA LP+
Sbjct: 300 AFTHPVTLESMVFQASLPV 318
>gi|317121731|ref|YP_004101734.1| ribosomal large subunit pseudouridine synthase D [Thermaerobacter
marianensis DSM 12885]
gi|315591711|gb|ADU51007.1| ribosomal large subunit pseudouridine synthase D [Thermaerobacter
marianensis DSM 12885]
Length = 321
Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 77/282 (27%), Positives = 117/282 (41%), Gaps = 69/282 (24%)
Query: 85 DVLYEDEWLVAVNKP------------QGVYCESVLASVPCLLAGDSAESKSGRLSEGTK 132
DV+YED +V +NKP QG ++LA P + G + G
Sbjct: 93 DVVYEDADVVVLNKPRGWVVHPAPGHPQGTLANALLARYPEM-EGVGGPGRPG------- 144
Query: 133 LNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRIT 192
+ +RLDRDT+G++V+ +S +LV+ + V + Y+AL G +P+ + T
Sbjct: 145 -------IVHRLDRDTTGLLVVARSPLAYRELVRQLKERGVHREYLALVRG-SPEVREGT 196
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
+ + GR R+ VLPGG R T FEV+ G
Sbjct: 197 VDAPIGRHPVDRKRMA-------VLPGGG--RPARTHFEVVERAG--------------- 232
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
L+R + +GRTHQIR+H ++G+ + GD Y G
Sbjct: 233 -----------------RYTLLRCWLDTGRTHQIRVHLAFIGLPVAGDPVYGGRRAEGEL 275
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
+G LHA L+F HP G P+ P P AL+ + +
Sbjct: 276 GLEGQALHATRLAFPHPRDGRPMDFTVPPPADFQRALERARQ 317
>gi|153003089|ref|YP_001377414.1| RluA family pseudouridine synthase [Anaeromyxobacter sp. Fw109-5]
gi|152026662|gb|ABS24430.1| pseudouridine synthase, RluA family [Anaeromyxobacter sp. Fw109-5]
Length = 298
Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 82/265 (30%), Positives = 111/265 (41%), Gaps = 60/265 (22%)
Query: 81 LSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL--EL 138
L R+ +LY D+ LVAV+KP GV + L + G L E +LL +
Sbjct: 78 LERARLLYADQDLVAVDKPAGVPSQPTLTT------------DRGTLPELVS-DLLGAPV 124
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGP-APKWKRITIISGH 197
L +RLDR+TSGV V+ ++ A+ L +AF KTY+ALC P AP RI G
Sbjct: 125 TLVHRLDRETSGVTVLARTAAAAAALAEAFRTGTPEKTYLALCARPPAPPDGRIDAPLGK 184
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
++ G RV D T + L
Sbjct: 185 DPARAGLRRVDPRGDAA------------ATRYRTLR----------------------- 209
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
A LV A P +GRTHQIR+H +LG + GD +Y G
Sbjct: 210 ---------AGPLAALVEARPETGRTHQIRVHLAHLGAPLLGDPRYGGPRRVGEVAIPRV 260
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L DHP TG ++++AP+P
Sbjct: 261 MLHARRLEIDHPATGARLLLEAPVP 285
>gi|423202622|ref|ZP_17189201.1| RluA family pseudouridine synthase [Aeromonas veronii AER39]
gi|404614818|gb|EKB11797.1| RluA family pseudouridine synthase [Aeromonas veronii AER39]
Length = 256
Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 80/260 (30%), Positives = 112/260 (43%), Gaps = 42/260 (16%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LY+DEWLVAVNKP G+ D E++ + ++ +RLD
Sbjct: 15 LLYQDEWLVAVNKPSGLLVHRSWL--------DKGETRFAMQMTRDLIGGRHVYPVHRLD 66
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R TSGV++ +A L +AFT +V K Y+AL G AP+ I K
Sbjct: 67 RPTSGVLLFALDPVIARALTEAFTQRQVHKEYLALVRGWAPEQGVIDYPLKEQLDKIAD- 125
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A S+ R +D VT+F L + V AV
Sbjct: 126 ---AMSNPDR------PAQDAVTTFRRL--------------------HQVELPHAVSKK 156
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHE---LHA 321
LVR FP++GR HQ+R H +L I GD + +G + + + G E L A
Sbjct: 157 HPTSRYSLVRLFPKTGRKHQLRRHMDHLFHPIVGDTTHGDGRHNRFFREHFGCERLLLVA 216
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+LSF HPV P+ +QAPL
Sbjct: 217 RTLSFTHPVLKVPMRIQAPL 236
>gi|451940248|ref|YP_007460886.1| ribosomal large subunit pseudouridine synthase D [Bartonella
australis Aust/NH1]
gi|451899635|gb|AGF74098.1| ribosomal large subunit pseudouridine synthase D [Bartonella
australis Aust/NH1]
Length = 334
Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 81/280 (28%), Positives = 112/280 (40%), Gaps = 63/280 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
DVL+EDE ++ +NKP G+ L + GDS +G G
Sbjct: 82 DVLFEDEHIIVINKPAGLVVHPGHGNWTGTLVNALIYHCGDSLSGINGIKRPG------- 134
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVS----KTYIALCIGPAPKWKRITI 193
+ +RLD++TSGVMVI K+ L F DH S + Y AL G P TI
Sbjct: 135 --IVHRLDKNTSGVMVIAKNDSAHKSLSAQFADHGRSGVLDRRYHALIWG-FPSRNVATI 191
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+ GRS Y + VL + R +T F +L G
Sbjct: 192 NAFLGRSP------YDRTKRAVVLSQKADARQAITHFSLLEKYGT--------------- 230
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK- 312
AD L+ +GRTHQIR+H ++G + GDV Y ++
Sbjct: 231 ----------RADTTPFASLLECRLETGRTHQIRVHMAHIGHPLVGDVVYGNAFKTKANA 280
Query: 313 ----------RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+++ LHA SL+F+HPVTGC V P P
Sbjct: 281 LSPAIQNIINQFNRQALHAASLTFEHPVTGCIVSFSTPPP 320
>gi|423205621|ref|ZP_17192177.1| RluA family pseudouridine synthase [Aeromonas veronii AMC34]
gi|404623896|gb|EKB20745.1| RluA family pseudouridine synthase [Aeromonas veronii AMC34]
Length = 256
Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 80/260 (30%), Positives = 112/260 (43%), Gaps = 42/260 (16%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LY+DEWLVAVNKP G+ D E++ + ++ +RLD
Sbjct: 15 LLYQDEWLVAVNKPSGLLVHRSWL--------DKGETRFAMQMTRDLIGGRHVYPVHRLD 66
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R TSGV++ +A L +AFT +V K Y+AL G AP+ I K
Sbjct: 67 RPTSGVLLFALDPVIARALTEAFTQRQVHKEYLALVRGWAPEQGVIDYPLKEQLDKIAD- 125
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A S+ R +D VT+F L + V AV
Sbjct: 126 ---AMSNPDR------PAQDAVTTFRRL--------------------HQVELPHAVSKK 156
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHE---LHA 321
LVR FP++GR HQ+R H +L I GD + +G + + + G E L A
Sbjct: 157 HPTSRYSLVRLFPKTGRKHQLRRHMDHLFHPIVGDTTHGDGRHNRFFREHFGCERLLLVA 216
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+LSF HPV P+ +QAPL
Sbjct: 217 RTLSFTHPVLKVPMRIQAPL 236
>gi|406675989|ref|ZP_11083175.1| RluA family pseudouridine synthase [Aeromonas veronii AMC35]
gi|404626212|gb|EKB23022.1| RluA family pseudouridine synthase [Aeromonas veronii AMC35]
Length = 256
Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 80/260 (30%), Positives = 112/260 (43%), Gaps = 42/260 (16%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LY+DEWLVAVNKP G+ D E++ + ++ +RLD
Sbjct: 15 LLYQDEWLVAVNKPSGLLVHRSWL--------DKGETRFAMQMTRDLIGGRHVYPVHRLD 66
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R TSGV++ +A L +AFT +V K Y+AL G AP+ I K
Sbjct: 67 RPTSGVLLFALDPVIARALTEAFTQRQVHKEYLALVRGWAPEQGVIDYPLKEQLDKIAD- 125
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A S+ R +D VT+F L + V AV
Sbjct: 126 ---AMSNPDR------PAQDAVTTFRRL--------------------HQVELPHAVSKK 156
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHE---LHA 321
LVR FP++GR HQ+R H +L I GD + +G + + + G E L A
Sbjct: 157 HPTSRYSLVRLFPKTGRKHQLRRHMDHLFHPIVGDTTHGDGRHNRFFREHFGCERLLLVA 216
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+LSF HPV P+ +QAPL
Sbjct: 217 RTLSFTHPVLKVPMRIQAPL 236
>gi|429218229|ref|YP_007179873.1| RluA family pseudouridine synthase [Deinococcus peraridilitoris DSM
19664]
gi|429129092|gb|AFZ66107.1| pseudouridine synthase, RluA family [Deinococcus peraridilitoris
DSM 19664]
Length = 319
Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 81/266 (30%), Positives = 119/266 (44%), Gaps = 56/266 (21%)
Query: 85 DVLYEDEWLVAVNKPQG--------VYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL 136
DVLYED+ L+AVNKP G VY +++ ++ L G E R EG + ++
Sbjct: 81 DVLYEDDQLIAVNKPPGMVTHPAPGVYSGTLVNAL--LGRGTLPEQDGARGPEGYRPGIV 138
Query: 137 ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
+RLD+DTSGV+V+ K+ + L AF + + KTY+A+ G + I + +
Sbjct: 139 -----HRLDKDTSGVIVVAKTVGAHAVLAAAFKERETHKTYLAVAGGSWAADRPIKVDAP 193
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
GR D R+ GG R+ T F L + L+ H
Sbjct: 194 IGRHPI---------DRQRMTVGGVGGREAQTLFTPL-----------ARLRSH------ 227
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
+ LVR P +GRTHQIR+H +LG I GD Y E G++
Sbjct: 228 -----------ARTFTLVRCQPHTGRTHQIRVHLAHLGSPIVGDATYGRASEVIGRQ--- 273
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L F HP++ +++ A P
Sbjct: 274 -ALHAWKLRFLHPLSREELLLTAAPP 298
>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 = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 73/266 (27%), Positives = 115/266 (43%), Gaps = 47/266 (17%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+V+YEDE L +NKP+G+ + L SGRLS ++ + +RL
Sbjct: 74 EVVYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFSGRLSSIN--GVIRPGIVHRL 131
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG++++ K+ + KL +A H++ + Y A+C G K I + GR
Sbjct: 132 DKDTSGLLIVAKTDEAHIKLSEALKSHQIKRIYYAICEG-VLKEDSGVINAPIGRHPVNR 190
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
++ V+P G ++ VT FEVL + +F
Sbjct: 191 LKM-------AVVPNG---KEAVTYFEVLERFDKYTF----------------------- 217
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
++ ++GRTHQIR+H Y+G + GD Y G + G LHA +
Sbjct: 218 ---------IKLRLKTGRTHQIRVHMSYIGYPLLGDSSYGRAKNEFGVQ--GQVLHAGEI 266
Query: 325 SFDHPVTGCPVMVQAPLPLWGTEALQ 350
F HP+T + A LP + E L
Sbjct: 267 EFVHPITSKVLHFSADLPEYFLEILN 292
>gi|407776138|ref|ZP_11123427.1| RluA family pseudouridine synthase [Thalassospira profundimaris
WP0211]
gi|407280854|gb|EKF06421.1| RluA family pseudouridine synthase [Thalassospira profundimaris
WP0211]
Length = 367
Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 82/288 (28%), Positives = 125/288 (43%), Gaps = 62/288 (21%)
Query: 69 AMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLS 128
A S ++++ L L R V++ DE ++A+NKP G+ + G + +
Sbjct: 99 AKSDATEAELQAL-RDSVIFYDELVLAINKPAGLAVQ----------GGTNTNVHVDGML 147
Query: 129 EGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAP 186
+ KL+ E L +RLD+DTSGV+++ +S A L KAF D K Y A+ G PA
Sbjct: 148 DALKLDSKERPKLVHRLDKDTSGVLLLARSASAAHALTKAFKDKSTRKLYWAIVTGAPAE 207
Query: 187 KWKRITI----ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFK 242
+ I I+G G K MV E L + + F+
Sbjct: 208 REGMIDAPLAKIAGKGGEK------------------------MVID-EKLGKSAQSVFR 242
Query: 243 EPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVK 302
Q H A + + P +GRTHQ+R+HC+ + I GD K
Sbjct: 243 -----QLHR---------------AGRKAAWLALSPLTGRTHQLRVHCEAIECPILGDGK 282
Query: 303 YEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
Y G + + LHA ++ F HPVTG V+++AP+P E L+
Sbjct: 283 YGGPKAFIDGLSNQMHLHARAIDFPHPVTGHRVVIEAPVPEHFAETLK 330
>gi|58040098|ref|YP_192062.1| ribosomal large subunit pseudouridine synthase C [Gluconobacter
oxydans 621H]
gi|58002512|gb|AAW61406.1| Ribosomal large subunit pseudouridine synthase C [Gluconobacter
oxydans 621H]
Length = 335
Score = 89.4 bits (220), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 84/292 (28%), Positives = 127/292 (43%), Gaps = 60/292 (20%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLASV 111
PPLP + K L ++ R V+YEDE L+ ++KP G+ + + V
Sbjct: 64 PPLPDVDKPAPLPPPDPMLAREI-----RKMVIYEDEHLLVLDKPSGLATQGGPGITKHV 118
Query: 112 PCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH 171
+L G E L +R+DRDTSG+++I ++ VA+KL AF
Sbjct: 119 DMMLDGLRTEGGD------------RPRLVHRIDRDTSGILLIARTPGVAAKLAAAFRGR 166
Query: 172 KVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSF 230
V KTY A+ +G P+P+ + I +K GA GG+ +
Sbjct: 167 DVEKTYWAVVVGRPSPE----SGIIDQPLAKIGA--------------GGAAL------- 201
Query: 231 EVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHC 290
V++ + ++ E+ + LDA KK L + P +GRTHQ+R+H
Sbjct: 202 -VIAAS-----------RDEEDAASAKTEYETLDAAGKKLSWL-KLSPLTGRTHQLRVHT 248
Query: 291 QYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ +G I GD +Y G D LHA L HP G ++V APLP
Sbjct: 249 ESIGTPILGDPRYGGKAAHPEGFIDRLHLHARQLDIPHPAGGR-LIVTAPLP 299
>gi|422350502|ref|ZP_16431387.1| RluA family pseudouridine synthase [Sutterella wadsworthensis
2_1_59BFAA]
gi|404657199|gb|EKB30101.1| RluA family pseudouridine synthase [Sutterella wadsworthensis
2_1_59BFAA]
Length = 520
Score = 89.4 bits (220), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 83/264 (31%), Positives = 113/264 (42%), Gaps = 57/264 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+VLYED+++V V+KP + LASVP G S + + + E T+ L +H RL
Sbjct: 302 EVLYEDDFMVVVDKP------ARLASVP----GGSETTSAREILERTRGELFVVH---RL 348
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSGV+ K+ + L AF D KTYIA G ++ G R +
Sbjct: 349 DMGTSGVLAFAKTKEALRPLNLAFADRSAQKTYIARLEG---------LLEGEERQQGSI 399
Query: 205 WRVYAASDVGR----VLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
A R VLP R+ +T +EV+ V P L+
Sbjct: 400 ALPIALHWFERPKQCVLPVSEGGREALTDYEVIGVE-----DTPEGLKS----------- 443
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGH 317
LV PR+GRTHQ+R+HC + LG+ I GD Y R
Sbjct: 444 ------------LVALHPRTGRTHQLRVHCAHPEGLGLPIDGDPFYGTRGLLEETREHRL 491
Query: 318 ELHAESLSFDHPVTGCPVMVQAPL 341
LHA SL HP+TG P+ + AP
Sbjct: 492 CLHAASLRITHPMTGRPLEITAPF 515
>gi|115372352|ref|ZP_01459661.1| ribosomal large subunit pseudouridine synthase D [Stigmatella
aurantiaca DW4/3-1]
gi|310819495|ref|YP_003951853.1| pseudouridine synthase [Stigmatella aurantiaca DW4/3-1]
gi|115370565|gb|EAU69491.1| ribosomal large subunit pseudouridine synthase D [Stigmatella
aurantiaca DW4/3-1]
gi|309392567|gb|ADO70026.1| Pseudouridine synthase, RluA family [Stigmatella aurantiaca
DW4/3-1]
Length = 324
Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 71/258 (27%), Positives = 106/258 (41%), Gaps = 55/258 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
VL+EDE L+AV+KP G+ + L D + G+L+ L +RLD
Sbjct: 84 VLFEDEALIAVDKPVGITAQPTEGRAGGSLV-DLVSERLGQLA----------GLVHRLD 132
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPA-PKWKRITIISGHGRSKFGA 204
R+TSGV V K+ + + L F + + K Y+A GP P + + ++ G
Sbjct: 133 RETSGVTVFGKTPQATTALAAEFREGRARKRYVA-ATGPGLPASGTVDLPLSRDPARPGR 191
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
WR A++ G + D T +
Sbjct: 192 WRASRAAN------GVPALTDFRTLY---------------------------------- 211
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
+ + LV P++GRTHQ+R H LG I GD +Y G G LHA+ L
Sbjct: 212 --SGADFCLVELLPQTGRTHQLRAHLTALGAPILGDSRYGGAATAGGLSAGRCLLHAQGL 269
Query: 325 SFDHPVTGCPVMVQAPLP 342
HP+TG + ++APLP
Sbjct: 270 ELAHPLTGAALRIEAPLP 287
>gi|406958207|gb|EKD85958.1| hypothetical protein ACD_37C00557G0002 [uncultured bacterium]
Length = 249
Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 81/280 (28%), Positives = 121/280 (43%), Gaps = 56/280 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESK----------SGRLSEGTKLNL 135
++Y+DE + V+KP G+ + + + AE K S LS +
Sbjct: 6 IIYQDESIAVVDKPAGMIVNRADTAKNQVTLQEWAEKKFQISNLKFKISDTLSPSDNF-I 64
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGP-APKWKRITII 194
+ +RLD++TSG+++I K+ + L K F + +V KTY A+C G P I I
Sbjct: 65 NRAGIVHRLDKETSGILIIAKNEESFVNLQKQFKEGRVKKTYFAVCHGEIKPSEGEINIP 124
Query: 195 SGH---GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
G R +FG VLP G ++ + ++VLS+
Sbjct: 125 IGRLPWNRMRFG------------VLPQG---KEAKSKYKVLSI---------------- 153
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
K V D ++ LV +P +GRTHQIR+H QY+G I D Y G
Sbjct: 154 -------KYKVWDKVSEPLS-LVEVYPETGRTHQIRVHMQYIGHPIFADELYAGRKTSKR 205
Query: 312 KR--YDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
R H LHA +SF HP TG + ++P P +E L
Sbjct: 206 DREILPRHFLHAAKISFLHPKTGKRIEFESPFPKELSEFL 245
>gi|254486362|ref|ZP_05099567.1| 23S rRNA pseudouridylate synthase [Roseobacter sp. GAI101]
gi|214043231|gb|EEB83869.1| 23S rRNA pseudouridylate synthase [Roseobacter sp. GAI101]
Length = 349
Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 83/301 (27%), Positives = 125/301 (41%), Gaps = 56/301 (18%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLP R + + + K RS V+Y D++++A+NKP G+ P
Sbjct: 65 PPLPDTEAPPPPKRTRISDADA---KFIRSCVIYRDDYIIALNKPPGL---------PVQ 112
Query: 115 LAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKV 173
++ L++ +L E L +RLD+DTSGV+++ ++ +A+ L +F +
Sbjct: 113 GGSGQSDRHVDALADALMFDLDEKPRLVHRLDKDTSGVLIMARTRSIAADLTSSFRHRQT 172
Query: 174 SKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEV 232
K Y A G P PK +G KFG + + G
Sbjct: 173 RKIYWAAVAGVPHPK---------NGTIKFGLVKAFGHGARG------------------ 205
Query: 233 LSVNGEGSF-KEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQ 291
GE + P ++ E A L A A V P +GRTHQ+R H
Sbjct: 206 ---EGEKMYCVHPKDMDTTEGAKRATTDYATL-AQAGTRTCWVALIPVTGRTHQLRAHMA 261
Query: 292 YLGISIRGDVKYEGVYEWN-----GKRYDGH-----ELHAESLSFDHPVTGCPVMVQAPL 341
+G I GD KY G + N G + G LHA SL+ +HPVT + + AP+
Sbjct: 262 EIGHPIVGDGKYGGSGQENMGDGWGAQLGGDISKKLHLHARSLTLEHPVTKATLNLIAPM 321
Query: 342 P 342
P
Sbjct: 322 P 322
>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 = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 79/267 (29%), Positives = 115/267 (43%), Gaps = 67/267 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
+++Y+DE +V VNK QG+ SA ++G L ++ +L
Sbjct: 80 EIVYQDEDVVVVNKAQGMVVHP------------SAGHQTGTLVNALMYHIKDLSGINGT 127
Query: 140 ----LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ +R+D+DTSG++++ K+ KL D + YIAL G P K TI +
Sbjct: 128 IRPGIVHRIDKDTSGLLMVAKNDSAHEKLAAQLKDKTSLREYIALVHGVIPHEKG-TIDA 186
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNI 255
GRSK + ++ GG R+ VT F VL FK+ +
Sbjct: 187 PLGRSKVDRKK-------QDIIDGG---REAVTHFTVLE-----RFKDFT---------- 221
Query: 256 VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD 315
LV +GRTHQIR+H +Y+G + GD Y GK
Sbjct: 222 -----------------LVSLKLETGRTHQIRVHMKYIGYPLAGDPIYGPRKTLEGK--- 261
Query: 316 GHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA++L F HP TG V +APLP
Sbjct: 262 GQFLHAQTLGFKHPTTGEFVTFEAPLP 288
>gi|423208563|ref|ZP_17195117.1| RluA family pseudouridine synthase [Aeromonas veronii AER397]
gi|404618408|gb|EKB15328.1| RluA family pseudouridine synthase [Aeromonas veronii AER397]
Length = 256
Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 80/260 (30%), Positives = 112/260 (43%), Gaps = 42/260 (16%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LY+DEWLVAVNKP G+ D E++ + ++ +RLD
Sbjct: 15 LLYQDEWLVAVNKPSGLLVHRSWL--------DKGETRFAMQMTRDLIGGRYVYPVHRLD 66
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R TSGV++ +A L +AFT +V K Y+AL G AP+ I K
Sbjct: 67 RPTSGVLLFALDPVIARALTEAFTQRQVHKEYLALVRGWAPEQGVIDYPLKEQLDKIAD- 125
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A S+ R +D VT+F L + V AV
Sbjct: 126 ---AMSNPDR------PAQDAVTTFRRL--------------------HQVELPHAVSKK 156
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHE---LHA 321
LVR FP++GR HQ+R H +L I GD + +G + + + G E L A
Sbjct: 157 HPTSRYSLVRLFPKTGRKHQLRRHMDHLFHPIVGDTTHGDGRHNRFFREHFGCERLLLVA 216
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+LSF HPV P+ +QAPL
Sbjct: 217 RTLSFTHPVLKVPMRIQAPL 236
>gi|341616031|ref|ZP_08702900.1| pseudouridine synthase D large subunit [Citromicrobium sp. JLT1363]
Length = 412
Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 89/319 (27%), Positives = 133/319 (41%), Gaps = 73/319 (22%)
Query: 32 SNPTEPTSQNAPQTQQNYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDE 91
++P+ ++ AP T + P P PL A +DI L V YEDE
Sbjct: 147 NSPSARVAEGAPFTV-HLPAPT--PLEAEPQDIPLV------------------VAYEDE 185
Query: 92 WLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSG 150
L+ V+KP G+ + L +G+LS +N +E + +R+D+DTSG
Sbjct: 186 HLIVVDKPAGMVVHPAAGNRDGTLVNALLHHCAGQLS---GINGVERPGIVHRIDKDTSG 242
Query: 151 VMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAA 210
++V+ K+ L K F DH +S+ YIA+C G PK + TI + GRS ++
Sbjct: 243 LLVVAKTDSAHEGLAKQFADHSISRRYIAICAG-QPKPAQGTIDARLGRSDRDRKKMAV- 300
Query: 211 SDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKN 270
+ P + + +T + G S E L+
Sbjct: 301 -----LPPDATRGKHAITHYRTTDSFGVASILE-CRLE---------------------- 332
Query: 271 EILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-------EGVYEWNGKRYDGHELHAES 323
+GRTHQ+R+HC +G + GD +Y + E G + LHA S
Sbjct: 333 ---------TGRTHQVRVHCASIGHPLLGDPQYGRDPKALRPILEKLG--FHRQALHAAS 381
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L F HP TG V QA LP
Sbjct: 382 LGFIHPATGERVHFQADLP 400
>gi|330830764|ref|YP_004393716.1| Pseudouridine synthase [Aeromonas veronii B565]
gi|328805900|gb|AEB51099.1| Pseudouridine synthase [Aeromonas veronii B565]
Length = 257
Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 80/260 (30%), Positives = 112/260 (43%), Gaps = 42/260 (16%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LY+DEWLVAVNKP G+ D E++ + ++ +RLD
Sbjct: 16 LLYQDEWLVAVNKPSGLLVHRSWL--------DKGETRFAMQMTRDLIGGRYVYPVHRLD 67
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R TSGV++ +A L +AFT +V K Y+AL G AP+ I K
Sbjct: 68 RPTSGVLLFALDPVIARALTEAFTQRQVHKEYLALVRGWAPEQGVIDYPLKEQLDKIAD- 126
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A S+ R +D VT+F L + V AV
Sbjct: 127 ---AMSNPDR------PAQDAVTTFRRL--------------------HQVELPHAVSKK 157
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHE---LHA 321
LVR FP++GR HQ+R H +L I GD + +G + + + G E L A
Sbjct: 158 HPTSRYSLVRLFPKTGRKHQLRRHMDHLFHPIVGDTTHGDGRHNRFFREHFGCERLLLVA 217
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+LSF HPV P+ +QAPL
Sbjct: 218 RTLSFTHPVLKVPMRIQAPL 237
>gi|253688887|ref|YP_003018077.1| RluA family pseudouridine synthase [Pectobacterium carotovorum
subsp. carotovorum PC1]
gi|251755465|gb|ACT13541.1| pseudouridine synthase, RluA family [Pectobacterium carotovorum
subsp. carotovorum PC1]
Length = 318
Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 81/273 (29%), Positives = 120/273 (43%), Gaps = 56/273 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED++L+ +NKP G ++ G A R L L +RLD
Sbjct: 95 IIYEDDYLLVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLRLKGMQKDYLALVRG---QWQ-------------SHC 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G V+ VN EG +PSE + E
Sbjct: 189 KVVQAPLLKNILQSGE---------RVVRVNSEG---KPSETRFKVEERF---------- 226
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD-GHE---LHA 321
++ LVRA P +GRTHQIR+H QY G I D +Y G E++ + D G + LHA
Sbjct: 227 ---EHATLVRASPVTGRTHQIRVHTQYAGHPIAFDDRY-GDREFDEQLADTGLKRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
++L F+HP TG + ++APL LQ+ K
Sbjct: 283 QALRFEHPNTGETLRIEAPLDNGLRRCLQALRK 315
>gi|349686578|ref|ZP_08897720.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Gluconacetobacter oboediens 174Bp2]
Length = 325
Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 83/292 (28%), Positives = 129/292 (44%), Gaps = 57/292 (19%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLASV 111
PP+P S+ L A+ + + +++R V+Y D+ ++ +NKP G+ + + +
Sbjct: 64 PPIPNASRPPPL--AVKPLDERQVREINRM-VVYRDDHVIVLNKPAGIAVQGGPGITHHI 120
Query: 112 PCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH 171
LL G R L +R+DRDTSG++++ ++ VA+KL AF
Sbjct: 121 DALLDGLRENPDDPRPR-----------LVHRIDRDTSGLLLVARTPGVAAKLAAAFRGR 169
Query: 172 KVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSF 230
V K Y A+ +G P+P T I +K GA
Sbjct: 170 DVHKVYWAVVVGRPSPA----TGIIDQPLTKLGA-------------------------- 199
Query: 231 EVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHC 290
G G+ +E + + + + E + VLDA +K L + P +GRTHQ+R+HC
Sbjct: 200 ------GAGAISVVAERGDADAVHALSEYE-VLDAAGRKLSWLALS-PLTGRTHQLRVHC 251
Query: 291 QYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LG I GD KY G D LHA L HP G ++V+A LP
Sbjct: 252 EALGNPILGDPKYGGDIAHVTGFTDKLHLHARRLELPHPAGGT-LVVEADLP 302
>gi|300854258|ref|YP_003779242.1| ribosomal large subunit pseudouridine synthase D [Clostridium
ljungdahlii DSM 13528]
gi|300434373|gb|ADK14140.1| ribosomal large subunit pseudouridine synthase D [Clostridium
ljungdahlii DSM 13528]
Length = 302
Score = 89.0 bits (219), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 70/272 (25%), Positives = 119/272 (43%), Gaps = 60/272 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+LYED+ ++ VNKPQG+ ++ P + G + + + +N + + +R
Sbjct: 81 DILYEDKDVIVVNKPQGM----IVHPAPGVYEGTLVNALLNHCRDLSGINGVTRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI---ISGHGRS 200
+D+DTSG++V+ K+ +KL K DH +++ YIAL G K T+ I+ H +
Sbjct: 137 IDKDTSGILVVAKNDNSHNKLAKQLKDHSMTREYIALVEG-VVKLDEGTVDEPIARHPKD 195
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
K + VNG+ + ++
Sbjct: 196 KIKM---------------------------AVCVNGKRAITHYKVIKRF---------- 218
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD--GHE 318
KN L++ +GRTHQIR+H Y+G + GD VY + +R+ G
Sbjct: 219 --------KNNTLIKCILETGRTHQIRVHMAYIGHPLVGD----PVYGYKKQRFKLGGQL 266
Query: 319 LHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
LHAE L F HP TG + + +P + + ++
Sbjct: 267 LHAEKLGFIHPATGKYIEFETEIPDYFKKVIK 298
>gi|317056645|ref|YP_004105112.1| RluA family pseudouridine synthase [Ruminococcus albus 7]
gi|315448914|gb|ADU22478.1| pseudouridine synthase, RluA family [Ruminococcus albus 7]
Length = 304
Score = 89.0 bits (219), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 75/270 (27%), Positives = 118/270 (43%), Gaps = 48/270 (17%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D++YED+ L+ VNKPQG+ + L GRLS ++ + +R+
Sbjct: 82 DIVYEDDSLLVVNKPQGMVVHPAAGNPDGTLVNALLFHCKGRLSSIN--GVIRPGIVHRI 139
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+ TSG++++ K+ K + L + DH ++ Y A+CIG K T+ GRSKF
Sbjct: 140 DKFTSGLLMVAKTDKAHNFLAQQIKDHNFTREYNAICIGRF-KEPTGTVNEPIGRSKF-- 196
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
D ++ ++ VT +EVL G+ S
Sbjct: 197 -------DRKKMCVTYQNCKEAVTHYEVLEDLGQYS------------------------ 225
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
LV+ +GRTHQIR+H ++G + GD Y Y K +G LHA+ L
Sbjct: 226 --------LVKFRLETGRTHQIRVHSAFIGHPVLGDDVYGKAY----KGLEGQCLHAKKL 273
Query: 325 SFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
F HP T + + LP++ + L+ K
Sbjct: 274 GFIHPETKEYMEFDSELPVYFVKVLEKLRK 303
>gi|255263430|ref|ZP_05342772.1| ribosomal large subunit pseudouridine synthase C [Thalassiobium sp.
R2A62]
gi|255105765|gb|EET48439.1| ribosomal large subunit pseudouridine synthase C [Thalassiobium sp.
R2A62]
Length = 347
Score = 88.6 bits (218), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 90/304 (29%), Positives = 127/304 (41%), Gaps = 63/304 (20%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLP E+T S+ ++ RS V+Y+D+ ++A+NKP G+ + V L
Sbjct: 65 PPLPDAD---EITAGPVTKITSADAEMMRSLVIYKDDHIIALNKPSGIASQGGSKQVRHL 121
Query: 115 LAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKV 173
L+E K + E L +RLDRDTSGV ++ ++ ++A + AF + +
Sbjct: 122 DG----------LAEALKFDYFEKPRLVHRLDRDTSGVFIMARTREIAKAMSDAFKERET 171
Query: 174 SKTYIALCIG---PAPKWKRITII--SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVT 228
K Y A G PA R +I GHGR GG
Sbjct: 172 RKIYWAAVGGVPHPAMGTVRWGLIKSGGHGR-------------------GGE------- 205
Query: 229 SFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRL 288
N + P E++ A+LD + + P +GRTHQ+R
Sbjct: 206 -------NEKMRCIHPREVEHTPGAKRATTDYALLDRLGSR-AAWIALVPVTGRTHQLRA 257
Query: 289 HCQYLGISIRGDVKYEGVYEWN-GKRYD---GHE------LHAESLSFDHPVTGCPVMVQ 338
H +G I GD KY G + N G + G E LHA SLSF HP TG V +
Sbjct: 258 HMAEMGHPIIGDGKYGGSGQENLGDGWGAGMGEEIGRKLHLHARSLSFTHPATGKRVNLT 317
Query: 339 APLP 342
A LP
Sbjct: 318 ASLP 321
>gi|165977322|ref|YP_001652915.1| 23S rRNA pseudouridylate synthase C [Actinobacillus
pleuropneumoniae serovar 3 str. JL03]
gi|165877423|gb|ABY70471.1| ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 3 str. JL03]
Length = 321
Score = 88.6 bits (218), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 73/260 (28%), Positives = 117/260 (45%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++ +NKP G+ ++ A R L L +R+D
Sbjct: 98 ILYEDEVMLVINKPSGIAVHGGSGLSFGVIEALRALRPQARF----------LELVHRID 147
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + V K Y+AL G W
Sbjct: 148 RDTSGILLVAKKRSALRSLHEQLREKVVQKDYLALV--------------------RGQW 187
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ + +V+ + ++ + ++ V+ EG +PSE + +E++
Sbjct: 188 QAHT-----KVIKAPLLKNELASGERIVRVSEEG---KPSE------THFSIEERYA--- 230
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK-RYDGHE---LHA 321
N LV+A P +GRTHQIR+H QY G I D KY G E++ K + G + LHA
Sbjct: 231 ----NATLVKASPVTGRTHQIRVHTQYAGHPIALDDKY-GEAEFDSKMKAAGLQRLFLHA 285
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
S+ F+HP TG +++ APL
Sbjct: 286 YSIRFEHPKTGEEMLITAPL 305
>gi|163794483|ref|ZP_02188454.1| Pseudouridylate synthase, 23S RNA-specific [alpha proteobacterium
BAL199]
gi|159180207|gb|EDP64730.1| Pseudouridylate synthase, 23S RNA-specific [alpha proteobacterium
BAL199]
Length = 349
Score = 88.6 bits (218), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 90/311 (28%), Positives = 129/311 (41%), Gaps = 74/311 (23%)
Query: 52 PLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLAS- 110
P SP P + I++ A A ++ L+ V+YED L+ ++KP G+ +
Sbjct: 79 PSSPVKPGATYRIDVPEATPAIPEAQDLPLT---VVYEDAALIVIDKPAGMTVHPAPGAP 135
Query: 111 ----VPCLLA--GDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKL 164
V L+A GDS G G + +R+D+DTSG++V+ K+ L
Sbjct: 136 KDTLVNALIAHCGDSLSGIGGVKRPG---------IVHRIDKDTSGLLVVAKTDAAHHAL 186
Query: 165 VKAFTDHKVSKTYIALCIG-PAPKWKRIT-IISGHGRSKFGAWRVYAASDVGRVLPGGSV 222
F DH + + Y ALC G P P RI I H R R+ A V P GS
Sbjct: 187 AARFADHSIDRAYRALCWGRPIPPAGRIEGAIGRHPRD-----RIRMA-----VRPEGS- 235
Query: 223 VRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGR 282
+ VT F + +F E + L E +GR
Sbjct: 236 GKAAVTHFRTVR-----AFNEAATLLECRLE--------------------------TGR 264
Query: 283 THQIRLHCQYLGISIRGD--------VKYEGVYEWNGKRYDG---HELHAESLSFDHPVT 331
THQIR+H ++G + GD K G+ E R G LHA L F+HP+T
Sbjct: 265 THQIRVHLTHIGHPLVGDPVYGRGRSAKLGGLPEETRDRLHGFSRQALHAAVLGFNHPIT 324
Query: 332 GCPVMVQAPLP 342
G P+ ++PLP
Sbjct: 325 GEPLRFESPLP 335
>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 = 88.2 bits (217), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 73/266 (27%), Positives = 114/266 (42%), Gaps = 47/266 (17%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+V+YEDE L +NKP G+ + L SGRLS ++ + +RL
Sbjct: 74 EVVYEDEHLAVINKPCGMVVHPGTGNFENTLVNALLHKFSGRLSSIN--GVIRPGIVHRL 131
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG++++ K+ + KL +A H++ + Y A+C G K I + GR
Sbjct: 132 DKDTSGLLIVAKTDEAHIKLSEALKSHQIKRIYYAICEG-VLKEDSGVINAPIGRHPVNR 190
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
++ V+P G ++ VT FEVL + +F
Sbjct: 191 LKM-------AVVPNG---KEAVTYFEVLERFDKYTF----------------------- 217
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
++ ++GRTHQIR+H Y+G + GD Y G + G LHA +
Sbjct: 218 ---------IKLRLKTGRTHQIRVHMSYIGYPLLGDSSYGRAKNEFGVQ--GQVLHAGEI 266
Query: 325 SFDHPVTGCPVMVQAPLPLWGTEALQ 350
F HP+T + A LP + E L
Sbjct: 267 EFVHPITSKVLHFSADLPEYFVEILN 292
>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 = 88.2 bits (217), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 80/268 (29%), Positives = 112/268 (41%), Gaps = 68/268 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAG------DSAESKSGRLSEGTKLNLLEL 138
D+LYED ++ VNKP G+ + A + L + G L G
Sbjct: 81 DILYEDHDIIVVNKPAGMVVHPIPAHMTGTLVNALLYHCKDLQGIGGELRPG-------- 132
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
+ +RLD+DTSGV+V+ K+ L K F D KV K Y AL G + + G
Sbjct: 133 -IVHRLDKDTSGVIVVAKNDLAHQSLSKQFKDRKVFKMYFALVQG--------CVKNDEG 183
Query: 199 RSKFGAWRVYAASDVGRV-LPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
+ R V R+ + R +T ++VL FK+ + L
Sbjct: 184 EIQLSLAR----HPVHRIKMTVSETGRKSITLYKVLK-----RFKDLATL---------- 224
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
V A+P++GRTHQIR+H +++G I GD Y K ++G
Sbjct: 225 ----------------VVAYPKTGRTHQIRVHMKFIGHPIIGDPLY------GKKSFEGI 262
Query: 318 E---LHAESLSFDHPVTGCPVMVQAPLP 342
E LHA L F HP TG V APLP
Sbjct: 263 ERQMLHAARLGFFHPRTGEYVQFTAPLP 290
>gi|303249693|ref|ZP_07335898.1| 23S rRNA pseudouridylate synthase C [Actinobacillus
pleuropneumoniae serovar 6 str. Femo]
gi|302651505|gb|EFL81656.1| 23S rRNA pseudouridylate synthase C [Actinobacillus
pleuropneumoniae serovar 6 str. Femo]
Length = 321
Score = 88.2 bits (217), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 73/260 (28%), Positives = 116/260 (44%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++ +NKP G+ ++ A R L L +R+D
Sbjct: 98 ILYEDEVMLVINKPSGIAVHGGSGLSFGVIEALRALRPQARF----------LELVHRID 147
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + V K Y+AL G W
Sbjct: 148 RDTSGILLVAKKRSALRSLHEQLREKVVQKDYLALV--------------------RGQW 187
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ + +V+ + ++ + ++ V+ EG +PSE +E++
Sbjct: 188 QAHT-----KVIKAPLLKNELASGERIVRVSEEG---KPSE------TRFSIEERYA--- 230
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK-RYDGHE---LHA 321
N LV+A P +GRTHQIR+H QY G I D KY G E++ K + G + LHA
Sbjct: 231 ----NATLVKASPVTGRTHQIRVHTQYAGHPIALDDKY-GEAEFDSKMKAAGLQRLFLHA 285
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
S+ F+HP TG +++ APL
Sbjct: 286 YSIRFEHPKTGEEMLITAPL 305
>gi|46198348|ref|YP_004015.1| ribosomal large subunit pseudouridine synthase D [Thermus
thermophilus HB27]
gi|46195970|gb|AAS80388.1| ribosomal large subunit pseudouridine synthase D [Thermus
thermophilus HB27]
Length = 300
Score = 88.2 bits (217), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 76/257 (29%), Positives = 108/257 (42%), Gaps = 49/257 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++A+NKP G+ + G + +G L+ + +RLD
Sbjct: 66 ILYEDEDVLALNKPPGLLTHPAPGVYSGTVVNLLLARYYGPVEKGPP-ELVRPGIVHRLD 124
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSGV+V+ K V L +AF D V K Y+A+ G + I I H R +
Sbjct: 125 KDTSGVLVVAKHGGVLEGLARAFRDRLVMKRYLAITEGHPREGVLIAPIGRHPRERH--- 181
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
++ GG R T F+VL+ G +
Sbjct: 182 ---------KMHVGGLAARYAETEFQVLATAGPYA------------------------- 207
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
LV A P +GRTHQIR+H +YLG I GD Y G++ LHA L
Sbjct: 208 -------LVEARPHTGRTHQIRVHLKYLGAPILGDELYGRKSPHIGRQ----ALHAYELR 256
Query: 326 FDHPVTGCPVMVQAPLP 342
HP TG + + AP+P
Sbjct: 257 IPHPRTGRILELLAPVP 273
>gi|190151234|ref|YP_001969759.1| ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 7 str. AP76]
gi|307246812|ref|ZP_07528878.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 1 str. 4074]
gi|307251150|ref|ZP_07533072.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 4 str. M62]
gi|307253568|ref|ZP_07535436.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 6 str. Femo]
gi|307255795|ref|ZP_07537597.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 9 str. CVJ13261]
gi|307257984|ref|ZP_07539737.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 10 str. D13039]
gi|307260247|ref|ZP_07541955.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 11 str. 56153]
gi|307264584|ref|ZP_07546167.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 13 str. N273]
gi|189916365|gb|ACE62617.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 7 str. AP76]
gi|306852283|gb|EFM84522.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 1 str. 4074]
gi|306856816|gb|EFM88950.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 4 str. M62]
gi|306858948|gb|EFM90993.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 6 str. Femo]
gi|306861258|gb|EFM93250.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 9 str. CVJ13261]
gi|306863531|gb|EFM95461.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 10 str. D13039]
gi|306865694|gb|EFM97574.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 11 str. 56153]
gi|306870113|gb|EFN01874.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 13 str. N273]
Length = 326
Score = 88.2 bits (217), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 73/260 (28%), Positives = 116/260 (44%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++ +NKP G+ ++ A R L L +R+D
Sbjct: 103 ILYEDEVMLVINKPSGIAVHGGSGLSFGVIEALRALRPQARF----------LELVHRID 152
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + V K Y+AL G W
Sbjct: 153 RDTSGILLVAKKRSALRSLHEQLREKVVQKDYLALV--------------------RGQW 192
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ + +V+ + ++ + ++ V+ EG +PSE +E++
Sbjct: 193 QAHT-----KVIKAPLLKNELASGERIVRVSEEG---KPSE------TRFSIEERYA--- 235
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK-RYDGHE---LHA 321
N LV+A P +GRTHQIR+H QY G I D KY G E++ K + G + LHA
Sbjct: 236 ----NATLVKASPVTGRTHQIRVHTQYAGHPIALDDKY-GEAEFDSKMKAAGLQRLFLHA 290
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
S+ F+HP TG +++ APL
Sbjct: 291 YSIRFEHPKTGEEMLITAPL 310
>gi|406874418|gb|EKD24376.1| hypothetical protein ACD_81C00036G0004, partial [uncultured
bacterium]
Length = 246
Score = 88.2 bits (217), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 79/272 (29%), Positives = 125/272 (45%), Gaps = 66/272 (24%)
Query: 87 LYEDEWLVAVNKPQGV----YCES--------VLASVPCL-LAGDSAESKSGRLSEGTKL 133
+YEDE +VA+NKP + Y ++ +L P + GD E + G
Sbjct: 1 IYEDENVVAINKPAHLLVHPYADNKDYALTTWLLKHYPGVKTVGDDPEQRPG-------- 52
Query: 134 NLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+ +RLD+DTSGV+++ +SH+ L + F H + K+Y+AL G + K+ TI
Sbjct: 53 ------IVHRLDKDTSGVILVPRSHEYFRYLKELFQSHGIKKSYLALVWGKVQE-KKGTI 105
Query: 194 ---ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
IS G + R + G + ++ +T +EV+ +F +P
Sbjct: 106 NKPISLKGGT------------TKRTVHDGKMTKEALTDYEVVK---RFTFDDPD----- 145
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
E + + D LVRA+P++GRTHQIR+H +G +I GD Y + N
Sbjct: 146 ------TETRKIYDF------TLVRAWPKTGRTHQIRVHLASIGFAIVGDTMYGA--KKN 191
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
D LHAES+ F G + ++A LP
Sbjct: 192 PLALDRQFLHAESIEF-LAAEGHKLNIEAELP 222
>gi|357030713|ref|ZP_09092657.1| ribosomal large subunit pseudouridine synthase C [Gluconobacter
morbifer G707]
gi|356415407|gb|EHH69050.1| ribosomal large subunit pseudouridine synthase C [Gluconobacter
morbifer G707]
Length = 329
Score = 88.2 bits (217), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 83/292 (28%), Positives = 127/292 (43%), Gaps = 60/292 (20%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLASV 111
PPLP +S+ A +L + V+Y+DE L+ ++KP G+ + + V
Sbjct: 64 PPLPDVSR-----PAPPPPPDPALVREIEKMVIYQDEHLLVLDKPSGLATQGGPGITKHV 118
Query: 112 PCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH 171
+L G E L +R+DRDTSG+++I ++ VA+KL AF
Sbjct: 119 DMMLDGLRVEGGD------------RPRLVHRIDRDTSGILLIARTPGVAAKLAAAFRGR 166
Query: 172 KVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSF 230
V KTY A+ +G P+P + I +K GA GG+ +
Sbjct: 167 DVQKTYWAVVVGRPSPA----SGIIDQPLAKIGA--------------GGASL------- 201
Query: 231 EVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHC 290
V++ + ++ E+ + LDA KK L + P +GRTHQ+R+HC
Sbjct: 202 -VIAAS-----------RDEEDAASAKSEYETLDAAGKKFSWL-KLSPLTGRTHQLRVHC 248
Query: 291 QYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ +G I GD +Y G D LHA L HP G ++V AP P
Sbjct: 249 ESIGTPILGDPRYGGKAAHPDGFIDRLHLHARQLDIPHPAGGR-LIVTAPPP 299
>gi|125973425|ref|YP_001037335.1| ribosomal large subunit pseudouridine synthase D [Clostridium
thermocellum ATCC 27405]
gi|256004403|ref|ZP_05429384.1| pseudouridine synthase, RluA family [Clostridium thermocellum DSM
2360]
gi|281417627|ref|ZP_06248647.1| pseudouridine synthase, RluA family [Clostridium thermocellum JW20]
gi|385778659|ref|YP_005687824.1| RluA family pseudouridine synthase [Clostridium thermocellum DSM
1313]
gi|419722986|ref|ZP_14250122.1| pseudouridine synthase, RluA family [Clostridium thermocellum AD2]
gi|419724666|ref|ZP_14251725.1| pseudouridine synthase, RluA family [Clostridium thermocellum YS]
gi|125713650|gb|ABN52142.1| pseudouridine synthase, RluA family [Clostridium thermocellum ATCC
27405]
gi|255991687|gb|EEU01788.1| pseudouridine synthase, RluA family [Clostridium thermocellum DSM
2360]
gi|281409029|gb|EFB39287.1| pseudouridine synthase, RluA family [Clostridium thermocellum JW20]
gi|316940339|gb|ADU74373.1| pseudouridine synthase, RluA family [Clostridium thermocellum DSM
1313]
gi|380771885|gb|EIC05746.1| pseudouridine synthase, RluA family [Clostridium thermocellum YS]
gi|380781043|gb|EIC10705.1| pseudouridine synthase, RluA family [Clostridium thermocellum AD2]
Length = 303
Score = 88.2 bits (217), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 73/273 (26%), Positives = 118/273 (43%), Gaps = 54/273 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++ V+KP+G+ + L + LS ++ + +R+D
Sbjct: 80 ILYEDEHIIVVDKPKGMVVHPAAGNYSGTLVNALLKHCGTNLSNIN--GIIRPGIVHRID 137
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPK-WKRITIISGHGRSKFGA 204
+DTSGV+V+ KS+ L + DH + + YIA+ G + + +I + GR
Sbjct: 138 KDTSGVLVVAKSNAAHEGLSEKLKDHDIERVYIAVVHGIIREDYGKID--APIGRHPVDR 195
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
++ + GR VT F+VL FK+ + ++
Sbjct: 196 KKMAVNTKNGR---------RAVTRFKVLE-----RFKDATYIE---------------- 225
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYEWNGKRYDGHELHA 321
A +GRTHQIR+H Y+G I GD Y +Y NG+ LHA
Sbjct: 226 -----------ATLETGRTHQIRVHMSYIGFPIIGDTVYGRKNDIYNINGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
+ L F HP+ G + ++PLP + E L+ K
Sbjct: 270 KKLGFVHPIKGEYMEFESPLPEYFKELLEKLRK 302
>gi|294155914|ref|YP_003560298.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma
crocodyli MP145]
gi|291600512|gb|ADE20008.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma
crocodyli MP145]
Length = 312
Score = 88.2 bits (217), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 72/267 (26%), Positives = 120/267 (44%), Gaps = 63/267 (23%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+ YEDE L+ + KP G+ + E+ L + ++ +++G L G
Sbjct: 76 DIAYEDEHLLVIKKPSGMVVHPAPGHHENTLVNALLFHFKNNLSNENGLLRPG------- 128
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+++V L + F++ +++ Y A+C G
Sbjct: 129 --IVHRIDKDTSGLLIVAKTNEVHQLLSEGFSNKSINRKYFAICDG-------------- 172
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
V + + LP G RD V + + +SV S +H N+ +
Sbjct: 173 ---------VLKSKKMKLDLPIG---RD-VKNRQQMSVTNSNS--------KHAITNLEM 211
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD-- 315
K D K LV+A +GRTHQIR+HC Y+ I GD Y GK+ D
Sbjct: 212 LKSFYFDNQPK---CLVKATLETGRTHQIRVHCAYINNPIFGDSTY-------GKKVDDF 261
Query: 316 GHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L F HP+T +++ + P
Sbjct: 262 NQRLHAYRLEFVHPITNKKIIIYSNPP 288
>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 = 88.2 bits (217), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 72/266 (27%), Positives = 113/266 (42%), Gaps = 47/266 (17%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+V+YEDE L +NKP+G+ + L GRLS ++ + +RL
Sbjct: 74 EVVYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFRGRLSSIN--GVIRPGIVHRL 131
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG++++ K+ + KL +A H++ + Y A+C G K I + GR
Sbjct: 132 DKDTSGLLIVAKTDEAHIKLSEALKSHQIKRIYYAICEG-VLKEDSGVINAPIGRHPVNR 190
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
++ V+P G ++ VT FEVL + +F
Sbjct: 191 LKM-------AVVPNG---KEAVTYFEVLERFDKYTF----------------------- 217
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
++ ++GRTHQIR+H Y+G + GD Y G G LHA +
Sbjct: 218 ---------IKLRLKTGRTHQIRVHMSYIGYPLLGDSSYGRAKNEFG--VQGQVLHAGEI 266
Query: 325 SFDHPVTGCPVMVQAPLPLWGTEALQ 350
F HP+T + A LP + E L
Sbjct: 267 EFVHPITSKVLHFSADLPEYFVEILN 292
>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 = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 75/261 (28%), Positives = 117/261 (44%), Gaps = 54/261 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P L G + + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHLTGTLVNGLMAHCDDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y AL G P TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTALVHGVIPH-DHGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ VT FEV+ E ++ VVE +
Sbjct: 196 RQSMTVTRENGK---------HAVTHFEVI---------------ERFDDFTVVECQL-- 229
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
+GRTHQIR+H +Y+G + GD KY + ++NG+ LHA
Sbjct: 230 ---------------ETGRTHQIRVHMKYIGFPLAGDPKYGPKKTVDFNGQV-----LHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLP 342
L FDHP TG V +APLP
Sbjct: 270 GVLGFDHPRTGEYVEFEAPLP 290
>gi|54308380|ref|YP_129400.1| 23S rRNA ribosomal pseudouridinesynthase [Photobacterium profundum
SS9]
gi|46912808|emb|CAG19598.1| putative 23S rRNA ribosomal pseudouridinesynthase [Photobacterium
profundum SS9]
Length = 307
Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 77/278 (27%), Positives = 116/278 (41%), Gaps = 69/278 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
V+YED+ L+ +NKP G + G + + + + L L +R+D
Sbjct: 89 VIYEDDHLLVLNKPSGT----------AVHGGSGLKFGAIEALRALRPDARYLELVHRID 138
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K KL + F + V K Y AL +G +WK
Sbjct: 139 RDTSGILLVAKKRSALRKLQEQFREKTVKKYYFALVMG---EWK---------------- 179
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
AS P ++++ V S ++ NG+ S L+ E
Sbjct: 180 ----ASSKKVTAP---LLKNEVNSIVRVNPNGKASDTRFKVLERFE-------------- 218
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------- 318
+ LV+A P +GRTHQIR+HCQY G I D +Y R+D +
Sbjct: 219 ----HATLVQASPVTGRTHQIRVHCQYEGHPIAWDDRY------GDPRFDAYTKKTGLNR 268
Query: 319 --LHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
LHA ++ F HP T PV + APL T +L + K
Sbjct: 269 LFLHAANIKFTHPSTDEPVDISAPLDALLTRSLDNLRK 306
>gi|423197739|ref|ZP_17184322.1| RluA family pseudouridine synthase [Aeromonas hydrophila SSU]
gi|404631427|gb|EKB28063.1| RluA family pseudouridine synthase [Aeromonas hydrophila SSU]
Length = 274
Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 82/269 (30%), Positives = 116/269 (43%), Gaps = 45/269 (16%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LY+D+WLVAVNKP G+ D AE++ + ++ +RLD
Sbjct: 33 LLYQDDWLVAVNKPSGLLVHRSWL--------DKAETRFAMQMTRDLIGGRHVYPVHRLD 84
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R TSGV++ VA L +AF +V K Y+AL G AP+ I K
Sbjct: 85 RPTSGVLLFALDPAVARTLTEAFAARQVHKEYLALVRGWAPEQGVIDYPLKEQLDKIAD- 143
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A SD R ++ VT+F L + V AV
Sbjct: 144 ---AMSDPDR------PAQEAVTAFRRL--------------------HQVELPHAVSKK 174
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHE---LHA 321
LVR FP++GR HQ+R H +L I GD + +G + + + G + L A
Sbjct: 175 HPTSRYSLVRLFPKTGRKHQLRRHLDHLFHPIVGDTTHGDGRHNRFFREHYGCDRLLLVA 234
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
+LSF HPV P+ +QAPL G+ LQ
Sbjct: 235 RTLSFQHPVLKVPMRIQAPL---GSHVLQ 260
>gi|405355857|ref|ZP_11024969.1| Ribosomal large subunit pseudouridine synthase A [Chondromyces
apiculatus DSM 436]
gi|397091129|gb|EJJ21956.1| Ribosomal large subunit pseudouridine synthase A [Myxococcus sp.
(contaminant ex DSM 436)]
Length = 559
Score = 87.8 bits (216), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 76/263 (28%), Positives = 118/263 (44%), Gaps = 62/263 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKL-NLLELHLANR 143
D+L+EDEW V V+KP+G L SVP A D++ S + T+ + E+ LA+R
Sbjct: 355 DILFEDEWFVVVDKPEG------LLSVP---AKDTSVEDSVQARLRTRYPDAPEVLLAHR 405
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD DTSG++V K + + L + F +V K Y+A G ++G
Sbjct: 406 LDLDTSGLLVAAKDLRTYAALQRLFAQRQVHKRYVAWVDGE---------VAGE------ 450
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
G++ M + P ++ + V + VL
Sbjct: 451 ---------------RGTIDFPMRVDLD----------DRPRQIHDPVHGKPAVTEWRVL 485
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGHELH 320
+ + ++ + FP +GRTHQ+R+H + LG I GD +Y G R LH
Sbjct: 486 ERRDGRTKVAL--FPLTGRTHQLRVHAAHPLGLGAPIVGDR----LYGHPGTRL---HLH 536
Query: 321 AESLSFDHPVTGCPVMVQAPLPL 343
AE+L+F HPVTG P+ ++ P P
Sbjct: 537 AEALAFRHPVTGQPIALERPAPF 559
>gi|444917615|ref|ZP_21237710.1| Ribosomal large subunit pseudouridine synthase D [Cystobacter
fuscus DSM 2262]
gi|444710956|gb|ELW51917.1| Ribosomal large subunit pseudouridine synthase D [Cystobacter
fuscus DSM 2262]
Length = 317
Score = 87.8 bits (216), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 76/265 (28%), Positives = 110/265 (41%), Gaps = 68/265 (25%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSE------GTKLNLLELH 139
+L+ED+ L+AV+KP AG +A+ GR+ + GT L
Sbjct: 85 ILHEDDRLLAVDKP----------------AGMTAQPTEGRVGDSLVDWVGTHLGR-PAG 127
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPA--PKWKRITIISGH 197
L +RLDR+TSGV V K+ + + L F + K Y+A +GP P I +
Sbjct: 128 LVHRLDRETSGVTVFGKTPEATAALAGEFREGHARKRYLA-AVGPVSLPAQGFIDLPLSK 186
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
S+ G WR A++ +P +T + VL
Sbjct: 187 DPSRPGRWRATRAANG---IP-------ALTGYRVLFTG--------------------- 215
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
+ +LV P++GRTHQ+R H LG I GD +Y G + G
Sbjct: 216 -----------SDFLLVELLPQTGRTHQLRAHLTALGAPILGDSRYGGAPQAGGLAAPRC 264
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA +L HP TG PV +AP+P
Sbjct: 265 LLHARTLELAHPRTGAPVRFEAPVP 289
>gi|407788345|ref|ZP_11135477.1| ribosomal large subunit pseudouridine synthase C [Celeribacter
baekdonensis B30]
gi|407197626|gb|EKE67680.1| ribosomal large subunit pseudouridine synthase C [Celeribacter
baekdonensis B30]
Length = 348
Score = 87.8 bits (216), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 93/314 (29%), Positives = 133/314 (42%), Gaps = 82/314 (26%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLP + + R+ A S + KL +S V+Y+D++++ +NKP G+ +
Sbjct: 65 PPLPDQAAPVR-DRSGDAISAAD-EKLIQSCVIYKDDYVIVLNKPAGLPTQ--------- 113
Query: 115 LAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKV 173
G L+E K L E L +RLD+DTSGV+++ ++ +A+KL +AF
Sbjct: 114 -GGSKQTRHVDGLAEALKFGLEEKPRLVHRLDKDTSGVLILARTPAMATKLTEAFRHKNT 172
Query: 174 SKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEV 232
K Y AL G P P G K+G + GG R
Sbjct: 173 RKIYWALVAGVPVPYL---------GEIKYGLMKA-----------GGHGAR-------- 204
Query: 233 LSVNGEGSFKEPSELQEHEENNIVVEKKAV-LDADAKKNEIL-------------VRAFP 278
GEG E I + + + + DAK+ L V P
Sbjct: 205 ----GEG------------EKMIAIHPRDMNANPDAKRAHTLYATLYRVGSRASWVAMEP 248
Query: 279 RSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN-----GKRYDG-----HELHAESLSFDH 328
+GRTHQ+R H +G I GD KY G + N G + G LHA SL+F+H
Sbjct: 249 ITGRTHQLRAHMAEIGHPIIGDGKYGGSGQENLGDGWGAQLGGIISKKLHLHARSLTFEH 308
Query: 329 PVTGCPVMVQAPLP 342
PVT + V APLP
Sbjct: 309 PVTHKVITVTAPLP 322
>gi|328948648|ref|YP_004365985.1| RluA family pseudouridine synthase [Treponema succinifaciens DSM
2489]
gi|328448972|gb|AEB14688.1| pseudouridine synthase, RluA family [Treponema succinifaciens DSM
2489]
Length = 317
Score = 87.8 bits (216), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 67/269 (24%), Positives = 119/269 (44%), Gaps = 55/269 (20%)
Query: 79 YKLSRSDVLYEDEWLVAVNKPQGVYCESVLA-----SVPCLLAGDSAESKSGRLSEGTKL 133
++L+ +DVL+EDE+L+A+NKP + E + + C + ++ S R
Sbjct: 84 FELTENDVLFEDEYLIAINKPPFLPTEQTITGQRKNAHDCTVKYLWQKNSSLR------- 136
Query: 134 NLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
N + + +RLDR+TSG+++ TKS V + + F + K Y A+C G P+ K T+
Sbjct: 137 NPPYVGIMHRLDRETSGILLFTKSRSVNKDISEMFKTRGIKKIYRAVCTGKLPEQKEFTV 196
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+ + R+ P S + + + + FK
Sbjct: 197 ----------------ENFIARISPKSSACKMGIVPESRGGLFTKTDFK----------- 229
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
I+ EK + D + + +GRTHQIR+ + + I GD Y G+ +
Sbjct: 230 -IISEKNGFIQIDCQLH---------TGRTHQIRVQLSSMNLPIAGDELYGGI------K 273
Query: 314 YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
D +LHA + F HPV+ + +++ +P
Sbjct: 274 SDRIKLHARKIEFVHPVSKEKITIESEIP 302
>gi|386361087|ref|YP_006059332.1| RluA family pseudouridine synthase [Thermus thermophilus JL-18]
gi|383510114|gb|AFH39546.1| pseudouridine synthase, RluA family [Thermus thermophilus JL-18]
Length = 308
Score = 87.8 bits (216), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 76/257 (29%), Positives = 108/257 (42%), Gaps = 49/257 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++A+NKP G+ + G + +G L+ + +RLD
Sbjct: 74 ILYEDEDVLALNKPPGLLTHPAPGVYSGTVVNLLLARYYGPVEKGPP-ELVRPGIVHRLD 132
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSGV+V+ K V L +AF D V K Y+A+ G + I I H R +
Sbjct: 133 KDTSGVLVVAKHGGVLEGLARAFRDRLVMKRYLAITEGHPREGVLIAPIGRHPRERH--- 189
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
++ GG R T F+VL+ G +
Sbjct: 190 ---------KMHVGGLAARYAETEFQVLATAGPYA------------------------- 215
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
LV A P +GRTHQIR+H +YLG I GD Y G++ LHA L
Sbjct: 216 -------LVEARPHTGRTHQIRVHLKYLGAPILGDELYGRKSPHIGRQ----ALHAYELR 264
Query: 326 FDHPVTGCPVMVQAPLP 342
HP TG + + AP+P
Sbjct: 265 IPHPRTGRILELLAPVP 281
>gi|259046558|ref|ZP_05736959.1| ribosomal large subunit pseudouridine synthase D [Granulicatella
adiacens ATCC 49175]
gi|259036723|gb|EEW37978.1| ribosomal large subunit pseudouridine synthase D [Granulicatella
adiacens ATCC 49175]
Length = 284
Score = 87.8 bits (216), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 76/260 (29%), Positives = 119/260 (45%), Gaps = 54/260 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDS--AESKSGRLSEGTKLNLLELHLAN 142
D+LYEDE+L+ +NKP G AS+P L D A G + + H+
Sbjct: 65 DILYEDEYLLIINKPVGT------ASIPSKLHPDHSMANRVKGYYKRRGYADQIT-HVVT 117
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLDRDT+GVM+ K V + + +A + + K Y+AL + + HG
Sbjct: 118 RLDRDTTGVMMFAKHRVVHAWMDQALREKTIQKKYLALV-------HDTSTLEAHG---- 166
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
+ + +GR GS++ V S +G+ S E +K+ +
Sbjct: 167 -----FIDAPIGR--HEGSIINRCV------SEDGKPSLTE------------YWKKETL 201
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
+ A+ LV +GRTHQIR+H ++G + D Y GV + + D LH
Sbjct: 202 VGAE------LVEILLHTGRTHQIRVHFSWIGAPLVADDLYGGVKD---EFLDRQALHCH 252
Query: 323 SLSFDHPVTGCPVMVQAPLP 342
SL+F HP+T ++++APLP
Sbjct: 253 SLTFIHPMTKKELIIEAPLP 272
>gi|222110296|ref|YP_002552560.1| RluA family pseudouridine synthase [Acidovorax ebreus TPSY]
gi|221729740|gb|ACM32560.1| pseudouridine synthase, RluA family [Acidovorax ebreus TPSY]
Length = 334
Score = 87.8 bits (216), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 77/265 (29%), Positives = 118/265 (44%), Gaps = 47/265 (17%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
DV+YEDE ++ ++KP G+ V+ P +G + GR + + + + +RL
Sbjct: 107 DVVYEDEHILVIHKPAGL----VVHPAPGNWSGTLLNALLGR--DAQAMQVPRAGIVHRL 160
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG+MV+ +S LV+ +VS+ Y+AL G ++ + GR
Sbjct: 161 DKDTSGLMVVARSRSAMDALVRMIAAREVSRQYVALGWGGWTGAAHRSVHAPIGRDPRNR 220
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
R+ A D+ + PG ++ T F+++
Sbjct: 221 LRM-AVVDLAQ-HPG----KEARTDFDLI------------------------------- 243
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
DA + LVR +GRTHQIR+H + + DV Y G R LHA L
Sbjct: 244 -DANEEVCLVRCTLHTGRTHQIRVHMASIRHPLVADVLYGGAMAGPMHR---QALHAFRL 299
Query: 325 SFDHPVTGCPVMVQAPLPLWGTEAL 349
+F HPVTG P+ APLP T+AL
Sbjct: 300 AFVHPVTGAPLEFHAPLPEDMTQAL 324
>gi|298710073|emb|CBJ31789.1| pseudouridine synthase [Ectocarpus siliculosus]
Length = 541
Score = 87.8 bits (216), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 81/292 (27%), Positives = 124/292 (42%), Gaps = 72/292 (24%)
Query: 80 KLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSA--------ESKSGRLSEGT 131
+L R V++ED+ L KP G+ C+ PC A +SG+L EG+
Sbjct: 222 RLPRLRVVFEDDHLFVAMKPAGMICQ------PCAAAPRGTVLHGLMYHMVQSGQLEEGS 275
Query: 132 KL-----NLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAP 186
+ N L + RLD+ TSG+MV+ K+ +SKL F KV K Y+A+C G P
Sbjct: 276 DITAAAANTLSQGIVQRLDKQTSGIMVVAKTLAASSKLSALFRKGKVKKQYLAVCHGD-P 334
Query: 187 KWKRITIISGHGRS--KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEP 244
+ + + RS K GA + A + R + VR++ T+
Sbjct: 335 GFDSVVDAPLYRRSSGKVGAVEPWEA-EAFRAKEAQTRVRNVATA--------------- 378
Query: 245 SELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYE 304
+ L RA +GR HQ+R+H +++G I GD +Y
Sbjct: 379 ------------------------RGLSLCRADILTGRMHQVRVHLKWIGCPIVGDREYG 414
Query: 305 G------VYEWNGKRYDGHE--LHAESLSFDHPVTGCPVMVQAPLP--LWGT 346
V + + R + LH+ SL F HP T P+ +AP+P +W T
Sbjct: 415 DPEANFRVSKRSAHRVEAQRPLLHSVSLEFIHPFTNKPMSFKAPMPPDMWET 466
>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 = 87.8 bits (216), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 72/268 (26%), Positives = 116/268 (43%), Gaps = 51/268 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+V+YEDE L +NKP+G+ + L GRLS ++ + +RL
Sbjct: 74 EVVYEDEHLSVINKPRGMVVHPGAGNFENTLVNALLHKFKGRLSSIN--GVIRPGIVHRL 131
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG++V+ K+ + KL +A H++ + Y A+C G K + + GR
Sbjct: 132 DKDTSGLLVVAKTDEAHIKLSEALKSHQIKRIYYAICEG-VLKEDSGVVDAPIGRHPVNR 190
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
++ ++P G ++ VT FEVL + +F
Sbjct: 191 LKM-------AIVPNG---KEAVTYFEVLERFDKYTF----------------------- 217
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--DGHELHAE 322
V+ ++GRTHQIR+H Y+G + GD G+Y + +G LHA
Sbjct: 218 ---------VKLRLKTGRTHQIRVHMSYIGYPLLGD----GIYGRAKNEFGVEGQVLHAG 264
Query: 323 SLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
+ F HP+T + A LP + E L
Sbjct: 265 EIEFVHPITSKVLHFSADLPEYFVEILN 292
>gi|409399405|ref|ZP_11249694.1| pseudouridine synthase [Acidocella sp. MX-AZ02]
gi|409131440|gb|EKN01147.1| pseudouridine synthase [Acidocella sp. MX-AZ02]
Length = 327
Score = 87.8 bits (216), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 79/260 (30%), Positives = 115/260 (44%), Gaps = 55/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN 142
V+Y+D+ ++ +NKP G+ + + V +L ++ G E KL +
Sbjct: 92 VIYQDDSVIVLNKPAGLPVQGGSGIAVHVDGML-----DALQGEHPERPKL-------VH 139
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLDRDTSGV+VI +S KVA+KL AF V KTY AL +G + GR
Sbjct: 140 RLDRDTSGVLVIARSAKVAAKLSAAFRGRDVEKTYWALLVGLPDALE--------GRIDL 191
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
R+ D+ G+ S EP+ ++ E + + + +
Sbjct: 192 PLKRI-----------------DL----------GQTSRAEPASRKDKEAQKAITDYR-I 223
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
LD +K L P +GR HQ+R HC LG I GD Y Y + + LHA
Sbjct: 224 LDKAGRKF-CLAELSPHTGRMHQLRAHCLALGTPILGDEVYGSAYHEHFA--NQLHLHAR 280
Query: 323 SLSFDHPVTGCPVMVQAPLP 342
LSF HP G + ++A LP
Sbjct: 281 RLSFPHPEGGL-LSIEAELP 299
>gi|55980377|ref|YP_143674.1| ribosomal large subunit pseudouridine synthase D [Thermus
thermophilus HB8]
gi|55771790|dbj|BAD70231.1| ribosomal large subunit pseudouridine synthase D [Thermus
thermophilus HB8]
Length = 308
Score = 87.8 bits (216), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 76/257 (29%), Positives = 108/257 (42%), Gaps = 49/257 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++A+NKP G+ + G + +G L+ + +RLD
Sbjct: 74 ILYEDEDVLALNKPPGLLTHPAPGVYSGTVVNLLLARYYGPVEKGPP-ELVRPGIVHRLD 132
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSGV+V+ K V L +AF D V K Y+A+ G + I I H R +
Sbjct: 133 KDTSGVLVVAKHGGVLEGLARAFRDRLVMKRYLAITEGHPREGVLIAPIGRHPRERH--- 189
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
++ GG R T F+VL+ G +
Sbjct: 190 ---------KMHVGGLAARYAETEFQVLATAGPYA------------------------- 215
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
LV A P +GRTHQIR+H +YLG I GD Y G++ LHA L
Sbjct: 216 -------LVEARPHTGRTHQIRVHLKYLGAPILGDELYGRKSPHIGRQ----ALHAYELR 264
Query: 326 FDHPVTGCPVMVQAPLP 342
HP TG + + AP+P
Sbjct: 265 IPHPRTGRILELLAPVP 281
>gi|340777611|ref|ZP_08697554.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter aceti NBRC 14818]
Length = 324
Score = 87.8 bits (216), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 84/293 (28%), Positives = 130/293 (44%), Gaps = 60/293 (20%)
Query: 55 PPLPAISK-DIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCE---SVLAS 110
PP+P +K ++ +A++ S + K+ V+Y D ++ +NKP G+ + +
Sbjct: 64 PPIPMAAKPSRDVPKALNPKLASEIRKM----VIYSDPQIIVLNKPSGLATQGGPGITQH 119
Query: 111 VPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTD 170
V +L G L EG + L +R+DRDTSG++++ ++ VA+KL AF
Sbjct: 120 VDMMLDG---------LREG---DDPRPRLVHRIDRDTSGLLLLARTPGVAAKLAAAFRG 167
Query: 171 HKVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTS 229
V KTY A+ +G P P I ++ GA
Sbjct: 168 RDVKKTYWAVVVGRPDPMSGEID----QPLARLGA------------------------- 198
Query: 230 FEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLH 289
G GS ++ + + + + + VLD+ A+K L + P +GRTHQ+R+H
Sbjct: 199 -------GPGSITIAADRNDEDAQSARTDYE-VLDSAARKFSWLGLS-PLTGRTHQLRVH 249
Query: 290 CQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
C+ LG I GD KY G D LHA SL HP G + V A LP
Sbjct: 250 CESLGTPILGDPKYGGDKAHVDGFADRLHLHARSLVLPHPAGGW-LEVSAELP 301
>gi|315498779|ref|YP_004087583.1| RluA family pseudouridine synthase [Asticcacaulis excentricus CB
48]
gi|315416791|gb|ADU13432.1| pseudouridine synthase, RluA family [Asticcacaulis excentricus CB
48]
Length = 334
Score = 87.8 bits (216), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 84/273 (30%), Positives = 110/273 (40%), Gaps = 63/273 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYC-------ESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
+VLYED L+ VNKP G+ + L + G+S G L G
Sbjct: 97 EVLYEDAHLIVVNKPAGMAAHPAPGTADGTLVNALLFHCGESLSGIGGVLRPG------- 149
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +RLD+DTSGVMV KS L + F+ H + + Y AL G APK T+ +
Sbjct: 150 --IVHRLDKDTSGVMVAAKSDAAHRGLSELFSRHDIDRAYEALVRG-APKTASGTVTTRI 206
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVL-SVNGEGSFKEPSELQEHEENNIV 256
GRS ++ VL G R+ ++ + L S GE
Sbjct: 207 GRSPHDRKKMA-------VLKSGG--REAISHYRTLNSFGGE------------------ 239
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY------EGVYE-W 309
K VR +GRTHQIR+H YLG GD Y V E
Sbjct: 240 -----------KPVAARVRCTLETGRTHQIRVHMAYLGCPCLGDPVYGSGAPHRAVAEAL 288
Query: 310 NGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA L F HPVTG + +APLP
Sbjct: 289 KTLSFARQALHAAHLGFVHPVTGERLAFEAPLP 321
>gi|381190145|ref|ZP_09897669.1| ribosomal large subunit pseudouridine synthase D [Thermus sp. RL]
gi|384430604|ref|YP_005639964.1| RluA family pseudouridine synthase [Thermus thermophilus
SG0.5JP17-16]
gi|333966072|gb|AEG32837.1| pseudouridine synthase, RluA family [Thermus thermophilus
SG0.5JP17-16]
gi|380452175|gb|EIA39775.1| ribosomal large subunit pseudouridine synthase D [Thermus sp. RL]
Length = 308
Score = 87.8 bits (216), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 78/260 (30%), Positives = 110/260 (42%), Gaps = 55/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++A+NKP G+ + G + +G L+ + +RLD
Sbjct: 74 ILYEDEDVLALNKPPGLLTHPAPGVYSGTVVNLLLARYYGPVEKGPP-ELVRPGIVHRLD 132
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSGV+V+ K V L +AF D V K Y+A+ G + I I H R +
Sbjct: 133 KDTSGVLVVAKHGGVLEGLARAFRDRLVMKRYLAITEGHPREGVLIAPIGRHPRERH--- 189
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
++ GG R T F+VL+ G +
Sbjct: 190 ---------KMHVGGLAARYAETEFQVLATAGPYA------------------------- 215
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR--YDGHE-LHAE 322
LV A P +GRTHQIR+H +YLG I GD E G+R + G + LHA
Sbjct: 216 -------LVEARPHTGRTHQIRVHLKYLGAPILGD-------ELYGRRSPHIGRQALHAY 261
Query: 323 SLSFDHPVTGCPVMVQAPLP 342
L HP TG + AP+P
Sbjct: 262 ELRIPHPRTGRILEFLAPVP 281
>gi|254361221|ref|ZP_04977365.1| pseudouridylate synthase [Mannheimia haemolytica PHL213]
gi|452745187|ref|ZP_21945024.1| 23S rRNA pseudouridylate synthase C [Mannheimia haemolytica
serotype 6 str. H23]
gi|153092712|gb|EDN73761.1| pseudouridylate synthase [Mannheimia haemolytica PHL213]
gi|452086797|gb|EME03183.1| 23S rRNA pseudouridylate synthase C [Mannheimia haemolytica
serotype 6 str. H23]
Length = 320
Score = 87.8 bits (216), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 73/262 (27%), Positives = 117/262 (44%), Gaps = 56/262 (21%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S +LYEDE ++ +NKP G+ ++ A R L L +R
Sbjct: 96 SQILYEDESMLVINKPSGIAVHGGSGLSFGVIEALRALRPQARF----------LELVHR 145
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DRDTSG++++ K L + + V K Y+AL G
Sbjct: 146 IDRDTSGILLVAKKRSALRSLHEQLREKVVQKDYLALV--------------------RG 185
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
W+ + +V+ + ++ + ++ V+ EG +PSE +E++
Sbjct: 186 QWQAHT-----KVIKAPLLKNELASGERIVRVSEEG---KPSE------TRFSIEERYA- 230
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD-GHE---L 319
N LV+A P +GRTHQIR+H QY G I D KY G E++ K + G + L
Sbjct: 231 ------NATLVKASPITGRTHQIRVHTQYAGHPIALDDKY-GDAEFDSKMKEVGLQRLFL 283
Query: 320 HAESLSFDHPVTGCPVMVQAPL 341
HA ++ F+HP TG +++ APL
Sbjct: 284 HAHAIRFEHPKTGEEMVITAPL 305
>gi|153953824|ref|YP_001394589.1| pseudouridine synthase [Clostridium kluyveri DSM 555]
gi|219854440|ref|YP_002471562.1| hypothetical protein CKR_1097 [Clostridium kluyveri NBRC 12016]
gi|146346705|gb|EDK33241.1| Predicted pseudouridine synthase [Clostridium kluyveri DSM 555]
gi|219568164|dbj|BAH06148.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
Length = 305
Score = 87.8 bits (216), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 87/318 (27%), Positives = 140/318 (44%), Gaps = 83/318 (26%)
Query: 41 NAPQTQQNYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQ 100
N + NY T + + L A+ + K KL D+LYED ++ VNKPQ
Sbjct: 45 NHRMKKSNYKTKTGDNIK-----VSLPDAVELNIKGEDIKL---DILYEDSDVIVVNKPQ 96
Query: 101 G--------VYCESVLASV--PCL--LAGDSAESKSGRLSEGTKLNLLELHLANRLDRDT 148
G VY +++ ++ C L+G + ++ G + +R+D+DT
Sbjct: 97 GMIVHPASGVYTGTLVNALLNHCREDLSGINGIARPG--------------IVHRIDKDT 142
Query: 149 SGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVY 208
SG++VI K+ +KL + DH +++ YIAL G K ++ ++ GR K ++
Sbjct: 143 SGILVIAKNDMSHNKLSEQLKDHSMTREYIALVEGII-KEEKGSLDKPIGRHKKDKIKM- 200
Query: 209 AASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAK 268
V+ GG + VT +EV+ FKE +
Sbjct: 201 ------AVVEGG---KRAVTHYEVIK-----RFKEYT----------------------- 223
Query: 269 KNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD--GHELHAESLSF 326
LV+ +GRTHQIR+H YLG + GD VY + ++++ G LHA+ L F
Sbjct: 224 ----LVKCILETGRTHQIRVHMCYLGHPVVGD----PVYGYKKQKFNLKGQLLHAQKLGF 275
Query: 327 DHPVTGCPVMVQAPLPLW 344
HP TG + Q +P +
Sbjct: 276 IHPGTGTYMEFQVEVPEY 293
>gi|452974551|gb|EME74371.1| RNA-pseudouridine synthase YlyB [Bacillus sonorensis L12]
Length = 304
Score = 87.4 bits (215), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 75/261 (28%), Positives = 116/261 (44%), Gaps = 54/261 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P L G + + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHLTGTLVNGLMAHCDDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y AL G P TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVKKTVTRKYTALVHGVIPH-DHGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ VT FEV +E ++ VVE +
Sbjct: 196 RQSMTVTRENGK---------HAVTHFEV---------------KERFDDFTVVECRL-- 229
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
+GRTHQIR+H +Y+G + GD KY + ++NG+ LHA
Sbjct: 230 ---------------ETGRTHQIRVHMKYIGFPLAGDPKYGPKKTIDFNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLP 342
L FDHP TG V +APLP
Sbjct: 270 GVLGFDHPRTGEYVEFEAPLP 290
>gi|253989177|ref|YP_003040533.1| 23S rRNA pseudouridine synthase [Photorhabdus asymbiotica]
gi|253780627|emb|CAQ83789.1| 23S rRNA pseudouridine synthase [Photorhabdus asymbiotica]
Length = 319
Score = 87.4 bits (215), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 81/275 (29%), Positives = 124/275 (45%), Gaps = 64/275 (23%)
Query: 76 SSLYKLSRSD--VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKL 133
+ L+K++ D +LYED++++ +NKP G A S + EG ++
Sbjct: 83 AKLHKVAALDGCILYEDDYILVINKPSGT-------------AVHGGSGLSFGVIEGLRV 129
Query: 134 NLLE---LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
E L L +RLDRDTSG+++I K V L + ++ K Y+AL G +W+
Sbjct: 130 LRPEAKFLELVHRLDRDTSGILLIAKKRSVLRALHEQLRLKQMQKDYLALVRG---QWQ- 185
Query: 191 ITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
+V A + +L G ++ V+GEG +PSE +
Sbjct: 186 ------------SHCKVVQAPLLKNILQSGE---------RIVKVSGEG---KPSETRFK 221
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
E N LVRA P +GRTHQIR+H QY+G I D +Y G ++
Sbjct: 222 IEERFT-------------NATLVRASPITGRTHQIRVHAQYVGHPIAFDDRY-GDKTFD 267
Query: 311 GKRYDGHE----LHAESLSFDHPVTGCPVMVQAPL 341
+ D LHA +L F HP TG + ++AP+
Sbjct: 268 SQLSDTGLNRLFLHASALKFTHPSTGETLRLEAPM 302
>gi|421080585|ref|ZP_15541503.1| 23S rRNA pseudouridylate synthase [Pectobacterium wasabiae CFBP
3304]
gi|401704597|gb|EJS94802.1| 23S rRNA pseudouridylate synthase [Pectobacterium wasabiae CFBP
3304]
Length = 326
Score = 87.4 bits (215), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 76/259 (29%), Positives = 111/259 (42%), Gaps = 54/259 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED++L+ +NKP G ++ G A R L L +RLD
Sbjct: 103 IIYEDDYLLVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 152
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + K Y+AL G +W+
Sbjct: 153 RDTSGVLLVAKKRSALRSLHEQLRLKGMQKDYLALVRG---QWQ-------------SHC 196
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PSE + E
Sbjct: 197 KVVQAPLLKNILQSGE---------RIVRVNSEG---KPSETRFKIEERF---------- 234
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYEWNGKRYDGHELHAE 322
++ LVRA P +GRTHQIR+H QY G I D +Y E + G LHA+
Sbjct: 235 ---EHATLVRASPVTGRTHQIRVHAQYAGHPIAFDDRYGDREFDQQLTGTGLKRLFLHAQ 291
Query: 323 SLSFDHPVTGCPVMVQAPL 341
+L F+HP TG + V+APL
Sbjct: 292 ALRFEHPNTGETLRVEAPL 310
>gi|157691873|ref|YP_001486335.1| pseudouridylate synthase [Bacillus pumilus SAFR-032]
gi|157680631|gb|ABV61775.1| pseudouridylate synthase [Bacillus pumilus SAFR-032]
Length = 288
Score = 87.4 bits (215), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 83/262 (31%), Positives = 108/262 (41%), Gaps = 59/262 (22%)
Query: 85 DVLYEDEWLVAVNK----PQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL 140
D+L+EDE ++ +NK P E S+ L AE +S RL+ +HL
Sbjct: 74 DILFEDEHVLVLNKRPYIPSIPSREHPEHSIANGLLHHYAE-QSVRLT---------VHL 123
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
NRLDRDTSGVM++ K S L KA V +TY A G +
Sbjct: 124 VNRLDRDTSGVMLVAKHRFAHSLLSKAQKSGAVKRTYRAFTHGMI-------------KE 170
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
K G R A G S++ MV + V
Sbjct: 171 KHGTIRAKIAR------KGDSIIERMVD----------------------DTGQEAVTHF 202
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELH 320
V D + N V +GRTHQIR+H QYLG + GD Y G E R + LH
Sbjct: 203 TVRAVDTELNMSDVALALETGRTHQIRVHMQYLGYPLIGDTLYGGTNE----RMNRQALH 258
Query: 321 AESLSFDHPVTGCPVMVQAPLP 342
+E+L F HP+TG + APLP
Sbjct: 259 SETLVFPHPMTGEEMTFSAPLP 280
>gi|406956024|gb|EKD84270.1| hypothetical protein ACD_39C00141G0003 [uncultured bacterium]
Length = 309
Score = 87.4 bits (215), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 77/263 (29%), Positives = 121/263 (46%), Gaps = 60/263 (22%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL----HLA 141
+LYED++++A+NKP G+ P AG + + TKL+ + +
Sbjct: 84 ILYEDKYIIAINKPAGLVVH------PG--AGKETTTVVSAVLGHTKLSPIGAPARPGIV 135
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWK-RITIISGHGRS 200
+RLD+DTSGVMV+ K+ + +L +AF+ ++ K Y+A+ G K RI + R
Sbjct: 136 HRLDKDTSGVMVLAKTREAHRRLAEAFSGRELEKEYLAIIQGHIVNRKGRIEVAI--ERD 193
Query: 201 KFGAWRVYAAS-DVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
K R+ A S D GR+ ++ FEV+ E+ E +++
Sbjct: 194 KIHRQRMKATSADRGRM---------AISLFEVV---------------EYLEGATLIKV 229
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
K + +GRTHQIR+H Y G + GD Y N + H L
Sbjct: 230 KIM-----------------TGRTHQIRVHMAYTGHPLLGDTTYGSKRLPN---HAKHFL 269
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
H+ L F HP+TG V ++AP+P
Sbjct: 270 HSHRLVFQHPITGKKVELEAPVP 292
>gi|126209339|ref|YP_001054564.1| 23S rRNA pseudouridylate synthase C [Actinobacillus
pleuropneumoniae serovar 5b str. L20]
gi|126098131|gb|ABN74959.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 5b str. L20]
Length = 321
Score = 87.4 bits (215), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 73/260 (28%), Positives = 115/260 (44%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++ +NKP G+ ++ A R L L +R+D
Sbjct: 98 ILYEDEVMLVINKPSGIAVHGGSGLSFGVIEALRALRPQARF----------LELVHRID 147
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + V K Y+AL G W
Sbjct: 148 RDTSGILLVAKKRSALRSLHEQLRKKVVQKDYLALV--------------------RGQW 187
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ + +V+ + ++ + ++ V+ EG +PSE +E++
Sbjct: 188 QAHT-----KVIKAPLLKNELASGERIVRVSEEG---KPSE------TRFSIEERYA--- 230
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK-RYDGHE---LHA 321
N LV+A P +GRTHQIR+H QY G I D KY G E++ K + G + LHA
Sbjct: 231 ----NATLVKASPVTGRTHQIRVHTQYAGHPIALDDKY-GEAEFDSKMKAAGLQRLFLHA 285
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
S+ F+HP TG +++ APL
Sbjct: 286 YSIRFEHPKTGEEMLITAPL 305
>gi|359788929|ref|ZP_09291894.1| pseudouridine synthase [Mesorhizobium alhagi CCNWXJ12-2]
gi|359255234|gb|EHK58162.1| pseudouridine synthase [Mesorhizobium alhagi CCNWXJ12-2]
Length = 331
Score = 87.4 bits (215), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 84/283 (29%), Positives = 119/283 (42%), Gaps = 70/283 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+L+ED+ L+ +NKP G+ L + GDS G G
Sbjct: 81 DILFEDDQLIVLNKPPGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGGVRRPG------- 133
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH----KVSKTYIALCIGPAPKWKRITI 193
+ +RLD+DTSGVMV+ K+ + L +AF DH + + YIAL + P+ + TI
Sbjct: 134 --IVHRLDKDTSGVMVVAKTDRAHQALSEAFADHGRASDLERAYIAL-VWNIPQRRAGTI 190
Query: 194 ISGHGRSKFGAWRVYAASDVGR--VLP-GGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
+ GR ASD R V+P G R VT + VL GE QE
Sbjct: 191 DAPLGR----------ASDRTRRAVVPEGRDDARHAVTHYAVLERFGEK--------QEE 232
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
+VE + +GRTHQIR+H ++G + GD Y +
Sbjct: 233 FARAALVECRL-----------------ETGRTHQIRVHMAHIGHPVIGDPDYGAAFRSK 275
Query: 311 GKR-----------YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
R + LHA L+F HPV+G + +APLP
Sbjct: 276 ANRLPEPLKSKVNAFPRQALHARLLAFRHPVSGELMRFEAPLP 318
>gi|334703593|ref|ZP_08519459.1| tRNA pseudouridine synthase C [Aeromonas caviae Ae398]
Length = 259
Score = 87.4 bits (215), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 80/260 (30%), Positives = 112/260 (43%), Gaps = 42/260 (16%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LY+D+WLVAVNKP G+ D AE++ + ++ +RLD
Sbjct: 16 LLYQDDWLVAVNKPSGLLVHRSWL--------DKAETRFAMQMTRDLIGGRHVYPVHRLD 67
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R TSGV++ VA L +AF +V K Y+AL G AP+ I K
Sbjct: 68 RPTSGVLLFALDPAVARTLTEAFAARQVHKEYLALVRGWAPEEGLIDYPLKEQLDKIAD- 126
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A SD R ++ VT+F L E V KK
Sbjct: 127 ---AFSDPDR------PAQEAVTAFRRL---------------HQVELPFAVSKK----- 157
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHE---LHA 321
LVR FP++GR HQ+R H +L I GD + +G + + + G + L A
Sbjct: 158 HPTSRYSLVRLFPKTGRKHQLRRHLDHLFHPIVGDTTHGDGRHNRFFREHYGCDRLLLIA 217
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
LSF+HPV P+ +QAPL
Sbjct: 218 HRLSFEHPVLKVPMRIQAPL 237
>gi|83854943|ref|ZP_00948473.1| ribosomal large subunit pseudouridine synthase C [Sulfitobacter sp.
NAS-14.1]
gi|83941466|ref|ZP_00953928.1| ribosomal large subunit pseudouridine synthase C [Sulfitobacter sp.
EE-36]
gi|83842786|gb|EAP81953.1| ribosomal large subunit pseudouridine synthase C [Sulfitobacter sp.
NAS-14.1]
gi|83847286|gb|EAP85161.1| ribosomal large subunit pseudouridine synthase C [Sulfitobacter sp.
EE-36]
Length = 349
Score = 87.4 bits (215), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 78/276 (28%), Positives = 117/276 (42%), Gaps = 53/276 (19%)
Query: 80 KLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL- 138
K RS V+Y D+ ++A+NKP G+ P ++ L++ L E
Sbjct: 87 KFIRSCVIYRDDHIIALNKPPGL---------PVQGGSGQSDRHVDALADALMFELDEKP 137
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISGH 197
L +RLD+DTSGV+++ ++ +A+ L +F + K Y A G P P+ +
Sbjct: 138 RLVHRLDKDTSGVLIMARTRSIAAALTASFRHRETRKIYWAAVAGVPHPR---------N 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSF-KEPSELQEHEENNIV 256
G KFG + + G GE + P +++ E
Sbjct: 189 GTIKFGLVKAFGHGARG---------------------EGEKMYCVHPKDMETTEGAKRA 227
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN-----G 311
A L A A K + P +GRTHQ+R H +G I GD KY G + N G
Sbjct: 228 TTDYATL-AQAGKRTCWMALIPVTGRTHQLRAHMAEIGHPIVGDGKYGGSGQENMGDGWG 286
Query: 312 KRYDGH-----ELHAESLSFDHPVTGCPVMVQAPLP 342
+ G LHA SL+ +HPVT + + APLP
Sbjct: 287 AQLGGDISKKLHLHARSLTLEHPVTKARLNLTAPLP 322
>gi|148377937|ref|YP_001256813.1| ribosomal large subunit pseudouridine synthaseD [Mycoplasma
agalactiae PG2]
gi|148291983|emb|CAL59375.1| Ribosomal large subunit pseudouridine synthaseD [Mycoplasma
agalactiae PG2]
Length = 305
Score = 87.4 bits (215), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 72/259 (27%), Positives = 121/259 (46%), Gaps = 48/259 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D+ YEDE+L+ +NKP G+ + L LS+ LL L + +R+
Sbjct: 77 DIRYEDEYLLILNKPSGLVVHPAPGHLNDTLVNALMYHFKNNLSDAN--GLLRLGIVHRI 134
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG+++I K ++ ++L K +H++ +TY+A+C G P + T I+
Sbjct: 135 DKDTSGLLIIAKDNETHNELAKMLKNHQIKRTYLAICEGILP--NKTTKIN--------- 183
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
LP + RD + +++S++ +G + S H + ++ K
Sbjct: 184 ------------LP---IQRD-TKNRKLMSIHKDG---KSSVTYVHMLKSFYIDNKPY-- 222
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHELHAES 323
LV+ +GRTHQIR+H Y+ + GD Y + V E+N + LHA
Sbjct: 223 -------SLVKCELETGRTHQIRVHLAYIKHPVYGDSIYGKSVDEFNQR------LHAYK 269
Query: 324 LSFDHPVTGCPVMVQAPLP 342
LSF HPV + V + +P
Sbjct: 270 LSFMHPVINKLIEVYSDIP 288
>gi|46143747|ref|ZP_00134463.2| COG0564: Pseudouridylate synthases, 23S RNA-specific
[Actinobacillus pleuropneumoniae serovar 1 str. 4074]
Length = 326
Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 73/260 (28%), Positives = 115/260 (44%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++ +NKP G+ ++ A R L L +R+D
Sbjct: 103 ILYEDEVMLVINKPSGIAVHGGSGLSFGVIEALRALRPQARF----------LELVHRID 152
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + V K Y+AL G W
Sbjct: 153 RDTSGILLVAKKRSALRSLHEQLRKKVVQKDYLALV--------------------RGQW 192
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ + +V+ + ++ + ++ V+ EG +PSE +E++
Sbjct: 193 QAHT-----KVIKAPLLKNELASGERIVRVSEEG---KPSE------TRFSIEERYA--- 235
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK-RYDGHE---LHA 321
N LV+A P +GRTHQIR+H QY G I D KY G E++ K + G + LHA
Sbjct: 236 ----NATLVKASPVTGRTHQIRVHTQYAGHPIALDDKY-GEAEFDSKMKAAGLQRLFLHA 290
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
S+ F+HP TG +++ APL
Sbjct: 291 YSIRFEHPKTGEEMLITAPL 310
>gi|221066026|ref|ZP_03542131.1| pseudouridine synthase, RluA family [Comamonas testosteroni KF-1]
gi|220711049|gb|EED66417.1| pseudouridine synthase, RluA family [Comamonas testosteroni KF-1]
Length = 358
Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 81/269 (30%), Positives = 116/269 (43%), Gaps = 57/269 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLAS-VPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
V+YEDE L+ +NKP G+ + LL G A + R + + +RL
Sbjct: 123 VVYEDEDLLVINKPAGLVVHPAPGNWTGTLLNGLLARDEKAR-------QVPRAGIVHRL 175
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG+MV+ ++ L+K +VS+ Y+AL KR + + GR
Sbjct: 176 DKDTSGLMVVARNRSTMDALIKMIAAREVSRQYLALAHKQWGSRKRREVDAPIGRDPRNR 235
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
R+ A D+ + PG + T F++L D
Sbjct: 236 LRM-AVVDLN-LHPG----KQARTDFDLL------------------------------D 259
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
DA + LVR +GRTHQIR+H LG + D Y G E +R LHA L
Sbjct: 260 GDAAHS--LVRCTLHTGRTHQIRVHMASLGHPLIADTLYGGQPEGGLER---QALHAFRL 314
Query: 325 SFDHPVTGCPVMVQAPLP--------LWG 345
+F+HPVT P++ APLP LWG
Sbjct: 315 AFEHPVTKKPLVHHAPLPQDMAGALDLWG 343
>gi|451343617|ref|ZP_21912688.1| RluA family pseudouridine synthase [Eggerthia catenaformis OT 569 =
DSM 20559]
gi|449337714|gb|EMD16871.1| RluA family pseudouridine synthase [Eggerthia catenaformis OT 569 =
DSM 20559]
Length = 302
Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 77/284 (27%), Positives = 114/284 (40%), Gaps = 84/284 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YED+ ++ VNKP G+ S + GT +N L H
Sbjct: 81 DIVYEDKDVIVVNKPSGMIVHP-----------------SSGIYSGTLVNALLYHCHDLS 123
Query: 140 ---------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
+ +R+D++TSG+++ K+ L K +H V + YIAL G P K
Sbjct: 124 AINGVTRPGIVHRIDKETSGLIMAAKNDLSHQSLSKQLEEHTVIRRYIALVHGEIPHTKG 183
Query: 191 ITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
I++ GR + ++ S G+ + +T+F VL
Sbjct: 184 -RIVAPIGRDQRDRQKMNVTSHNGK---------EAITNFTVL----------------- 216
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
+ KN LV +GRTHQIR+H Y+G + GD KY
Sbjct: 217 ---------------ERFKNMTLVECRLETGRTHQIRVHMNYIGYPVYGDPKY------- 254
Query: 311 GKRYD----GHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
G R D G LHA+ L F HPVTG ++ + LP W L
Sbjct: 255 GYRNDDISHGQYLHAKLLGFKHPVTGKELLFECKLPDWFENKLN 298
>gi|157691654|ref|YP_001486116.1| pseudouridylate synthase [Bacillus pumilus SAFR-032]
gi|157680412|gb|ABV61556.1| pseudouridylate synthase [Bacillus pumilus SAFR-032]
Length = 302
Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 79/265 (29%), Positives = 116/265 (43%), Gaps = 65/265 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
+VL+EDE L+ V KP G LA++ + E K R
Sbjct: 84 EVLFEDEHLLIVQKPAGRPTHPNEQGQTGTLANLVAFHFQANGEEKRVR----------- 132
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
H+ +RLD+DTSG ++ K + L + + + +TYIA+ G K K+ TI +
Sbjct: 133 -HI-HRLDQDTSGTVIFAKHRLAHAALDQMLSKKTIKRTYIAIAEGLFKK-KKGTIDAAI 189
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR K A R R+ P G + VT F+V+ VN
Sbjct: 190 GRDKHHAVR-------RRISPTG---QKAVTHFQVMDVN--------------------- 218
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
K+ L A V+ +GRTHQIR+H LG + GD Y+GV E+ +
Sbjct: 219 -KRLQLTA--------VKLQLETGRTHQIRVHLSSLGHPLAGDTLYDGVREYINRC---- 265
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA+ + HP TG ++++APLP
Sbjct: 266 ALHAKQVDMKHPFTGEHLIIEAPLP 290
>gi|329850247|ref|ZP_08265092.1| RNA pseudouridylate synthase family protein [Asticcacaulis
biprosthecum C19]
gi|328840562|gb|EGF90133.1| RNA pseudouridylate synthase family protein [Asticcacaulis
biprosthecum C19]
Length = 267
Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 77/262 (29%), Positives = 109/262 (41%), Gaps = 52/262 (19%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN 142
+S V+YED ++ NKP G+ + GD + + K N L +
Sbjct: 44 KSMVIYEDADIMGFNKPSGLSSQGG--------RGD-GHNLDDMMWAFAKSNGKRPKLVH 94
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLDRDTSG++++ K+ S L KA KTY+A+ G A R T+ + R +
Sbjct: 95 RLDRDTSGILLVAKTQPAVSFLGKAMIRRAFDKTYLAIVSG-AELPDRFTVDAPLRREEV 153
Query: 203 G--AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
G AW A D L T+FEVL + +
Sbjct: 154 GREAWSRVCAPDHPDALTA-------QTTFEVLKRGDDAA-------------------- 186
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELH 320
L++ P +GR HQIR+H +LG I GDV+Y G G+ LH
Sbjct: 187 ------------LIQCSPHTGRMHQIRVHLAHLGTPIAGDVRYGGALSVGGRGVPRLMLH 234
Query: 321 AESLSFDHPVTGCPVMVQAPLP 342
A SL+F HP G + AP+P
Sbjct: 235 ALSLTFPHPAGGDKTL-SAPIP 255
>gi|329889164|ref|ZP_08267507.1| RNA pseudouridylate synthase family protein [Brevundimonas diminuta
ATCC 11568]
gi|328844465|gb|EGF94029.1| RNA pseudouridylate synthase family protein [Brevundimonas diminuta
ATCC 11568]
Length = 241
Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 85/270 (31%), Positives = 111/270 (41%), Gaps = 68/270 (25%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL------ 136
RS V++ED L+A NKP G+ S+ GR+ T +LL
Sbjct: 18 RSWVVHEDAHLIAFNKPSGL------------------SSQGGRIQANTLDDLLWAFARS 59
Query: 137 ---ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIAL-CIGPAPKWKRIT 192
L +RLDRDTSGV++ K+ A KA K KTY+AL P PK RIT
Sbjct: 60 NGKRPELVHRLDRDTSGVILAAKTKPAAGFFGKAMQMRKFQKTYLALVAAAPEPKSGRIT 119
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
A R ++GR S +R V F+ G S E
Sbjct: 120 ----------SALR---REEIGRE----SYMR--VVDFDAPGAQGAAS---GYRTLASSE 157
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
+ VVE P +GR HQ+R+H +G + GDV+Y G + G+
Sbjct: 158 DGAVVELS-----------------PETGRMHQLRVHMASIGRPLVGDVRYGGALTFAGR 200
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA LSF HP G V V+AP P
Sbjct: 201 AAPRLMLHAAKLSFPHP-DGGRVTVEAPEP 229
>gi|90413248|ref|ZP_01221243.1| putative 23S rRNA ribosomal pseudouridinesynthase [Photobacterium
profundum 3TCK]
gi|90325800|gb|EAS42258.1| putative 23S rRNA ribosomal pseudouridinesynthase [Photobacterium
profundum 3TCK]
Length = 314
Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 77/278 (27%), Positives = 116/278 (41%), Gaps = 69/278 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
V+YED+ L+ +NKP G + G + + + + L L +R+D
Sbjct: 96 VIYEDDHLLVLNKPSGT----------AVHGGSGLKFGAIEALRALRPDARYLELVHRID 145
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K KL + F + V K Y AL +G +WK
Sbjct: 146 RDTSGILLVAKKRSALRKLQEQFREKTVQKYYFALVMG---EWK---------------- 186
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
AS P ++++ V S ++ NG+ S L+ E
Sbjct: 187 ----ASCKKVTAP---LLKNEVNSIVRVNQNGKASDTRFKVLERFE-------------- 225
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------- 318
+ LV+A P +GRTHQIR+HCQY G I D +Y R+D +
Sbjct: 226 ----HATLVQASPVTGRTHQIRVHCQYEGHPIAWDDRY------GDPRFDAYTKKTGLNR 275
Query: 319 --LHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
LHA ++ F HP T PV + APL T +L + K
Sbjct: 276 LFLHAANIKFTHPSTDEPVDISAPLDALLTRSLDNLRK 313
>gi|384439128|ref|YP_005653852.1| Pseudouridine synthase [Thermus sp. CCB_US3_UF1]
gi|359290261|gb|AEV15778.1| Pseudouridine synthase [Thermus sp. CCB_US3_UF1]
Length = 310
Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 78/260 (30%), Positives = 107/260 (41%), Gaps = 55/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRL---SEGTKLNLLELHLAN 142
VLYEDE L+ +NKP G+ P + G + GR E + L+ + +
Sbjct: 74 VLYEDEDLLVLNKPPGLLTHPA----PGVYTGTVVNALLGRYFPPVEAERPELVRPGIVH 129
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD+DTSGV+V+ K L +AF D V K Y+AL G K T+++ GR
Sbjct: 130 RLDKDTSGVLVVAKHPGALEALARAFRDRLVMKRYLALTEG---YPKEGTLVAPIGRHPV 186
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
+++ GG R T F+VL+ G +
Sbjct: 187 ERHKMHV---------GGVAPRYAETHFQVLATAGPYA---------------------- 215
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
LV A P +GRTHQIR+H ++L I GD VY LHA
Sbjct: 216 ----------LVEARPHTGRTHQIRVHLKHLKAPILGD----EVYGRKSPHIGRQALHAY 261
Query: 323 SLSFDHPVTGCPVMVQAPLP 342
L HP TG + AP+P
Sbjct: 262 ELRIPHPRTGRLLEFLAPVP 281
>gi|114570313|ref|YP_756993.1| ribosomal large subunit pseudouridine synthase C [Maricaulis maris
MCS10]
gi|114340775|gb|ABI66055.1| ribosomal large subunit pseudouridine synthase C [Maricaulis maris
MCS10]
Length = 330
Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 88/292 (30%), Positives = 126/292 (43%), Gaps = 57/292 (19%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLP + + R MS + + L V+Y+D+ L+A NKP G+ +
Sbjct: 65 PPLPEPGERPPVNR-MSDEDIAYVKSL----VIYQDDELIAFNKPAGLAVQ--------- 110
Query: 115 LAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVS 174
G + + L L +RLD+DTSG++++ K K ++L KAF HK
Sbjct: 111 -GGSKTTRHLDGMLDAFGEGLDRPRLVHRLDKDTSGILIVGKGPKATARLAKAFQSHKTR 169
Query: 175 KTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVL 233
KTY A+ IG P PK I G R AAS V + E +
Sbjct: 170 KTYWAIAIGVPKPKMGEIK----------GFMRKAAASGVD-------------SERETM 206
Query: 234 SVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYL 293
G G E +H VV + +A K + + +R P +GRTHQ+R+H +
Sbjct: 207 VAAGHG-----DEGAQHALTRYVV----IGEAGQKASWVALR--PVTGRTHQLRVHLAAM 255
Query: 294 GISIRGDVKY---EGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G +I GD KY E G+R LHA L P G P+++ A LP
Sbjct: 256 GTAILGDKKYTCHRPAPEDLGRRLC---LHARRLEIPRP-GGKPLVLTADLP 303
>gi|78189580|ref|YP_379918.1| pseudouridine synthase RluD [Chlorobium chlorochromatii CaD3]
gi|78171779|gb|ABB28875.1| ribosomal large subunit pseudouridine synthase D [Chlorobium
chlorochromatii CaD3]
Length = 363
Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 80/278 (28%), Positives = 122/278 (43%), Gaps = 53/278 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED+ L+ +NK G+ + LA ++ G +E + + + +RLD
Sbjct: 115 IMYEDDDLMVINKEPGMVVHPAFGNWTGTLA-NAILHHLGNSAEALDASEMRPGIVHRLD 173
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG+++I K+ KL + F + KV K Y AL G PK TI + GRS
Sbjct: 174 KDTSGLIIIAKNPIALHKLARQFAERKVGKIYKALTWG-VPKQASGTITTNIGRSHKN-- 230
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
R ++ +F + G+ + + EEN +E +V+
Sbjct: 231 ------------------RKVMANFPFEGLEGKTAITDYCV----EEN---LEWFSVMSL 265
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVY---------EWNGKR--- 313
+GRTHQIR+H Q+LG+ I GDV Y G E K
Sbjct: 266 RL-----------HTGRTHQIRVHLQHLGLPIVGDVTYGGATPRALPFSKSEHFVKNLLE 314
Query: 314 -YDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
LHAE+L+F HP TG + + APLP +AL+
Sbjct: 315 LLPRQALHAETLTFHHPTTGEEITLSAPLPEDMLQALE 352
>gi|320449663|ref|YP_004201759.1| ribosomal large subunit pseudouridine synthase D [Thermus
scotoductus SA-01]
gi|320149832|gb|ADW21210.1| ribosomal large subunit pseudouridine synthase D [Thermus
scotoductus SA-01]
Length = 308
Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 79/269 (29%), Positives = 109/269 (40%), Gaps = 60/269 (22%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGR---LSEGTKLNLLELHLAN 142
VLYEDE L+ +NKP G+ P + G + GR L E + + + +
Sbjct: 77 VLYEDEDLLVLNKPAGLLTHPA----PGVYTGTVVNALLGRYFPLQEAERPEEVRPGIVH 132
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD+DTSGV+V+ K L +AF D V K Y+A+ G K T+I+ GR
Sbjct: 133 RLDKDTSGVLVVAKHGGALEALARAFRDRLVMKRYLAITEG---HPKEGTLIAPIGRHPV 189
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
+++ GG R T F +L+ G +
Sbjct: 190 ERHKMHV---------GGIAPRYAETEFRILATAGPYA---------------------- 218
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
LV A P +GRTHQIR+H +YL I GD +Y LHA
Sbjct: 219 ----------LVEARPHTGRTHQIRVHLKYLRAPILGD----ELYGRPSPHIPRQALHAY 264
Query: 323 SLSFDHPVTGCPVMVQAPLP-----LWGT 346
L HP TG + +AP+P WG
Sbjct: 265 ELRIPHPRTGRFLEFRAPVPRDMVKAWGA 293
>gi|398304126|ref|ZP_10507712.1| pseudouridylate synthase [Bacillus vallismortis DV1-F-3]
Length = 303
Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 77/275 (28%), Positives = 120/275 (43%), Gaps = 59/275 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P L G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHLTGTLVNGLMAHCTDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLI-SHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ A D ++ VT F VL F++ +
Sbjct: 196 RQSMTVARDG----------KNAVTHFHVLE-----RFQDFT------------------ 222
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 223 ---------LVECQLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTIDFNGQAL 266
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
HA L FDHP TG V +APLP E ++S K
Sbjct: 267 HAGILGFDHPRTGEYVEFEAPLPDDMAELIESLRK 301
>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 = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 73/266 (27%), Positives = 114/266 (42%), Gaps = 47/266 (17%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+V+YEDE L +NKP+G+ + L GRLS ++ + +RL
Sbjct: 74 EVVYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFRGRLSSIN--GVIRPGIVHRL 131
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG++V+ K+ + KL +A H++ + Y A+C G K I + GR
Sbjct: 132 DKDTSGLLVVAKTDEAHVKLSEALKSHQIKRIYYAICEG-VLKEDSGVINAPIGRHPVNR 190
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
++ V+P G ++ VT FEVL + +F
Sbjct: 191 LKM-------AVVPNG---KEAVTYFEVLERFDKYTF----------------------- 217
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
V+ ++GRTHQIR+H Y+G + GD Y G +G LHA +
Sbjct: 218 ---------VKLRLKTGRTHQIRVHMSYIGYPLLGDGTYGRAKNEFG--VEGQVLHAGEI 266
Query: 325 SFDHPVTGCPVMVQAPLPLWGTEALQ 350
F HP+T + A LP + + L
Sbjct: 267 EFVHPITSEVLHFSAELPEYFLKILN 292
>gi|262195687|ref|YP_003266896.1| pseudouridine synthase [Haliangium ochraceum DSM 14365]
gi|262079034|gb|ACY15003.1| pseudouridine synthase, RluA family [Haliangium ochraceum DSM
14365]
Length = 322
Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 80/268 (29%), Positives = 115/268 (42%), Gaps = 59/268 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLLAGDSAESKSGRLSEGTKLNLLELH 139
D+ YEDE ++ V+KP G+ V LLA S G L
Sbjct: 90 DICYEDEHIIVVDKPAGLVVHPAPGHPDGTLVNALLAHCHDLSGIG--------GALRPG 141
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
+ +RLD+DTSGVMV TK+ +V+ F H++ + Y+A+ + P P+ R TI + HGR
Sbjct: 142 IVHRLDKDTSGVMVATKTEIAHHAMVETFQAHRLERAYLAV-VAPPPEPPRGTISTLHGR 200
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
V+ GRV G + +T + V V G + E
Sbjct: 201 HP-----VHRKKFSGRVSRG----KQAITQYRVERVFG----------------RLAAEV 235
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-----EGVYEWNGKRY 314
+ L+ +GRTHQIR+H +G + GDV Y +GV +
Sbjct: 236 RCQLE---------------TGRTHQIRVHLSEMGAPLIGDVLYGRRYRDGVLAPLARAL 280
Query: 315 DGHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L+F HPVTG P+ + P P
Sbjct: 281 GRQALHATLLAFAHPVTGAPLRFERPPP 308
>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 = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 77/277 (27%), Positives = 109/277 (39%), Gaps = 71/277 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D+L+EDE L+AVNKP P ++ + SG L+ + +L
Sbjct: 116 DILFEDEHLIAVNKP------------PGMVVHPARGHWSGTLTSALAFHFQQLSTVGGQ 163
Query: 140 ----LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ +RLDRDTSGV+++ K+ V L F D +K Y A+ G P R +
Sbjct: 164 HRPGIVHRLDRDTSGVIIVAKTDPVHFSLAAQFADRTTAKEYFAITAG-VPDRDRDVVSQ 222
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNI 255
G F ++ + PG S RD T F VL +H
Sbjct: 223 PIGIHPFHREKMA-------IRPGHSTSRDAETMFHVL-----------ERFAQHAA--- 261
Query: 256 VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY- 314
V P++GRTHQIR+H ++ + D Y G E
Sbjct: 262 ------------------VECLPKTGRTHQIRVHLAHVRTPVLCDKLYGGRAEITQGELV 303
Query: 315 -DG--------HELHAESLSFDHPVTGCPVMVQAPLP 342
DG LHA LS +HP TG + ++APLP
Sbjct: 304 RDGSTEVVLNRQALHARKLSINHPKTGERLTIEAPLP 340
>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 = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 75/267 (28%), Positives = 109/267 (40%), Gaps = 64/267 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
++LYED+ L +NKP GV A G L G L +L
Sbjct: 86 EILYEDKHLAVINKPPGVVVHP------------GAGHYEGTLVHGLLARLKDLSGIGGE 133
Query: 140 ----LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ +RLD+DTSG++V+ K K L + F D ++ K Y+AL G P+ I
Sbjct: 134 LRPGIVHRLDKDTSGLLVVAKDDKTHQALTQMFKDREIKKIYLALVHG-VPRLSAGKIEK 192
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNI 255
GR ++ + GR + +T + V
Sbjct: 193 PIGRHPVNRQKMSVHAKTGR---------EALTFYRVRER-------------------- 223
Query: 256 VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD 315
K A+L+ + P++GRTHQIR+H +G I GD Y G +G +
Sbjct: 224 -FPKAALLEVE-----------PKTGRTHQIRVHLASIGHPIVGDELYGGA-RPHGPKAR 270
Query: 316 GHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L+F HPVTG + +APLP
Sbjct: 271 RQMLHAYRLAFKHPVTGKELSFEAPLP 297
>gi|299530513|ref|ZP_07043933.1| pseudouridine synthase, RluA family protein [Comamonas testosteroni
S44]
gi|298721489|gb|EFI62426.1| pseudouridine synthase, RluA family protein [Comamonas testosteroni
S44]
Length = 352
Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 81/269 (30%), Positives = 116/269 (43%), Gaps = 57/269 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLAS-VPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
V+YEDE L+ +NKP G+ + LL G A + R + + +RL
Sbjct: 123 VVYEDEDLLVINKPAGLVVHPAPGNWTGTLLNGLLARDEKAR-------QVPRAGIVHRL 175
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG+MV+ ++ L+K +VS+ Y+AL KR + + GR
Sbjct: 176 DKDTSGLMVVARNRSTMDALIKMIAAREVSRQYLALAHKQWGSRKRREVDAPIGRDPRNR 235
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
R+ A D+ + PG + T F++L D
Sbjct: 236 LRM-AVVDLN-LHPG----KQARTDFDLL------------------------------D 259
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
DA + LVR +GRTHQIR+H LG + D Y G E +R LHA L
Sbjct: 260 GDAAHS--LVRCTLHTGRTHQIRVHMASLGHPLIADTLYGGKPEGGLER---QALHAFRL 314
Query: 325 SFDHPVTGCPVMVQAPLP--------LWG 345
+F+HPVT P++ APLP LWG
Sbjct: 315 AFEHPVTKKPLVHYAPLPQDMAGALDLWG 343
>gi|227824343|ref|ZP_03989175.1| pseudouridine synthase [Acidaminococcus sp. D21]
gi|226904842|gb|EEH90760.1| pseudouridine synthase [Acidaminococcus sp. D21]
Length = 311
Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 82/271 (30%), Positives = 114/271 (42%), Gaps = 75/271 (27%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH------ 139
+LYEDE ++ VNKP+G+ AG+ GT +N L H
Sbjct: 86 ILYEDEDVIVVNKPRGMVVHPA--------AGNYT---------GTLVNALLYHCKDLSG 128
Query: 140 --------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
+ +RLD+DTSGVMV K+ + L + D + +TYIA+ G K R
Sbjct: 129 INGVVRPGIVHRLDKDTSGVMVCAKNDRAHLSLSQQIKDKEAKRTYIAVVRGNI-KDDRG 187
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
I + R R+ V+P G R VT +EVL G +
Sbjct: 188 HIETLIDRDPKDRMRMA-------VVPSGG--RLAVTDYEVLERYGRFT----------- 227
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
+VR ++GRTHQIR+H YLG + GD KY+ +
Sbjct: 228 ---------------------VVRCRLQTGRTHQIRVHMTYLGHPLVGDPKYQP--QKTC 264
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
DG LH+E+L+F HP TG + APLP
Sbjct: 265 FSIDGQALHSETLTFRHPRTGKIMSFTAPLP 295
>gi|407693173|ref|YP_006817962.1| 23S rRNA pseudouridylate synthase C [Actinobacillus suis H91-0380]
gi|407389230|gb|AFU19723.1| 23S rRNA pseudouridylate synthase C [Actinobacillus suis H91-0380]
Length = 320
Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 71/259 (27%), Positives = 113/259 (43%), Gaps = 54/259 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G+ ++ A R L L +R+D
Sbjct: 98 ILYEDDVMLVINKPSGIAVHGGSGLSFGVIEALRALRPQARF----------LELVHRID 147
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + V K Y+AL G W
Sbjct: 148 RDTSGILLVAKKRSALRNLHEQLREKVVQKDYLALV--------------------RGQW 187
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ + +V+ + ++ + ++ V+ EG +PSE +E++
Sbjct: 188 QSHV-----KVIRAPLLKNELASGERIVKVSEEG---KPSE------TRFAIEERYT--- 230
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHE--LHAE 322
N LV+A P +GRTHQIR+H QY G I D KY E ++ K H LHA
Sbjct: 231 ----NATLVKASPVTGRTHQIRVHTQYAGHPIALDDKYGEAEFDSKMKAVGLHRLFLHAY 286
Query: 323 SLSFDHPVTGCPVMVQAPL 341
S+ F+HP TG +++ APL
Sbjct: 287 SIRFEHPKTGEEMLITAPL 305
>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 = 86.7 bits (213), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 75/275 (27%), Positives = 120/275 (43%), Gaps = 64/275 (23%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLA-------GDSAESKSGRLSEGTKLNLLEL 138
+LYEDE ++ V+KP+G+ + L GD+ S +G + G
Sbjct: 88 ILYEDEHIIVVDKPKGMVVHPAAGNYSGTLVNALMKHCGDNLSSINGVIRPG-------- 139
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
+ +R+D+DTSGV+V+ KS++ KL +H +++ YIAL G + + I + G
Sbjct: 140 -IVHRIDKDTSGVLVVAKSNEAHEKLSMMLKEHDINRVYIALVHG-IIREEAGKIDAPIG 197
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
R ++ + G R VT F+VL FK+ + L+ E
Sbjct: 198 RHPVDRKKMAVNTKNG---------RRAVTHFKVLE-----RFKDATMLEVKLE------ 237
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--DG 316
+GRTHQIR+H Y+G I GD VY +Y +G
Sbjct: 238 ---------------------TGRTHQIRVHMSYIGYPIIGDT----VYGRKKDKYNIEG 272
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHA+ L F HP+T + ++ LP + + L+
Sbjct: 273 QALHAKLLGFVHPITNEYMEFESELPEYFVKLLEE 307
>gi|320102981|ref|YP_004178572.1| RluA family pseudouridine synthase [Isosphaera pallida ATCC 43644]
gi|319750263|gb|ADV62023.1| pseudouridine synthase, RluA family [Isosphaera pallida ATCC 43644]
Length = 432
Score = 86.7 bits (213), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 78/283 (27%), Positives = 122/283 (43%), Gaps = 62/283 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKL-NLLELHLANRL 144
V+YED+WL ++KP G+ + +G + R ++L + +RL
Sbjct: 174 VIYEDQWLSIIDKPAGMVTHPGKGN----WSGTVVNALQHRYDTLSQLAGSTRPGVVHRL 229
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
DRDT+G++++ + + KL + F + K Y+A+C G P+ R
Sbjct: 230 DRDTTGLLIVARDDTIHGKLAQLFETRTIEKEYLAICSG-IPERDR-------------D 275
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
W + + L VR E +++ GE P+ VVE+ D
Sbjct: 276 W-------IDQPLGPHPTVR------EKMAIRGEADGGRPARTFYE-----VVER---FD 314
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG--------VYEWNGKRYDG 316
A LVR P +GRTHQIR+H ++G+ I D Y G + W R D
Sbjct: 315 RFA-----LVRCQPLTGRTHQIRVHLTHVGLPILADKLYSGRDRITRGDLLGWQA-RGDD 368
Query: 317 HE--------LHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
H+ LHA L F HP TG P+ +++PLP E L++
Sbjct: 369 HDHVLLTRQALHAHRLKFLHPATGEPLEIRSPLPPDMAETLET 411
>gi|347761705|ref|YP_004869266.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Gluconacetobacter xylinus NBRC 3288]
gi|347580675|dbj|BAK84896.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Gluconacetobacter xylinus NBRC 3288]
Length = 325
Score = 86.7 bits (213), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 82/292 (28%), Positives = 126/292 (43%), Gaps = 59/292 (20%)
Query: 55 PPLPAISKDIEL-TRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLAS 110
PP+P ++ L R + + K+ V+Y D+ ++ +NKP G+ + +
Sbjct: 64 PPIPNANRPPPLAVRPLDERQVREINKM----VIYRDDHVIVLNKPAGIAVQGGPGITHH 119
Query: 111 VPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTD 170
+ LL G R L +R+DRDTSG++++ ++ VA+KL AF
Sbjct: 120 IDALLDGLRENPDDPRPR-----------LVHRIDRDTSGLLLVARTPGVAAKLAAAFRG 168
Query: 171 HKVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTS 229
V K Y A+ +G P+P T I +K GA
Sbjct: 169 RDVHKVYWAVVVGRPSPA----TGIIDQPLTKLGA------------------------- 199
Query: 230 FEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLH 289
G G+ +E + + + + E + VLDA A+K L + P +GRTHQ+R+H
Sbjct: 200 -------GAGAISVVAERGDPDAVHALSEYE-VLDAAARKMSWLALS-PLTGRTHQLRVH 250
Query: 290 CQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPL 341
C+ LG I GD KY G D LHA L HP G ++V+A L
Sbjct: 251 CEALGNPILGDPKYGGDAAHVAGFADRLHLHARRLELPHPAGGT-LVVEADL 301
>gi|254512315|ref|ZP_05124382.1| ribosomal large subunit pseudouridine synthase C [Rhodobacteraceae
bacterium KLH11]
gi|221536026|gb|EEE39014.1| ribosomal large subunit pseudouridine synthase C [Rhodobacteraceae
bacterium KLH11]
Length = 347
Score = 86.7 bits (213), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 86/305 (28%), Positives = 125/305 (40%), Gaps = 65/305 (21%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLP + R + + + K+ +S V+Y+D+ ++A+NKP G+ +
Sbjct: 65 PPLPDADHKPAVVRHRVSDADA---KMIQSCVIYKDDQVLALNKPHGLPVQ--------- 112
Query: 115 LAGDSAESKS-GRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHK 172
G S +++ LSE + E L +RLD+DTSGV+++ ++ A L AF
Sbjct: 113 --GGSGQTRHVDSLSEALRFGYDENPRLVHRLDKDTSGVLLMARTRDAAKALTAAFRHRN 170
Query: 173 VSKTYIALCIG-PAPKWKRITI----ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMV 227
K Y AL G P P I SGHG+ G + PG +
Sbjct: 171 TRKIYWALVAGVPTPYLGEIKTGLVKASGHGKQGEGEKMIALHPSEVNDTPGAKRAHTLY 230
Query: 228 TSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIR 287
+ V G ++ V P +GRTHQ+R
Sbjct: 231 ATL--YRVAGRAAW--------------------------------VAMEPVTGRTHQLR 256
Query: 288 LHCQYLGISIRGDVKYEGVYEWN-----GKRYDG-----HELHAESLSFDHPVTGCPVMV 337
H +G I GD KY G + N G + G LHA SLSF+HP+T PV +
Sbjct: 257 AHMAAIGHPIIGDGKYGGSGQENLGDGWGAQLGGIISKKLHLHARSLSFEHPITRKPVSL 316
Query: 338 QAPLP 342
APLP
Sbjct: 317 AAPLP 321
>gi|350265859|ref|YP_004877166.1| RluA family pseudouridine synthase [Bacillus subtilis subsp.
spizizenii TU-B-10]
gi|349598746|gb|AEP86534.1| pseudouridine synthase, RluA family protein [Bacillus subtilis
subsp. spizizenii TU-B-10]
Length = 303
Score = 86.7 bits (213), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 76/272 (27%), Positives = 118/272 (43%), Gaps = 59/272 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P L G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHLTGTLVNGLMAHCTDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLI-SHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D ++ VT F VL F+E +
Sbjct: 196 RQSMTVTRDG----------KNAVTHFHVLE-----RFQEFT------------------ 222
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 223 ---------LVECQLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTIDFNGQAL 266
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
HA L FDHP TG V +APLP E ++S
Sbjct: 267 HAGILGFDHPRTGEYVEFEAPLPEDMAELIES 298
>gi|418531071|ref|ZP_13096990.1| pseudouridine synthase [Comamonas testosteroni ATCC 11996]
gi|371451780|gb|EHN64813.1| pseudouridine synthase [Comamonas testosteroni ATCC 11996]
Length = 352
Score = 86.7 bits (213), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 80/269 (29%), Positives = 113/269 (42%), Gaps = 57/269 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLAS-VPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
V+YEDE L+ +NKP G+ + LL G A + R + + +RL
Sbjct: 123 VVYEDEDLLVINKPAGLVVHPAPGNWTGTLLNGLLARDEKAR-------QVPRAGIVHRL 175
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG+MV+ ++ L+K VS+ Y+AL KR + + GR
Sbjct: 176 DKDTSGLMVVARNRSTMDALIKMIAARDVSRQYLALAHKQWGSRKRREVDAPIGRDPRNR 235
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
R+ A D+ + PG + T F++L
Sbjct: 236 LRM-AVVDLN-LHPG----KQARTDFDLL------------------------------- 258
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
D LVR +GRTHQIR+H LG + GD Y G E +R LHA L
Sbjct: 259 -DGDTAHSLVRCTLHTGRTHQIRVHMASLGHPLIGDTLYGGQPEGGLER---QALHAFRL 314
Query: 325 SFDHPVTGCPVMVQAPLP--------LWG 345
+F+HPVT P++ APLP LWG
Sbjct: 315 AFEHPVTKKPLVHYAPLPQDMAGALDLWG 343
>gi|261493033|ref|ZP_05989574.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str.
BOVINE]
gi|261496687|ref|ZP_05993066.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str.
OVINE]
gi|261307656|gb|EEY08980.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str.
OVINE]
gi|261311310|gb|EEY12472.1| pseudouridylate synthase [Mannheimia haemolytica serotype A2 str.
BOVINE]
Length = 320
Score = 86.7 bits (213), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 72/262 (27%), Positives = 117/262 (44%), Gaps = 56/262 (21%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S +LYED+ ++ +NKP G+ ++ A R L L +R
Sbjct: 96 SQILYEDDSMLVINKPSGIAVHGGSGLSFGVIEALRALRPQARF----------LELVHR 145
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DRDTSG++++ K L + + V K Y+AL G
Sbjct: 146 IDRDTSGILLVAKKRSALRSLHEQLREKVVQKDYLALV--------------------RG 185
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
W+ + +V+ + ++ + ++ V+ EG +PSE +E++
Sbjct: 186 QWQAHT-----KVIKAPLLKNELASGERIVRVSEEG---KPSE------TRFSIEERYA- 230
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD-GHE---L 319
N LV+A P +GRTHQIR+H QY G I D KY G E++ K + G + L
Sbjct: 231 ------NATLVKASPITGRTHQIRVHTQYAGHPIALDDKY-GDVEFDSKMKEVGLQRLFL 283
Query: 320 HAESLSFDHPVTGCPVMVQAPL 341
HA ++ F+HP TG +++ APL
Sbjct: 284 HAHAIRFEHPKTGEEMVITAPL 305
>gi|352684044|ref|YP_004896028.1| pseudouridine synthase [Acidaminococcus intestini RyC-MR95]
gi|350278698|gb|AEQ21888.1| pseudouridine synthase [Acidaminococcus intestini RyC-MR95]
Length = 318
Score = 86.7 bits (213), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 82/271 (30%), Positives = 114/271 (42%), Gaps = 75/271 (27%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH------ 139
+LYEDE ++ VNKP+G+ AG+ GT +N L H
Sbjct: 93 ILYEDEDVIVVNKPRGMVVHPA--------AGNYT---------GTLVNALLYHCKDLSG 135
Query: 140 --------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
+ +RLD+DTSGVMV K+ + L + D + +TYIA+ G K R
Sbjct: 136 INGVVRPGIVHRLDKDTSGVMVCAKNDRAHLSLSQQIKDKEAKRTYIAVVRGNI-KDDRG 194
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
I + R R+ V+P G R VT +EVL G +
Sbjct: 195 HIETLIDRDPKDRMRMA-------VVPSGG--RLAVTDYEVLERYGRFT----------- 234
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
+VR ++GRTHQIR+H YLG + GD KY+ +
Sbjct: 235 ---------------------VVRCRLQTGRTHQIRVHMTYLGHPLVGDPKYQP--QKTC 271
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
DG LH+E+L+F HP TG + APLP
Sbjct: 272 FSIDGQALHSETLTFRHPRTGKIMSFTAPLP 302
>gi|145300070|ref|YP_001142911.1| tRNA pseudouridine synthase C [Aeromonas salmonicida subsp.
salmonicida A449]
gi|418357886|ref|ZP_12960576.1| tRNA pseudouridine synthase C [Aeromonas salmonicida subsp.
salmonicida 01-B526]
gi|142852842|gb|ABO91163.1| tRNA pseudouridine synthase C [Aeromonas salmonicida subsp.
salmonicida A449]
gi|356689125|gb|EHI53673.1| tRNA pseudouridine synthase C [Aeromonas salmonicida subsp.
salmonicida 01-B526]
Length = 246
Score = 86.7 bits (213), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 80/269 (29%), Positives = 118/269 (43%), Gaps = 45/269 (16%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LY+D+WLVAVNKP G+ D AE++ + ++ +RLD
Sbjct: 5 LLYQDDWLVAVNKPSGLLVHRSWL--------DKAETRFAMQMTRDLIGGRHVYPVHRLD 56
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R TSGV++ VA L +AF +V K Y+AL G AP+ I K
Sbjct: 57 RPTSGVLLFALDPAVARILTEAFAARQVHKEYLALVRGWAPEQGVIDYPLKEQLDKIAD- 115
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A S+ R ++ VT+F L + V AV
Sbjct: 116 ---AMSNPDR------PAQEAVTAFRCL--------------------HQVELPHAVSKK 146
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHE---LHA 321
LV+ FP++GR HQ+R H ++L I GD + +G + + + G E L A
Sbjct: 147 HPTSRYSLVKLFPKTGRKHQLRRHMEHLFHPIVGDTTHGDGRHNRFFREHFGCERLLLVA 206
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
+LSF+HP+ P+ +QAPL G + LQ
Sbjct: 207 RTLSFEHPILKVPMRIQAPL---GLDLLQ 232
>gi|429769328|ref|ZP_19301441.1| pseudouridine synthase, RluA family [Brevundimonas diminuta 470-4]
gi|429187342|gb|EKY28258.1| pseudouridine synthase, RluA family [Brevundimonas diminuta 470-4]
Length = 241
Score = 86.7 bits (213), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 85/271 (31%), Positives = 115/271 (42%), Gaps = 70/271 (25%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL------ 136
RS V++ED L+A NKP G+ S+ GR+ T +LL
Sbjct: 18 RSWVMHEDAHLIAFNKPSGL------------------SSQGGRIQAHTLDDLLWAFARS 59
Query: 137 ---ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIAL-CIGPAPKWKRIT 192
L +RLDRDTSGV++ K+ A KA K KTY+AL P PK RIT
Sbjct: 60 NGKRPELVHRLDRDTSGVILAAKTKPAAGFFGKAMQMRKFQKTYLALVAAAPEPKSGRIT 119
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGS-FKEPSELQEHE 251
A R ++GR S +R V +F+ G S ++ + Q
Sbjct: 120 ----------SALR---REEIGRE----SYMR--VVAFDAPGAQGAASGYRTLASSQ--- 157
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
+ VVE P +GR HQ+R+H +G + GDV+Y G + G
Sbjct: 158 -DGAVVELS-----------------PETGRMHQLRVHMASIGRPLVGDVRYGGALTFAG 199
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA LSF HP G V V+AP P
Sbjct: 200 RAAPRLMLHAAKLSFPHP-DGGRVTVEAPEP 229
>gi|411010348|ref|ZP_11386677.1| tRNA pseudouridine synthase C [Aeromonas aquariorum AAK1]
Length = 275
Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 82/269 (30%), Positives = 117/269 (43%), Gaps = 45/269 (16%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LY+D+WLVAVNKP G+ D AE++ + ++ +RLD
Sbjct: 34 LLYQDDWLVAVNKPSGLLVHRSWL--------DKAETRFAMQMTRDLIGGRHVYPVHRLD 85
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R TSGV++ VA L +AF +V K Y+AL G AP+ I K
Sbjct: 86 RPTSGVLLFALDPAVARTLTEAFAARQVHKEYLALVRGWAPEQGVIDYPLKEQLDKIAD- 144
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A SD R ++ VT+F L + E V +K
Sbjct: 145 ---AMSDPDR------PAQEAVTAF--------------CRLHQVELPYAVSKKHPT--- 178
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHE---LHA 321
LVR FP++GR HQ+R H +L I GD + +G + + + G + L A
Sbjct: 179 ---SRYSLVRLFPKTGRKHQLRRHLDHLFHPIVGDTTHGDGRHNRFFREHYGCDRLLLVA 235
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
+LSF HPV P+ +QAPL G+ LQ
Sbjct: 236 RTLSFQHPVLKVPMRIQAPL---GSHVLQ 261
>gi|261822069|ref|YP_003260175.1| 23S rRNA pseudouridylate synthase C [Pectobacterium wasabiae
WPP163]
gi|261606082|gb|ACX88568.1| pseudouridine synthase, RluA family [Pectobacterium wasabiae
WPP163]
Length = 318
Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 77/260 (29%), Positives = 115/260 (44%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED++L+ +NKP G ++ G A R L L +RLD
Sbjct: 95 IIYEDDYLLVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLRLKGMQKDYLALVRG---QWQ-------------SHC 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ A + +L G ++ VN EG +PSE + E
Sbjct: 189 KAVQAPLLKNILQSGE---------RIVRVNSEG---KPSETRFKIEERF---------- 226
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD-GHE---LHA 321
++ LVRA P +GRTHQIR+H QY G I D +Y G E++ + D G + LHA
Sbjct: 227 ---EHATLVRASPVTGRTHQIRVHAQYAGHPIAFDDRY-GDREFDQQLADTGLKRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
++L F+HP TG + V+APL
Sbjct: 283 QALRFEHPNTGETLRVEAPL 302
>gi|303252739|ref|ZP_07338900.1| 23S rRNA pseudouridylate synthase C [Actinobacillus
pleuropneumoniae serovar 2 str. 4226]
gi|302648389|gb|EFL78584.1| 23S rRNA pseudouridylate synthase C [Actinobacillus
pleuropneumoniae serovar 2 str. 4226]
Length = 321
Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 72/260 (27%), Positives = 116/260 (44%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++ +NKP G+ ++ A R L L +R+D
Sbjct: 98 ILYEDEVMLVINKPSGIAVHGGSGLSFGVIEALRALRPQARF----------LELVHRID 147
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + V K Y+AL G W
Sbjct: 148 RDTSGILLVAKKRSALRSLHEQLREKVVQKDYLALV--------------------RGQW 187
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ + +V+ + ++ + ++ V+ +G +PSE +E++
Sbjct: 188 QAHT-----KVIKAPLLKNELASGERIVRVSEKG---KPSE------TRFSIEERYA--- 230
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK-RYDGHE---LHA 321
N LV+A P +GRTHQIR+H QY G I D KY G E++ K + G + LHA
Sbjct: 231 ----NATLVKASPVTGRTHQIRVHTQYAGHPIALDDKY-GEAEFDSKMKAAGLQRLFLHA 285
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
S+ F+HP TG +++ APL
Sbjct: 286 YSIRFEHPKTGEEMLITAPL 305
>gi|307248951|ref|ZP_07530961.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 2 str. S1536]
gi|306854562|gb|EFM86755.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 2 str. S1536]
Length = 326
Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 72/260 (27%), Positives = 116/260 (44%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++ +NKP G+ ++ A R L L +R+D
Sbjct: 103 ILYEDEVMLVINKPSGIAVHGGSGLSFGVIEALRALRPQARF----------LELVHRID 152
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + V K Y+AL G W
Sbjct: 153 RDTSGILLVAKKRSALRSLHEQLREKVVQKDYLALV--------------------RGQW 192
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ + +V+ + ++ + ++ V+ +G +PSE +E++
Sbjct: 193 QAHT-----KVIKAPLLKNELASGERIVRVSEKG---KPSE------TRFSIEERYA--- 235
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK-RYDGHE---LHA 321
N LV+A P +GRTHQIR+H QY G I D KY G E++ K + G + LHA
Sbjct: 236 ----NATLVKASPVTGRTHQIRVHTQYAGHPIALDDKY-GEAEFDSKMKAAGLQRLFLHA 290
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
S+ F+HP TG +++ APL
Sbjct: 291 YSIRFEHPKTGEEMLITAPL 310
>gi|297621774|ref|YP_003709911.1| RNA pseudouridylate synthase [Waddlia chondrophila WSU 86-1044]
gi|297377075|gb|ADI38905.1| RNA pseudouridylate synthase family protein [Waddlia chondrophila
WSU 86-1044]
gi|337292401|emb|CCB90427.1| Ribosomal large subunit pseudouridine synthase D [Waddlia
chondrophila 2032/99]
Length = 310
Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 78/262 (29%), Positives = 117/262 (44%), Gaps = 57/262 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-VPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
D+++EDE ++ VNKP G+ + + G K +L EG L +H R
Sbjct: 85 DIIHEDEAIIVVNKPAGLVVHPGAGNWTGTFVNGLLYHCK--KLPEGETLRPGIVH---R 139
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH--GRSK 201
LD++T+G++V K+ + KLV+ F+ +V K YIA+C+G K I+ H R K
Sbjct: 140 LDKETTGLLVAAKTAEAQHKLVELFSSRRVYKEYIAVCVGNPGKGTVDAPIARHPVHRQK 199
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
++ GG R VT +E L + S
Sbjct: 200 MA------------IVEGG---RRSVTHYETLKYDVSLS--------------------- 223
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE-LH 320
LV+ +GRTHQIR+H + +G + GD Y G N K G + LH
Sbjct: 224 -----------LVKLVLETGRTHQIRVHMKQIGFPVLGDPVY-GSSAMNQKFQLGRQMLH 271
Query: 321 AESLSFDHPVTGCPVMVQAPLP 342
A L F HPVTG ++++AP+P
Sbjct: 272 AAKLIFPHPVTGKEMVLEAPVP 293
>gi|78186656|ref|YP_374699.1| pseudouridine synthase RluD [Chlorobium luteolum DSM 273]
gi|78166558|gb|ABB23656.1| ribosomal large subunit pseudouridine synthase D [Chlorobium
luteolum DSM 273]
Length = 354
Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 79/282 (28%), Positives = 119/282 (42%), Gaps = 59/282 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D++YED L+ VNK G+ + LA ++ G +E + + L + +RL
Sbjct: 104 DIVYEDSDLMVVNKAPGMVVHPAFGNWTGTLA-NAILHHFGTDAEELETDELRPGIVHRL 162
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG++++ ++ +L + F D KVSK Y A+ G P+ + TI + GRS+
Sbjct: 163 DKDTSGLIIVARNPTALHRLARQFADRKVSKLYTAILWG-VPEPQEGTIHTNIGRSRRD- 220
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
R ++ +F + G K A+ D
Sbjct: 221 -------------------RKVMANFPYEGLEG---------------------KTAITD 240
Query: 265 ADAKKNE---ILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG--VYEWNGKRYDG--- 316
+N L +GRTHQIR H Q+LG I GD Y G + + R +
Sbjct: 241 YRVTENLHWFSLAELTLHTGRTHQIRAHMQHLGHQILGDTTYGGASLRTLDFPRSESFVK 300
Query: 317 --------HELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
LHA SLSF P TG P+ APLP +AL+
Sbjct: 301 NLLDLLPRQALHAASLSFHQPTTGRPLSFTAPLPEDMAQALE 342
>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 = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 73/259 (28%), Positives = 115/259 (44%), Gaps = 50/259 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D++YED +V VNKP+G+ V+ P +G + + +N +L + +R
Sbjct: 87 DIVYEDSDVVVVNKPRGL----VVHPAPGHYSGTLVNGLLAHCKDLSGINGVLRPGIVHR 142
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ K L + H V++ Y+A+ G P + TI + GR
Sbjct: 143 IDKDTSGLLMVAKNDKAHMGLAEQLKAHTVNRKYVAIVHGVIPH-EMGTIEAPIGRDPKN 201
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ + + VT F VL FKE +
Sbjct: 202 RQQMAVVFENSK---------PAVTHFIVLE-----RFKEYT------------------ 229
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
LV +GRTHQIR+H +Y+G + GD KY N DG LHA++
Sbjct: 230 ---------LVELKLETGRTHQIRVHMKYIGYPLAGDPKYG---PKNTVELDGQALHAKT 277
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L F HP TG + +AP+P
Sbjct: 278 LGFSHPRTGEQLEFEAPMP 296
>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 = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 76/262 (29%), Positives = 115/262 (43%), Gaps = 52/262 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D+LYED+ +V VNKPQG+ + L ++ K LS ++ + +R+
Sbjct: 82 DILYEDDDIVVVNKPQGMVVHPAAGNYTGTLV-NALLKKCRTLSSIN--GVIRPGIVHRI 138
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSGV+V+ K+ L + +H V + YIAL G K + TI GR
Sbjct: 139 DKDTSGVLVVAKNDYAHQHLAEQIKEHTVKRVYIALTEG-VIKQDQGTIDKPIGRHPIHR 197
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
++ + R VT F+V L+ ++EN
Sbjct: 198 KKMAVIENGKRA----------VTHFKV--------------LERYKENT---------- 223
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD--GHELHAE 322
LV A +GRTHQIR+H Y+G + GD VY + ++++ G LHA
Sbjct: 224 --------LVEARLETGRTHQIRVHMAYIGYPLVGD----PVYGFKKQKFNLKGQALHAM 271
Query: 323 SLSFDHPVTGCPVMVQAPLPLW 344
L F HP TG + +PLP +
Sbjct: 272 VLGFIHPRTGEYMEFSSPLPDY 293
>gi|206900407|ref|YP_002249968.1| ribosomal large subunit pseudouridine synthase C [Dictyoglomus
thermophilum H-6-12]
gi|206739510|gb|ACI18568.1| ribosomal large subunit pseudouridine synthase C [Dictyoglomus
thermophilum H-6-12]
Length = 226
Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 75/266 (28%), Positives = 115/266 (43%), Gaps = 50/266 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+V+YED L+ VNKP G+ + + LL A K G L + +RL
Sbjct: 8 EVIYEDNHLLVVNKPAGILVQGDITKSTTLLEISKAYIKEKYKKPGNVF----LAIVHRL 63
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+ SGV++ ++ K A +L +AF + KV K YIALC G K K+ TI S+
Sbjct: 64 DKPVSGVVIFARNSKSAGRLSEAFRERKVEKEYIALCKG-IFKVKKGTI------SESLL 116
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
W + + ++ +T +EVL
Sbjct: 117 W---VEKERKARVSQDDKSKNAITHYEVL------------------------------- 142
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
+ KN LVR P +GR HQ+R H Y+G I GD KY G + + + LH + +
Sbjct: 143 -EEFKNLSLVRLIPETGRKHQLRAHLSYIGHPILGDEKYGGGRIFKDRIF----LHCKKM 197
Query: 325 SFDHPVTGCPVMVQAPLPLWGTEALQ 350
+ HPV + +A +P + +E L+
Sbjct: 198 AVPHPVRKDIMEFEAKIPDFWSEFLK 223
>gi|294675889|ref|YP_003576504.1| ribosomal large subunit pseudouridine synthase C [Rhodobacter
capsulatus SB 1003]
gi|294474709|gb|ADE84097.1| ribosomal large subunit pseudouridine synthase C [Rhodobacter
capsulatus SB 1003]
Length = 355
Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 84/308 (27%), Positives = 129/308 (41%), Gaps = 63/308 (20%)
Query: 55 PPLPAISKDIELTRAMSASSKSSL----YKLSRSDVLYEDEWLVAVNKPQGVYCESVLAS 110
PPLP +R+ + + + K+ ++ VL++DE ++A+NKP G+
Sbjct: 65 PPLPEAGAKAPESRSEARRDATQISPADEKMIQAAVLWKDEHIIALNKPAGL-------- 116
Query: 111 VPCLLAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFT 169
P + L E K + + +RLD+DTSGV++I ++ +VA L ++F
Sbjct: 117 -PSQGGSGQGDRHVDGLLEALKFGYKDRPKMVHRLDKDTSGVLLIARTDRVARALSESFR 175
Query: 170 DHKVSKTYIALCIG-PAPKWKRITI----ISGHGRSKFGAWRVYAASDVGRVLPGGSVVR 224
K Y A G P+PK I GHGR G
Sbjct: 176 LKTTRKIYWAAVAGVPSPKKGTIRYGLVKAPGHGRGGEGE-------------------- 215
Query: 225 DMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTH 284
++L ++ PS++ + AV+D + V P +GRTH
Sbjct: 216 ------KMLCIH-------PSKVDATPDAKRATTDFAVIDGLGSRVS-WVGLVPITGRTH 261
Query: 285 QIRLHCQYLGISIRGDVKYEGVYEWN-----GKRYDGH-----ELHAESLSFDHPVTGCP 334
Q+R H LG I GD KY G + N G + G LHA ++SFDHP+T
Sbjct: 262 QLRAHMAELGHPIVGDGKYGGSGQENLGDGWGSQLGGEISRKLHLHARTISFDHPITKKR 321
Query: 335 VMVQAPLP 342
+ + APLP
Sbjct: 322 ITLTAPLP 329
>gi|385872360|gb|AFI90880.1| Ribosomal large subunit pseudouridine synthase C [Pectobacterium
sp. SCC3193]
Length = 326
Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 77/260 (29%), Positives = 115/260 (44%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED++L+ +NKP G ++ G A R L L +RLD
Sbjct: 103 IIYEDDYLLVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 152
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + K Y+AL G +W+
Sbjct: 153 RDTSGVLLVAKKRSALRSLHEQLRLKGMQKDYLALVRG---QWQ-------------SHC 196
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ A + +L G ++ VN EG +PSE + E
Sbjct: 197 KAVQAPLLKNILQSGE---------RIVRVNSEG---KPSETRFKIEERF---------- 234
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD-GHE---LHA 321
++ LVRA P +GRTHQIR+H QY G I D +Y G E++ + D G + LHA
Sbjct: 235 ---EHATLVRASPVTGRTHQIRVHAQYAGHPIAFDDRY-GDREFDQQLADTGLKRLFLHA 290
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
++L F+HP TG + V+APL
Sbjct: 291 QALRFEHPNTGETLRVEAPL 310
>gi|150020881|ref|YP_001306235.1| RluA family pseudouridine synthase [Thermosipho melanesiensis
BI429]
gi|149793402|gb|ABR30850.1| pseudouridine synthase, RluA family [Thermosipho melanesiensis
BI429]
Length = 306
Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 81/272 (29%), Positives = 113/272 (41%), Gaps = 76/272 (27%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAG----------DSAESKSGRLSEGTKLNL 135
++YED+ ++ VNK GV V P L+G + + G L G
Sbjct: 82 IIYEDKDIIVVNKDPGV----VTHPTPTFLSGTLVNALMYHCNDFQGIGGELRPG----- 132
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ +RLD+DTSGV+V+ K+ K L F + K KTYIA I+S
Sbjct: 133 ----IVHRLDKDTSGVIVVAKNDKAHQSLSMQFKERKTEKTYIA-------------IVS 175
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNI 255
G + +G V +GR VVR + + N FK
Sbjct: 176 GEVKKNYGTIDV----PLGR----NPVVRTKIAPVD-WGKNAITYFKVIKRF-------- 218
Query: 256 VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD 315
KN L+ AFP++GRTHQIR+H +Y+G + GD Y GK+ +
Sbjct: 219 -------------KNATLLLAFPKTGRTHQIRVHMKYIGHPLLGDELY-----GRGKKDE 260
Query: 316 -----GHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA LSF HP T ++ APLP
Sbjct: 261 IFGVKRQMLHALKLSFYHPSTNEKMIFVAPLP 292
>gi|261856344|ref|YP_003263627.1| pseudouridine synthase [Halothiobacillus neapolitanus c2]
gi|261836813|gb|ACX96580.1| pseudouridine synthase, RluA family [Halothiobacillus neapolitanus
c2]
Length = 346
Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 81/269 (30%), Positives = 114/269 (42%), Gaps = 65/269 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YEDE L+AVNKP G+ +++P L E G KL L A+R+D
Sbjct: 111 IVYEDEALLAVNKPAGLAVHGG-SNIPFGLI----ELMRQHTGLGEKLEL-----AHRID 160
Query: 146 RDTSGVMVITKSHKVASKLVKAFT-DHKVSKTYIALCIGPAP-KWKRITIISGHGRSKFG 203
RDTSG++++ K+ L F + K Y+A+ G P K KR+ +
Sbjct: 161 RDTSGLLILAKTRATLHSLQTQFRPEGHAEKQYLAIVHGHWPDKLKRVD-------APLE 213
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
W+ S +V P G ++ VT F VL+ N
Sbjct: 214 KWQGEGESHRVQVNPQG---KEAVTHFAVLAAN--------------------------- 243
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----------GKR 313
KN L+RA +GRTHQIR+H + I GD KY G EW+ +R
Sbjct: 244 -----KNATLLRAQLETGRTHQIRVHTAHENHPIVGDEKY-GQREWDKRLFPSTGASARR 297
Query: 314 YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP T P+ + AP+P
Sbjct: 298 RPPLLLHAYRLMLTHPQTEQPLQLTAPIP 326
>gi|114775485|ref|ZP_01451053.1| ribosomal large subunit pseudouridine synthase C [Mariprofundus
ferrooxydans PV-1]
gi|114553596|gb|EAU55977.1| ribosomal large subunit pseudouridine synthase C [Mariprofundus
ferrooxydans PV-1]
Length = 315
Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 89/276 (32%), Positives = 123/276 (44%), Gaps = 59/276 (21%)
Query: 74 SKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKL 133
S S L K++ VLYED+ L+ VNKP G+ G E+ L E K
Sbjct: 84 SASLLGKMASIPVLYEDDSLLVVNKPAGMVVH----------GGSGHEAG---LIEALKQ 130
Query: 134 N--LLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
+ L +L LA+RLDRDTSGV+++ K +L ++F + + KTY AL
Sbjct: 131 SRGLDDLRLAHRLDRDTSGVLLMAKHLDALRRLTESFRERDMQKTYFAL----------- 179
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
I+GH + G A V R GG R +V S E G+ S + + E+E
Sbjct: 180 --IAGHPYAHAGRMSSNLAKGVVR---GGE--RMVVDSEE-----GKASVTDYQVMIEYE 227
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYE-----GV 306
+ +V P SGRTHQ+R+ Q+ G I GD KY
Sbjct: 228 RHGFPYA--------------MVALNPHSGRTHQLRVQLQHEGHPILGDGKYGEKAQLAA 273
Query: 307 YEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
Y+ G + G LHA L F HPV+G + +AP P
Sbjct: 274 YKSLGGK--GLMLHAWRLRFTHPVSGKSLECKAPWP 307
>gi|83859151|ref|ZP_00952672.1| ribosomal large subunit pseudouridine synthase d [Oceanicaulis sp.
HTCC2633]
gi|83852598|gb|EAP90451.1| ribosomal large subunit pseudouridine synthase d [Oceanicaulis
alexandrii HTCC2633]
Length = 310
Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 81/272 (29%), Positives = 113/272 (41%), Gaps = 49/272 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL-HLANR 143
+VL+ED+ L+ +NKP G+ + L +G LS + +E + +R
Sbjct: 61 EVLFEDDHLIVINKPAGMAVHPAAGNWTGTLVHALLFHCAGSLS---GIGGVERPGIVHR 117
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALC-IGPAPKWKRITI---ISGHGR 199
LD+DTSGVMV K+ K L F H V + Y+A P P+ RI S H R
Sbjct: 118 LDKDTSGVMVAAKTDKAHQGLSAQFAAHTVERAYLAFTRSAPQPRTGRIETRLARSSHDR 177
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
K A D PG + +T++E L+ G+ EP + H
Sbjct: 178 KKM------AVIDA----PGSQAGKHAITNYETLATFGQ----EPGKSVGHPMC------ 217
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEW---------N 310
LVR +GRTHQIR+H ++G + GD Y +
Sbjct: 218 ------------ALVRCRLETGRTHQIRVHMAHIGCPLLGDPVYGRGRSTPLAKLDSGKD 265
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
K + LHA L FDHPVTG V + LP
Sbjct: 266 FKDFRRQALHAAVLGFDHPVTGEQVRFETELP 297
>gi|405355381|ref|ZP_11024607.1| Ribosomal large subunit pseudouridine synthase D [Chondromyces
apiculatus DSM 436]
gi|397091723|gb|EJJ22525.1| Ribosomal large subunit pseudouridine synthase D [Myxococcus sp.
(contaminant ex DSM 436)]
Length = 314
Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 78/258 (30%), Positives = 108/258 (41%), Gaps = 55/258 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
VLYED ++AV+KP GV + V L D K GR + L +RLD
Sbjct: 84 VLYEDADVIAVDKPAGVTAQPTEGRVGGSLV-DLVGEKLGRPA----------GLVHRLD 132
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPA-PKWKRITIISGHGRSKFGA 204
R+TSGV V KS + S L F + + K Y+A+ GP P + + S+ G
Sbjct: 133 RETSGVTVFGKSAEATSALAAEFREGRARKRYVAVA-GPGLPLNGTVDLPLSKDPSRPGR 191
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
WR A++ +P +T F L F P+
Sbjct: 192 WRATRAANG---VP-------ALTDFHTL-------FSGPAF------------------ 216
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
+V P +GRTHQ+R H LG I GD +Y G+ G LHA++L
Sbjct: 217 -------CVVELLPHTGRTHQLRAHLTALGAPILGDARYGGLPRAGGVEAARCLLHAQAL 269
Query: 325 SFDHPVTGCPVMVQAPLP 342
HP TG + V+AP+P
Sbjct: 270 ELGHPRTGKVLRVEAPVP 287
>gi|328950026|ref|YP_004367361.1| RluA family pseudouridine synthase [Marinithermus hydrothermalis
DSM 14884]
gi|328450350|gb|AEB11251.1| pseudouridine synthase, RluA family [Marinithermus hydrothermalis
DSM 14884]
Length = 318
Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 75/262 (28%), Positives = 114/262 (43%), Gaps = 56/262 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLS----EGTKLNLLELHL 140
++LYEDE +V VNKP G+ P L +G + GR + EG + +
Sbjct: 78 EILYEDEDMVVVNKPPGMATHPA----PGLTSGTLVNALMGRYAQAAVEGEPPEQVRPGI 133
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
+RLDRDTSGV+V+ + +L AF + V K Y+A+ +G P+ +T+++ GR
Sbjct: 134 VHRLDRDTSGVIVVGRHDAAVRRLADAFKNRFVFKRYVAITVGQPPE---MTLVAPIGRH 190
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
+++ + G R T F +L
Sbjct: 191 PVERHKMHVS---------GVNARYAETDFSLL--------------------------- 214
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELH 320
A +D A LV A P +GRTHQIR+H ++L I GD Y + ++ LH
Sbjct: 215 ATVDGHA-----LVDARPHTGRTHQIRVHLKHLYAPILGDELYGKPSPYISRQ----ALH 265
Query: 321 AESLSFDHPVTGCPVMVQAPLP 342
A L HP +G + AP+P
Sbjct: 266 AYELRIPHPRSGRIMTFVAPVP 287
>gi|322515396|ref|ZP_08068389.1| ribosomal large subunit pseudouridine synthase C [Actinobacillus
ureae ATCC 25976]
gi|322118578|gb|EFX90808.1| ribosomal large subunit pseudouridine synthase C [Actinobacillus
ureae ATCC 25976]
Length = 356
Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 69/259 (26%), Positives = 110/259 (42%), Gaps = 54/259 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G+ ++ A R L L +R+D
Sbjct: 133 ILYEDDVMLVINKPSGIAVHGGSGLSFGVIEALRALRPQARF----------LELVHRID 182
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + V K Y+AL G W
Sbjct: 183 RDTSGILLVAKKRSALRNLHEQLREKVVQKDYLALV--------------------RGQW 222
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ + +V+ + ++ + ++ V+ EG E +E++
Sbjct: 223 QSHV-----KVIRAPLLKNELASGERIVKVSEEGKL---------SETRFAIEERYA--- 265
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHE--LHAE 322
N LV+A P +GRTHQIR+H QY G I D KY E ++ K H LHA
Sbjct: 266 ----NATLVKASPVTGRTHQIRVHTQYAGHPIALDDKYGEAEFDSKMKAVGLHRLFLHAY 321
Query: 323 SLSFDHPVTGCPVMVQAPL 341
S+ F+HP TG +++ APL
Sbjct: 322 SIRFEHPKTGEEMLITAPL 340
>gi|167040454|ref|YP_001663439.1| RluA family pseudouridine synthase [Thermoanaerobacter sp. X514]
gi|300914505|ref|ZP_07131821.1| pseudouridine synthase, RluA family [Thermoanaerobacter sp. X561]
gi|307724259|ref|YP_003904010.1| RluA family pseudouridine synthase [Thermoanaerobacter sp. X513]
gi|166854694|gb|ABY93103.1| pseudouridine synthase, RluA family [Thermoanaerobacter sp. X514]
gi|300889440|gb|EFK84586.1| pseudouridine synthase, RluA family [Thermoanaerobacter sp. X561]
gi|307581320|gb|ADN54719.1| pseudouridine synthase, RluA family [Thermoanaerobacter sp. X513]
Length = 305
Score = 85.9 bits (211), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 76/263 (28%), Positives = 117/263 (44%), Gaps = 54/263 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+LYED+ ++ +NKPQG+ V+ P +G + + +N +L + +R
Sbjct: 83 DILYEDDDIIVINKPQGM----VVHPAPGNYSGTLVNALLYHCKNLSGINGILRPGIVHR 138
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD+DTSGVMV+ K+ K L + V K Y+A+ G K + I + GR
Sbjct: 139 LDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKYVAIVEG-VIKDEEGKIEAPIGRHPVD 197
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ D GR +T ++VL FKE +
Sbjct: 198 RKKMAVIED-GRY---------ALTLYKVLE-----RFKENT------------------ 224
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--DGHELHA 321
LV A ++GRTHQIR+H Y+G I GD VY + +++ +G LH+
Sbjct: 225 ---------LVEAVIKTGRTHQIRVHMAYIGHPIVGD----HVYGFKRQKFKLEGQALHS 271
Query: 322 ESLSFDHPVTGCPVMVQAPLPLW 344
L F HP G + +APLP +
Sbjct: 272 SVLGFMHPTKGVYMEFEAPLPEY 294
>gi|256752464|ref|ZP_05493322.1| pseudouridine synthase, RluA family [Thermoanaerobacter ethanolicus
CCSD1]
gi|256748666|gb|EEU61712.1| pseudouridine synthase, RluA family [Thermoanaerobacter ethanolicus
CCSD1]
Length = 305
Score = 85.9 bits (211), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 76/263 (28%), Positives = 117/263 (44%), Gaps = 54/263 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+LYED+ ++ +NKPQG+ V+ P +G + + +N +L + +R
Sbjct: 83 DILYEDDDIIVINKPQGM----VVHPAPGNYSGTLVNALLYHCKNLSGINGILRPGIVHR 138
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD+DTSGVMV+ K+ K L + V K Y+A+ G K + I + GR
Sbjct: 139 LDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKYVAIVEG-VIKDEEGKIEAPIGRHPVD 197
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ D GR +T ++VL FKE +
Sbjct: 198 RKKMAVIED-GRY---------ALTLYKVLE-----RFKENT------------------ 224
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--DGHELHA 321
LV A ++GRTHQIR+H Y+G I GD VY + +++ +G LH+
Sbjct: 225 ---------LVEAVIKTGRTHQIRVHMAYIGHPIVGD----HVYGFKRQKFKLEGQALHS 271
Query: 322 ESLSFDHPVTGCPVMVQAPLPLW 344
L F HP G + +APLP +
Sbjct: 272 SVLGFMHPTKGVYMEFEAPLPEY 294
>gi|218129851|ref|ZP_03458655.1| hypothetical protein BACEGG_01432 [Bacteroides eggerthii DSM 20697]
gi|217987961|gb|EEC54286.1| pseudouridine synthase, RluA family [Bacteroides eggerthii DSM
20697]
Length = 518
Score = 85.9 bits (211), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 84/258 (32%), Positives = 113/258 (43%), Gaps = 66/258 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAES-KSGRLSEGTKLNLLELHLANR 143
+ +YEDEWL+ VNKP G + SVP S S GR E ++ +R
Sbjct: 316 ETVYEDEWLLVVNKPAG------MLSVPGKEEAVSVYSVMRGRYPEADGPLIV-----HR 364
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD TSG++VI K+ +V L F D VSK YIAL G I+S
Sbjct: 365 LDMATSGLLVIAKTKQVHQNLQAQFRDRSVSKRYIALLQG---------IVS-------- 407
Query: 204 AWRVYAASDVGRV-LPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
D G V LP L +N P ++ E V V
Sbjct: 408 -------PDTGTVELP--------------LCLN---PLDRPRQMVHTEHGKPAVTDFEV 443
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQY-LGIS--IRGDVKYEGVYEWNGKRYDGHEL 319
L + K N + +PR+GRTHQ+R+H + LG+ I GD Y GK+ + L
Sbjct: 444 L--ERKDNHTRIAFYPRTGRTHQLRVHAAHPLGLHCPIIGDELY-------GKKAERLYL 494
Query: 320 HAESLSFDHPVTGCPVMV 337
HAE+L F HP+TG V++
Sbjct: 495 HAEALEFTHPITGKRVII 512
>gi|345017841|ref|YP_004820194.1| RluA family pseudouridine synthase [Thermoanaerobacter wiegelii
Rt8.B1]
gi|344033184|gb|AEM78910.1| pseudouridine synthase, RluA family [Thermoanaerobacter wiegelii
Rt8.B1]
Length = 305
Score = 85.9 bits (211), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 75/269 (27%), Positives = 119/269 (44%), Gaps = 54/269 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+LYED+ ++ +NKPQG+ V+ P +G + + +N +L + +R
Sbjct: 83 DILYEDDDIIVINKPQGM----VVHPAPGNYSGTLVNALLYHCKNLSGINGILRPGIVHR 138
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD+DTSGVMV+ K+ K L + V K Y+A+ G K + I + GR
Sbjct: 139 LDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKYVAIVEG-VIKHEEGKIEALIGRHPVD 197
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ D GR +T ++VL FKE +
Sbjct: 198 RKKMAVIED-GRY---------ALTLYKVLE-----RFKENT------------------ 224
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--DGHELHA 321
LV A ++GRTHQIR+H Y+G + GD VY + +++ +G LH+
Sbjct: 225 ---------LVEAVIKTGRTHQIRVHMAYIGHPVVGD----PVYGFKKQKFKLEGQALHS 271
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L F HP G + +APLP + ++
Sbjct: 272 HVLGFMHPTKGVYMEFEAPLPEYFVRLIE 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 = 85.9 bits (211), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 78/284 (27%), Positives = 116/284 (40%), Gaps = 77/284 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
+++YEDE + VNKPQG+ S GT +N L H
Sbjct: 79 EIVYEDEAVAVVNKPQGMVVHP-----------------SAGHPNGTMVNALMYHVKDLS 121
Query: 140 ---------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
+ +R+D+DTSG++++ K+ L K D + Y+AL G P K
Sbjct: 122 SINGVIRPGIVHRIDKDTSGLLMVAKNDLAHESLAKQLKDKTSLRKYVALVHGVIPHEKG 181
Query: 191 ITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
TI + GRSK ++ A + G++ VT F VL F + +
Sbjct: 182 -TINTPIGRSKVN-RKMQAVREDGKL---------AVTHFNVLE-----RFNDFT----- 220
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
LV +GRTHQIR+H +Y+G + GD Y
Sbjct: 221 ----------------------LVELTLETGRTHQIRVHMKYIGYPLAGDPVYGPSKTLK 258
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
G +G LHA+ L F HP+TG ++ +APLP + L+ K
Sbjct: 259 G---NGQFLHAKLLGFTHPITGQKMVFEAPLPTIFEKTLEKLRK 299
>gi|39995777|ref|NP_951728.1| RNA pseudouridine synthase, RluA family [Geobacter sulfurreducens
PCA]
gi|409911220|ref|YP_006889685.1| RNA pseudouridine synthase, RluA family [Geobacter sulfurreducens
KN400]
gi|39982541|gb|AAR34001.1| RNA pseudouridine synthase, RluA family [Geobacter sulfurreducens
PCA]
gi|298504786|gb|ADI83509.1| RNA pseudouridine synthase, RluA family [Geobacter sulfurreducens
KN400]
Length = 296
Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 79/287 (27%), Positives = 114/287 (39%), Gaps = 79/287 (27%)
Query: 59 AISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGD 118
A K+ + TR + A++K L D+L+ED++ V VNKP G+ P +
Sbjct: 59 ATIKESDRTRQLLAAAKPQL------DILWEDDYCVIVNKPAGL---------PVHRTAE 103
Query: 119 SAESKSGRLSE---GTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSK 175
+ E+ L+E + ++L NRLDR TSG ++ KS A L + + + K
Sbjct: 104 AGEANLVELAEHFMAGRGTAVKLRPVNRLDRGTSGATILAKSSSSAGMLGRYVKEEGLDK 163
Query: 176 TYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSV 235
Y+A+ G P A + L G +D T F L+
Sbjct: 164 LYLAVTDGSLPD----------------------AGTIDTPLDG----KDAHTDFRTLAR 197
Query: 236 NGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGI 295
+ SF P SGR HQIR H +G
Sbjct: 198 DTAVSF--------------------------------ALVIPISGRMHQIRKHLSAIGH 225
Query: 296 SIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+RGD +Y G Y GH LHA ++ HPVTG ++V APLP
Sbjct: 226 PVRGDRRYRGTLLTG---YPGHLLHAFRVALIHPVTGRKLIVHAPLP 269
>gi|414341387|ref|YP_006982908.1| ribosomal large subunit pseudouridine synthase C [Gluconobacter
oxydans H24]
gi|411026722|gb|AFV99976.1| ribosomal large subunit pseudouridine synthase C [Gluconobacter
oxydans H24]
gi|453330666|dbj|GAC87412.1| ribosomal large subunit pseudouridine synthase C [Gluconobacter
thailandicus NBRC 3255]
Length = 330
Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 85/300 (28%), Positives = 124/300 (41%), Gaps = 58/300 (19%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLASV 111
PPLP IS+ A L + V+Y+D+ L+ ++KP G+ + + V
Sbjct: 64 PPLPDISQ-----PAPLPPPDPMLVREIEKMVIYQDDHLLVLDKPSGLATQGGPGITKHV 118
Query: 112 PCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH 171
+L G E +G + L+ +R+DRDTSG+++I ++ VA+KL AF
Sbjct: 119 DMMLDGLRKE-------DGDRPRLV-----HRIDRDTSGILLIARTPGVAAKLAAAFRGR 166
Query: 172 KVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFE 231
V KTY A+ +G R AS + P +
Sbjct: 167 DVGKTYWAIVVG----------------------RPAQASGIID-QPLAKIGAGGAALVV 203
Query: 232 VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQ 291
S E + SE + +DA KK L + P +GRTHQ+R+HC+
Sbjct: 204 AASRGEEDAVSAKSEYE-------------TIDAAGKKFSWLALS-PLTGRTHQLRVHCE 249
Query: 292 YLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LG I GD +Y G D LHA L HP G ++V APLP E +S
Sbjct: 250 SLGTPIVGDPRYGGKAAHPEGFIDRLHLHARQLDIPHPAGGR-LIVTAPLPPHMRETFRS 308
>gi|307262378|ref|ZP_07544024.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 12 str. 1096]
gi|306867926|gb|EFM99756.1| Ribosomal large subunit pseudouridine synthase C [Actinobacillus
pleuropneumoniae serovar 12 str. 1096]
Length = 326
Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 72/260 (27%), Positives = 115/260 (44%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++ +NKP G+ ++ A L L +R+D
Sbjct: 103 ILYEDEVMLVINKPSGIAVHGGSGLSFGVIEALRALRPQAHF----------LELVHRID 152
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + V K Y+AL G W
Sbjct: 153 RDTSGILLVAKKRSALRSLHEQLREKVVQKDYLALV--------------------RGQW 192
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ + +V+ + ++ + ++ V+ EG +PSE +E++
Sbjct: 193 QAHT-----KVIKAPLLKNELASGERIVRVSEEG---KPSE------TRFSIEERYA--- 235
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK-RYDGHE---LHA 321
N LV+A P +GRTHQIR+H QY G I D KY G E++ K + G + LHA
Sbjct: 236 ----NATLVKASPVTGRTHQIRVHTQYAGHPIALDDKY-GEAEFDSKMKAAGLQRLFLHA 290
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
S+ F+HP TG +++ APL
Sbjct: 291 YSIRFEHPKTGEEMLITAPL 310
>gi|108759583|ref|YP_629678.1| RluA family pseudouridine synthase [Myxococcus xanthus DK 1622]
gi|108463463|gb|ABF88648.1| pseudouridine synthase, RluA family [Myxococcus xanthus DK 1622]
Length = 310
Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 75/258 (29%), Positives = 106/258 (41%), Gaps = 55/258 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
VLYED ++AV+KP GV + V L D +K GR + L +RLD
Sbjct: 84 VLYEDADVIAVDKPAGVSAQPTEGRVGDSLV-DLVGAKLGRPA----------GLVHRLD 132
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPA-PKWKRITIISGHGRSKFGA 204
R+TSGV V K+ + S L F + + K Y+A GP P + + S+ G
Sbjct: 133 RETSGVTVFGKTAEATSALAAEFREGRARKRYVA-ATGPGLPPSGTVDLPLSKDPSRPGR 191
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
WR A++ +P +T F LS
Sbjct: 192 WRATRAANG---VP-------ALTDFHTLS------------------------------ 211
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
+ +V P +GRTHQ+R H LG I GD +Y G G LHA++L
Sbjct: 212 --SGPAFCVVELLPHTGRTHQLRAHLTALGAPILGDARYGGAARAEGVEAPRCLLHAQAL 269
Query: 325 SFDHPVTGCPVMVQAPLP 342
HP TG + ++AP+P
Sbjct: 270 ELGHPRTGKLLRIEAPVP 287
>gi|407790939|ref|ZP_11138029.1| 23S rRNA pseudouridylate synthase C [Gallaecimonas xiamenensis
3-C-1]
gi|407202223|gb|EKE72217.1| 23S rRNA pseudouridylate synthase C [Gallaecimonas xiamenensis
3-C-1]
Length = 319
Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 83/271 (30%), Positives = 115/271 (42%), Gaps = 59/271 (21%)
Query: 76 SSLYKLSRSD--VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKL 133
++L ++SR + VLYED+ L+ VNKP G+ L+ G A R
Sbjct: 84 ANLSQVSRLNDCVLYEDDCLMVVNKPAGLAVHGGSGLSFGLIEGLRALRPDARF------ 137
Query: 134 NLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
L L +RLDRDTSG ++I K L +A + + K Y+ L G P KR+
Sbjct: 138 ----LELVHRLDRDTSGCILIAKKRSALRGLHEALREKTMQKDYLCLVRGDWPSAKRVI- 192
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEE 252
++++ + S E V+ V+ EG E E
Sbjct: 193 -------------------------RAPLLKNTLQSGERVVRVDAEGKASETRFKVERRF 227
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
+ LV AFP +GRTHQIR+H + G I GD KY G E++ +
Sbjct: 228 GGLAT---------------LVNAFPVTGRTHQIRVHTLHAGHPIAGDDKY-GDKEFDAR 271
Query: 313 -RYDGHE---LHAESLSFDHPVTGCPVMVQA 339
+ G E LHA LSF HP TG V V A
Sbjct: 272 LKAQGLERLMLHAWHLSFTHPNTGEAVSVTA 302
>gi|291295265|ref|YP_003506663.1| pseudouridine synthase RluA family [Meiothermus ruber DSM 1279]
gi|290470224|gb|ADD27643.1| pseudouridine synthase, RluA family [Meiothermus ruber DSM 1279]
Length = 327
Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 79/269 (29%), Positives = 109/269 (40%), Gaps = 60/269 (22%)
Query: 86 VLYEDEWLVAVNKPQG--------VY----CESVLASVPCLLAGDSAESKSGRLSEGTKL 133
+LYED L+ +NKP G VY ++L L+ +E + G L + K
Sbjct: 75 ILYEDPDLIVINKPAGMITHPAPGVYSGTLVNAILGRFGLDLSLGESEEEGGLLLQAQKP 134
Query: 134 NLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
L+ + +RLD+ TSGV+V+ + +L +AF V K YIAL +G +
Sbjct: 135 ELIRPGIVHRLDKGTSGVIVVARHEAAHRRLAEAFAGRSVYKRYIALTVGIPREGLLSAP 194
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
I H D R+ GG R T FEVL+V EP
Sbjct: 195 IGRH------------PVDRTRMHVGGVAARHAQTEFEVLAV------AEP--------- 227
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
LV A +GRTHQIR+H ++L I GD Y E ++
Sbjct: 228 -----------------HALVSAILHTGRTHQIRVHLKHLHAPILGDEVYGKPSELIARQ 270
Query: 314 YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP TG + AP+P
Sbjct: 271 ----ALHAYELRLQHPRTGKYLHFVAPIP 295
>gi|50120723|ref|YP_049890.1| 23S rRNA pseudouridylate synthase C [Pectobacterium atrosepticum
SCRI1043]
gi|49611249|emb|CAG74695.1| ribosomal large subunit pseudouridine synthase C [Pectobacterium
atrosepticum SCRI1043]
Length = 318
Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 75/260 (28%), Positives = 113/260 (43%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED++L+ +NKP G ++ G A R L L +RLD
Sbjct: 95 IIYEDDYLLVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLRLKGMQKDYLALVRG---QWQ-------------SHC 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG + E +E++
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVNSEG---------KASETRFKIEERF---- 226
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
++ LVRA P +GRTHQIR+H QY G I D +Y G E++ G LHA
Sbjct: 227 ---EHATLVRASPVTGRTHQIRVHAQYAGHPIAFDDRY-GDREFDRQLAGSGLKRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
++L F+HP TG + V+APL
Sbjct: 283 QALRFEHPNTGETLRVEAPL 302
>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 = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 76/269 (28%), Positives = 119/269 (44%), Gaps = 54/269 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+LYED+ ++ +NKPQG+ V+ P +G + + +N +L + +R
Sbjct: 83 DILYEDDDIIVINKPQGM----VVHPAPGNYSGTLVNALLYHCKNLSGINGILRPGIVHR 138
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD+DTSGVMV+ K+ K L + V K Y+A+ G K + I + GR
Sbjct: 139 LDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKYVAIVEG-VIKDEEGKIEAPIGRHPVD 197
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ D GR +T ++VL FKE +
Sbjct: 198 RKKMAVIED-GRY---------ALTLYKVLE-----RFKENT------------------ 224
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--DGHELHA 321
LV A ++GRTHQIR+H Y+G I GD VY + +++ +G LH+
Sbjct: 225 ---------LVEAVIKTGRTHQIRVHMAYIGHPIVGD----HVYGFKRQKFKLEGQALHS 271
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L F HP G + +APLP + ++
Sbjct: 272 SVLGFMHPTKGVYMEFEAPLPEYFVRLIE 300
>gi|410942981|ref|ZP_11374722.1| ribosomal large subunit pseudouridine synthase C [Gluconobacter
frateurii NBRC 101659]
Length = 330
Score = 85.5 bits (210), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 85/300 (28%), Positives = 124/300 (41%), Gaps = 58/300 (19%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLASV 111
PPLP IS+ A L + V+Y+D+ L+ ++KP G+ + + V
Sbjct: 64 PPLPDISQ-----PAPLPPPDPMLVREIEKMVIYQDDHLLVLDKPSGLATQGGPGITKHV 118
Query: 112 PCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH 171
+L G E +G + L+ +R+DRDTSG+++I ++ VA+KL AF
Sbjct: 119 DMMLDGLRKE-------DGDRPRLV-----HRIDRDTSGILLIARTPGVAAKLAAAFRGR 166
Query: 172 KVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFE 231
V KTY A+ +G R AS + P +
Sbjct: 167 DVGKTYWAIVVG----------------------RPAQASGIID-QPLAKIGAGGAALVV 203
Query: 232 VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQ 291
S E + SE + +DA KK L + P +GRTHQ+R+HC+
Sbjct: 204 AASRGEEDAVSAKSEYE-------------TIDAAGKKFSWLALS-PLTGRTHQLRVHCE 249
Query: 292 YLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LG I GD +Y G D LHA L HP G ++V APLP E +S
Sbjct: 250 SLGTPIVGDPRYGGKAAHPEGFIDRLHLHARQLDIPHPAGGR-LIVTAPLPPHMRETFRS 308
>gi|421498351|ref|ZP_15945469.1| tRNA pseudouridine synthase C [Aeromonas media WS]
gi|407182652|gb|EKE56591.1| tRNA pseudouridine synthase C [Aeromonas media WS]
Length = 258
Score = 85.5 bits (210), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 80/270 (29%), Positives = 114/270 (42%), Gaps = 52/270 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LY+D+WLVAVNKP G+ D AE++ + ++ +RLD
Sbjct: 5 LLYQDDWLVAVNKPSGLLVHRSWL--------DKAETRFAMQMTRDLIGGRHVYPVHRLD 56
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R TSGV++ VA L +AF +V K Y+AL G AP+ I K
Sbjct: 57 RPTSGVLLFALDPAVARTLTEAFAARRVHKEYLALVRGWAPEQGLIDYPLKEQLDKIAD- 115
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A SD R ++ VT+F L + E + V +K
Sbjct: 116 ---AMSDPDR------PAQEAVTAFR--------------RLHQVELPHAVSKKHPT--- 149
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHE------ 318
LVR FP++GR HQ+R H +L I GD + +G + + + G E
Sbjct: 150 ---SRYSLVRLFPKTGRKHQLRRHLDHLFHPIVGDTTHGDGRHNRFFREHYGCERLLLXX 206
Query: 319 -------LHAESLSFDHPVTGCPVMVQAPL 341
L A LSF+HPV P+ +QAPL
Sbjct: 207 XXXEPLLLVAHRLSFEHPVLKVPMRIQAPL 236
>gi|357406442|ref|YP_004918366.1| rRNA pseudouridylate synthase C [Methylomicrobium alcaliphilum 20Z]
gi|351719107|emb|CCE24781.1| Ribosomal large subunit pseudouridine synthase C (rRNA-uridine
isomerase C) (rRNA pseudouridylate synthase C)
[Methylomicrobium alcaliphilum 20Z]
Length = 318
Score = 85.5 bits (210), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 74/262 (28%), Positives = 103/262 (39%), Gaps = 56/262 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D+LYED+ L+ +NKP G ++ G + L L +RL
Sbjct: 97 DILYEDDVLLVLNKPSGFAVHGGSGLDSAVIEGLRQLRPAAPF----------LELVHRL 146
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
DRDTSG ++I K KL + F + KTY+A+ G + K + G
Sbjct: 147 DRDTSGCLLIAKKRSALRKLHELFRGDDIQKTYLAVLAGRWARKKLVVTAPLQKNVNKGG 206
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
R+ S G+ E F+ L
Sbjct: 207 ERMVEVSRSGK--------------------EAETFFRRIKLL----------------- 229
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK----RYDGHELH 320
N LV A P++GRTHQIR+H +LG I GD +Y G +E N + LH
Sbjct: 230 ----PNATLVEASPKTGRTHQIRVHAAWLGHPIIGDERY-GDFEVNKAFKKIGFKRMFLH 284
Query: 321 AESLSFDHPVTGCPVMVQAPLP 342
A L F HPVTG + + AP+P
Sbjct: 285 AYRLEFVHPVTGQRLQITAPVP 306
>gi|291514728|emb|CBK63938.1| ribosomal large subunit pseudouridine synthase D [Alistipes shahii
WAL 8301]
Length = 361
Score = 85.5 bits (210), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 73/274 (26%), Positives = 114/274 (41%), Gaps = 60/274 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAE--SKSGRLSEGTKLNLLELHLAN 142
D+ YED+WL+ V+KP G+ + + L +K G +E L +
Sbjct: 109 DIPYEDQWLLLVDKPAGLVVHPGVGNYSGTLVNALMHHLNKQGIPAEEQN----RAGLVH 164
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
R+D++TSG++VI K + ++L K F DH + + Y+AL G + TI GRS
Sbjct: 165 RIDKNTSGLLVIAKDEQTHARLAKQFFDHTIQRRYVALVWGNFDE-DEGTITGNIGRSPK 223
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
+++ +D GS + VT ++VL G +
Sbjct: 224 DRQKMFVFAD-------GSDGKHAVTHWKVLKRYGYVT---------------------- 254
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG------ 316
LV +GRTHQIR+H ++G + D +Y G G +
Sbjct: 255 ----------LVECRLETGRTHQIRVHMAWIGHPLFNDERYGGDRILKGTTFAKYRQFIE 304
Query: 317 --------HELHAESLSFDHPVTGCPVMVQAPLP 342
H LHA L F+HP T V+ ++PLP
Sbjct: 305 NCFAVMPRHALHARLLGFEHPATHENVLFESPLP 338
>gi|194015109|ref|ZP_03053726.1| YhcT [Bacillus pumilus ATCC 7061]
gi|194014135|gb|EDW23700.1| YhcT [Bacillus pumilus ATCC 7061]
Length = 302
Score = 85.5 bits (210), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 77/265 (29%), Positives = 116/265 (43%), Gaps = 65/265 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
+VL+EDE L+ V KP G LA++ + E K R
Sbjct: 84 EVLFEDEHLLIVQKPAGRPTHPNEQGQTGTLANLVAFHFQANGEEKRVR----------- 132
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
H+ +RLD+DTSG ++ K + L + + + +TYIA+ G K K+ TI +
Sbjct: 133 -HI-HRLDQDTSGTVIFAKHRLAHAALDQMLSKKTIKRTYIAIAEGLFKK-KKGTIDAAI 189
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR K A R R+ P G + VT F+V+ +N
Sbjct: 190 GRDKHHAVR-------RRISPNG---QKAVTHFQVMDMN--------------------- 218
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
K+ L A V+ +GRTHQIR+H LG + GD Y+GV ++ +
Sbjct: 219 -KRLQLTA--------VKLQLETGRTHQIRVHLSSLGHPLAGDTLYDGVRDYINRC---- 265
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA+ + HP TG ++++APLP
Sbjct: 266 ALHAKQVDMKHPFTGEHLIIEAPLP 290
>gi|407978021|ref|ZP_11158856.1| pseudouridylate synthase [Bacillus sp. HYC-10]
gi|407415567|gb|EKF37162.1| pseudouridylate synthase [Bacillus sp. HYC-10]
Length = 300
Score = 85.5 bits (210), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 83/269 (30%), Positives = 116/269 (43%), Gaps = 57/269 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESK--SGRLSEGTKLNL-LELHLA 141
D+L+EDE ++ +NK +P + + + E +G L K ++ L +HL
Sbjct: 86 DILFEDEHVLVLNKK---------PYIPSIPSREHPEHSIANGLLHHYAKQSVRLTVHLV 136
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLDRDTSGVM++ K S L KA +V +TY A G IT G R+K
Sbjct: 137 SRLDRDTSGVMLVAKHRFAHSLLSKAQKKGEVKRTYRAFTHG------MITQKQGTIRAK 190
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ R L S++ MV E V
Sbjct: 191 -----------IARKL--DSMIERMVD----------------------ESGQEAVTHYT 215
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
V D + V +GRTHQIR+H Q+LG + GD Y G + +R D LH+
Sbjct: 216 VRAVDTHLDMSDVSLTLETGRTHQIRVHMQFLGHPLIGDTLYGG----SSERIDRQALHS 271
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
E+L F HP+TG + APLP T LQ
Sbjct: 272 ETLVFPHPITGESMTFSAPLPDDMTSLLQ 300
>gi|110635475|ref|YP_675683.1| ribosomal large subunit pseudouridine synthase D [Chelativorans sp.
BNC1]
gi|110286459|gb|ABG64518.1| ribosomal large subunit pseudouridine synthase D [Chelativorans sp.
BNC1]
Length = 343
Score = 85.5 bits (210), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 78/281 (27%), Positives = 114/281 (40%), Gaps = 65/281 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+LYEDE L+ ++KP G+ L + GD+ G G
Sbjct: 92 DILYEDEALIVIDKPAGLVVHPGPGNWTGTLVNALIHHCGDTLSGIGGVRRPG------- 144
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH----KVSKTYIALCIGPAPKWKRITI 193
+ +RLDRDTSGVMV+ K+ + L +AF DH + + Y+AL W
Sbjct: 145 --IVHRLDRDTSGVMVVAKTDQAHRVLAEAFADHGQDGDLERAYVALV------WGVPRR 196
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSV-VRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
ISG + G R + + V+P G R VT + VL G G+ +E
Sbjct: 197 ISGLVDAPLG--RSASDRTLRAVVPQGRADARHAVTHYTVLERYGTGTPEE--------- 245
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
+ LV +GRTHQIR+H ++G + GD Y +
Sbjct: 246 ----------------QIAALVECRLETGRTHQIRVHMAHIGHPLVGDPAYGRAFRTKAN 289
Query: 313 R-----------YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
R + LHA L+F HPV+G + +A +P
Sbjct: 290 RLPPALAEMVAAFPRQALHARLLAFRHPVSGKIMRFEAAIP 330
>gi|325680269|ref|ZP_08159829.1| pseudouridine synthase, RluA family [Ruminococcus albus 8]
gi|324107978|gb|EGC02234.1| pseudouridine synthase, RluA family [Ruminococcus albus 8]
Length = 304
Score = 85.5 bits (210), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 76/273 (27%), Positives = 117/273 (42%), Gaps = 54/273 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D++YED+ L+ VNKP+G+ + L GRLS ++ + +R+
Sbjct: 82 DIVYEDDALLVVNKPKGMVVHPAAGNPDGTLVNALLYHCKGRLSSIN--GVIRPGIVHRI 139
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+ TSG++++ K+ K + L +H ++ Y A+C+G K TI GRSKF
Sbjct: 140 DKFTSGLLMVAKTDKAHNSLAAQIKEHSFTREYNAVCVGRF-KEPTGTINEPIGRSKFDR 198
Query: 205 WRV---YAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
++ Y S ++ VT +EV+ G+ S
Sbjct: 199 KKMCVTYQNS------------KEAVTHYEVIEELGQYS--------------------- 225
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
LVR +GRTHQIR+H ++G + GD VY K +G LHA
Sbjct: 226 -----------LVRFRLETGRTHQIRVHSAFIGHPVLGD----DVYGRPYKGIEGQCLHA 270
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
+ L F HP TG + + LP + T L K
Sbjct: 271 KKLGFVHPETGEYMEFDSQLPDYFTRILDKLRK 303
>gi|423107796|ref|ZP_17095491.1| ribosomal large subunit pseudouridine synthase C [Klebsiella
oxytoca 10-5243]
gi|376386529|gb|EHS99240.1| ribosomal large subunit pseudouridine synthase C [Klebsiella
oxytoca 10-5243]
Length = 345
Score = 85.5 bits (210), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 78/259 (30%), Positives = 112/259 (43%), Gaps = 54/259 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 123 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 172
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + D + K Y+AL G +W+ T
Sbjct: 173 RDTSGVLLVAKKRSALRSLHEQLRDKGMQKDYLALVRG---QWQSHT------------- 216
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PS E VE++
Sbjct: 217 KVVQAPLLKNILQSGE---------RIVRVNQEG---KPS------ETRFKVEERY---- 254
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYEWNGKRYDGHELHAE 322
+ LVR P +GRTHQIR+H QY G I D +Y E + +G + LHA
Sbjct: 255 ---PHATLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRYGDREFDKQLSGTGLNRLFLHAA 311
Query: 323 SLSFDHPVTGCPVMVQAPL 341
+L F HP TG + V+APL
Sbjct: 312 ALKFTHPGTGEVMRVEAPL 330
>gi|84779551|dbj|BAE74328.1| ribosomal large subunit pseudouridine synthase C [Sodalis
glossinidius str. 'morsitans']
Length = 328
Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 78/259 (30%), Positives = 114/259 (44%), Gaps = 54/259 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
VLYED+ L+ +NKP G ++ G A R L L +RLD
Sbjct: 105 VLYEDDHLLILNKPAGTAVHGGSGLSFGVIEGLRALRPDARF----------LELVHRLD 154
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + K Y+AL G +W+
Sbjct: 155 RDTSGVLLVAKKRSALRALHEQLRAKGMQKDYLALVRG---QWQ-------------SHV 198
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ AA + +L G ++ VN EG +PSE VE++ L
Sbjct: 199 KTIAAPLLKNILASGE---------RIVRVNSEG---KPSE------TCFKVEERFTL-- 238
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVY--EWNGKRYDGHELHAE 322
+LVRA P +GRTHQIR+H Q+ G I D +Y +G++ + G + LHA
Sbjct: 239 -----AMLVRASPVTGRTHQIRVHAQHAGHPIAFDDRYGDGMFDQQLKGCGLNRLFLHAA 293
Query: 323 SLSFDHPVTGCPVMVQAPL 341
+L FDHP +G + + APL
Sbjct: 294 ALRFDHPGSGETLRIDAPL 312
>gi|423113768|ref|ZP_17101459.1| ribosomal large subunit pseudouridine synthase C [Klebsiella
oxytoca 10-5245]
gi|376387413|gb|EHT00123.1| ribosomal large subunit pseudouridine synthase C [Klebsiella
oxytoca 10-5245]
Length = 345
Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 78/259 (30%), Positives = 112/259 (43%), Gaps = 54/259 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 123 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 172
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + D + K Y+AL G +W+ T
Sbjct: 173 RDTSGVLLVAKKRSALRSLHEQLRDKGMQKDYLALVRG---QWQSHT------------- 216
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PS E VE++
Sbjct: 217 KVVQAPLLKNILQSGE---------RIVRVNQEG---KPS------ETRFKVEERY---- 254
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYEWNGKRYDGHELHAE 322
+ LVR P +GRTHQIR+H QY G I D +Y E + +G + LHA
Sbjct: 255 ---PHATLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRYGDREFDKQLSGTGLNRLFLHAA 311
Query: 323 SLSFDHPVTGCPVMVQAPL 341
+L F HP TG + V+APL
Sbjct: 312 ALKFTHPGTGEVMRVEAPL 330
>gi|410031141|ref|ZP_11280971.1| RluA family pseudouridine synthase [Marinilabilia sp. AK2]
Length = 383
Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 81/284 (28%), Positives = 120/284 (42%), Gaps = 80/284 (28%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL------ 138
D++YED+ L+ VNKP G ++ + + SG L G +L
Sbjct: 136 DIVYEDDHLLVVNKPAG------------MVVHPAHGNWSGTLVNGLVYYFNQLPTLPGN 183
Query: 139 ----HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITII 194
L +R+D+DTSG++VI KS ++L F H + +TY+AL G PK + TI+
Sbjct: 184 TGRPGLVHRIDKDTSGLLVIAKSELAMTELANQFFHHHIDRTYLALVWG-EPKEEEGTIV 242
Query: 195 SGHGRSKFGAWRVYAASD--VGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
+ GRS A D V P GS + VT +++L
Sbjct: 243 AHVGRS---------AKDRKVMDAYPDGSQGKHAVTHWKIL------------------- 274
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
KK + LV+ +GRTHQIR H ++LG + D Y G G
Sbjct: 275 ------KKL-------RYVSLVQCNLETGRTHQIRAHMKFLGHPLFNDAMYGGDKIRKGT 321
Query: 313 RYDGHE--------------LHAESLSFDHPVTGCPVMVQAPLP 342
++ ++ LHA SL F HPV+ + +APLP
Sbjct: 322 QFSKYKSFVHNCFELMPRQALHAMSLGFTHPVSKQKLYFEAPLP 365
>gi|162382793|ref|YP_454733.2| 23S rRNA pseudouridylate synthase C [Sodalis glossinidius str.
'morsitans']
Length = 318
Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 78/259 (30%), Positives = 114/259 (44%), Gaps = 54/259 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
VLYED+ L+ +NKP G ++ G A R L L +RLD
Sbjct: 95 VLYEDDHLLILNKPAGTAVHGGSGLSFGVIEGLRALRPDARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRALHEQLRAKGMQKDYLALVRG---QWQ-------------SHV 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ AA + +L G ++ VN EG +PSE VE++ L
Sbjct: 189 KTIAAPLLKNILASGE---------RIVRVNSEG---KPSE------TCFKVEERFTL-- 228
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVY--EWNGKRYDGHELHAE 322
+LVRA P +GRTHQIR+H Q+ G I D +Y +G++ + G + LHA
Sbjct: 229 -----AMLVRASPVTGRTHQIRVHAQHAGHPIAFDDRYGDGMFDQQLKGCGLNRLFLHAA 283
Query: 323 SLSFDHPVTGCPVMVQAPL 341
+L FDHP +G + + APL
Sbjct: 284 ALRFDHPGSGETLRIDAPL 302
>gi|162148058|ref|YP_001602519.1| ribosomal large subunit pseudouridine synthase A [Gluconacetobacter
diazotrophicus PAl 5]
gi|209542674|ref|YP_002274903.1| RluA family pseudouridine synthase [Gluconacetobacter
diazotrophicus PAl 5]
gi|161786635|emb|CAP56217.1| putative ribosomal large subunit pseudouridine synthase A
[Gluconacetobacter diazotrophicus PAl 5]
gi|209530351|gb|ACI50288.1| pseudouridine synthase, RluA family [Gluconacetobacter
diazotrophicus PAl 5]
Length = 325
Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 74/268 (27%), Positives = 116/268 (43%), Gaps = 52/268 (19%)
Query: 78 LYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLN 134
L + R V+Y D+ ++ +NKP G+ + ++ V +L G + R
Sbjct: 84 LVREIRGMVIYSDDQVIVLNKPAGLPVQGGPGIIHHVDAMLDGLKDQDDDPRP------- 136
Query: 135 LLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITII 194
L +R+DRDTSG++++ ++ VA+KL +F V KTY A+
Sbjct: 137 ----RLVHRIDRDTSGLLLLARTPGVAAKLAASFRGRDVRKTYWAIV------------- 179
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
VGR P V+ + G G+ + ++ + +
Sbjct: 180 ------------------VGRPSPASGVIDQPLARLGA----GPGALTVVASRKDADAAH 217
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY 314
+ E + VLDA +K L + P +GRTHQ+R+HC+ LG I GD KY G
Sbjct: 218 ALSEYE-VLDAAGRKLSWLALS-PLTGRTHQLRVHCEALGTPILGDPKYGGDTAHPEGFV 275
Query: 315 DGHELHAESLSFDHPVTGCPVMVQAPLP 342
D LHA +L HP G ++V A LP
Sbjct: 276 DRLHLHARTLDLPHPAGGR-LVVSADLP 302
>gi|218295180|ref|ZP_03496016.1| pseudouridine synthase, RluA family [Thermus aquaticus Y51MC23]
gi|218244383|gb|EED10908.1| pseudouridine synthase, RluA family [Thermus aquaticus Y51MC23]
Length = 307
Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 78/260 (30%), Positives = 107/260 (41%), Gaps = 55/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL---HLAN 142
+LYEDE L+ +NKP G+ P + G + GR E + E+ + +
Sbjct: 74 ILYEDEDLLVLNKPPGLLTHPA----PGVYTGTVVNALLGRYYEPKAVERPEMVRPGIVH 129
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD+DTSGV+V+ K L +AF D V K Y+AL G K T+I+ GR
Sbjct: 130 RLDKDTSGVLVVAKHGGALEALSQAFRDRLVMKRYLALTEG---HPKEGTLIAPIGRHPV 186
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
+++ GG R T F+VL+ G +
Sbjct: 187 ERHKMHV---------GGVAPRYAETHFQVLATAGPHA---------------------- 215
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
LV A P +GRTHQIR+H ++L I GD VY LHA
Sbjct: 216 ----------LVEARPHTGRTHQIRVHLKHLRAPILGD----EVYGKKSPVIPRQALHAY 261
Query: 323 SLSFDHPVTGCPVMVQAPLP 342
L HP TG + AP+P
Sbjct: 262 ELRLPHPRTGRILEFLAPVP 281
>gi|307243485|ref|ZP_07525636.1| pseudouridine synthase, RluA family [Peptostreptococcus stomatis
DSM 17678]
gi|306493129|gb|EFM65131.1| pseudouridine synthase, RluA family [Peptostreptococcus stomatis
DSM 17678]
Length = 310
Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 75/277 (27%), Positives = 118/277 (42%), Gaps = 65/277 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYC-------ESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D++YED+ L+ VNKPQG+ + L + D S +G + G
Sbjct: 86 DIVYEDDDLLIVNKPQGMVVHPAPGNPDGTLVNAIMYHCKDKLSSINGVIRPG------- 138
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D++TSG++V+ K++ L F H +++ Y +CIG W ++TI
Sbjct: 139 --IVHRIDKNTSGLLVVAKNNASHQGLADQFKLHSITREYEMVCIG-GVNWDQMTIDKNI 195
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+ ++ A D G R VT F V+ EH E +
Sbjct: 196 GRNPKDRLKM-AVLDTGG--------RHAVTHFTVI---------------EHLEGYTYM 231
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--- 314
+ K +GRTHQIR+H YL I GD +Y + K++
Sbjct: 232 KAKL-----------------ETGRTHQIRVHSNYLRHPILGDT----LYGYQVKKFSKL 270
Query: 315 DGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
+G LHA L F HP TG + + LP + + L +
Sbjct: 271 EGQTLHARKLGFVHPRTGEYMEFTSDLPDYFKKILDT 307
>gi|404404826|ref|ZP_10996410.1| RluA family pseudouridine synthase [Alistipes sp. JC136]
Length = 360
Score = 85.1 bits (209), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 74/287 (25%), Positives = 115/287 (40%), Gaps = 86/287 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL---- 140
D+ YED+WL+ V+KP G+ + + +GT +N L HL
Sbjct: 109 DIPYEDKWLLLVDKPAGMVVHPGVGNY-----------------DGTLVNALMYHLNAQG 151
Query: 141 -----------ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWK 189
+R+D++TSG++VI K + ++L K F DH + + Y+AL G +
Sbjct: 152 IPAEEQNRAGLVHRIDKNTSGLLVIAKDEQTHARLAKQFFDHTIQRRYVALVWGNFEE-D 210
Query: 190 RITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQE 249
TI GRS +++ +D GS + VT ++VL G +
Sbjct: 211 EGTITGNIGRSPKDRQKMFVFAD-------GSDGKHAVTHWKVLKRYGYVT--------- 254
Query: 250 HEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEW 309
LV +GRTHQIR+H ++G + D +Y G
Sbjct: 255 -----------------------LVECRLETGRTHQIRVHMAWIGHPLFNDERYGGDRIL 291
Query: 310 NGKRYDG--------------HELHAESLSFDHPVTGCPVMVQAPLP 342
G + H LHA L F+HP T V+ ++PLP
Sbjct: 292 KGTTFAKYRQFIDNCFTVMPRHALHARLLGFEHPATHEEVLFESPLP 338
>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 = 85.1 bits (209), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 78/280 (27%), Positives = 109/280 (38%), Gaps = 76/280 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YED+ L+ VNKPQG+ L GT +N L H
Sbjct: 79 DIVYEDDDLLVVNKPQGMVVHPALGH-----------------ESGTLVNALMFHTPLST 121
Query: 140 --------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
+ +R+D+DTSG++++ K+ K L D K + Y AL G
Sbjct: 122 INGVVRPGIVHRIDKDTSGLLMVAKNDKAHEALSAQLKDKKNLRQYYALVHG-------- 173
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
I G K R A V+ GG RD VT F+V+
Sbjct: 174 EFIENEGTIKAPLGRSSADRKKQAVVAGG---RDAVTHFKVV------------------ 212
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
K+ V L++ +GRTHQIR+H Y+G + GD Y G
Sbjct: 213 -------KRFV-------GYTLLQVTLETGRTHQIRVHMAYIGHPVAGDPLYGPKKTLPG 258
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
+G LHA +L P TG + +APLP + TE L
Sbjct: 259 ---NGQYLHAATLGLTQPTTGEEMTFEAPLPAYFTEMLDQ 295
>gi|326389927|ref|ZP_08211490.1| pseudouridine synthase, RluA family [Thermoanaerobacter ethanolicus
JW 200]
gi|325993987|gb|EGD52416.1| pseudouridine synthase, RluA family [Thermoanaerobacter ethanolicus
JW 200]
Length = 305
Score = 85.1 bits (209), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 73/269 (27%), Positives = 117/269 (43%), Gaps = 54/269 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+LYED+ ++ +NKPQG+ V+ P +G + + +N +L + +R
Sbjct: 83 DILYEDDDIIVINKPQGM----VVHPAPGNYSGTLVNALLYHCKNLSGINGILRPGIVHR 138
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD+DTSGVMV+ K+ K L + V K Y+A+ G + H K
Sbjct: 139 LDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKYVAIVEG----------VIKHEEGKIE 188
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
A +GR V R + E +G + L+ +EN
Sbjct: 189 AL-------IGR----HPVDRKKMAVIE----DGRYALTLYKVLERFKENT--------- 224
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--DGHELHA 321
L+ A ++GRTHQIR+H Y+G + GD VY + +++ +G LH+
Sbjct: 225 ---------LIEAVIKTGRTHQIRVHMAYIGHPVVGD----PVYGFKKQKFKLEGQALHS 271
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L F HP G + +APLP + ++
Sbjct: 272 RVLGFMHPTKGVYMEFEAPLPEYFVRLIE 300
>gi|404493514|ref|YP_006717620.1| pseudouridine synthase [Pelobacter carbinolicus DSM 2380]
gi|77545557|gb|ABA89119.1| pseudouridine synthase [Pelobacter carbinolicus DSM 2380]
Length = 301
Score = 85.1 bits (209), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 71/268 (26%), Positives = 111/268 (41%), Gaps = 50/268 (18%)
Query: 77 SLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL 136
++ L +L D +LV VNKP G+ + A L ++G K +L
Sbjct: 58 DIFALDDEHILLRDRYLVVVNKPPGINSQPTPARYKGTLYEALLRLLDDPYNKGRKPSL- 116
Query: 137 ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG--PAPKWKRITII 194
+ RLDRDTSGVM+ + + L F +V K Y+AL G AP+ + +++
Sbjct: 117 --GMVQRLDRDTSGVMIFSIHARAHKSLSDIFAARRVQKHYLALVAGCMQAPQGEFRSLL 174
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
+ R+ + V GG ++ VT + V+ G+
Sbjct: 175 ARQHRTNL----------MKSVARGG---KEAVTRYRVIEKFGDA--------------- 206
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY 314
E+L P +GR+HQIR+H G + GD++Y G W G
Sbjct: 207 ----------------ELLEVEIP-TGRSHQIRVHFAEAGHPLLGDIRYGGPDRWRGVDV 249
Query: 315 DGHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP++ P+ ++APLP
Sbjct: 250 PRQMLHARRLELLHPISKEPLNIEAPLP 277
>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 = 85.1 bits (209), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 77/274 (28%), Positives = 116/274 (42%), Gaps = 63/274 (22%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+ +ED+ ++ VNKP+G+ + L + L D +G++ G
Sbjct: 81 DIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNA-LLFHCDDLSGINGKIRPG------- 132
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+ L K D + YIAL G K TI +
Sbjct: 133 --IVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKG-TIEAPI 189
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+K ++ D G R T FEVL + P
Sbjct: 190 GRAKEDRQKMAVVRD-------GKEAR---THFEVLE-------RLPGY----------- 221
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
L+ +GRTHQIR+H +Y+G + GD KY N + +G
Sbjct: 222 --------------TLINCKLDTGRTHQIRVHLKYIGHPLAGDPKYG---PKNTIKGNGQ 264
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHA L FDHP T +M +APLP +AL+S
Sbjct: 265 FLHAAKLGFDHPTTKERMMFEAPLPSSFEKALKS 298
>gi|221135371|ref|ZP_03561674.1| ribosomal large subunit pseudouridine synthase C (pseudouridylate
synthase) (uracil hydrolyase [Glaciecola sp. HTCC2999]
Length = 316
Score = 85.1 bits (209), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 78/259 (30%), Positives = 115/259 (44%), Gaps = 56/259 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED+ ++ +NKP G+ L+ G A + E L +R+D
Sbjct: 96 IIYEDDRIMVINKPSGLAVHGGSGLSFGLIEGLRALRPDAKFME----------LVHRID 145
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + D K+ K Y AL G P+ R K A
Sbjct: 146 RDTSGILLVAKRRSALRHLHEQLRDKKMQKRYHALVWGQWPE----------NRFKVKA- 194
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
++++++ S E +++VN EG +PSE + VL
Sbjct: 195 ---------------PLLKNVLKSGERIVNVNPEG---KPSE-----------TRYRVLQ 225
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYEWNGKRYDGHELHA 321
A A+ LV A P +GRTHQIR+HC + G I GD KY +G + + LHA
Sbjct: 226 AFAQTT--LVEASPITGRTHQIRVHCLHAGFPIGGDPKYNDIDGNAQLATQGLKRLFLHA 283
Query: 322 ESLSFDHPVTGCPVMVQAP 340
SLSF HP T V +AP
Sbjct: 284 HSLSFIHPKTLEQVTFKAP 302
>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 = 85.1 bits (209), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 77/274 (28%), Positives = 116/274 (42%), Gaps = 63/274 (22%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+ +ED+ ++ VNKP+G+ + L + L D +G++ G
Sbjct: 80 DIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNA-LLFHCDDLSGINGKIRPG------- 131
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+ L K D + YIAL G K TI +
Sbjct: 132 --IVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKG-TIEAPI 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+K ++ D G R T FEVL + P
Sbjct: 189 GRAKEDRQKMAVVRD-------GKEAR---THFEVLE-------RLPGY----------- 220
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
L+ +GRTHQIR+H +Y+G + GD KY N + +G
Sbjct: 221 --------------TLINCKLDTGRTHQIRVHLKYIGHPLAGDPKYG---PKNTIKGNGQ 263
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHA L FDHP T +M +APLP +AL+S
Sbjct: 264 FLHAAKLGFDHPTTKERMMFEAPLPSSFEKALKS 297
>gi|227111672|ref|ZP_03825328.1| 23S rRNA pseudouridylate synthase C [Pectobacterium carotovorum
subsp. brasiliensis PBR1692]
Length = 318
Score = 85.1 bits (209), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 76/260 (29%), Positives = 116/260 (44%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED++L+ +NKP G ++ G A R L L +RLD
Sbjct: 95 IIYEDDYLLVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLRLKGMQKDYLALVRG---QWQ-------------SHC 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN +G +PSE + E
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVNSDG---KPSETRFKIEERF---------- 226
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD-GHE---LHA 321
++ LVRA P +GRTHQIR+H Q+ G I D +Y G E++ + D G + LHA
Sbjct: 227 ---EHATLVRASPVTGRTHQIRVHAQHAGHPIAFDDRY-GDREFDQQLADTGLKRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
++L F+HP TG + V+APL
Sbjct: 283 QALRFEHPNTGETLRVEAPL 302
>gi|259046729|ref|ZP_05737130.1| ribosomal large subunit pseudouridine synthase D [Granulicatella
adiacens ATCC 49175]
gi|259036625|gb|EEW37880.1| ribosomal large subunit pseudouridine synthase D [Granulicatella
adiacens ATCC 49175]
Length = 308
Score = 85.1 bits (209), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 76/272 (27%), Positives = 118/272 (43%), Gaps = 58/272 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D+++ED+ L+ VNKP G+ L ++ S LS+ T + L +R+
Sbjct: 81 DIVFEDDSLIVVNKPSGMVVHPSKGHYSGTLV-NALLYHSNSLSDSTSEEIYRPGLVHRI 139
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG++VI K++ V KL + ++K+++ YIA I+ GH + G
Sbjct: 140 DKDTSGLLVIAKNNDVHQKLAEQIAENKMNREYIA-------------IVDGHFAHETGV 186
Query: 205 WRV----YAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
+ + + RV+ G ++ +T FEVL SF + S
Sbjct: 187 VDAPLSRHQTNRLKRVVEKGG--KNAITHFEVLD-----SFSDYS--------------- 224
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD--GHE 318
LV +GRTHQIR H +++ I D +Y GK G
Sbjct: 225 ------------LVSCRLETGRTHQIRAHMEFIKHPIVND----PLYHPKGKNATEFGQF 268
Query: 319 LHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
LHA +LSF HP+TG + Q P E +Q
Sbjct: 269 LHARTLSFTHPLTGETLNFQVEPPKEFAEFIQ 300
>gi|410617784|ref|ZP_11328749.1| 23S rRNA pseudouridine955/2504/2580 synthase [Glaciecola polaris
LMG 21857]
gi|410162915|dbj|GAC32887.1| 23S rRNA pseudouridine955/2504/2580 synthase [Glaciecola polaris
LMG 21857]
Length = 318
Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 79/262 (30%), Positives = 112/262 (42%), Gaps = 56/262 (21%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S +L+ED+ L+ +NKP G+ ++ A R L L +R
Sbjct: 94 SHILFEDDLLIVLNKPSGMAVHGGSGLSFGVIEALRALRPQARF----------LELVHR 143
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LDRDTSG +VI K L + D K+ K Y AL +G P+ R K
Sbjct: 144 LDRDTSGCLVIAKKRSALKALHEQLRDKKMDKRYQALVVGEWPE----------NRYKVN 193
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
A ++++++ S E ++SV+ EG +PSE + N +
Sbjct: 194 A----------------PLLKNILKSGERLVSVDTEG---KPSETRFRVLNRYI------ 228
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYEWNGKRYDGHEL 319
LV A P +GRTHQIR+HC + G I D KY E + N + L
Sbjct: 229 -------GSTLVEASPITGRTHQIRVHCLHAGHPIACDDKYGDAEFTGQMNKQGLKRLFL 281
Query: 320 HAESLSFDHPVTGCPVMVQAPL 341
HA S++F HP T V QAPL
Sbjct: 282 HAYSIAFIHPKTEERVSFQAPL 303
>gi|313667509|ref|YP_004047793.1| ribosomal large subunit pseudouridine synthase C [Neisseria
lactamica 020-06]
gi|313004971|emb|CBN86399.1| ribosomal large subunit pseudouridine synthase C [Neisseria
lactamica 020-06]
Length = 330
Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 82/295 (27%), Positives = 124/295 (42%), Gaps = 59/295 (20%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLASV 111
PP+ A K++ R + ++ D++YED+ L+ ++KP GV V V
Sbjct: 72 PPVRAAEKEMPSERRAAVPAREF-------DIVYEDDALLVIDKPSGVAVHGGSGVSFGV 124
Query: 112 PCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH 171
L E++ L L +RLD+DTSG++++ K KL +A +
Sbjct: 125 IEQLRRARPEARY-------------LELVHRLDKDTSGLLMVAKKRSALVKLHEAIRND 171
Query: 172 KVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFE 231
K Y+AL +G P + H R + + RV G T F
Sbjct: 172 HPKKIYLALGVGKLPDD------NFHVRLPLFKYTGAQGEKMVRVSEDGQAAH---TVFR 222
Query: 232 VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQ 291
VLS +G +L + LVRA ++GRTHQIR+H Q
Sbjct: 223 VLSRFSDG----------------------ILHGVGLSHLTLVRATLKTGRTHQIRVHLQ 260
Query: 292 YLGISIRGDVKYEGVYEWNGKR----YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G I GD +Y G Y+ N + LHA L +HP+TG P++++A LP
Sbjct: 261 SQGCPIAGDERY-GDYQANRRLQKLGLKRMFLHASELHLNHPLTGEPLVLKAELP 314
>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 = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 76/273 (27%), Positives = 119/273 (43%), Gaps = 55/273 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ +EDE + V KP+G+ V+ P + ++++ + +N + + +R
Sbjct: 81 DIYFEDEDVAIVYKPKGM----VVHPAPGHYSNTLVNGLMYQMTDLSGINGEIRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV D V++ Y+AL G P T+ + GR+K
Sbjct: 137 IDKDTSGLLMVAKNDIAHRSLVDQLVDKTVTRKYVALVHGVIP-HDYGTVDAPIGRNK-N 194
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ A D GR D +T F+VL FK
Sbjct: 195 DRQAMAVEDDGR---------DAITHFDVLQ-----RFK--------------------- 219
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD--GHELHA 321
N L+ +GRTHQIR+H +Y+G + GD KY K D G LHA
Sbjct: 220 ------NYTLIECRLETGRTHQIRVHMKYIGYPLVGDPKY-----GPKKTMDIGGQALHA 268
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
++ F+HP T + APLP + E LQ K
Sbjct: 269 ATIGFNHPKTNEYIEKIAPLPTYFEEILQDLDK 301
>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 = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 75/275 (27%), Positives = 119/275 (43%), Gaps = 59/275 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P L G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHLTGTLVNGLMAHCTDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLI-SHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D ++ VT F VL F++ +
Sbjct: 196 RQSMTVTRDG----------KNAVTHFHVLE-----RFQDFT------------------ 222
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 223 ---------LVECQLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTIDFNGQAL 266
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
HA L FDHP TG V +APLP E +++ K
Sbjct: 267 HAGVLGFDHPRTGEYVEFEAPLPEDMAELIENLRK 301
>gi|319763720|ref|YP_004127657.1| pseudouridine synthase [Alicycliphilus denitrificans BC]
gi|317118281|gb|ADV00770.1| pseudouridine synthase, RluA family [Alicycliphilus denitrificans
BC]
Length = 332
Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 75/261 (28%), Positives = 115/261 (44%), Gaps = 53/261 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
DV++EDE L+ ++KP G+ V+ P +G + GR + + + + +RL
Sbjct: 107 DVVHEDEHLLVIDKPAGL----VVHPAPGNWSGTLLNALLGR--DAQAMQVPRAGIVHRL 160
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG+MV+ ++ LV+ +VS+ Y+AL A
Sbjct: 161 DKDTSGLMVVARNRAAMDALVRMIAAREVSRQYLAL-----------------------A 197
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
W ++ S+ R+ + RD + V+ L +H K+A D
Sbjct: 198 WGAWSGSEQRRIR--APIGRDPRNRLRMAVVD----------LGQH------AGKEACTD 239
Query: 265 AD--AKKNEI-LVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
D A E+ LVR +GRTHQIR+H + + D Y G +R LHA
Sbjct: 240 FDLLASGEEVCLVRCTLHTGRTHQIRVHMASIRHPLVADALYGGAVGGPMRR---QALHA 296
Query: 322 ESLSFDHPVTGCPVMVQAPLP 342
L+F HPVTG P+ APLP
Sbjct: 297 FRLAFTHPVTGKPMEFHAPLP 317
>gi|403059058|ref|YP_006647275.1| 23S rRNA pseudouridylate synthase C [Pectobacterium carotovorum
subsp. carotovorum PCC21]
gi|402806384|gb|AFR04022.1| 23S rRNA pseudouridylate synthase C [Pectobacterium carotovorum
subsp. carotovorum PCC21]
Length = 318
Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 77/260 (29%), Positives = 117/260 (45%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED++L+ +NKP G ++ G A R L L +RLD
Sbjct: 95 IIYEDDYLLVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + K Y+AL + GH +S
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLRLKGMQKDYLAL-------------VRGHWQSH---C 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN +G +PSE + E
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVNSDG---KPSETRFKIEERF---------- 226
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD-GHE---LHA 321
++ LVRA P +GRTHQIR+H Q+ G I D +Y G E++ + D G + LHA
Sbjct: 227 ---EHATLVRASPVTGRTHQIRVHAQHAGHPIAFDDRY-GDREFDQQLADTGLKRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
++L F+HP TG + V+APL
Sbjct: 283 QALRFEHPNTGETLRVEAPL 302
>gi|392393486|ref|YP_006430088.1| RluA family pseudouridine synthase [Desulfitobacterium dehalogenans
ATCC 51507]
gi|390524564|gb|AFM00295.1| pseudouridine synthase, RluA family [Desulfitobacterium
dehalogenans ATCC 51507]
Length = 304
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 73/259 (28%), Positives = 113/259 (43%), Gaps = 55/259 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGR-LSEGTKLNLLELHLANR 143
++LYED++ +AVNKP G V+ P G + G L++G +H R
Sbjct: 85 EILYEDDYFLAVNKPAG----QVVHPTPRYPTGTIGNAVVGYWLAQGEARPFRPIH---R 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DR+TSGV+V+ K+ ++ T ++ K Y+ I+ G + G
Sbjct: 138 IDRNTSGVVVVGKNQFAHQQMAWQHTHRRIHKCYLG-------------IVEGQVKEDQG 184
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
A + PG + R +S+ G + L+ ++
Sbjct: 185 VINAPIA-----LAPGSFMQRQ-------ISLEGSPAVTHYRVLERYQ------------ 220
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
DA E ++ +GRTHQIR+HCQ+LG S+ GD Y G R D LH+
Sbjct: 221 --DASLLEFILE----TGRTHQIRVHCQHLGHSLLGDDLYGGSL----ARIDRQALHSSI 270
Query: 324 LSFDHPVTGCPVMVQAPLP 342
F+HP+TG +QAPLP
Sbjct: 271 YEFNHPLTGELTSIQAPLP 289
>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 = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 75/275 (27%), Positives = 119/275 (43%), Gaps = 59/275 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P L G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHLTGTLVNGLMAHCTDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLI-SHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D ++ VT F VL F++ +
Sbjct: 196 RQSMTVTRDG----------KNAVTHFHVLE-----RFQDFT------------------ 222
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 223 ---------LVECQLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTIDFNGQAL 266
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
HA L FDHP TG V +APLP E +++ K
Sbjct: 267 HAGVLGFDHPRTGEYVEFEAPLPEDMAELIETLRK 301
>gi|293376242|ref|ZP_06622485.1| pseudouridine synthase, RluA family [Turicibacter sanguinis PC909]
gi|325845167|ref|ZP_08168476.1| pseudouridine synthase, RluA family [Turicibacter sp. HGF1]
gi|292645134|gb|EFF63201.1| pseudouridine synthase, RluA family [Turicibacter sanguinis PC909]
gi|325488832|gb|EGC91232.1| pseudouridine synthase, RluA family [Turicibacter sp. HGF1]
Length = 302
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 73/271 (26%), Positives = 126/271 (46%), Gaps = 50/271 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D++Y+D++++ VNKP+ + V+ P ++G ++++ + +N +L + +R
Sbjct: 81 DIVYQDDYVIVVNKPENM----VVHPAPGSMSGTLVNGLMAQVTDLSGINGVLRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y+AL G P TI + GR
Sbjct: 137 IDKDTSGLLMVAKNDVAHESLVNQLVEKTVTRRYVALVHGVIP-HDNGTIDAPIGRDPKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ A + G + VT F+VL FKE +
Sbjct: 196 RKKM-AVVESG---------KHAVTHFKVLQ-----RFKEFT------------------ 222
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
L+ +GRTHQIR+H +Y+G + GD +Y G + G + G LHA+
Sbjct: 223 ---------LIECRLETGRTHQIRVHMRYIGYPLAGDPQY-GPRKTIGAEH-GQFLHAKV 271
Query: 324 LSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
L F HP T + AP+P + EAL + K
Sbjct: 272 LGFVHPKTEEYMEFSAPIPTYFEEALANLQK 302
>gi|149173826|ref|ZP_01852455.1| ribosomal large subunit pseudouridine synthase [Planctomyces maris
DSM 8797]
gi|148847356|gb|EDL61690.1| ribosomal large subunit pseudouridine synthase [Planctomyces maris
DSM 8797]
Length = 342
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 78/289 (26%), Positives = 112/289 (38%), Gaps = 88/289 (30%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAG------DSAESKSGRLSEGTKLNLLEL 138
D++YED+W+ +NKP + + LAG D +G+ G
Sbjct: 94 DIVYEDDWIAIINKPSDMIVHPGKGNYAGTLAGALQYHFDQLSDVAGQYRPG-------- 145
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI------- 191
+ +RLDR+TSG+MV+ K ++V +KL F V K Y A+ W R+
Sbjct: 146 -IVHRLDRNTSGIMVVAKDNQVHAKLSAQFEKRDVQKEYRAIV------WGRMEFDTDYI 198
Query: 192 -TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
T + H R A + V G R+ T +EV+ ++
Sbjct: 199 DTFMCVHPR----------AREKMIVCDEGGNARNAFTYYEVIERYQAFTY--------- 239
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
VR PR+GRTHQ+R+H Q++G SI D Y G
Sbjct: 240 -----------------------VRLKPRTGRTHQLRVHMQHIGHSIVADRVYGGHKSLK 276
Query: 311 GK------RYDGHE-----------LHAESLSFDHPVTGCPVMVQAPLP 342
K D E LHA L F HP +G P+ +APLP
Sbjct: 277 MKSLGIQAEADAAELESDVLIERQALHAYCLEFFHPQSGKPMKFEAPLP 325
>gi|296331122|ref|ZP_06873596.1| pseudouridylate synthase [Bacillus subtilis subsp. spizizenii ATCC
6633]
gi|305674277|ref|YP_003865949.1| pseudouridylate synthase [Bacillus subtilis subsp. spizizenii str.
W23]
gi|296151766|gb|EFG92641.1| pseudouridylate synthase [Bacillus subtilis subsp. spizizenii ATCC
6633]
gi|305412521|gb|ADM37640.1| pseudouridylate synthase [Bacillus subtilis subsp. spizizenii str.
W23]
Length = 303
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 75/275 (27%), Positives = 119/275 (43%), Gaps = 59/275 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P L G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHLTGTLVNGLMAHCTDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLI-SHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D ++ VT F VL F++ +
Sbjct: 196 RQSMTVTRDG----------KNAVTHFHVLE-----RFQDFT------------------ 222
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 223 ---------LVECQLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTIDFNGQAL 266
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
HA L FDHP TG V +APLP E +++ K
Sbjct: 267 HAGILGFDHPRTGEYVEFEAPLPEDMAELIENLRK 301
>gi|56695430|ref|YP_165778.1| ribosomal large subunit pseudouridine synthase C [Ruegeria pomeroyi
DSS-3]
gi|56677167|gb|AAV93833.1| ribosomal large subunit pseudouridine synthase C [Ruegeria pomeroyi
DSS-3]
Length = 347
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 91/301 (30%), Positives = 126/301 (41%), Gaps = 57/301 (18%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLPA + E ++ + S + KL R+ VL+ D+ ++ +NKP G+ +
Sbjct: 65 PPLPAPGERPEPVKSRVSDSDA---KLIRACVLHRDDDIIVLNKPAGLAVQ--------- 112
Query: 115 LAGDSAESKS-GRLSEGTKL-NLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHK 172
G S +++ LSE + N L +RLD+DTSGV+V+ ++ + A++L AF
Sbjct: 113 --GGSGQTRHVDGLSEALRFGNDENPRLVHRLDKDTSGVLVLARTREAAARLTAAFRHRN 170
Query: 173 VSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFE 231
K Y AL G P P I G V GG R
Sbjct: 171 TRKIYWALVAGVPTPYLGEIK--------------------TGLVKAGGHGARGEGEKMN 210
Query: 232 VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQ 291
V+ + SEL A L A + V P +GRTHQ+R H
Sbjct: 211 VVHL---------SELDATPGAKRAHTYYATLYRVAGRAS-WVAMEPVTGRTHQLRAHMA 260
Query: 292 YLGISIRGDVKYEGVYEWN-----GKRYDG-----HELHAESLSFDHPVTGCPVMVQAPL 341
+G I GD KY G + N G + G LHA SLSF+HP T V APL
Sbjct: 261 GIGHPIIGDGKYGGSGQENLGDGWGAQLGGIISKKLHLHARSLSFEHPSTRKKVTFTAPL 320
Query: 342 P 342
P
Sbjct: 321 P 321
>gi|121634072|ref|YP_974317.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis FAM18]
gi|385327565|ref|YP_005881868.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis alpha710]
gi|385338903|ref|YP_005892776.1| ribosomal large subunit pseudouridine synthase C (rRNA-uridine
isomerase C; rRNA pseudouridylate synthase C) [Neisseria
meningitidis WUE 2594]
gi|416176389|ref|ZP_11609639.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis M6190]
gi|416190031|ref|ZP_11615511.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis ES14902]
gi|421541540|ref|ZP_15987657.1| pseudouridine synthase [Neisseria meningitidis NM255]
gi|433474673|ref|ZP_20432021.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
88050]
gi|433491684|ref|ZP_20448786.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM586]
gi|433493790|ref|ZP_20450866.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM762]
gi|433495906|ref|ZP_20452955.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
M7089]
gi|433497906|ref|ZP_20454923.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
M7124]
gi|433499979|ref|ZP_20456971.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM174]
gi|433502119|ref|ZP_20459090.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM126]
gi|433514568|ref|ZP_20471344.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2004090]
gi|433516784|ref|ZP_20473538.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
96023]
gi|433523019|ref|ZP_20479692.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
97020]
gi|433527361|ref|ZP_20483974.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM3652]
gi|433529452|ref|ZP_20486052.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM3642]
gi|433531574|ref|ZP_20488143.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2007056]
gi|433533769|ref|ZP_20490318.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2001212]
gi|120865778|emb|CAM09507.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis FAM18]
gi|308388417|gb|ADO30737.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis alpha710]
gi|319411317|emb|CBY91728.1| ribosomal large subunit pseudouridine synthase C (rRNA-uridine
isomerase C; rRNA pseudouridylate synthase C) [Neisseria
meningitidis WUE 2594]
gi|325133121|gb|EGC55793.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis M6190]
gi|325139089|gb|EGC61635.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis ES14902]
gi|402319909|gb|EJU55413.1| pseudouridine synthase [Neisseria meningitidis NM255]
gi|432212733|gb|ELK68668.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
88050]
gi|432230704|gb|ELK86376.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM586]
gi|432231968|gb|ELK87623.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM762]
gi|432237089|gb|ELK92689.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
M7124]
gi|432237548|gb|ELK93141.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
M7089]
gi|432237889|gb|ELK93478.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM174]
gi|432243331|gb|ELK98843.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM126]
gi|432256232|gb|ELL11555.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2004090]
gi|432256576|gb|ELL11898.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
96023]
gi|432262892|gb|ELL18123.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
97020]
gi|432267430|gb|ELL22608.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM3652]
gi|432269594|gb|ELL24751.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2007056]
gi|432270103|gb|ELL25250.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM3642]
gi|432274322|gb|ELL29415.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2001212]
Length = 330
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 79/266 (29%), Positives = 114/266 (42%), Gaps = 52/266 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
DV+YED+ L+ ++KP GV V V L E+K L L
Sbjct: 95 DVVYEDDALLVIDKPSGVAVHGGSGVSFGVIEQLRRARPEAKY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H +
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVKLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LFKYTGAQGEKMVRVSADGQSAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPL 343
LHA L +HP+TG P++++A LPL
Sbjct: 290 FLHASELHLNHPLTGEPLVLKAELPL 315
>gi|321315311|ref|YP_004207598.1| pseudouridylate synthase [Bacillus subtilis BSn5]
gi|320021585|gb|ADV96571.1| pseudouridylate synthase [Bacillus subtilis BSn5]
Length = 303
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 75/275 (27%), Positives = 119/275 (43%), Gaps = 59/275 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P L G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHLTGTLVNGLMAHCTDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLI-SHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D ++ VT F VL F++ +
Sbjct: 196 RQSMTVTRDG----------KNAVTHFHVLE-----RFQDFT------------------ 222
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 223 ---------LVECQLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTIDFNGQAL 266
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
HA L FDHP TG V +APLP E +++ K
Sbjct: 267 HAGVLGFDHPRTGEYVEFEAPLPEDMAELIENLRK 301
>gi|374385236|ref|ZP_09642744.1| RluA family pseudouridine synthase [Odoribacter laneus YIT 12061]
gi|373226441|gb|EHP48767.1| RluA family pseudouridine synthase [Odoribacter laneus YIT 12061]
Length = 352
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 70/275 (25%), Positives = 114/275 (41%), Gaps = 62/275 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH--LAN 142
D++YEDE ++ +NKP G+ +G + L + ++ L +
Sbjct: 106 DIVYEDEQVMVINKPAGMVVHPAFGH----FSGTLVNALVWHLKDNPLFTTNDIRPGLVH 161
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH-GRSK 201
R+D+DTSG++VI K+ + + L F + + Y+ALC G + I+GH GR
Sbjct: 162 RIDKDTSGLLVIAKTEQAKAHLALQFFNKTSDRKYVALCWGNLK--EDTATITGHIGRHP 219
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ V P GS + VT ++ V+E+
Sbjct: 220 VN-------RKIMSVYPDGSHGKQAVTHYK------------------------VIERLG 248
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE--- 318
++ LV +GRTHQIR H +Y+G + D +Y G G + ++
Sbjct: 249 YVN--------LVECILETGRTHQIRAHFKYIGHPLFNDAEYGGAEILKGTTFSKYKQFV 300
Query: 319 -----------LHAESLSFDHPVTGCPVMVQAPLP 342
LHA++L F HPVTG + +PLP
Sbjct: 301 NNCFQICPRQALHAKTLGFTHPVTGERLSFDSPLP 335
>gi|431793563|ref|YP_007220468.1| RluA family pseudouridine synthase [Desulfitobacterium
dichloroeliminans LMG P-21439]
gi|430783789|gb|AGA69072.1| pseudouridine synthase, RluA family [Desulfitobacterium
dichloroeliminans LMG P-21439]
Length = 302
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 73/259 (28%), Positives = 116/259 (44%), Gaps = 55/259 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGR-LSEGTKLNLLELHLANR 143
++L+ED++ +AVNKP G V+ P G + G L++G +H R
Sbjct: 84 EILFEDDYFLAVNKPAG----RVVHPNPRYPTGTIGNAVIGYWLAKGESRPFRPIH---R 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DR+TSGV+V+ K+ ++ ++ K Y+ + G ++ G
Sbjct: 137 IDRNTSGVVVVAKNQFAHQQMFWQHNHQRIHKRYLGVVEG--------QVLEDQGTIN-- 186
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ +G PG +VR +S +G + L+ +
Sbjct: 187 -------APIGHT-PGSYLVRQ-------ISPDGAPAVTHYRVLKRY------------- 218
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
ADA E ++ +GRTHQIR+HCQ+LG + GD Y G N R+D LHA
Sbjct: 219 -ADATLLEFVLE----TGRTHQIRVHCQHLGHPLFGDDFYGG----NIARFDRQALHAFI 269
Query: 324 LSFDHPVTGCPVMVQAPLP 342
F+HPVTG + ++APLP
Sbjct: 270 YEFNHPVTGELLTIRAPLP 288
>gi|443632785|ref|ZP_21116964.1| pseudouridylate synthase [Bacillus subtilis subsp. inaquosorum KCTC
13429]
gi|443347608|gb|ELS61666.1| pseudouridylate synthase [Bacillus subtilis subsp. inaquosorum KCTC
13429]
Length = 303
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 75/275 (27%), Positives = 119/275 (43%), Gaps = 59/275 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P L G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHLTGTLVNGLMAHCTDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLI-SHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D ++ VT F VL F++ +
Sbjct: 196 RQSMTVTRDG----------KNAVTHFHVLE-----RFQDFT------------------ 222
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 223 ---------LVECQLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTIDFNGQAL 266
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
HA L FDHP TG V +APLP E +++ K
Sbjct: 267 HAGILGFDHPRTGEYVEFEAPLPEDMAELIENLRK 301
>gi|339624005|ref|ZP_08659794.1| pseudouridylate synthase, 23S RNA-specific [Fructobacillus
fructosus KCTC 3544]
Length = 306
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 74/263 (28%), Positives = 104/263 (39%), Gaps = 57/263 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLLAGDSAESKSGRLSEGTKLNLLELH 139
D++YED+ L+ VNK QG+ V LL S +G G
Sbjct: 80 DIVYEDDDLLVVNKKQGMVVHPAAGHAGGTLVNALLFHAPLSSINGEFRPG--------- 130
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
+ +R+DRDTSG++++ K+ + L HK + Y AL G ++K HG
Sbjct: 131 IVHRIDRDTSGLLMVAKNDRAHQALAAELKAHKTERYYYALVKG---EFK-----EDHGT 182
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
R V+ GG R+ VT FEVL
Sbjct: 183 VDAPVGRHPKDRKKQAVVAGG---REAVTHFEVL-------------------------- 213
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
+ L+R +GRTHQIR+H QY+G + GD Y E G G L
Sbjct: 214 ------ERFHGYTLLRLALETGRTHQIRVHMQYIGHPVVGDATYGHQQELLGISLKGQLL 267
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA++L P TG + +PLP
Sbjct: 268 HAKTLVLTQPTTGEKMTFDSPLP 290
>gi|421724187|ref|ZP_16163421.1| 23S rRNA pseudouridylate synthase C [Klebsiella oxytoca M5al]
gi|410374996|gb|EKP29643.1| 23S rRNA pseudouridylate synthase C [Klebsiella oxytoca M5al]
Length = 317
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 77/260 (29%), Positives = 111/260 (42%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + D + K Y+AL G +W+ T
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLRDKGMQKDYLALVRG---QWQSHT------------- 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PSE + E
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVNQEG---KPSETRFKVEERFT--------- 227
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
+ LVR P +GRTHQIR+H QY G I D +Y G E++ G + LHA
Sbjct: 228 ----HATLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRY-GDREFDKQLAGTGLNRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP +G + V+APL
Sbjct: 283 AALKFTHPGSGEIMRVEAPL 302
>gi|444918132|ref|ZP_21238211.1| ribosomal large subunit pseudouridine synthase D [Cystobacter
fuscus DSM 2262]
gi|444710246|gb|ELW51233.1| ribosomal large subunit pseudouridine synthase D [Cystobacter
fuscus DSM 2262]
Length = 331
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 81/312 (25%), Positives = 128/312 (41%), Gaps = 81/312 (25%)
Query: 52 PLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASV 111
P +P P +S + R SA + + V++ED+WL+ ++KP G+
Sbjct: 57 PSTPVYPGLS--FRIRRPASAEPDTP----TEVPVVFEDDWLLVLDKPAGLPLHP----- 105
Query: 112 PCLLAGDSAESKSGRLSEGTKLNLLELHL-------ANRLDRDTSGVMVITKSHKVASKL 164
+ R +GT ++LL L A+RLDR+TSG++V ++ + L
Sbjct: 106 ------------TARYHKGTLVSLLRERLGHASAEPAHRLDRETSGLVVCGRTTEACRVL 153
Query: 165 VKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVR 224
+ F +V K Y+A+C G P+ ++RV A + G ++R
Sbjct: 154 GRLFISREVHKEYLAICEGHPPE---------------DSFRVDAP-----IAEGTELIR 193
Query: 225 DMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTH 284
V +L F+ V + L+ + L+R P +GR H
Sbjct: 194 IAVRIDPILGKESHTRFE--------------VLSRFTLEGEPFA---LLRCHPETGRQH 236
Query: 285 QIRLHCQYLGISIRGDVKY---EGVYE-----------WNGKRYDGHELHAESLSFDHPV 330
QIR+H + G + GD Y G ++ W R H LHA LSF HP
Sbjct: 237 QIRVHLREAGFPLVGDKMYGPDPGYFDRFSKRCLEPEAWVRLRLPRHALHAARLSFPHPA 296
Query: 331 TGCPVMVQAPLP 342
TG V ++PLP
Sbjct: 297 TGQRVTFESPLP 308
>gi|427718551|ref|YP_007066545.1| pseudouridine synthase [Calothrix sp. PCC 7507]
gi|427350987|gb|AFY33711.1| pseudouridine synthase [Calothrix sp. PCC 7507]
Length = 572
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 82/275 (29%), Positives = 119/275 (43%), Gaps = 86/275 (31%)
Query: 86 VLYEDEWLVAVNKPQGV------YC---ESVLASVPCLLAGDSAESKSGRLSEGTKLNLL 136
+LYEDEWL+AVNKP G+ YC +SVL+ + C+L D A NL
Sbjct: 367 ILYEDEWLIAVNKPPGLLSVPGRYCDRQDSVLSRLRCMLP-DGA-------------NLT 412
Query: 137 ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
+H RLD++TSG++++ + + +L + F V+K Y A+ +G K R TI
Sbjct: 413 TVH---RLDQETSGILLLARDRQTHRQLSQQFQQRLVNKIYEAILVGDV-KGDRGTI--- 465
Query: 197 HGRSKFGAW-----RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
+ W R Y D R P +T F V++
Sbjct: 466 ----ELPLWGDPQNRPYQQVDWQRGKPS-------LTRFRVIA---------------RA 499
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLH---CQYLGISIRGDVKYEGVYE 308
EN+ VE P +GRTHQ+R+H Q LG++I GD Y G
Sbjct: 500 ENHTRVE-----------------FIPFTGRTHQLRVHAADAQGLGVTILGDRLY-GCRA 541
Query: 309 WNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPL 343
+ + LHA L+F HP +G + +QA P
Sbjct: 542 ITSRLH----LHARELTFQHPQSGNTLHLQAQTPF 572
>gi|337287730|ref|YP_004627202.1| RluA family pseudouridine synthase [Thermodesulfobacterium sp.
OPB45]
gi|334901468|gb|AEH22274.1| pseudouridine synthase, RluA family [Thermodesulfobacterium
geofontis OPF15]
Length = 306
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 73/266 (27%), Positives = 116/266 (43%), Gaps = 63/266 (23%)
Query: 85 DVLYEDEWLVAVNKPQGV--------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL 136
+++YEDE + +NKP G+ Y ++++ + +L + G++ G
Sbjct: 82 EIIYEDEDIAVINKPSGIVVHPAPGHYDDTLVHGL--ILKLKNLSGIGGKIRPG------ 133
Query: 137 ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
+ +RLD+DTSG+M++ K+ KLV+AF + + K YIAL G R+T G
Sbjct: 134 ---IVHRLDKDTSGIMLVAKNDFAHKKLVEAFKERLIEKNYIALVYG------RLTQKKG 184
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
+ G + A VL G + +T +EVL + + S
Sbjct: 185 KIETFIGRHPI--ARKKMAVLKEGKLA---ITFYEVLEIFNKAS---------------- 223
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
LV A P +GRTHQIR+ Y+G I GD Y G+ + N +
Sbjct: 224 ----------------LVLAKPVTGRTHQIRVQFSYIGHPILGDPIYGGL-KHNLPKPPR 266
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLP 342
LHA + F HP T + + P+P
Sbjct: 267 LMLHAYEIVFKHPRTNEEMKFRVPIP 292
>gi|304320252|ref|YP_003853895.1| ribosomal large subunit pseudouridine synthase protein
[Parvularcula bermudensis HTCC2503]
gi|303299154|gb|ADM08753.1| putative ribosomal large subunit pseudouridine synthase protein
[Parvularcula bermudensis HTCC2503]
Length = 338
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 85/279 (30%), Positives = 115/279 (41%), Gaps = 61/279 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLAS-----VPCLL--AGDSAESKSGRLSEGTKLNLLEL 138
VL+ED L+ +NKP G+ + V LL GD+ G + G
Sbjct: 86 VLFEDGDLIVINKPAGLVVHPAAGNWTGTLVNALLHHCGDTLSGIGGVIRPG-------- 137
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
+ +RLD+DTSGVMVI K+ L F H + + Y+ALC G +P+ TI
Sbjct: 138 -IVHRLDKDTSGVMVIAKNDHAHQGLSALFAAHDIDRAYLALCEG-SPRPTSGTITWPLA 195
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
RS ++ VG P G ++ +T F L G G K P
Sbjct: 196 RSSGDRKKMTV---VGVDRPEG---KEAITHFARLDAYGIGRAKLPG------------- 236
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG------- 311
DA A LV +GRTHQIR+H ++G + GD Y G G
Sbjct: 237 -----DALAS----LVECRLETGRTHQIRVHMSHIGHPLLGDPVY-GRSGLAGLKPGDPA 286
Query: 312 --------KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+R+ LHA L FDHPVTG + + P P
Sbjct: 287 ADHALGLLRRFRRQALHAVELGFDHPVTGEALHFRQPPP 325
>gi|406836436|ref|ZP_11096030.1| RluA family pseudouridine synthase [Schlesneria paludicola DSM
18645]
Length = 351
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 80/282 (28%), Positives = 111/282 (39%), Gaps = 78/282 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAG------DSAESKSGRLSEGTKLNLLEL 138
++LY+D+ L+ +NK + + LAG D +G+ G
Sbjct: 99 NILYDDDALIVINKSANMIVHPGRGNYLGTLAGALQFHFDRLSDVAGKFRAG-------- 150
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI----- 193
+ +RLDRDTSGV+V+ K + V L + F + V K Y A+ G + R I
Sbjct: 151 -IVHRLDRDTSGVLVVAKDNTVHHHLSRQFEERTVEKEYRAITWGEL-SFDRDYIETHVR 208
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+S R + V P G+ R T +EVL SF
Sbjct: 209 VSNRNRERM------------MVCPEGNNSRHAATFYEVLERFNGFSF------------ 244
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN--- 310
VR P++GRTHQ+R+H +LG I D YEG +
Sbjct: 245 --------------------VRLCPQTGRTHQLRVHMHHLGHPIVADRLYEGNSSLSLSE 284
Query: 311 ---GKRYDGHE-------LHAESLSFDHPVTGCPVMVQAPLP 342
G D E LHA L FDHPVTG + +APLP
Sbjct: 285 LVEGVSEDDDEVLMSRQALHALKLGFDHPVTGQRMEFEAPLP 326
>gi|110803816|ref|YP_699133.1| pseudouridine synthase [Clostridium perfringens SM101]
gi|110684317|gb|ABG87687.1| pseudouridine synthase, RluA family [Clostridium perfringens SM101]
Length = 306
Score = 84.7 bits (208), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 72/261 (27%), Positives = 114/261 (43%), Gaps = 49/261 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+++YEDE ++ VNKP+G+ V+ P G + + + +N ++ + +R
Sbjct: 83 NIIYEDEDVIVVNKPKGM----VVHPAPGNYTGTLVNALLYHCDDLSGINGVIRPGIVHR 138
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++V+ K+ KL + F DH + + Y A+ G K TI + GR
Sbjct: 139 IDKDTSGILVVAKNDNAHQKLAEQFKDHSIKREYYAIVEGRFKKEGG-TIDAPLGRHHRD 197
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D R VT +EVL V F S
Sbjct: 198 RLKYAVVKDGKRA----------VTHYEVLKV-----FNSCS------------------ 224
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
LV+ +GRTHQIR+H ++G + GD Y G+ + +G LHA++
Sbjct: 225 ---------LVKCTLETGRTHQIRVHMAFIGHPLLGDTVY-GLKKQKKLSQEGQVLHAKT 274
Query: 324 LSFDHPVTGCPVMVQAPLPLW 344
L F HP TG V + LP +
Sbjct: 275 LGFIHPTTGKYVEFDSELPEY 295
>gi|264679430|ref|YP_003279337.1| pseudouridine synthase [Comamonas testosteroni CNB-2]
gi|262209943|gb|ACY34041.1| pseudouridine synthase, RluA family [Comamonas testosteroni CNB-2]
Length = 352
Score = 84.7 bits (208), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 80/269 (29%), Positives = 115/269 (42%), Gaps = 57/269 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLAS-VPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
V+YEDE L+ +NKP G+ + LL G A + R + + +RL
Sbjct: 123 VVYEDEDLLVINKPAGLVVHPAPGNWTGTLLNGLLARDEKAR-------QVPRAGIVHRL 175
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG+MV+ ++ L+K +VS+ Y+AL K + + GR
Sbjct: 176 DKDTSGLMVVARNRSTMDALIKMIAAREVSRQYLALAHKQWGSRKHREVDAPIGRDPRNR 235
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
R+ A D+ + PG + T F++L D
Sbjct: 236 LRM-AVVDLN-LHPG----KQARTDFDLL------------------------------D 259
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
DA + LVR +GRTHQIR+H LG + D Y G E +R LHA L
Sbjct: 260 GDAAHS--LVRCTLHTGRTHQIRVHMASLGHPLIADTLYGGQPEGGLER---QALHAFRL 314
Query: 325 SFDHPVTGCPVMVQAPLP--------LWG 345
+F+HPVT P++ APLP LWG
Sbjct: 315 AFEHPVTKKPLVHYAPLPQDMAGALDLWG 343
>gi|217968192|ref|YP_002353698.1| RluA family pseudouridine synthase [Dictyoglomus turgidum DSM 6724]
gi|217337291|gb|ACK43084.1| pseudouridine synthase, RluA family [Dictyoglomus turgidum DSM
6724]
Length = 303
Score = 84.7 bits (208), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 71/266 (26%), Positives = 118/266 (44%), Gaps = 64/266 (24%)
Query: 85 DVLYEDEWLVAVNKPQGV--------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL 136
+++YEDE +V +NKP+G+ Y ++++ ++ L G L G
Sbjct: 80 EIVYEDEDMVIINKPKGMVVHPAHGHYNDTLVNAL--LYRVKDLSGIGGELRPG------ 131
Query: 137 ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
+ +RLD+DT+G+++I K+ KL + + + +TY ALC G P W+ I +
Sbjct: 132 ---IIHRLDKDTTGLLIIAKNDLSHQKLSEQLKNRTLRRTYWALCEGEIP-WEEKRIEAP 187
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
GR ++ ++P G + +T+F+VL
Sbjct: 188 IGRHPINRKKMA-------IVPYGKIA---ITNFKVL----------------------- 214
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
+ K L+ A +GRTHQIR+H +LG I GD Y + + G + G
Sbjct: 215 ---------ERFKGYTLISADLETGRTHQIRVHISHLGFPIVGDEVYGRIDKKFGVK--G 263
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLP 342
LHA+ +SF HP G P+ + LP
Sbjct: 264 QLLHAKKVSFIHPTKGIPMEFEIDLP 289
>gi|442743095|ref|YP_007374399.1| RluA family pseudouridine synthase [Candidatus Uzinura diaspidicola
str. ASNER]
gi|442739163|gb|AGC66859.1| RluA family pseudouridine synthase [Candidatus Uzinura diaspidicola
str. ASNER]
Length = 311
Score = 84.7 bits (208), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 93/351 (26%), Positives = 138/351 (39%), Gaps = 61/351 (17%)
Query: 8 HPTFTLTPKAVPRFRKTFFSLASMSNPTEPTSQNAPQTQQNYPTPLSPPLPAISKDIELT 67
H +F + P R F L S+SN T +N T++ + K +++
Sbjct: 5 HYSFIVDKNQKP-LRIDKFLLNSISNTTRNKIKNTFYTEKIFVNNFLVKKNYRVKPLDVI 63
Query: 68 RAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGV--------YCESVLASVPCLLAGDS 119
M S K L + +++YED+ LV +NKP G+ Y ++L ++ L
Sbjct: 64 SVMMDSPKEILLEDISLNIIYEDDVLVVINKPSGLAVHPGYGNYKATLLHAIKYYLNKIG 123
Query: 120 AESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIA 179
R+ L +RLD++TSG+++I K+ L F V + Y+A
Sbjct: 124 IVKIPERIG-----------LVHRLDKETSGLLLIAKNDFSLQHLTYQFFTRSVYRRYLA 172
Query: 180 LCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEG 239
L G + TI GRS R+ SD + + VT ++VL
Sbjct: 173 LVWGNLEGYG--TIKGNIGRSLIDRKRMEIFSD-------ATSGKHSVTHYKVL------ 217
Query: 240 SFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRG 299
E+ NIV LV +GRTHQIR H LG I
Sbjct: 218 -----------EKLNIVT---------------LVSCRIDTGRTHQIRTHFTNLGNPIFN 251
Query: 300 DVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
D Y G + G LHA+S F HP+TG P+ + PL E L+
Sbjct: 252 DPMYGGRNKNCLSILQGQFLHAQSFIFIHPITGKPMHFEVPLSKDMYEVLE 302
>gi|323141904|ref|ZP_08076765.1| pseudouridine synthase, RluA family [Phascolarctobacterium
succinatutens YIT 12067]
gi|322413651|gb|EFY04509.1| pseudouridine synthase, RluA family [Phascolarctobacterium
succinatutens YIT 12067]
Length = 314
Score = 84.7 bits (208), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 77/278 (27%), Positives = 112/278 (40%), Gaps = 87/278 (31%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN-- 142
D++YEDE +V VNK +G+ +G L+ GT +N L H N
Sbjct: 88 DIIYEDEDVVVVNKARGMVVHPA----------------AGNLN-GTLVNALLYHCKNLS 130
Query: 143 ------------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
RLD+DTSG+M+ K+ L + +TY+A
Sbjct: 131 GINGVIRPGIVHRLDKDTSGIMICAKNDAAHLSLSQQIQAKTAQRTYLA----------- 179
Query: 191 ITIISGHGRSKFGAWRVYAASD------VGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEP 244
++ G+ ++ G A D + V GG RD VT +EVL G+ +
Sbjct: 180 --VVRGNIKTDSGVIETLIARDKNDRKKMAVVKEGG---RDAVTEYEVLERFGKYT---- 230
Query: 245 SELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYE 304
+VR R+GRTHQIR+H +YLG + GD KY
Sbjct: 231 ----------------------------IVRCRLRTGRTHQIRVHMEYLGYPLVGDPKYS 262
Query: 305 GVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ G LH+++L F HP TG + +APLP
Sbjct: 263 PM--KTPFSIQGQALHSQTLEFTHPRTGERLSFEAPLP 298
>gi|18310832|ref|NP_562766.1| hypothetical protein CPE1850 [Clostridium perfringens str. 13]
gi|110801362|ref|YP_696533.1| RluA family pseudouridine synthase [Clostridium perfringens ATCC
13124]
gi|168206096|ref|ZP_02632101.1| pseudouridine synthase, RluA family [Clostridium perfringens E str.
JGS1987]
gi|168210787|ref|ZP_02636412.1| pseudouridine synthase, RluA family [Clostridium perfringens B str.
ATCC 3626]
gi|422346519|ref|ZP_16427433.1| RluA family pseudouridine synthase [Clostridium perfringens
WAL-14572]
gi|422874769|ref|ZP_16921254.1| RluA family pseudouridine synthase [Clostridium perfringens F262]
gi|18145514|dbj|BAB81556.1| conserved hypothetical protein [Clostridium perfringens str. 13]
gi|110676009|gb|ABG84996.1| pseudouridine synthase, RluA family [Clostridium perfringens ATCC
13124]
gi|170662443|gb|EDT15126.1| pseudouridine synthase, RluA family [Clostridium perfringens E str.
JGS1987]
gi|170711120|gb|EDT23302.1| pseudouridine synthase, RluA family [Clostridium perfringens B str.
ATCC 3626]
gi|373226064|gb|EHP48391.1| RluA family pseudouridine synthase [Clostridium perfringens
WAL-14572]
gi|380304410|gb|EIA16699.1| RluA family pseudouridine synthase [Clostridium perfringens F262]
Length = 306
Score = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 72/261 (27%), Positives = 114/261 (43%), Gaps = 49/261 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+++YEDE ++ VNKP+G+ V+ P G + + + +N ++ + +R
Sbjct: 83 NIVYEDEDVIVVNKPKGM----VVHPAPGNYTGTLVNALLHHCDDLSGINGVIRPGIVHR 138
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++V+ K+ KL + F DH + + Y A+ G K TI + GR
Sbjct: 139 IDKDTSGILVVAKNDNAHQKLAEQFKDHSIKREYYAIVEGRFKKEGG-TIDAPLGRHHRD 197
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D R VT +EVL V F S
Sbjct: 198 RLKYAVVKDGKRA----------VTHYEVLKV-----FNSCS------------------ 224
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
LV+ +GRTHQIR+H ++G + GD Y G+ + +G LHA++
Sbjct: 225 ---------LVKCTLETGRTHQIRVHMAFIGHPLLGDTVY-GLKKQKKLSQEGQVLHAKT 274
Query: 324 LSFDHPVTGCPVMVQAPLPLW 344
L F HP TG V + LP +
Sbjct: 275 LGFIHPTTGEYVEFDSELPEY 295
>gi|330824017|ref|YP_004387320.1| RluA family pseudouridine synthase [Alicycliphilus denitrificans
K601]
gi|329309389|gb|AEB83804.1| pseudouridine synthase, RluA family [Alicycliphilus denitrificans
K601]
Length = 336
Score = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 75/261 (28%), Positives = 115/261 (44%), Gaps = 53/261 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
DV++EDE L+ ++KP G+ V+ P +G + GR + + + + +RL
Sbjct: 111 DVVHEDEHLLVIDKPAGL----VVHPAPGNWSGTLLNALLGR--DAQAMQVPRAGIVHRL 164
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG+MV+ ++ LV+ +VS+ Y+AL A
Sbjct: 165 DKDTSGLMVVARNRAAMDALVRMIAAREVSRQYLAL-----------------------A 201
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
W ++ S+ R+ + RD + V+ L +H K+A D
Sbjct: 202 WGAWSGSEQRRIR--APIGRDPRNRLRMAVVD----------LGQH------AGKEACTD 243
Query: 265 AD--AKKNEI-LVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
D A E+ LVR +GRTHQIR+H + + D Y G +R LHA
Sbjct: 244 FDLLASGEEVCLVRCTLHTGRTHQIRVHMASIRHPLVADALYGGAVGGPMRR---QALHA 300
Query: 322 ESLSFDHPVTGCPVMVQAPLP 342
L+F HPVTG P+ APLP
Sbjct: 301 FRLAFTHPVTGKPMEFHAPLP 321
>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 = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 72/259 (27%), Positives = 116/259 (44%), Gaps = 50/259 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+++YED +V VNKP+G+ V+ P +G + + +N +L + +R
Sbjct: 87 EIVYEDSDVVVVNKPRGL----VVHPAPGHYSGTLVNGLLAHCKDLSGINGVLRPGIVHR 142
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ K L + +H V++TY+A+ G P + TI + GR
Sbjct: 143 IDKDTSGLLMVAKNDKAHVGLAEQLKEHSVTRTYVAIVHGVIPH-EMGTIDAPIGRDPKN 201
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ + + VT F VL FKE +
Sbjct: 202 RQQMAVVFENSK---------PAVTHFIVLE-----RFKEYT------------------ 229
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
LV +GRTHQIR+H +Y+G + GD KY N DG LHA++
Sbjct: 230 ---------LVELKLETGRTHQIRVHMKYIGYPLAGDPKYG---PKNTLEIDGQALHAKT 277
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L F HP T + +AP+P
Sbjct: 278 LGFTHPRTQERLEFEAPMP 296
>gi|393768106|ref|ZP_10356648.1| RluA family pseudouridine synthase [Methylobacterium sp. GXF4]
gi|392726499|gb|EIZ83822.1| RluA family pseudouridine synthase [Methylobacterium sp. GXF4]
Length = 469
Score = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 82/289 (28%), Positives = 120/289 (41%), Gaps = 49/289 (16%)
Query: 57 LPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLA 116
+P + D R SA+ + + RS +LYED ++ +NKP G+ + +V
Sbjct: 201 VPPLRLDQPTERPRSAAREQDDAEFIRSLILYEDADMMILNKPFGLAVQGGSGTV----- 255
Query: 117 GDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKT 176
G L+ T + + L +RLD+DT+G ++I K+ A+ L K+F K
Sbjct: 256 ----RHVDGLLAALTGPDGQKPRLVHRLDKDTAGCLIIAKTRLAAATLAKSFRSRAARKI 311
Query: 177 YIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVN 236
Y AL +G R + G Y A D D V
Sbjct: 312 YWALT-------------AGVPRVRQGRVSTYLAKDE---------PTDADARMRVAKHG 349
Query: 237 GEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAF-PRSGRTHQIRLHCQYLGI 295
EG+ + + A++D A+K L +F P +GRTHQ+R H ++G
Sbjct: 350 DEGA-------------SHALTYYAMVDQAAQKLSWL--SFKPVTGRTHQLRAHAAHIGH 394
Query: 296 SIRGDVKYEGVYEWNGKRYDGHELH--AESLSFDHPVTGCPVMVQAPLP 342
I GD KY V W + LH A + HP TG PV V APLP
Sbjct: 395 PIVGDPKYFSVENWELPGGIQNRLHLLARRIVIPHPRTGRPVDVSAPLP 443
>gi|386758269|ref|YP_006231485.1| pseudouridylate synthase [Bacillus sp. JS]
gi|384931551|gb|AFI28229.1| pseudouridylate synthase [Bacillus sp. JS]
Length = 303
Score = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 75/275 (27%), Positives = 119/275 (43%), Gaps = 59/275 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P L G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHLTGTLVNGLMAHCTDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLI-SHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D ++ VT F VL F++ +
Sbjct: 196 RQSMTVTRDG----------KNAVTHFHVLE-----RFQDFT------------------ 222
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 223 ---------LVECQLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTIDFNGQAL 266
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
HA L FDHP TG V +APLP E +++ K
Sbjct: 267 HAGVLGFDHPRTGEYVEFEAPLPDDMAELIETLRK 301
>gi|423128587|ref|ZP_17116266.1| ribosomal large subunit pseudouridine synthase C [Klebsiella
oxytoca 10-5250]
gi|376393069|gb|EHT05730.1| ribosomal large subunit pseudouridine synthase C [Klebsiella
oxytoca 10-5250]
Length = 331
Score = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 77/260 (29%), Positives = 111/260 (42%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 109 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 158
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + D + K Y+AL G +W+ T
Sbjct: 159 RDTSGVLLVAKKRSALRSLHEQLRDKGMQKDYLALVRG---QWQSHT------------- 202
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PSE + E
Sbjct: 203 KVVQAPLLKNILQSGE---------RIVRVNQEG---KPSETRFKVEERFT--------- 241
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
+ LVR P +GRTHQIR+H QY G I D +Y G E++ G + LHA
Sbjct: 242 ----HATLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRY-GDREFDKQLAGTGLNRLFLHA 296
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP +G + V+APL
Sbjct: 297 AALKFTHPGSGEIMRVEAPL 316
>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 = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 70/259 (27%), Positives = 116/259 (44%), Gaps = 51/259 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D++YED+ +V +NKPQG+ V+ G + + + + +N ++ + +R
Sbjct: 80 DIVYEDQDVVVINKPQGM----VVHPSAGHFKGTMVHALLYHIKDLSSINDVIRPGIVHR 135
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+++ L K D + + YIAL G P ++ TI + GRSK
Sbjct: 136 IDKDTSGLLIVAKNNQAHEALAKQLKDKTILRKYIALVHGEVP-HEQGTIDAPIGRSK-- 192
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ ++ G R VT F+VL
Sbjct: 193 -----TNRKMQAIIKDG---RSAVTHFKVL------------------------------ 214
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+ L+ +GRTHQIR+H +Y+G + GD Y G +G LHA+
Sbjct: 215 --EKFTGYTLIELQLETGRTHQIRVHMKYIGHPVAGDPVYGPKKTLKG---EGQFLHAKV 269
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L F HP T ++ +APLP
Sbjct: 270 LGFTHPTTHERMVFEAPLP 288
>gi|449017395|dbj|BAM80797.1| ribosomal large subunit pseudouridine synthase C [Cyanidioschyzon
merolae strain 10D]
Length = 447
Score = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 81/282 (28%), Positives = 126/282 (44%), Gaps = 61/282 (21%)
Query: 87 LYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDR 146
L+ED+ +A +KP GV +VL + +S E + + LANRLDR
Sbjct: 193 LFEDDEFIAYSKPAGVLSSTVLYMA---MMSESPEHRQSAQA---------WRLANRLDR 240
Query: 147 DTSGVMVITKSHKVASKLVKAFTDHK---VSKTYIALCIGPAPKWKRIT----------- 192
DTSG+++ K+ +A+++ A T + + K YIA +WK +
Sbjct: 241 DTSGILLFGKT-PLANQVCNALTTRRSGSLEKLYIANL--HQVQWKHMQHDDQMPPMFQV 297
Query: 193 -----IISGHGRSKFGAWRVYAASDVGRVLPGGSV--VRDMVTSFEVLSVNGEGSFKEPS 245
+ISGHG ++ G R+Y VG+ L VR T F +
Sbjct: 298 GCVLRVISGHGTTRRGLHRLYPLECVGQRLHDRMRRPVRIAETWFRI------------- 344
Query: 246 ELQEHEENNIVVEKKAVLDADAKKN-EILVRAF--PRSGRTHQIRLHCQYLGISIRGDVK 302
EN ++ + L D + + +L R P +GRTHQIRLH LG+ + GDV+
Sbjct: 345 ------ENRTPLKSENSLVGDLEAHPAMLYRVLCAPVTGRTHQIRLHAHALGMPVHGDVR 398
Query: 303 YEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLW 344
Y + + G + H LHA +L+F G + ++A P W
Sbjct: 399 YGSLSDLQGT--NCHHLHAVALAFT-TSEGRKIYIEAESPAW 437
>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 = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 85/285 (29%), Positives = 115/285 (40%), Gaps = 74/285 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
DVLYED+ L+ +NKP G+ L + GDS G G
Sbjct: 101 DVLYEDDELIVINKPAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGGVRRPG------- 153
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVS----KTYIALCIGPAPKWKRITI 193
+ +RLD++TSGVMV+ K+ + L +AF DH ++ + Y+AL G P+ TI
Sbjct: 154 --IVHRLDKETSGVMVVAKTDRAHKALSEAFADHGLTGDLERAYLALVWG-IPQRPTGTI 210
Query: 194 ISGHGRSKFGAWRVYAASDVGR--VLPGG-SVVRDMVTSFEVLSVNGEGS--FKEPSELQ 248
+ GR ASD R V+P G R VT F V GEG F S
Sbjct: 211 DAPLGR----------ASDRVRRAVVPEGRDDARHAVTRFAVQERFGEGQREFAAAS--- 257
Query: 249 EHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYE 308
LV +GRTHQIR+H ++G + GD Y +
Sbjct: 258 ------------------------LVECRLETGRTHQIRVHMAHIGHPVIGDPDYGLAFR 293
Query: 309 WNGKR-----------YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
R + LHA L+F HP T + +APLP
Sbjct: 294 TKANRLPEPLKRQVEAFSRQALHAWLLAFRHPTTHLTMRFEAPLP 338
>gi|182625703|ref|ZP_02953472.1| pseudouridine synthase, RluA family [Clostridium perfringens D str.
JGS1721]
gi|177909105|gb|EDT71580.1| pseudouridine synthase, RluA family [Clostridium perfringens D str.
JGS1721]
Length = 306
Score = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 72/261 (27%), Positives = 114/261 (43%), Gaps = 49/261 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+++YEDE ++ VNKP+G+ V+ P G + + + +N ++ + +R
Sbjct: 83 NIVYEDEDVIVVNKPKGM----VVHPAPGNYTGTLVNALLHHCDDLSGINGVIRPGIVHR 138
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++V+ K+ KL + F DH + + Y A+ G K TI + GR
Sbjct: 139 IDKDTSGILVVAKNDNAHQKLAEQFKDHSIKREYYAIVEGRFKKEGG-TIDAPLGRHHRD 197
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D R VT +EVL V F S
Sbjct: 198 RLKYAVVKDGKRA----------VTHYEVLKV-----FNSCS------------------ 224
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
LV+ +GRTHQIR+H ++G + GD Y G+ + +G LHA++
Sbjct: 225 ---------LVKCTLETGRTHQIRVHMAFIGHPLLGDTVY-GLKKQKKLSQEGQVLHAKT 274
Query: 324 LSFDHPVTGCPVMVQAPLPLW 344
L F HP TG V + LP +
Sbjct: 275 LGFIHPTTGEYVEFDSELPEY 295
>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 = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 75/269 (27%), Positives = 119/269 (44%), Gaps = 54/269 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+LYED+ ++ +NKPQG+ V+ P +G + + +N +L + +R
Sbjct: 83 DILYEDDDIIVINKPQGM----VVHPAPGNYSGTLVNALLYHCKNLSGINGILRPGIVHR 138
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD+DTSGVMV+ K+ K L + V K Y+A+ G K + I + GR
Sbjct: 139 LDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKYVAIVEG-VIKDEAGEIEAPIGRHPVD 197
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ D GR +T ++VL FKE +
Sbjct: 198 RKKMAVIED-GRY---------ALTLYKVLE-----RFKENT------------------ 224
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--DGHELHA 321
LV A ++GRTHQIR+H Y+G + GD VY + +++ +G LH+
Sbjct: 225 ---------LVEAVIKTGRTHQIRVHMAYIGHPVVGD----PVYGFKKQKFKLEGQALHS 271
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L F HP G + +APLP + ++
Sbjct: 272 RVLGFMHPTKGVYMEFEAPLPEYFVRLIE 300
>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 = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 71/266 (26%), Positives = 112/266 (42%), Gaps = 47/266 (17%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+V+YEDE L +NKP+G+ + L SG+LS ++ + +RL
Sbjct: 74 EVVYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFSGKLSSIN--GVIRPGIVHRL 131
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG++++ K+ + KL +A H++ + Y A+C G K + + GR
Sbjct: 132 DKDTSGLLIVAKTDEAHIKLSEALKSHQIKRIYYAICEG-VLKEDSGVVDAPIGRHPVNR 190
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
++ V+P G + VT FEVL + +F
Sbjct: 191 LKM-------AVIPNG---KQAVTYFEVLERYDKYTF----------------------- 217
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
V+ ++GRTHQIR+H Y+G + GD Y G G LHA +
Sbjct: 218 ---------VKLRLKTGRTHQIRVHMSYIGYPLLGDSTYGRSKNEFG--IQGQVLHAGEI 266
Query: 325 SFDHPVTGCPVMVQAPLPLWGTEALQ 350
F HP+T + LP + E L
Sbjct: 267 KFVHPITSDVLHFSTELPEYFLEILN 292
>gi|220915339|ref|YP_002490643.1| RluA family pseudouridine synthase [Anaeromyxobacter dehalogenans
2CP-1]
gi|219953193|gb|ACL63577.1| pseudouridine synthase, RluA family [Anaeromyxobacter dehalogenans
2CP-1]
Length = 301
Score = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 81/271 (29%), Positives = 108/271 (39%), Gaps = 64/271 (23%)
Query: 77 SLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNL- 135
+L L R +LY D L AV+KP GV + L + G L E L
Sbjct: 74 ALAALGRERLLYADADLCAVDKPAGVPAQPTLTT------------DRGALPELVSALLG 121
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCI-GPAPKWKRITII 194
+ L +RLDR+TSGV V ++ A+ L +AF KTY+ALC P+P R+ +
Sbjct: 122 APVTLVHRLDRETSGVTVFARTRDAAAALAEAFRTGTPEKTYLALCARAPSPAEGRVALA 181
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
G ++ G RV A D T + L G+
Sbjct: 182 LGKDPARPGLRRVDPAGD------------PAATRYRTLREAPGGA-------------- 215
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG---VYEWNG 311
LV A P +GRTHQIR+H LG + GD +Y G V E
Sbjct: 216 ------------------LVEARPETGRTHQIRVHLAALGAPLLGDARYGGPRRVGEVAA 257
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
R LHA L HP TG ++ +A P
Sbjct: 258 PRV---MLHATRLELPHPATGARMVFEAEPP 285
>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 = 84.3 bits (207), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 70/259 (27%), Positives = 116/259 (44%), Gaps = 51/259 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D++YED+ +V +NKPQG+ V+ G + + + + +N ++ + +R
Sbjct: 80 DIVYEDQDVVVINKPQGM----VVHPSAGHFKGTMVHALLYHIKDLSSINDVIRPGIVHR 135
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+++ L K D + + YIAL G P ++ TI + GRSK
Sbjct: 136 IDKDTSGLLIVAKNNQAHEALAKQLKDKTILRKYIALIHGEVP-HEQGTIDAPIGRSK-- 192
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ ++ G R VT F+VL
Sbjct: 193 -----TNRKMQAIIKDG---RSAVTHFKVL------------------------------ 214
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+ L+ +GRTHQIR+H +Y+G + GD Y G +G LHA+
Sbjct: 215 --EKFTGYTLIELQLETGRTHQIRVHMKYIGHPVAGDPVYGPKKTLKG---EGQFLHAKV 269
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L F HP T ++ +APLP
Sbjct: 270 LGFTHPTTHERMVFEAPLP 288
>gi|313888344|ref|ZP_07822015.1| ribosomal large subunit pseudouridine synthase D [Peptoniphilus
harei ACS-146-V-Sch2b]
gi|312845747|gb|EFR33137.1| ribosomal large subunit pseudouridine synthase D [Peptoniphilus
harei ACS-146-V-Sch2b]
Length = 297
Score = 84.3 bits (207), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 75/278 (26%), Positives = 120/278 (43%), Gaps = 67/278 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
DVLYED++L ++KPQ L+ A +KSG L G EL
Sbjct: 78 DVLYEDDYLAVISKPQE------------LVVHPGAGNKSGTLVNGLLYKFKELSNPIDN 125
Query: 140 ----LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ +RLD+DTSG+M+I K + KLV+ F + ++ K Y+A+C G ++ + +
Sbjct: 126 DRPGIVHRLDKDTSGLMLIAKKDEAYYKLVEMFKNRQIDKHYLAICHGNI--YEDFDVKA 183
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNI 255
GR ++ RV+ S ++ TSF+VL +F + + L H
Sbjct: 184 PIGRDPNNRIKM-------RVIDENS--KEAYTSFKVLK-----NFDKYTLLDVH----- 224
Query: 256 VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD 315
+GRTHQIR+H Y+ + GD Y G+ N +
Sbjct: 225 ----------------------LHTGRTHQIRVHLAYVNHPVVGDEVY-GI--KNKFKIS 259
Query: 316 GHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSS 353
LHA L F+HP++G + + P+ + + S
Sbjct: 260 KQLLHAYKLKFNHPISGEELEIIDKFPVRFEDFINKFS 297
>gi|419704228|ref|ZP_14231778.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma canis
PG 14]
gi|384393016|gb|EIE39468.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma canis
PG 14]
Length = 305
Score = 84.3 bits (207), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 70/248 (28%), Positives = 116/248 (46%), Gaps = 47/248 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-SVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
+++Y+DE++ ++KP G+ S S L+ G K+ +E LL + +R
Sbjct: 76 NIVYDDEFICIIDKPSGLVVHPSPGHSSGTLVNGLLYHFKNNLSNEN---GLLRPGIVHR 132
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++VI K+++V + L + F +H +++ YIA+C G K R K
Sbjct: 133 IDKDTSGLLVIAKNNEVHNLLAQKFAEHDINRKYIAICDGILEDKKM--------RLK-- 182
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
LP G +D V ++N + + N+ + K +
Sbjct: 183 -------------LPIGRNSQDR-QKMAVTNLNSKEAI-----------TNVTLLKSFYI 217
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+ K L++ +GRTHQIR+H QY+G I GD Y + G+R LHA
Sbjct: 218 NNQPKS---LIKCELETGRTHQIRVHMQYIGNPIYGDPMYNKNIDEFGQR-----LHAYK 269
Query: 324 LSFDHPVT 331
L F+HP+T
Sbjct: 270 LEFEHPIT 277
>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 = 84.3 bits (207), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 73/269 (27%), Positives = 120/269 (44%), Gaps = 54/269 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+LYED+ ++ +NKPQG+ V+ P +G + + +N +L + +R
Sbjct: 83 DILYEDDDIIVINKPQGM----VVHPAPGNYSGTLVNALLYHCKNLSGINGILRPGIVHR 138
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD+DTSGVMV+ K+ K L + V K Y+A+ G K + I + GR
Sbjct: 139 LDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKYVAIVEG-VIKNEEEKIEAPIGRHPVD 197
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ D GR +T ++VL FKE +
Sbjct: 198 RKKMAVIED-GRY---------ALTLYKVLE-----RFKENT------------------ 224
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--DGHELHA 321
L+ A ++GRTHQIR+H ++G + GD VY + +++ +G LH+
Sbjct: 225 ---------LIEAVIKTGRTHQIRVHMAFIGHPVVGD----PVYGFKKQKFKLEGQALHS 271
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L F HP G + +APLP + + ++
Sbjct: 272 RVLGFMHPTKGVYMEFEAPLPEYFKKLIE 300
>gi|169343529|ref|ZP_02864528.1| pseudouridine synthase, RluA family [Clostridium perfringens C str.
JGS1495]
gi|169298089|gb|EDS80179.1| pseudouridine synthase, RluA family [Clostridium perfringens C str.
JGS1495]
Length = 306
Score = 84.3 bits (207), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 72/261 (27%), Positives = 114/261 (43%), Gaps = 49/261 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+++YEDE ++ VNKP+G+ V+ P G + + + +N ++ + +R
Sbjct: 83 NIVYEDEDVIVVNKPKGM----VVHPAPGNYTGTLVNALLHHCDDLSGINGVIRPGIVHR 138
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++V+ K+ KL + F DH + + Y A+ G K TI + GR
Sbjct: 139 IDKDTSGILVVAKNDNAHQKLAEQFKDHSIKREYYAIVEGRFKKEGG-TIDAPLGRHHRD 197
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D R VT +EVL V F S
Sbjct: 198 RLKYAVVKDGKRA----------VTHYEVLKV-----FNSCS------------------ 224
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
LV+ +GRTHQIR+H ++G + GD Y G+ + +G LHA++
Sbjct: 225 ---------LVKCNLETGRTHQIRVHMAFIGHPLLGDTVY-GLKKQKKLSQEGQVLHAKT 274
Query: 324 LSFDHPVTGCPVMVQAPLPLW 344
L F HP TG V + LP +
Sbjct: 275 LGFIHPTTGEYVEFDSELPEY 295
>gi|419704876|ref|ZP_14232420.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma canis
UF33]
gi|419705522|ref|ZP_14233060.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma canis
UFG1]
gi|419706171|ref|ZP_14233702.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma canis
UFG4]
gi|384392864|gb|EIE39317.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma canis
UF33]
gi|384394825|gb|EIE41259.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma canis
UFG1]
gi|384394976|gb|EIE41409.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma canis
UFG4]
Length = 305
Score = 84.3 bits (207), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 70/248 (28%), Positives = 116/248 (46%), Gaps = 47/248 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-SVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
+++Y+DE++ ++KP G+ S S L+ G K+ +E LL + +R
Sbjct: 76 NIVYDDEFICIIDKPSGLVVHPSPGHSSGTLVNGLLYHFKNNLSNEN---GLLRPGIVHR 132
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++VI K+++V + L + F +H +++ YIA+C G K R K
Sbjct: 133 IDKDTSGLLVIAKNNEVHNLLAQKFAEHDINRKYIAICDGILEDKKM--------RLK-- 182
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
LP G +D V ++N + + N+ + K +
Sbjct: 183 -------------LPIGRNSQDR-QKMAVTNLNSKEAI-----------TNVTLLKSFYI 217
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+ K L++ +GRTHQIR+H QY+G I GD Y + G+R LHA
Sbjct: 218 NNQPKS---LIKCELETGRTHQIRVHMQYIGNPIYGDPMYNKNIDEFGQR-----LHAYK 269
Query: 324 LSFDHPVT 331
L F+HP+T
Sbjct: 270 LEFEHPIT 277
>gi|317053991|ref|YP_004118016.1| pseudouridine synthase [Pantoea sp. At-9b]
gi|316951986|gb|ADU71460.1| pseudouridine synthase [Pantoea sp. At-9b]
Length = 232
Score = 84.3 bits (207), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 72/248 (29%), Positives = 107/248 (43%), Gaps = 44/248 (17%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+ LY+DE LV +NKP G+ S+ P L DS + ++ G L +RL
Sbjct: 18 ETLYQDEHLVLINKPAGLL--SLSGKNPQNL--DSVHHRLVKIFPGCTL-------VHRL 66
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG+MVI ++ + + L + F+ V+K Y AL + GH + G
Sbjct: 67 DFGTSGLMVIARNKAINAALCQQFSQRSVTKVYSAL-------------LCGHLENHEGV 113
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
A D R F ++S+ S Q E N +E+ +L
Sbjct: 114 IDAAIAKDPAR--------------FPLMSICATHGKPARSRYQVVERFNHELEEGTLLP 159
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
V+ P +GRTHQ+R+HCQ LG I G Y G ++ LHA +L
Sbjct: 160 LTR------VQLIPETGRTHQLRIHCQLLGHPILGCDLYGGRLLPGSEKAPRLMLHASAL 213
Query: 325 SFDHPVTG 332
+F HP++G
Sbjct: 214 NFVHPISG 221
>gi|384938212|ref|ZP_10029904.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma canis
UF31]
gi|384393173|gb|EIE39624.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma canis
UF31]
Length = 305
Score = 84.0 bits (206), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 70/248 (28%), Positives = 116/248 (46%), Gaps = 47/248 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-SVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
+++Y+DE++ ++KP G+ S S L+ G K+ +E LL + +R
Sbjct: 76 NIVYDDEFICIIDKPSGLVVHPSPGHSSGTLVNGLLYHFKNNLSNEN---GLLRPGIVHR 132
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++VI K+++V + L + F +H +++ YIA+C G K R K
Sbjct: 133 IDKDTSGLLVIAKNNEVHNLLAQKFAEHDINRKYIAICDGILEDKKM--------RLK-- 182
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
LP G +D V ++N + + N+ + K +
Sbjct: 183 -------------LPIGRNSQDR-QKMAVTNLNSKEAI-----------TNVTLLKSFYI 217
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+ K L++ +GRTHQIR+H QY+G I GD Y + G+R LHA
Sbjct: 218 NNQPKS---LIKCELETGRTHQIRVHMQYIGNPIYGDPMYNKNIDEFGQR-----LHAYK 269
Query: 324 LSFDHPVT 331
L F+HP+T
Sbjct: 270 LEFEHPIT 277
>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 = 84.0 bits (206), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 78/274 (28%), Positives = 119/274 (43%), Gaps = 63/274 (22%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+ +ED+ ++ VNKP+G+ + S L + D + +G++ G
Sbjct: 80 DIYFEDKDMLVVNKPEGMVVHPSAGHASSTLVNALLFHCKDLS-GINGKIRPG------- 131
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+ L K D + YIAL G K TI +
Sbjct: 132 --IVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKG-TIEAPI 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+K ++ D G R T FEV+ E E ++
Sbjct: 189 GRAKEDRQKMAVVRD-------GKEAR---THFEVI---------------ERLEGYTLI 223
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
K LD +GRTHQIR+H +Y+G + GD KY G +G
Sbjct: 224 NCK--LD---------------TGRTHQIRVHLKYIGHPLAGDPKYGPKNTLKG---NGQ 263
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHA L FDHP TG + +APLP +AL++
Sbjct: 264 FLHAAKLGFDHPATGERMTFEAPLPSSFVKALKT 297
>gi|168215478|ref|ZP_02641103.1| pseudouridine synthase, RluA family [Clostridium perfringens NCTC
8239]
gi|182382386|gb|EDT79865.1| pseudouridine synthase, RluA family [Clostridium perfringens NCTC
8239]
Length = 306
Score = 84.0 bits (206), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 72/261 (27%), Positives = 114/261 (43%), Gaps = 49/261 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+++YEDE ++ VNKP+G+ V+ P G + + + +N ++ + +R
Sbjct: 83 NIVYEDEDVIVVNKPKGM----VVHPAPGNYTGTLVNALLYHCDDLSGINGVIRPGIVHR 138
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++V+ K+ KL + F DH + + Y A+ G K TI + GR
Sbjct: 139 IDKDTSGILVVAKNDNAHQKLAEQFKDHSIKREYYAIVEGRFKKEGG-TIDAPLGRHHRD 197
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D R VT +EVL V F S
Sbjct: 198 RLKYAVVKDGKRA----------VTHYEVLKV-----FNSCS------------------ 224
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
LV+ +GRTHQIR+H ++G + GD Y G+ + +G LHA++
Sbjct: 225 ---------LVKCTLETGRTHQIRVHMAFIGHPLLGDTVY-GLKKQKKLSQEGQVLHAKT 274
Query: 324 LSFDHPVTGCPVMVQAPLPLW 344
L F HP TG V + LP +
Sbjct: 275 LGFIHPTTGEYVEFDSELPEY 295
>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 = 84.0 bits (206), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 77/275 (28%), Positives = 119/275 (43%), Gaps = 59/275 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P L G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHLTGTLVNGLMAHCTDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLI-SHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D G S V T F VL F++ +
Sbjct: 196 RQSMTVTRD------GKSAV----THFHVLE-----RFQDFT------------------ 222
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 223 ---------LVECQLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTIDFNGQAL 266
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
HA L FDHP TG V +APLP E +++ K
Sbjct: 267 HAGVLGFDHPRTGEYVEFEAPLPEDMAELIENLRK 301
>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 = 84.0 bits (206), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 76/274 (27%), Positives = 115/274 (41%), Gaps = 63/274 (22%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+ +ED+ ++ VNKP+G+ + L + L D +G++ G
Sbjct: 80 DIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNA-LLFHCDDLSGINGKIRPG------- 131
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+ L K D + YIAL G K TI +
Sbjct: 132 --IVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKG-TIEAPI 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+K ++ D G R T FEVL + P
Sbjct: 189 GRAKEDRQKMAVVRD-------GKEAR---THFEVLE-------RLPGY----------- 220
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
L+ +GRTHQIR+H +Y+G + GD KY N + +G
Sbjct: 221 --------------TLINCKLDTGRTHQIRVHLKYIGHPLAGDPKYG---PKNTIKGNGQ 263
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHA L FDHP T + +APLP +AL+S
Sbjct: 264 YLHAAKLGFDHPTTNERMTFEAPLPASFEKALKS 297
>gi|359786230|ref|ZP_09289366.1| ribosomal large subunit pseudouridine synthase C [Halomonas sp.
GFAJ-1]
gi|359296344|gb|EHK60596.1| ribosomal large subunit pseudouridine synthase C [Halomonas sp.
GFAJ-1]
Length = 313
Score = 84.0 bits (206), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 74/243 (30%), Positives = 104/243 (42%), Gaps = 63/243 (25%)
Query: 130 GTKLNLLE-----------LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYI 178
G K+ L+E L L +RLDRDTSG +++ KS L ++ H + K Y+
Sbjct: 116 GVKIGLIEALRQVRDDLTFLELVHRLDRDTSGCLLLAKSRDALVTLNESLKKHAMDKRYL 175
Query: 179 ALCIGPAPKWKRITIISGHGRSKF----GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLS 234
AL G +W G +F G RV RV P G V R + + E
Sbjct: 176 ALVNG---RWPARKTYVGARLDRFDAGNGERRV-------RVDPNGKVSRTLFSVVE--- 222
Query: 235 VNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLG 294
+F++ + LV A P +GRTHQIR+H + G
Sbjct: 223 -----TFEKAT---------------------------LVEAEPVTGRTHQIRVHAAHAG 250
Query: 295 ISIRGDVKY---EGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
++ GD KY E V+ + D LHA +L+F P G PV V+APLP ALQ
Sbjct: 251 HALLGDDKYSTRESVHMTQQLKVDRLFLHARALTFPEPGNGRPVTVKAPLPEALEAALQR 310
Query: 352 SSK 354
+ +
Sbjct: 311 ARR 313
>gi|317475813|ref|ZP_07935070.1| RNA pseudouridylate synthase [Bacteroides eggerthii 1_2_48FAA]
gi|316907973|gb|EFV29670.1| RNA pseudouridylate synthase [Bacteroides eggerthii 1_2_48FAA]
Length = 518
Score = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 83/257 (32%), Positives = 110/257 (42%), Gaps = 64/257 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+ +YEDEWL+ VNKP G + SVP S S R L+ +RL
Sbjct: 316 ETVYEDEWLLVVNKPAG------MLSVPGKEEAVSVYSVMRRRYPEADGPLI----VHRL 365
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG++VI K+ +V L F D VSK YIAL G I+S
Sbjct: 366 DMATSGLLVIAKTKQVHQNLQAQFRDRSVSKRYIALLQG---------IVS--------- 407
Query: 205 WRVYAASDVGRV-LPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
D G V LP L +N P ++ E V VL
Sbjct: 408 ------PDTGTVELP--------------LCLN---PLDRPRQMVHTEHGKSAVTDFEVL 444
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQY-LGIS--IRGDVKYEGVYEWNGKRYDGHELH 320
+ K N + +PR+GRTHQ+R+H + LG+ I GD Y GK+ + LH
Sbjct: 445 --ERKDNHTRIAFYPRTGRTHQLRVHAAHPLGLHCPIIGDELY-------GKKAERLYLH 495
Query: 321 AESLSFDHPVTGCPVMV 337
AE+L F HP+TG V +
Sbjct: 496 AEALEFTHPITGKRVRI 512
>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 = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 76/274 (27%), Positives = 116/274 (42%), Gaps = 63/274 (22%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+ +ED+ ++ VNKP+G+ + L + L D +G++ G
Sbjct: 80 DIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNA-LLFHCDDLSGINGKIRPG------- 131
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+ L K D + YIAL G K TI +
Sbjct: 132 --IVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKG-TIEAPI 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+K ++ D G R T FEVL + P
Sbjct: 189 GRAKEDRQKMAVVRD-------GKEAR---THFEVLE-------RLPGY----------- 220
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
L++ +GRTHQIR+H +Y+G + GD KY N + +G
Sbjct: 221 --------------TLIKCKLDTGRTHQIRVHLKYIGHPLAGDPKYG---PKNTIKGNGQ 263
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHA L FDHP T + +APLP +AL+S
Sbjct: 264 FLHAAKLGFDHPTTNERMTFEAPLPNSFEKALKS 297
>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 = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 70/277 (25%), Positives = 113/277 (40%), Gaps = 60/277 (21%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+LYED+WL+ VNKP+ + + E L + GD+ +G + G
Sbjct: 81 DILYEDQWLMVVNKPKDMVVHPSAGHMEGTLVNAVMAHCGDNLSGINGVMRPG------- 133
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DT+G ++I K V L + +H + + Y A+ G K T+ +
Sbjct: 134 --IVHRIDKDTTGALLICKDDMVHRNLAEQLKEHSIKRRYRAIVQGNI-KEDEGTVDAPI 190
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR ++ G ++ VT ++VL G+ ++
Sbjct: 191 GRHPIDRKKMAINHKNG---------KEAVTHYKVLERFGQTTY---------------- 225
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
+ +GRTHQIR+H LG + GD Y N G
Sbjct: 226 ----------------IECRLETGRTHQIRVHMASLGHPLLGDTVYGS--SKNPYHLQGQ 267
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
LHA L F HPVTG + +AP+P + ++ L K
Sbjct: 268 ALHAMILGFIHPVTGEYMEFEAPIPEYFSKLLDKLRK 304
>gi|372278301|ref|ZP_09514337.1| ribosomal large subunit pseudouridine synthase C [Oceanicola sp.
S124]
Length = 350
Score = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 80/282 (28%), Positives = 118/282 (41%), Gaps = 66/282 (23%)
Query: 80 KLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL- 138
K+ ++ VL++D+ ++A+NKP G+ + G LSE K E
Sbjct: 87 KMMQAAVLWKDDHIIALNKPPGLPVQ----------GGSKQTRHVDGLSEALKFGYDEKP 136
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISGH 197
L +RLD+DTSG++++ ++ + A+KL AF + K Y AL G P P
Sbjct: 137 RLVHRLDKDTSGLLLLARTREAAAKLTAAFRSRETRKIYWALVAGVPHPY---------M 187
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSEL---QEHEENN 254
G KFG ++ G GS E ++ + +
Sbjct: 188 GTIKFG----------------------------LVKAPGHGSGGEGEKMICVHPRDIES 219
Query: 255 IVVEKKAVLDADA----KKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
K+AV D + V P +GRTHQ+R H +G + GD KY G + N
Sbjct: 220 TPGAKRAVSDYSVLWRLGQRAAWVGLVPVTGRTHQLRAHMAEIGHPMIGDGKYGGSSQEN 279
Query: 311 -----GKRYDGH-----ELHAESLSFDHPVTGCPVMVQAPLP 342
G + G LHA L F HP TG PV ++APLP
Sbjct: 280 LGDGWGAQLGGEISRKLHLHARLLRFTHPFTGKPVELEAPLP 321
>gi|417090421|ref|ZP_11955918.1| pseudouridylate synthase, 23S RNA-specific [Streptococcus suis R61]
gi|353533556|gb|EHC03206.1| pseudouridylate synthase, 23S RNA-specific [Streptococcus suis R61]
Length = 297
Score = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 81/284 (28%), Positives = 121/284 (42%), Gaps = 56/284 (19%)
Query: 60 ISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDS 119
++ DI ++ S K Y L D++YED+ +A+NKP G AS+P L +
Sbjct: 56 VTIDIPAEEDLTGSLKPISYPL---DIVYEDDHFLAINKPVG------YASIPSALHSST 106
Query: 120 -AESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYI 178
A G L E N ++H+ RLDRDTSGVM+ K ++L K + K Y
Sbjct: 107 IANFVKGYLIEQNYENK-QVHIVTRLDRDTSGVMLFAKHGYAHARLDKQLQAKLIHKRYY 165
Query: 179 ALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGE 238
AL G + II+ GR P S++ VT NG+
Sbjct: 166 ALVKGNGQLEETGDIIAPIGR------------------PEDSIITRCVTK------NGK 201
Query: 239 GSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIR 298
+ +Q + + LV +GRTHQIR+H ++G +
Sbjct: 202 YAHTSYRVVQSWGDIH------------------LVDIQLHTGRTHQIRVHFSHIGFPLL 243
Query: 299 GDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
GD Y G E +R LH +L+FD+P + + ++APLP
Sbjct: 244 GDDMYGGSLECGIER---QALHCHNLAFDNPFSAERIDLEAPLP 284
>gi|114766871|ref|ZP_01445793.1| ribosomal large subunit pseudouridine synthase C [Pelagibaca
bermudensis HTCC2601]
gi|114540917|gb|EAU43977.1| ribosomal large subunit pseudouridine synthase C [Roseovarius sp.
HTCC2601]
Length = 350
Score = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 83/304 (27%), Positives = 122/304 (40%), Gaps = 60/304 (19%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLP + A+ + K+ R V+Y D+ ++A+NKP G+ +
Sbjct: 65 PPLPEPGETPAPAAKPKATVSDADAKMIRDAVIYRDDHIIALNKPPGLPVQ--------- 115
Query: 115 LAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKV 173
G E L+E + + E L +RLD+DTSGV+++ ++ ++A L A +
Sbjct: 116 -GGSKQERHVDGLAEALRFDYDEKPRLVHRLDKDTSGVLLLARTREIAQALTGAIRHKQT 174
Query: 174 SKTYIALCIG-PAPKWKRITI----ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVT 228
K Y A+ G P P I GHG+S G + PG +
Sbjct: 175 RKIYWAVVAGVPTPYLGEIRFGLVKAPGHGKSGEGEKMICVHPREMDRTPGAKRAHTLYA 234
Query: 229 SFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRL 288
+ V G S+ + +E P +GRTHQ+R
Sbjct: 235 TL--YRVAGRASW-------------VALE-------------------PITGRTHQLRA 260
Query: 289 HCQYLGISIRGDVKYEGVYEWN-----GKRYDG-----HELHAESLSFDHPVTGCPVMVQ 338
H +G I GD KY G + N G + G LHA S++F HPVT PV V
Sbjct: 261 HMAEIGHPIIGDGKYGGSGQENLGDGWGAQLGGVISKKLHLHARSMTFLHPVTKKPVTVT 320
Query: 339 APLP 342
A LP
Sbjct: 321 ASLP 324
>gi|83858519|ref|ZP_00952041.1| ribosomal large subunit pseudouridine synthase C [Oceanicaulis sp.
HTCC2633]
gi|83853342|gb|EAP91194.1| ribosomal large subunit pseudouridine synthase C [Oceanicaulis sp.
HTCC2633]
Length = 325
Score = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 76/293 (25%), Positives = 124/293 (42%), Gaps = 63/293 (21%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLASV 111
PP+P + E S + +RS V+YED+ ++A+NKP G+ + V +
Sbjct: 65 PPMPDAGEPRE-----QGSITRQDAQFARSLVIYEDKQMIALNKPPGLAVQGGSKVTMHL 119
Query: 112 PCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH 171
LL + RL +RLD+DTSGV+V+ K+ + A +L + F
Sbjct: 120 DHLLQAFGKGDQKPRL-------------VHRLDKDTSGVLVVAKTAQSAKRLARLFQTR 166
Query: 172 KVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSF 230
V KTY A+C+G PAP+ I F
Sbjct: 167 DVKKTYWAICLGLPAPRAGEI------------------------------------KGF 190
Query: 231 EVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHC 290
S+ G+ + E + + +A A+ + +++R P +GRTHQ+R+H
Sbjct: 191 MKKSMEGDRELMVGARHGEEGAQHALTRYAVADNAGARASWVVLR--PETGRTHQLRVHM 248
Query: 291 QYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGC-PVMVQAPLP 342
Q +G SI GD KY ++ +LH + + P G P++++A LP
Sbjct: 249 QAMGHSIYGDGKY--TCDYPDPEGLSRKLHLHARKIEIPREGQKPLVIEADLP 299
>gi|146318712|ref|YP_001198424.1| pseudouridylate synthase, 23S RNA-specific [Streptococcus suis
05ZYH33]
gi|146320920|ref|YP_001200631.1| pseudouridylate synthase, 23S RNA-specific [Streptococcus suis
98HAH33]
gi|253751821|ref|YP_003024962.1| RNA pseudouridylate synthase [Streptococcus suis SC84]
gi|253753644|ref|YP_003026785.1| RNA pseudouridylate synthase [Streptococcus suis P1/7]
gi|253755475|ref|YP_003028615.1| RNA pseudouridylate synthase [Streptococcus suis BM407]
gi|386577928|ref|YP_006074334.1| Pseudouridine synthase, RluD [Streptococcus suis GZ1]
gi|386579981|ref|YP_006076386.1| pseudouridylate synthase, 23S RNA-specific [Streptococcus suis
JS14]
gi|386582005|ref|YP_006078409.1| pseudouridylate synthase, 23S RNA-specific [Streptococcus suis
SS12]
gi|386586010|ref|YP_006082412.1| pseudouridylate synthase, 23S RNA-specific [Streptococcus suis D12]
gi|386588193|ref|YP_006084594.1| pseudouridylate synthase, 23S RNA-specific [Streptococcus suis A7]
gi|389856538|ref|YP_006358781.1| pseudouridylate synthase, 23S RNA-specific [Streptococcus suis ST1]
gi|403061568|ref|YP_006649784.1| pseudouridylate synthase, 23S RNA-specific [Streptococcus suis
S735]
gi|145689518|gb|ABP90024.1| Pseudouridylate synthase, 23S RNA-specific [Streptococcus suis
05ZYH33]
gi|145691726|gb|ABP92231.1| Pseudouridylate synthase, 23S RNA-specific [Streptococcus suis
98HAH33]
gi|251816110|emb|CAZ51733.1| putative RNA pseudouridylate synthase [Streptococcus suis SC84]
gi|251817939|emb|CAZ55717.1| putative RNA pseudouridylate synthase [Streptococcus suis BM407]
gi|251819890|emb|CAR45926.1| putative RNA pseudouridylate synthase [Streptococcus suis P1/7]
gi|292558391|gb|ADE31392.1| Pseudouridine synthase, RluD [Streptococcus suis GZ1]
gi|319758173|gb|ADV70115.1| pseudouridylate synthase, 23S RNA-specific [Streptococcus suis
JS14]
gi|353734151|gb|AER15161.1| pseudouridylate synthase, 23S RNA-specific [Streptococcus suis
SS12]
gi|353738156|gb|AER19164.1| pseudouridylate synthase, 23S RNA-specific [Streptococcus suis D12]
gi|353740256|gb|AER21263.1| pseudouridylate synthase, 23S RNA-specific [Streptococcus suis ST1]
gi|354985354|gb|AER44252.1| pseudouridylate synthase, 23S RNA-specific [Streptococcus suis A7]
gi|402808894|gb|AFR00386.1| pseudouridylate synthase, 23S RNA-specific [Streptococcus suis
S735]
Length = 297
Score = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 80/284 (28%), Positives = 121/284 (42%), Gaps = 56/284 (19%)
Query: 60 ISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDS 119
++ DI ++ S K + L D++YED+ +A+NKP G AS+P L +
Sbjct: 56 VTIDIPAEEDLTGSLKPIFFPL---DIVYEDDHFLAINKPVG------YASIPSALHSST 106
Query: 120 -AESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYI 178
A G L E N ++H+ RLDRDTSGVM+ K ++L K + K Y
Sbjct: 107 IANFVKGYLIEQNYENK-QVHIVTRLDRDTSGVMLFAKHGYAHARLDKQLQAKLIHKRYY 165
Query: 179 ALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGE 238
AL G + II+ GR P S++ VT NG+
Sbjct: 166 ALVKGNGQLEETGDIIAPIGR------------------PEDSIITRCVTK------NGK 201
Query: 239 GSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIR 298
+ +Q + + LV +GRTHQIR+H ++G +
Sbjct: 202 YAHTSYRVVQSWGDIH------------------LVDIQLHTGRTHQIRVHFSHIGFPLL 243
Query: 299 GDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
GD Y G E +R LH +L+FD+P + + ++APLP
Sbjct: 244 GDDMYGGSLECGIER---QALHCHNLAFDNPFSAERIDLEAPLP 284
>gi|339058385|ref|ZP_08648847.1| Ribosomal large subunit pseudouridine synthase C [gamma
proteobacterium IMCC2047]
gi|330720408|gb|EGG98730.1| Ribosomal large subunit pseudouridine synthase C [gamma
proteobacterium IMCC2047]
Length = 330
Score = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 85/282 (30%), Positives = 112/282 (39%), Gaps = 84/282 (29%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE-------- 137
VLYED+ L+ +NKP G+ G KL L+E
Sbjct: 110 VLYEDDSLLIINKPSGLAVHG---------------------GSGIKLGLIETLRQLRPE 148
Query: 138 ---LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITII 194
L L +RLDRDTSG +++ K + L + V+K Y AL +G P K +
Sbjct: 149 ARFLELVHRLDRDTSGCVMVAKKRSMLRYLHDLLRTNGVTKHYQALVVGKWPTRKHKVDV 208
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
+ R+ A P G + +T +EV Q
Sbjct: 209 PLQKNTLQSGERMVVAD------PDG---KPSLTRYEV--------------RQRFSGYT 245
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY 314
+V +A+P SGRTHQIR+HCQ+ G SI GD KY E KR
Sbjct: 246 LV------------------QAYPVSGRTHQIRVHCQFAGHSIAGDDKYTD--EDTNKRL 285
Query: 315 DGHE-----LHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHAESL+F P TG + V+APL E LQS
Sbjct: 286 KAMGLRRLFLHAESLAFKLPETGKLLRVEAPL----DEQLQS 323
>gi|402496954|ref|YP_006556214.1| pseudouridylate synthase 23S RNA-specific [Wolbachia endosymbiont
of Onchocerca ochengi]
gi|398650227|emb|CCF78397.1| pseudouridylate synthase 23S RNA-specific [Wolbachia endosymbiont
of Onchocerca ochengi]
Length = 325
Score = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 75/275 (27%), Positives = 117/275 (42%), Gaps = 72/275 (26%)
Query: 78 LYKLSRSDVLYEDEWLVAVNKPQGVYCESVL---ASVPCLLAGDSAESKSGRLSEGTKLN 134
L + + ++LYED++++AVNKP GV + + S+ LL R+ EG
Sbjct: 89 LVNILKDNILYEDKYILAVNKPTGVIVQGGIKGKVSISDLL---------DRIREGKIFK 139
Query: 135 LLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRIT-- 192
++ +RLD+DTSGV++ + VA L++ F + +V KTY+AL G K K +
Sbjct: 140 IV-----HRLDKDTSGVIIFAHNTNVARYLMEEFKEQRVKKTYLALTSGIPSKNKGVIDY 194
Query: 193 -----IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSEL 247
ISG + + +A+ T F V+
Sbjct: 195 PLIKKCISGQEKVVVDKYSPQSAT----------------THFSVI-------------- 224
Query: 248 QEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVY 307
A ++N V+ P +GRTHQ+R H Y+ I GD KY G
Sbjct: 225 -----------------ARLEQNVAYVKLQPITGRTHQLRAHLAYINCPILGDGKYGGKK 267
Query: 308 EWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ + LH+ SLSF P + + + APLP
Sbjct: 268 AFVNGIANKIHLHSYSLSFKLP-SNKEITIIAPLP 301
>gi|227326844|ref|ZP_03830868.1| 23S rRNA pseudouridylate synthase C [Pectobacterium carotovorum
subsp. carotovorum WPP14]
Length = 318
Score = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 74/260 (28%), Positives = 116/260 (44%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED++L+ +NKP G ++ G A R L L +RLD
Sbjct: 95 IIYEDDYLLVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLRLKGMQKDYLALVRG---QWQ-------------SHC 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN +G + E +E++
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVNSDG---------KQSETRFKIEERF---- 226
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD-GHE---LHA 321
++ LVRA P +GRTHQIR+H Q+ G I D +Y G E++ + D G + LHA
Sbjct: 227 ---EHATLVRASPVTGRTHQIRVHAQHAGHPIAFDDRY-GDREFDQQLADTGLKRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
++L F+HP TG + V+APL
Sbjct: 283 QALRFEHPNTGETLRVEAPL 302
>gi|397657322|ref|YP_006498024.1| ribosomal large subunit pseudouridine synthase C [Klebsiella
oxytoca E718]
gi|402842908|ref|ZP_10891311.1| rRNA pseudouridylate synthase C [Klebsiella sp. OBRC7]
gi|423102489|ref|ZP_17090191.1| ribosomal large subunit pseudouridine synthase C [Klebsiella
oxytoca 10-5242]
gi|376387965|gb|EHT00666.1| ribosomal large subunit pseudouridine synthase C [Klebsiella
oxytoca 10-5242]
gi|394345788|gb|AFN31909.1| Ribosomal large subunit pseudouridine synthase C [Klebsiella
oxytoca E718]
gi|402278294|gb|EJU27358.1| rRNA pseudouridylate synthase C [Klebsiella sp. OBRC7]
Length = 331
Score = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 77/260 (29%), Positives = 113/260 (43%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 109 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 158
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + D + K Y+AL G +W+ T
Sbjct: 159 RDTSGVLLVAKKRSALRSLHEQLRDKGMQKDYLALVRG---QWQSHT------------- 202
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PS E VE++
Sbjct: 203 KVVQAPLLKNILQSGE---------RIVRVNQEG---KPS------ETRFKVEERYT--- 241
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
+ LVR P +GRTHQIR+H QY G I D +Y G E++ G + LHA
Sbjct: 242 ----HATLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRY-GDREFDKQLAGTGLNRLFLHA 296
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP +G + ++APL
Sbjct: 297 AALKFTHPGSGEIMRIEAPL 316
>gi|313145657|ref|ZP_07807850.1| ribosomal large subunit pseudouridine synthase A [Bacteroides
fragilis 3_1_12]
gi|313134424|gb|EFR51784.1| ribosomal large subunit pseudouridine synthase A [Bacteroides
fragilis 3_1_12]
Length = 539
Score = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 70/257 (27%), Positives = 106/257 (41%), Gaps = 62/257 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++L+EDEWL+ ++KP+G L SVP G S E + L + +RL
Sbjct: 337 EILFEDEWLLVIHKPEG------LLSVP----GKSEELSAYSLLRARYPEATGPMIVHRL 386
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG++++ K+ +V L F H + K Y AL G
Sbjct: 387 DMATSGLLLVAKTKEVHQHLQAQFESHSIKKQYTALLEG--------------------- 425
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
+LP D+ ++L P + + E V + V+D
Sbjct: 426 -----------ILPTDEGTIDLPICPDLLD--------RPRQKADRESGKKAVTRYCVID 466
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGHELHA 321
+ I FP++GRTHQ+R+H + L I GD Y GKR + LHA
Sbjct: 467 RKNGRTRIAF--FPQTGRTHQLRVHSAHPSGLNCPIAGDELY-------GKRAERLYLHA 517
Query: 322 ESLSFDHPVTGCPVMVQ 338
E L F HPV+G + ++
Sbjct: 518 ERLEFTHPVSGQRIYIE 534
>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 = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 79/283 (27%), Positives = 117/283 (41%), Gaps = 76/283 (26%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D++YED+ ++ +NKPQG+ + E L V LL + +G G
Sbjct: 77 DIVYEDDDVIVINKPQGMVVHPAPGHDEHTL--VNALLYHCPLSTINGTFRPG------- 127
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+ K L K D + Y+AL H
Sbjct: 128 --IVHRIDKDTSGLLMVAKNDKAHRSLAKQLKDKTNIREYVALV---------------H 170
Query: 198 GRSKFGAWRVYAASDVGRVLPG---GSVVRD---MVTSFEVLSVNGEGSFKEPSELQEHE 251
GR + A +GR L +VV+D VT FEVL
Sbjct: 171 GRIAEDEGTINAP--IGRSLKDRKKQAVVKDGRNAVTHFEVLK----------------- 211
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
++ LV+ +GRTHQIR+H +Y+G + GD Y G
Sbjct: 212 ---------------RYRDYTLVKCILETGRTHQIRVHMKYIGHPLVGDPLYGPKKTIKG 256
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
+G LHA L F HP TG ++ +APLP E L+ K
Sbjct: 257 ---NGQFLHAGKLGFVHPTTGKLLIFEAPLPKIFQECLEKLDK 296
>gi|366090338|ref|ZP_09456704.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
acidipiscis KCTC 13900]
Length = 297
Score = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 74/259 (28%), Positives = 111/259 (42%), Gaps = 54/259 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPC-LLAGDSAESKSGRLSEGTKLNLLELHLANR 143
D++YED L+ +NKP + L SVP L DS ++ E L H+ +R
Sbjct: 80 DIIYEDRDLLIINKP------AHLTSVPSKLYLNDSLVNRVCGYYEVRNYRGLIPHIVSR 133
Query: 144 LDRDTSGVMVITKSHKVASKLVK-AFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
LDRDTSG+++ K H+ A L+ K+SK Y+AL G + + + GR
Sbjct: 134 LDRDTSGLVLFAK-HRYAHALLDIQMQQRKISKQYVALVEGQLAQSDEFDVHAAIGRDPQ 192
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
++ +D + L T + L + GS
Sbjct: 193 SLFKRQVVTDGQQAL----------THIKCLQSSAAGSL--------------------- 221
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
+LV+ P++GRTHQIR+HC +G + GD Y G ++ R LH
Sbjct: 222 ---------LLVQ--PKTGRTHQIRVHCASIGHPLLGDTMYGGHFKGGLYR---QALHCY 267
Query: 323 SLSFDHPVTGCPVMVQAPL 341
L+F HP+TG + APL
Sbjct: 268 RLTFKHPLTGKIMTFTAPL 286
>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 = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 76/271 (28%), Positives = 120/271 (44%), Gaps = 60/271 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----L 140
D+LYED+ ++ +NKPQG+ ++ L +G L L+ L +
Sbjct: 81 DILYEDKDIIVINKPQGMVVHPATSNYSGTLV-------NGLLYHCDTLSTLNDDTRPGI 133
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
+R+D+DTSGV+V+ K++K L + +H + + YIAL G K I GR+
Sbjct: 134 VHRIDKDTSGVLVVAKNNKAHEVLAEQLKEHSMKREYIALVEGILKKDNGF-IDKPLGRN 192
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
R+ A V+ G ++ +T +EVL FK+ +
Sbjct: 193 P--KDRIKMA-----VVQEG---KNAITHYEVLK-----RFKKNT--------------- 222
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--DGHE 318
LV+ +GRTHQIR+H Y+G + GD +Y + +R+ G
Sbjct: 223 ------------LVKCILETGRTHQIRVHMSYIGHPLVGD----PMYGFKKQRFKLKGQM 266
Query: 319 LHAESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
LHA+ L F HP T + Q+ LP + E L
Sbjct: 267 LHAKKLGFIHPTTQEYIEFQSDLPKYYKEVL 297
>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 = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 77/275 (28%), Positives = 119/275 (43%), Gaps = 59/275 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P L G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHLTGTLVNGLMAHCTDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLI-SHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D G S V T F VL F++ +
Sbjct: 196 RQSMTVTRD------GKSAV----THFHVLE-----RFQDFT------------------ 222
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 223 ---------LVECQLETGRTHQIRVHMRYIGFPLAGDPKY-------GPRKTIDFNGQAL 266
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
HA L FDHP TG V +APLP E +++ K
Sbjct: 267 HAGVLGFDHPRTGEYVEFEAPLPEDMAELIENLRK 301
>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 = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 75/264 (28%), Positives = 114/264 (43%), Gaps = 61/264 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAG------DSAESKSGRLSEGTKLNLLEL 138
+++YED + +NKPQG+ L +S S +G + G
Sbjct: 80 EIVYEDADVAVINKPQGMVVHPSAGHPNGTLVNALIYHLNSLSSINGVIRPG-------- 131
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
+ +R+D+DTSG++++ K+ + L K D + Y+AL G P K + I + G
Sbjct: 132 -IVHRIDKDTSGLLMVAKNDQAHEDLAKQLKDKTSLRKYVALVHGVIPHDKGV-IRAPIG 189
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
RS ++ A D G+ D VT F+VL E E+ +VE
Sbjct: 190 RSTVD-RKMQAVVDNGK---------DAVTHFQVL---------------ERYEDYTLVE 224
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE 318
+ +GRTHQIR+H QY+G + GD Y G +G
Sbjct: 225 LQL-----------------ETGRTHQIRVHMQYIGYPLVGDPVYGLKRTIKG---NGQF 264
Query: 319 LHAESLSFDHPVTGCPVMVQAPLP 342
LHA+ L F HP TG ++ +APLP
Sbjct: 265 LHAKLLGFTHPSTGEKMVFEAPLP 288
>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 = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 70/259 (27%), Positives = 118/259 (45%), Gaps = 50/259 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
DV+YED ++ +NKP+G+ V+ P +G + + + +N ++ + +R
Sbjct: 99 DVVYEDGDVIVINKPRGL----VVHPAPGHYSGTLVNALMHHCKDLSGINGVMRPGIVHR 154
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG+++I K+ + + L + +H V++ Y+AL G + TI + GR +
Sbjct: 155 IDKDTSGLLMIAKNDQAHASLAEQLKEHSVTRKYVALVHGNL-QHDHGTIDAPIGRDSYD 213
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++Y +D + VT F VL E + +VE K
Sbjct: 214 R-KLYTVTDKNS--------KHAVTHFAVL---------------ERFDGYTLVELKL-- 247
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+GRTHQIR+H +++G + GD Y G DG LHA+
Sbjct: 248 ---------------ETGRTHQIRVHLKFIGHPLVGDPSYG---RSKGMTMDGQALHAQI 289
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L F HP TG + +AP+P
Sbjct: 290 LGFTHPRTGERLEFEAPIP 308
>gi|145219868|ref|YP_001130577.1| ribosomal large subunit pseudouridine synthase D [Chlorobium
phaeovibrioides DSM 265]
gi|145206032|gb|ABP37075.1| ribosomal large subunit pseudouridine synthase D [Chlorobium
phaeovibrioides DSM 265]
Length = 349
Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 82/283 (28%), Positives = 117/283 (41%), Gaps = 65/283 (22%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAG---DSAESKSGRLSEGTKLNLLELHLAN 142
++YED L+ +NK G+ + LA +G L E L + +
Sbjct: 101 IVYEDSELMVINKEPGMVVHPAFGNWTGTLANAILHHIGENAGSLDESE----LRPGIVH 156
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD+DTSG+++I K+ +L K F D KV KTY AL G P TI + GRS+
Sbjct: 157 RLDKDTSGLIIIAKNPTALHRLAKQFADRKVVKTYKALVWG-VPATPEGTIRTNIGRSRK 215
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
R ++ +F P E +E K A+
Sbjct: 216 D--------------------RKVMANF-------------PYEGEE--------GKTAI 234
Query: 263 LDADAKKNE---ILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG--VYEWNGKRYDG- 316
D +++ L+ +GRTHQIR H Q+LG I D Y G + + + +
Sbjct: 235 TDYRLEEDLHWFSLLSLTLHTGRTHQIRAHMQHLGHQILSDATYGGASIRNLDFPKSESF 294
Query: 317 ----------HELHAESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
LHAESLSF HP TG + APLPL +A+
Sbjct: 295 VRNLLDLLPRQALHAESLSFQHPTTGETISFHAPLPLDMAQAI 337
>gi|385323347|ref|YP_005877786.1| ribosomal large subunit pseudouridine synthase C (rRNA-uridine
isomerase C; rRNA pseudouridylate synthase C) [Neisseria
meningitidis 8013]
gi|261391734|emb|CAX49183.1| ribosomal large subunit pseudouridine synthase C (rRNA-uridine
isomerase C; rRNA pseudouridylate synthase C) [Neisseria
meningitidis 8013]
Length = 330
Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 78/265 (29%), Positives = 113/265 (42%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
DV+YED+ L+ ++KP GV V V L E++ L L
Sbjct: 95 DVVYEDDALLVIDKPSGVAVHGGSGVSFGVIEQLRRARPEARY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H R
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVRLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LFKYTGAQGEKMVRVSEDGQSAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P++++A LP
Sbjct: 290 FLHASELHLNHPLTGEPLVLKAELP 314
>gi|375260241|ref|YP_005019411.1| 23S rRNA pseudouridylate synthase C [Klebsiella oxytoca KCTC 1686]
gi|365909719|gb|AEX05172.1| 23S rRNA pseudouridylate synthase C [Klebsiella oxytoca KCTC 1686]
Length = 317
Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 77/260 (29%), Positives = 113/260 (43%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + D + K Y+AL G +W+ T
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLRDKGMQKDYLALVRG---QWQSHT------------- 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PS E VE++
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVNQEG---KPS------ETRFKVEERYT--- 227
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
+ LVR P +GRTHQIR+H QY G I D +Y G E++ G + LHA
Sbjct: 228 ----HATLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRY-GDREFDKQLAGTGLNRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP +G + ++APL
Sbjct: 283 AALKFTHPGSGEIMRIEAPL 302
>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 = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 79/283 (27%), Positives = 117/283 (41%), Gaps = 76/283 (26%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D++YED+ ++ +NKPQG+ + E L V LL + +G G
Sbjct: 77 DIVYEDDDVIVINKPQGMVVHPAPGHDEHTL--VNALLYHCPLSTINGTFRPG------- 127
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+ K L K D + Y+AL H
Sbjct: 128 --IVHRIDKDTSGLLMVAKNDKAHRSLAKQLKDKTNIREYVALV---------------H 170
Query: 198 GRSKFGAWRVYAASDVGRVLPG---GSVVRD---MVTSFEVLSVNGEGSFKEPSELQEHE 251
GR + A +GR L +VV+D VT FEVL + +F
Sbjct: 171 GRIAEDEGTINAP--IGRSLKDRKKQAVVKDGRNAVTHFEVLKKYRDYTF---------- 218
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
V+ +GRTHQIR+H +Y+G + GD Y G
Sbjct: 219 ----------------------VKCILETGRTHQIRVHMKYIGHPLVGDPLYGPKKTIKG 256
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
+G LHA L F HP TG ++ +APLP E L+ K
Sbjct: 257 ---NGQFLHAGKLGFVHPTTGKLLIFEAPLPKIFQECLEKLDK 296
>gi|254994200|ref|ZP_05276390.1| hypothetical protein LmonocytoFSL_15395 [Listeria monocytogenes FSL
J2-064]
Length = 296
Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 76/273 (27%), Positives = 115/273 (42%), Gaps = 63/273 (23%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+ +ED+ ++ VNKP+G+ + L + L D +G++ G
Sbjct: 80 DIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNA-LLFHCDDLSGINGKIRPG------- 131
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+ L K D + YIAL G K TI +
Sbjct: 132 --IVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKG-TIEAPI 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+K ++ D G R T FEVL + P
Sbjct: 189 GRAKEDRQKMAVVRD-------GKEAR---THFEVLE-------RLPGY----------- 220
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
L+ +GRTHQIR+H +Y+G + GD KY N + +G
Sbjct: 221 --------------TLINCKLDTGRTHQIRVHLKYIGHPLAGDPKYG---PKNTIKGNGQ 263
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
LHA L FDHP T +M +APLP +AL+
Sbjct: 264 FLHAAKLGFDHPTTKERMMFEAPLPSSFEKALK 296
>gi|154249782|ref|YP_001410607.1| RluA family pseudouridine synthase [Fervidobacterium nodosum
Rt17-B1]
gi|154153718|gb|ABS60950.1| pseudouridine synthase, RluA family [Fervidobacterium nodosum
Rt17-B1]
Length = 314
Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 82/270 (30%), Positives = 119/270 (44%), Gaps = 51/270 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN----LLELHL 140
D++YED ++ +NK G+ + +P +G +G L L +L +
Sbjct: 80 DIIYEDRDILVINKQPGI----ITHPIPSHTSGTIV---NGVLYHCKDLQGIGGVLRPGI 132
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
+RLD+DTSGVMVI K+ L K F D K YI L G PK K
Sbjct: 133 VHRLDKDTSGVMVIAKNDLAHQSLTKQFKDRLTEKLYICLVKG-VPKRKE---------- 181
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
G + ++ R+ V ++ N E + +P+ L ++ VV +
Sbjct: 182 --GDIEI-------------NIARNPVLRVKMTVTNSE--YGKPA-LTHYK----VVREF 219
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELH 320
+ A LV A+P++GRTHQIR+H +Y+G + GD Y E LH
Sbjct: 220 GDIAA-------LVFAYPKTGRTHQIRVHMKYIGHPLMGDEVYGRAKEDEIFGIKRQMLH 272
Query: 321 AESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
A SLSF HP TG V A +P EA+Q
Sbjct: 273 ALSLSFYHPRTGEKVKFIAKIPQDFKEAIQ 302
>gi|400405773|ref|YP_006588632.1| RluA family pseudouridine synthase [secondary endosymbiont of
Ctenarytaina eucalypti]
gi|400364136|gb|AFP85204.1| pseudouridine synthase, RluA family [secondary endosymbiont of
Ctenarytaina eucalypti]
Length = 318
Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 88/301 (29%), Positives = 131/301 (43%), Gaps = 65/301 (21%)
Query: 47 QNYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLS--RSDVLYEDEWLVAVNKPQGVYC 104
QNY PP + + +AS L K++ +LYED++L+ +NKP G
Sbjct: 61 QNYDQVRIPP-------VRCSDGENASIPIGLNKVAVLNDSILYEDDYLLILNKPAGTAV 113
Query: 105 ESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKL 164
++ G A SGR E L +RLDR TSG +++ K L
Sbjct: 114 HGGSGLSFGVIEGLRALRPSGRFLE----------LVHRLDRHTSGALLLAKKRSSLHAL 163
Query: 165 VKAFTDHKVSKTYIALCIGPAPKWK-RITIISGHGRSKFGAWRVYAASDVGRVLPGGSVV 223
+ ++ K Y+AL G W+ R+T +V A R++ G V
Sbjct: 164 HEQLRAQRMQKDYVALVGG---YWQSRVT-------------KVVAPLLKNRLVSGAYSV 207
Query: 224 RDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRT 283
+ VN EG +PS+ VE++ L LVR P +GRT
Sbjct: 208 Q----------VNREG---KPSQ------TCFKVEERFRL-------ATLVRVRPVTGRT 241
Query: 284 HQIRLHCQYLGISIRGDVKY-EGVY--EWNGKRYDGHELHAESLSFDHPVTGCPVMVQAP 340
HQIR+H QY G I D Y + ++ + G + LHA +LSF HPV+G ++++AP
Sbjct: 242 HQIRVHSQYAGHPIAFDDLYGDSIFDQQLKGCGLNRLFLHAAALSFHHPVSGATLLIEAP 301
Query: 341 L 341
L
Sbjct: 302 L 302
>gi|333984867|ref|YP_004514077.1| RluA family pseudouridine synthase [Methylomonas methanica MC09]
gi|333808908|gb|AEG01578.1| pseudouridine synthase, RluA family [Methylomonas methanica MC09]
Length = 319
Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 79/291 (27%), Positives = 116/291 (39%), Gaps = 60/291 (20%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PP+ K+ E+ + + K SL + +LYED+ + +NKP G
Sbjct: 73 PPVRVAEKNDEVI--VQPTLKYSL----ENHILYEDDGFIVLNKPSGFAVH--------- 117
Query: 115 LAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVS 174
G +S + L L +RLD++TSG +++ K V L + F +
Sbjct: 118 -GGSGVQSGVIEALRQIRPQQKFLELVHRLDKETSGCLLVAKKRSVLKVLHELFRGDGIR 176
Query: 175 KTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLS 234
KTY+AL G + K++ + G R+ S G+
Sbjct: 177 KTYLALLAGQFKRKKQLVDVPLLKNVNQGGERMVTVSQAGK------------------- 217
Query: 235 VNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLG 294
+ KA DA LV A P++GRTHQIR+H +LG
Sbjct: 218 ----------------SAETLFTRLKAFQDA------TLVHAAPKTGRTHQIRVHAAWLG 255
Query: 295 ISIRGDVKY--EGVYEWNGKR-YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
I D +Y + V + +R Y LHAE L F HPVTG + APLP
Sbjct: 256 HPIVADDRYGEDAVNKAFKQRGYKRLFLHAEQLQFLHPVTGQVLHFTAPLP 306
>gi|414160474|ref|ZP_11416741.1| RluA family pseudouridine synthase [Staphylococcus simulans
ACS-120-V-Sch1]
gi|410878246|gb|EKS26132.1| RluA family pseudouridine synthase [Staphylococcus simulans
ACS-120-V-Sch1]
Length = 305
Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 77/270 (28%), Positives = 118/270 (43%), Gaps = 55/270 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YEDE + V KP+G+ V+ P +G ++ + + +N + + +R
Sbjct: 82 DIYYEDEDVAIVYKPKGM----VVHPSPGHYSGTLVNGLMYQIKDLSGINGEIRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV+ D V++ Y AL G P TI + GR+K
Sbjct: 138 IDKDTSGLLMVAKNDIAHRGLVEQLMDKTVTRKYTALVHGNIPH-DYGTIDAPIGRNKVD 196
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D +D +T F VL EH N +VE +
Sbjct: 197 RQAMDVVDD----------GKDAITHFNVL---------------EHFNNYTLVECEL-- 229
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD--GHELHA 321
+GRTHQIR+H +Y+G + GD KY K D G LHA
Sbjct: 230 ---------------ETGRTHQIRVHMKYIGYPLVGDPKY-----GPKKTMDIGGQALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
+ F HPVTG + +APLP + E L+
Sbjct: 270 GVIGFTHPVTGEYIERKAPLPDYFEEILED 299
>gi|167957398|ref|ZP_02544472.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
protein [candidate division TM7 single-cell isolate
TM7c]
Length = 379
Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 76/270 (28%), Positives = 120/270 (44%), Gaps = 55/270 (20%)
Query: 74 SKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKL 133
SK + + + +YED ++ +NKP G+ + A A D + + ++ +
Sbjct: 164 SKQQKFTPIKYETIYEDNDIIVINKPAGMLTHAKGAIAEEFTAADIVKPITNYKADTNRP 223
Query: 134 NLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRIT 192
++ +RLDR+TSGV+++ K+ ASK+ K F+ V KTY A+ G P I
Sbjct: 224 GII-----HRLDRNTSGVLLMVKNSDAASKIQKQFSQRTVKKTYYAIVCGIPYQHKALID 278
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
+ S+ +RV G + TS+EV E
Sbjct: 279 LPIERNPSRPSTFRV------------GVNGKSAQTSYEV-------------------E 307
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
+I+ KKN L++ P++GRTHQ+R+H QYL I GD+ Y GK
Sbjct: 308 RSII-----------KKNISLIKLQPKTGRTHQLRVHMQYLNTPILGDLVY------GGK 350
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LHAESL ++G + +APLP
Sbjct: 351 PAERMFLHAESLEVT-LLSGERKVFKAPLP 379
>gi|311748762|ref|ZP_07722547.1| ribosomal large subunit pseudouridine synthase D [Algoriphagus sp.
PR1]
gi|126577297|gb|EAZ81545.1| ribosomal large subunit pseudouridine synthase D [Algoriphagus sp.
PR1]
Length = 344
Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 77/279 (27%), Positives = 110/279 (39%), Gaps = 70/279 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D++YED++L+ VNKP G+ LA+ D E K G
Sbjct: 98 DIIYEDKYLLIVNKPAGMVVHPAHGNWSGTLANALVYHFQDLPEMKGNEGRPG------- 150
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
L +R+D+DTSG++VI K + + L F H + +TYIAL G PK TI
Sbjct: 151 --LVHRIDKDTSGLLVIAKQEEAMTHLASQFFHHTIDRTYIALVWG-EPKEDEGTIEGNV 207
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GRS V V P G + +T ++VL + S
Sbjct: 208 GRSA-------KNRKVMDVFPDGEQGKHAITHWKVLK-----RLRYVS------------ 243
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
L++ +GRTHQIR H +Y+G + D Y G G ++ +
Sbjct: 244 ---------------LIQCNLETGRTHQIRAHMKYIGHPLFNDAMYGGDKIRKGTQFSKY 288
Query: 318 E--------------LHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA SL F HPV+ V + LP
Sbjct: 289 KTFVQNCFDLIPRQALHAMSLGFIHPVSKEKVYYEVGLP 327
>gi|418033307|ref|ZP_12671784.1| hypothetical protein BSSC8_27280 [Bacillus subtilis subsp. subtilis
str. SC-8]
gi|351469455|gb|EHA29631.1| hypothetical protein BSSC8_27280 [Bacillus subtilis subsp. subtilis
str. SC-8]
Length = 303
Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 75/275 (27%), Positives = 118/275 (42%), Gaps = 59/275 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P L G + + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHLTGTLVNGLMAHCIDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLI-SHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D ++ VT F VL F++ +
Sbjct: 196 RQSMTVTRDG----------KNAVTHFHVLE-----RFQDFT------------------ 222
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 223 ---------LVECQLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTIDFNGQAL 266
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
HA L FDHP TG V +APLP E +++ K
Sbjct: 267 HAGVLGFDHPRTGEYVEFEAPLPEDMAELIENLRK 301
>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 = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 74/269 (27%), Positives = 119/269 (44%), Gaps = 54/269 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+LYED+ ++ +NKPQG+ V+ P +G + + +N +L + +R
Sbjct: 83 DILYEDDDIIVINKPQGM----VVHPAPGNYSGTLVNALLYHCKNLSGINGILRPGIVHR 138
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD+DTSGVMV+ K+ K L + V K Y+A+ G K + I + GR
Sbjct: 139 LDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKYVAIVEG-VIKDEEGKIEAPIGRHPVD 197
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ D GR +T ++VL FKE +
Sbjct: 198 RKKMAVIED-GRY---------ALTLYKVLE-----RFKENT------------------ 224
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--DGHELHA 321
LV A ++GRTHQIR+H ++G + GD VY + +++ +G LH+
Sbjct: 225 ---------LVEAVIKTGRTHQIRVHMAFIGHPVVGD----PVYGFKKQKFKLEGQALHS 271
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L F HP G + +APLP + ++
Sbjct: 272 SILGFIHPTKGVYMEFEAPLPEYFVRLIE 300
>gi|421562423|ref|ZP_16008250.1| pseudouridine synthase [Neisseria meningitidis NM2795]
gi|421907597|ref|ZP_16337472.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis alpha704]
gi|393291266|emb|CCI73469.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis alpha704]
gi|402343079|gb|EJU78234.1| pseudouridine synthase [Neisseria meningitidis NM2795]
Length = 330
Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 78/266 (29%), Positives = 113/266 (42%), Gaps = 52/266 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
+ +YED+ L+ VNKP GV V V L E++ L L
Sbjct: 95 EAVYEDDALLVVNKPSGVAVHGGSGVSFGVIEQLRRARPEARY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H R
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVRLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VL+ +G
Sbjct: 196 LFKYTGAQGEKMVRVSEDGQAAH---TVFRVLNRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPL 343
LHA L +HP+TG P++++A LPL
Sbjct: 290 FLHASELHLNHPLTGEPLVLKAELPL 315
>gi|346991289|ref|ZP_08859361.1| ribosomal large subunit pseudouridine synthase C [Ruegeria sp.
TW15]
Length = 347
Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 83/305 (27%), Positives = 124/305 (40%), Gaps = 65/305 (21%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLP + + + + + K+ +S V+Y+D+ ++A+NKP G+ +
Sbjct: 65 PPLPDADHKPAVVKHRVSDADA---KMIQSCVIYKDDHVLALNKPHGLPVQ--------- 112
Query: 115 LAGDSAESKS-GRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHK 172
G S +++ LSE + E L +RLD+DTSGV+++ ++ + A L AF
Sbjct: 113 --GGSGQTRHVDSLSEALRFGYDENPRLVHRLDKDTSGVLLMARTREAAKGLTAAFRHRN 170
Query: 173 VSKTYIALCIG-PAPKWKRITI----ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMV 227
K Y AL G P P I GHG+ G + PG +
Sbjct: 171 TQKIYWALVAGVPTPYLGEIKTGLVKAPGHGKQGEGEKMIAVHPSEVNDTPGAKRAHTLY 230
Query: 228 TSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIR 287
+ V G ++ V P +GRTHQ+R
Sbjct: 231 ATL--YRVAGRAAW--------------------------------VAMEPVTGRTHQLR 256
Query: 288 LHCQYLGISIRGDVKYEGVYEWN-----GKRYDG-----HELHAESLSFDHPVTGCPVMV 337
H +G I GD KY G + N G + G LHA SLSF+HP T P+ +
Sbjct: 257 AHMAAIGHPIIGDGKYGGSGQENLGDGWGAQLGGIISKKLHLHARSLSFEHPETRKPITI 316
Query: 338 QAPLP 342
APLP
Sbjct: 317 TAPLP 321
>gi|91784729|ref|YP_559935.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
xenovorans LB400]
gi|91688683|gb|ABE31883.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
xenovorans LB400]
Length = 323
Score = 83.6 bits (205), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 78/268 (29%), Positives = 121/268 (45%), Gaps = 63/268 (23%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDE L+ ++KP GV + + G + + R + LEL +RLD
Sbjct: 83 IIFEDEHLLVIDKPAGV----AVHGGSGVAFGVIEQMREAR----PQAKFLEL--VHRLD 132
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSG++++ K L + ++K+ K Y A C+ G W
Sbjct: 133 RETSGILMLAKKRSALVNLHEQIRENKMDKRYYA-CV-------------------HGEW 172
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFK-EPSELQEHEENNIVVE--KKAV 262
ASD GR VR+ + + L+ +GE + +P L H N++ + A+
Sbjct: 173 ----ASDWGR----RRAVREPLHKY--LTADGERRVRVQPDGLASHTVFNLIDRWPEYAL 222
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE---- 318
L+A+ K +GRTHQIR+H Q+LG+ I GD KY G + N +
Sbjct: 223 LEAELK-----------TGRTHQIRVHLQHLGLPIVGDAKY-GDFALNKALARANANPGL 270
Query: 319 ----LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP TG P+ +APLP
Sbjct: 271 KRMFLHAYRLKLTHPATGEPLQFEAPLP 298
>gi|240948340|ref|ZP_04752726.1| 23S rRNA pseudouridylate synthase C [Actinobacillus minor NM305]
gi|240297379|gb|EER47920.1| 23S rRNA pseudouridylate synthase C [Actinobacillus minor NM305]
Length = 320
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 73/260 (28%), Positives = 113/260 (43%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G+ ++ A R L L +R+D
Sbjct: 98 ILYEDDVMLVINKPSGIAVHGGSGLSFGVIEALRALRPQARF----------LELVHRID 147
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K V L + + V K Y+AL G W
Sbjct: 148 RDTSGLLLVAKKRSVLRNLHEQLREKVVQKDYLALV--------------------RGQW 187
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ + +V+ + ++ + ++ V+ EG +PSE V+E++
Sbjct: 188 QSHV-----KVIKAPLLKNELASGERIVRVSEEG---KPSE------TRFVIEERY---- 229
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE----LHA 321
LV+A P +GRTHQIR+H QY G I D KY G E++ K LHA
Sbjct: 230 ---PTATLVKASPVTGRTHQIRVHTQYAGHPIALDDKY-GDREFDQKMQQAGLNRLFLHA 285
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
S+ F HP TG ++V APL
Sbjct: 286 HSIRFVHPKTGEEMVVTAPL 305
>gi|189219158|ref|YP_001939799.1| pseudouridylate synthase, 23S RNA-specific [Methylacidiphilum
infernorum V4]
gi|189186016|gb|ACD83201.1| Pseudouridylate synthase, 23S RNA-specific [Methylacidiphilum
infernorum V4]
Length = 325
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 79/270 (29%), Positives = 114/270 (42%), Gaps = 58/270 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVY----CESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL 140
++LYEDE ++ VNK +G+ C ++ L ES G +LL +
Sbjct: 92 EILYEDEEILIVNKQRGMVVHPSCGHWSGTLVNSLLFHYGESLPGS-------SLLRPGI 144
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
+RLD+DTSGVMVI K+ + L+ F+ V K Y+ LC P + R
Sbjct: 145 VHRLDKDTSGVMVIAKTERSLKSLLLQFSQRTVQKVYLCLCKNRFP----------YLRY 194
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
F A ASD ++ + T F +L + + SF
Sbjct: 195 SFEANIHRHASDRKKMAVHRLKGKTAETRFTLLFASSQASF------------------- 235
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHEL 319
++ P SGRTHQIR+H +LG I GD Y +GV ++ L
Sbjct: 236 -------------LKCEPVSGRTHQIRVHLSHLGFPIIGDPLYGKGVRKYPFPLL----L 278
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
HA +L +HP +G + APLP EAL
Sbjct: 279 HAYALKIEHPRSGKKIEFMAPLPQDFKEAL 308
>gi|452990186|emb|CCQ98635.1| pseudouridylate synthase [Clostridium ultunense Esp]
Length = 307
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 76/269 (28%), Positives = 120/269 (44%), Gaps = 73/269 (27%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANRL 144
+LYED LV VNKP+G+ V+ P +G + + + + +N +L + +R+
Sbjct: 87 ILYEDRDLVVVNKPRGM----VVHPAPGNSSGTLVNALLYHVKDLSGINGILRPGIVHRI 142
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D++TSG++V+ KS + L +H + ++Y+A +++GH + G
Sbjct: 143 DKETSGLLVVAKSDRAHLGLAAQLKEHAMERSYLA-------------VVNGHFPHRLGT 189
Query: 205 WRVYAASDVGR---------VLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNI 255
+ +GR V P G + VT F V+ EL +H
Sbjct: 190 ----VDAPIGRDPRDRKKMAVDPKG---KHAVTHFSVVE-----------ELPKH----- 226
Query: 256 VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY- 314
L+R +GRTHQIR+H Y+G I GD KY G+ Y
Sbjct: 227 ----------------TLLRCRLETGRTHQIRVHMSYIGHPIVGDPKY-----GKGESYG 265
Query: 315 -DGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G LHA +L F HPV+G + +APLP
Sbjct: 266 MEGQALHAATLGFIHPVSGEFLHFEAPLP 294
>gi|313678812|ref|YP_004056552.1| ribosomal large subunit pseudouridine synthase, RluA family
[Mycoplasma bovis PG45]
gi|312950691|gb|ADR25286.1| ribosomal large subunit pseudouridine synthase, RluA family
[Mycoplasma bovis PG45]
Length = 305
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 71/259 (27%), Positives = 120/259 (46%), Gaps = 48/259 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D+ YED+ L+ +NKP G+ + L LS+ LL L + +R+
Sbjct: 77 DIRYEDDNLLVLNKPSGLVVHPAPGHLNDTLVNALMYHFKNNLSDTN--GLLRLGIVHRI 134
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG+++I K ++ ++L K +H++ +TYIA+C G P ++T I+
Sbjct: 135 DKDTSGLLIIAKDNETHNELAKMLKNHQIKRTYIAICKGILP--NKVTKIN--------- 183
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
LP + RD + +++S++ +G + S H ++ K
Sbjct: 184 ------------LP---IQRD-AKNRKLMSIHKDG---KSSVTYVHLLKTFYIDNKPYS- 223
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHELHAES 323
LV+ +GRTHQIR+H Y+ + GD Y V ++N + LHA
Sbjct: 224 --------LVKCELETGRTHQIRVHLAYIKHPVYGDNIYGSHVDDFNQR------LHAYR 269
Query: 324 LSFDHPVTGCPVMVQAPLP 342
LSF HP++ V V + +P
Sbjct: 270 LSFIHPISKKQVDVYSDIP 288
>gi|418289652|ref|ZP_12901914.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis NM220]
gi|372203157|gb|EHP16871.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis NM220]
Length = 330
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 78/265 (29%), Positives = 113/265 (42%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
DV+YED+ L+ ++KP GV V V L E+K L L
Sbjct: 95 DVVYEDDALLVIDKPSGVAVHGGSGVSFGVIEQLRRARPEAKY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H +
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVKLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LFKYTGAQGEKMVRVSEDGQSAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P++++A LP
Sbjct: 290 FLHASELHLNHPLTGEPLVLKAELP 314
>gi|284037752|ref|YP_003387682.1| pseudouridine synthase [Spirosoma linguale DSM 74]
gi|283817045|gb|ADB38883.1| pseudouridine synthase, RluA family [Spirosoma linguale DSM 74]
Length = 308
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 77/263 (29%), Positives = 125/263 (47%), Gaps = 64/263 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKS--GRLSEGTKLN--LLELHLA 141
+LYED++L+ +NK G+ +A + ++ G LSE TK ++ +
Sbjct: 91 ILYEDQFLIVINKQAGLLS----------MATNKERDRTAYGILSEYTKKENPKNKIFII 140
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLDR+TSGVM+ KS KV + +++ +TY+AL G P+ + TI S SK
Sbjct: 141 HRLDRETSGVMMFAKSEKVQRLMQESWNATTKERTYVALVEG-IPEPPQGTITSYLRESK 199
Query: 202 FGAWRVYAAS--DVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
A VY++ D G++ +T++ V + G G
Sbjct: 200 --ALIVYSSQNPDTGQL---------SITNYTV-TKTGNGY------------------- 228
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
A+L+ + + +GR +QIR+H Q +G + GD KY + G+ L
Sbjct: 229 -ALLELELE-----------TGRKNQIRVHMQDIGHPVAGDEKYGAESDPIGRL----GL 272
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HAE L+F+HP+TG P+ AP+P
Sbjct: 273 HAEVLAFEHPITGVPMRFDAPIP 295
>gi|406878936|gb|EKD27704.1| hypothetical protein ACD_79C00616G0002 [uncultured bacterium]
Length = 232
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 81/280 (28%), Positives = 120/280 (42%), Gaps = 64/280 (22%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE-LHLANRL 144
V +ED++L + KP G+ + L D ++ K G L LLE + +RL
Sbjct: 5 VNFEDDYLAVIEKPAGITVNRSENDLENTLE-DWSQDKLG-------LKLLERAGIVHRL 56
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG------HG 198
D++TSG+++I K + KL + F + +V K Y AL G +S
Sbjct: 57 DKETSGLIIIAKDEESLHKLQQQFAEREVKKKYSALVHGLLKGTNGSLTVSAPISRLPWN 116
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
R KFG ++P G R+ VT
Sbjct: 117 RRKFG------------IVPDG---REAVTEI---------------------------- 133
Query: 259 KKAVLDADAKKNE--ILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG--VYEWNGKRY 314
A+LD +KN+ + A P++GRTHQIR+H +YLG I D Y G V+ + K +
Sbjct: 134 --AILDYYERKNKDYTYIEAKPQTGRTHQIRVHLKYLGHPIVADPLYAGRKVFRQDIKIF 191
Query: 315 DGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
LHA LSF HP+T + +PLP E+L+ K
Sbjct: 192 LRLFLHASYLSFKHPLTDKVLEFNSPLPHDLAESLKILEK 231
>gi|422296049|gb|EKU23348.1| pseudouridine synthase [Nannochloropsis gaditana CCMP526]
Length = 311
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 74/259 (28%), Positives = 109/259 (42%), Gaps = 43/259 (16%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D+L+ED+ L+ +NK G+ + L +G LS + + +RL
Sbjct: 62 DILFEDDDLIVINKAAGMTVHPAAGNWTGTLVNALLHHCAGSLSGIGGVQ--RPGIVHRL 119
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSGVMV+ KS + L F H V + Y+A C+ APK + + + GRS +
Sbjct: 120 DKDTSGVMVVAKSDRAHQGLGAKFAKHDVERAYLA-CVRGAPKPRADRLETRLGRSSYDR 178
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
+ D P + + VT++E L G+ E V A
Sbjct: 179 KKFAVIDD-----PHSTAGKIAVTNYETLKTFGQ------------EAGKSVGTPLAS-- 219
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGD-----------VKYEGVYEWNGKR 313
LV +GRTHQIR+H +LG + GD K + ++ K
Sbjct: 220 --------LVECRLETGRTHQIRIHMAHLGCPLLGDPLYGRGRSAPLAKLDSGKDF--KD 269
Query: 314 YDGHELHAESLSFDHPVTG 332
+ LHA L FDHPVTG
Sbjct: 270 FRRQALHAAILGFDHPVTG 288
>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 = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 76/274 (27%), Positives = 115/274 (41%), Gaps = 63/274 (22%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+ +ED+ ++ VNKP+G+ + L + L D +G++ G
Sbjct: 80 DIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNA-LLFHCDDLSGINGKIRPG------- 131
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+ L K D + YIAL G K TI +
Sbjct: 132 --IVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKG-TIEAPI 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+K ++ D G R T FEVL + P
Sbjct: 189 GRAKEDRQKMAVVRD-------GKEAR---THFEVLE-------RLPGY----------- 220
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
L+ +GRTHQIR+H +Y+G + GD KY N + +G
Sbjct: 221 --------------TLINCKLDTGRTHQIRVHLKYIGHPLAGDPKYG---PKNTIKGNGQ 263
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHA L FDHP T + +APLP +AL+S
Sbjct: 264 FLHAAKLGFDHPTTNERMTFEAPLPSSFEKALKS 297
>gi|15676125|ref|NP_273256.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis MC58]
gi|385339240|ref|YP_005893112.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis G2136]
gi|385852405|ref|YP_005898919.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis H44/76]
gi|416199950|ref|ZP_11619535.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis 961-5945]
gi|421537238|ref|ZP_15983426.1| pseudouridine synthase [Neisseria meningitidis 93003]
gi|421553948|ref|ZP_15999899.1| pseudouridine synthase [Neisseria meningitidis 98008]
gi|427826919|ref|ZP_18993964.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
H44/76]
gi|433464190|ref|ZP_20421684.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM422]
gi|433466311|ref|ZP_20423774.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
87255]
gi|433487395|ref|ZP_20444574.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
M13255]
gi|433489569|ref|ZP_20446708.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM418]
gi|433504207|ref|ZP_20461152.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
9506]
gi|433506250|ref|ZP_20463169.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
9757]
gi|433508384|ref|ZP_20465270.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
12888]
gi|433510467|ref|ZP_20467310.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
4119]
gi|7225419|gb|AAF40655.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis MC58]
gi|316985120|gb|EFV64072.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
H44/76]
gi|325143210|gb|EGC65550.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis 961-5945]
gi|325197484|gb|ADY92940.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis G2136]
gi|325199409|gb|ADY94864.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis H44/76]
gi|402319715|gb|EJU55220.1| pseudouridine synthase [Neisseria meningitidis 93003]
gi|402333984|gb|EJU69279.1| pseudouridine synthase [Neisseria meningitidis 98008]
gi|432205099|gb|ELK61130.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
87255]
gi|432206000|gb|ELK62015.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM422]
gi|432226160|gb|ELK81893.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
M13255]
gi|432230565|gb|ELK86240.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM418]
gi|432243590|gb|ELK99101.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
9506]
gi|432244266|gb|ELK99761.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
9757]
gi|432250035|gb|ELL05433.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
12888]
gi|432250535|gb|ELL05928.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
4119]
Length = 330
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 78/265 (29%), Positives = 113/265 (42%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
DV+YED+ L+ ++KP GV V V L E+K L L
Sbjct: 95 DVVYEDDALLVIDKPSGVAVHGGSGVSFGVIEQLRRARPEAKY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H +
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVKLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LFKYTGAQGEKMVRVSADGQSAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P++++A LP
Sbjct: 290 FLHASELHLNHPLTGEPLVLKAELP 314
>gi|365969978|ref|YP_004951539.1| ribosomal large subunit pseudouridine synthase C [Enterobacter
cloacae EcWSU1]
gi|365748891|gb|AEW73118.1| Ribosomal large subunit pseudouridine synthase C [Enterobacter
cloacae EcWSU1]
Length = 315
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 76/261 (29%), Positives = 115/261 (44%), Gaps = 58/261 (22%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + + K Y+AL + GH +S A
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLAL-------------VRGHWQSHVKAV 191
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
+ ++++++ S E ++ VN EG +PSE VE++
Sbjct: 192 Q-------------APLLKNILQSGERIVRVNQEG---KPSE------TRFKVEERYAFA 229
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELH 320
LVR P +GRTHQIR+H QY G I D +Y G E++ G LH
Sbjct: 230 T-------LVRCSPVTGRTHQIRVHTQYAGHPIAFDDRY-GDREFDKQLAGTGLSRLFLH 281
Query: 321 AESLSFDHPVTGCPVMVQAPL 341
A +L+F HP TG + ++APL
Sbjct: 282 AAALTFTHPNTGETIRIEAPL 302
>gi|291280358|ref|YP_003497193.1| ribosomal large subunit pseudouridine synthase D [Deferribacter
desulfuricans SSM1]
gi|290755060|dbj|BAI81437.1| ribosomal large subunit pseudouridine synthase D [Deferribacter
desulfuricans SSM1]
Length = 288
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 68/247 (27%), Positives = 113/247 (45%), Gaps = 49/247 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+++YE+++ + +NKP G+ + L +A ++++ N + + +RL
Sbjct: 66 NIIYENQYYLIINKPAGLCVHPAPGNFDNTLV--NALLYHFQINDD---NDVRPGIVHRL 120
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG++++ K+ V K+ + F + +V K Y+A+C G PKW I + + GR
Sbjct: 121 DKDTSGLILVAKNRDVREKMSEMFKEREVDKKYLAICYG-NPKWDEILVENSIGRH---- 175
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
V R + E NG + + + L+ ++ +
Sbjct: 176 ----------------PVDRKKMAVVE----NGRYAKTKITVLKRYDN---------IFL 206
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
AD K +GRTHQIR+HC YLG I GD Y G N R++ LHA L
Sbjct: 207 ADVK---------IYTGRTHQIRVHCSYLGCPIIGDKVY-GNKLSNKIRFERQALHAYYL 256
Query: 325 SFDHPVT 331
+FD P T
Sbjct: 257 AFDCPFT 263
>gi|389604823|emb|CCA43749.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis alpha522]
Length = 330
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 78/265 (29%), Positives = 113/265 (42%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
DV+YED+ L+ ++KP GV V V L E+K L L
Sbjct: 95 DVVYEDDALLVIDKPSGVAVHGGSGVSFGVIEQLRRARPEAKY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H +
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVKLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LFKYTGAQGEKMVRVSADGQSAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P++++A LP
Sbjct: 290 FLHASELHLNHPLTGEPLVLKAELP 314
>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 = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 79/283 (27%), Positives = 117/283 (41%), Gaps = 76/283 (26%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D++YED+ ++ +NKPQG+ + E L V LL + +G G
Sbjct: 77 DIVYEDDDVIVINKPQGMVVHPAPGHDEHTL--VNALLYHCPLSTINGTFRPG------- 127
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+ K L K D + Y+AL H
Sbjct: 128 --IVHRIDKDTSGLLMVAKNDKAHRSLAKQLKDKTNIREYVALV---------------H 170
Query: 198 GRSKFGAWRVYAASDVGRVLPG---GSVVRD---MVTSFEVLSVNGEGSFKEPSELQEHE 251
GR + A +GR L +VV+D VT FEVL + +F
Sbjct: 171 GRIAEDEGTINAP--IGRSLKDRKKQAVVKDGRNAVTHFEVLKRYRDYTF---------- 218
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
V+ +GRTHQIR+H +Y+G + GD Y G
Sbjct: 219 ----------------------VKCILETGRTHQIRVHMKYIGHPLVGDPLYGPKKTIKG 256
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
+G LHA L F HP TG ++ +APLP E L+ K
Sbjct: 257 ---NGQFLHAGKLGFVHPTTGKLLVFEAPLPKIFQECLEKLDK 296
>gi|398793752|ref|ZP_10554001.1| 23S RNA-specific pseudouridylate synthase [Pantoea sp. YR343]
gi|398210016|gb|EJM96674.1| 23S RNA-specific pseudouridylate synthase [Pantoea sp. YR343]
Length = 254
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 71/259 (27%), Positives = 109/259 (42%), Gaps = 49/259 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++LY+D+ L+ +NKP G+ S+ P L DS + +L G L +RL
Sbjct: 45 EILYQDDHLLLINKPAGLL--SLSGKNP--LNLDSVHHRLVKLFPGCTL-------VHRL 93
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG+MVI ++ + + L + F+ V+K Y AL + GH G
Sbjct: 94 DFGTSGLMVIARNKAINAALCQQFSQRSVTKIYHAL-------------LCGHLADDEGV 140
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
A D + + +VNG+ + ++ E + + +
Sbjct: 141 IDAPIAKDPA-----------LFPLMTICAVNGKPARSRYRVIERTHEGMLPLTR----- 184
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
V P +GRTHQ+R+HCQ LG I G Y G G++ LHA L
Sbjct: 185 ---------VELTPETGRTHQLRIHCQQLGHPILGCDLYGGRLLPGGEQTPRLMLHASEL 235
Query: 325 SFDHPVTGCPVMVQAPLPL 343
+F HPV+G V +Q P
Sbjct: 236 NFIHPVSGESVNIQNACPF 254
>gi|304391488|ref|ZP_07373430.1| rRNA pseudouridylate synthase C [Ahrensia sp. R2A130]
gi|303295717|gb|EFL90075.1| rRNA pseudouridylate synthase C [Ahrensia sp. R2A130]
Length = 338
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 84/295 (28%), Positives = 121/295 (41%), Gaps = 57/295 (19%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLASV 111
PPL + + D L + + R +LYED+ ++ NKP G+ + + SV
Sbjct: 67 PPLDSAASDKPLHMTSNTIRDRHDEDVLRDMILYEDKKVLVFNKPSGLAVQGGSGISRSV 126
Query: 112 PCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH 171
+L +S K+G+ + L +RLDRDTSGV+V+ K+ A+ L K+F
Sbjct: 127 DSML--ESLRDKAGQ----------KPRLCHRLDRDTSGVLVVAKTRGAAAALTKSFRQR 174
Query: 172 KVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSF 230
KTY AL G P K RI+ +++ G D RV G D SF
Sbjct: 175 TTQKTYWALVRGIPRQKEGRISTYLVKEQTEDG--------DRMRVAKHGERHADHAVSF 226
Query: 231 EVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHC 290
V+D++ + V P +GRTHQ+R+H
Sbjct: 227 -----------------------------YRVIDSNPRTVS-WVELSPHTGRTHQLRVHA 256
Query: 291 QYLGISIRGDVKYEGVYEWN--GKRYDGHELHAESLSFDHPVTGCPVM-VQAPLP 342
++G I GD KY W G LHA + HP P + V APLP
Sbjct: 257 DHIGHPIIGDNKYFSTENWEMPGGIQKRLHLHARRIRIPHPDENQPTLDVTAPLP 311
>gi|83950496|ref|ZP_00959229.1| ribosomal large subunit pseudouridine synthase C [Roseovarius
nubinhibens ISM]
gi|83838395|gb|EAP77691.1| ribosomal large subunit pseudouridine synthase C [Roseovarius
nubinhibens ISM]
Length = 346
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 83/304 (27%), Positives = 127/304 (41%), Gaps = 58/304 (19%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYK----LSRSDVLYEDEWLVAVNKPQGVYCESVLAS 110
PP+PA D +A +S + + R+ V+Y D+ ++A+NKP G+ +
Sbjct: 59 PPIPA--PDDSEDKAAPPRPRSRVSDEDAAMIRAAVIYRDDHIIALNKPPGLPVQ----- 111
Query: 111 VPCLLAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFT 169
G L+E + +L E L +RLD+DTSGV+++ ++ ++A+ L AF
Sbjct: 112 -----GGSKQTRHVDGLAEALRFDLDEKPRLVHRLDKDTSGVLILARTRQMAADLTAAFR 166
Query: 170 DHKVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVT 228
K Y A G P P+ G K+G L
Sbjct: 167 HRNTRKIYWAAVAGVPLPRM---------GTVKYG-------------LVKAPGHGKGGE 204
Query: 229 SFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRL 288
++L ++ P E+ AVL+ +A + + P +GRTHQ+R
Sbjct: 205 GEKMLCIH-------PREVDNTPGAKHATSDYAVLE-NAGQRTAWMALVPVTGRTHQLRA 256
Query: 289 HCQYLGISIRGDVKYEGVYEWN-----GKRYDGH-----ELHAESLSFDHPVTGCPVMVQ 338
H LG I GD KY G + N G + G LHA SL+ HP TG + +
Sbjct: 257 HMAELGHPIVGDGKYGGSGQENLGDGWGAQLGGDVSRKLHLHARSLTIRHPATGARLHLT 316
Query: 339 APLP 342
APLP
Sbjct: 317 APLP 320
>gi|328543393|ref|YP_004303502.1| pseudouridine synthase [Polymorphum gilvum SL003B-26A1]
gi|326413138|gb|ADZ70201.1| Pseudouridine synthase [Polymorphum gilvum SL003B-26A1]
Length = 334
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 83/295 (28%), Positives = 120/295 (40%), Gaps = 58/295 (19%)
Query: 55 PPLPAI--SKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVP 112
PPL + + D + R S+ + K +LYED+ ++ +NKP G+ +
Sbjct: 65 PPLGVVVAADDTKNARPKSSRLIADDRKAVEDMILYEDDQVMVLNKPAGLAVQ------- 117
Query: 113 CLLAGDSAESK--SGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTD 170
G S S+ G L T + L +RLDR+TSGV+++ K+ K A +L +AF
Sbjct: 118 ----GGSGLSRHLDGMLDAFTNKKGEKPRLVHRLDRETSGVLLVAKTRKAAQELTRAFRQ 173
Query: 171 HKVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTS 229
K Y AL G P P+ RI+ Y A D
Sbjct: 174 RSTRKIYWALLAGVPKPRQGRIS--------------TYLARD----------------- 202
Query: 230 FEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLH 289
EGS K +E V +V++ A+K V P +GRTHQ+R H
Sbjct: 203 --------EGSEKMKVARHGDDEAQHAVSLYSVVEQSAQK-LAWVSLRPVTGRTHQLRAH 253
Query: 290 CQYLGISIRGDVKYEGVYEWN--GKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
++G I GD KY + W G + L A + HP + V APLP
Sbjct: 254 AAHIGHPIVGDDKYFNIENWELPGGIQNRLHLLARRIVIPHPSGHGTIDVSAPLP 308
>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 = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 82/274 (29%), Positives = 117/274 (42%), Gaps = 78/274 (28%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+LYED+ +V VNK G+ + L + D + SG L G
Sbjct: 20 DILYEDKDIVVVNKSAGMITHPTPSFTSGTLVNALMYHCKD-FQGISGELRPG------- 71
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPK-WKRITIISG 196
+ +RLD+DTSGV+V+ K+ K L K F D K Y A+ G K + I + G
Sbjct: 72 --IVHRLDKDTSGVIVVAKNDKAHQSLSKQFKDRVTEKVYAAIVKGIVKKDYGTIEVPVG 129
Query: 197 HG---RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
R+K AA D G+ + +T F+VL FK+ +
Sbjct: 130 RNPVVRTKM------AAVDWGK---------NALTYFKVLR-----RFKDAT-------- 161
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
LV A+P++GRTHQIR+H +Y+G + GD Y +GK+
Sbjct: 162 -------------------LVFAYPKTGRTHQIRIHMKYIGHPLLGDELY-----GSGKK 197
Query: 314 YDGH-----ELHAESLSFDHPVTGCPVMVQAPLP 342
+ + LHA LSF HP T + APLP
Sbjct: 198 DEIYGATRQMLHALRLSFYHPTTEEKMTFVAPLP 231
>gi|161870862|ref|YP_001600036.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis 053442]
gi|416194779|ref|ZP_11617496.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis CU385]
gi|416211596|ref|ZP_11621465.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis M01-240013]
gi|418287403|ref|ZP_12900010.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis NM233]
gi|421539393|ref|ZP_15985555.1| pseudouridine synthase [Neisseria meningitidis 93004]
gi|421556191|ref|ZP_16002108.1| pseudouridine synthase [Neisseria meningitidis 80179]
gi|421558184|ref|ZP_16004068.1| pseudouridine synthase [Neisseria meningitidis 92045]
gi|421564339|ref|ZP_16010138.1| pseudouridine synthase [Neisseria meningitidis NM3081]
gi|421566670|ref|ZP_16012413.1| pseudouridine synthase [Neisseria meningitidis NM3001]
gi|433512557|ref|ZP_20469359.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
63049]
gi|161596415|gb|ABX74075.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis 053442]
gi|325141211|gb|EGC63711.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis CU385]
gi|325145393|gb|EGC67670.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis M01-240013]
gi|372203795|gb|EHP17398.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis NM233]
gi|402321973|gb|EJU57444.1| pseudouridine synthase [Neisseria meningitidis 93004]
gi|402338044|gb|EJU73283.1| pseudouridine synthase [Neisseria meningitidis 80179]
gi|402338578|gb|EJU73809.1| pseudouridine synthase [Neisseria meningitidis 92045]
gi|402345094|gb|EJU80221.1| pseudouridine synthase [Neisseria meningitidis NM3001]
gi|402345936|gb|EJU81040.1| pseudouridine synthase [Neisseria meningitidis NM3081]
gi|432250312|gb|ELL05707.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
63049]
Length = 330
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 78/265 (29%), Positives = 113/265 (42%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
DV+YED+ L+ ++KP GV V V L E+K L L
Sbjct: 95 DVVYEDDALLVIDKPSGVAVHGGSGVSFGVIEQLRRARPEAKY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H +
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVKLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LFKYTGAQGEKMVRVSEDGQSAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P++++A LP
Sbjct: 290 FLHASELHLNHPLTGEPLVLKAELP 314
>gi|301052930|ref|YP_003791141.1| ribosomal large subunit pseudouridylate synthase D [Bacillus cereus
biovar anthracis str. CI]
gi|300375099|gb|ADK04003.1| ribosomal large subunit pseudouridylate synthase D [Bacillus cereus
biovar anthracis str. CI]
Length = 307
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 79/270 (29%), Positives = 120/270 (44%), Gaps = 75/270 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA--- 141
DV+YED+ ++ VNKP+ + D+ ++ G + GT NL+ H
Sbjct: 86 DVVYEDDHVLIVNKPEKM---------------DTHPAEKGGM--GTLANLVAFHYQMKG 128
Query: 142 --------NRLDRDTSGVMVITKSHKVASKLV-KAFTDHKVSKTYIALCIGPAPKWKRIT 192
+RLD+DT+G +V K H++A ++ + + K+ +TY AL G K K+ T
Sbjct: 129 LETKVRHIHRLDKDTTGGVVFAK-HRIAGAIMDRLLMERKIKRTYAALVEGKVKK-KQGT 186
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
I + GR + A R RV P G +T ++V EG FK
Sbjct: 187 IDAAIGRDRHHATR-------RRVSPKGD---QAITYYKV-----EGYFK---------- 221
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
K+N LV +GRTHQIR+H Y G + GDV Y G ++ +
Sbjct: 222 ---------------KQNVTLVTLQLETGRTHQIRVHMSYNGNPLVGDVLYGGQTKYMSR 266
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA ++F HP+T + V P P
Sbjct: 267 Q----ALHAMKINFLHPITKEEIEVDVPFP 292
>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 = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 76/274 (27%), Positives = 115/274 (41%), Gaps = 63/274 (22%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+ +ED+ ++ VNKP+G+ + L + L D +G++ G
Sbjct: 80 DIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNA-LLFHCDDLSGINGKIRPG------- 131
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+ L K D + YIAL G K TI +
Sbjct: 132 --IVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKG-TIEAPI 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+K ++ D G R T FEVL + P
Sbjct: 189 GRAKEDRQKMAVVRD-------GKEAR---THFEVLE-------RLPGY----------- 220
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
L+ +GRTHQIR+H +Y+G + GD KY N + +G
Sbjct: 221 --------------TLINCKLDTGRTHQIRVHLKYIGHPLAGDPKYG---PKNTIKGNGQ 263
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHA L FDHP T + +APLP +AL+S
Sbjct: 264 FLHAAKLGFDHPTTNERMTFEAPLPSSFEKALKS 297
>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 = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 76/274 (27%), Positives = 115/274 (41%), Gaps = 63/274 (22%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+ +ED+ ++ VNKP+G+ + L + L D +G++ G
Sbjct: 80 DIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNA-LLFHCDDLSGINGKIRPG------- 131
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+ L K D + YIAL G K TI +
Sbjct: 132 --IVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKG-TIEAPI 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+K ++ D G R T FEVL + P
Sbjct: 189 GRAKEDRQKMAVVRD-------GKEAR---THFEVLE-------RLPGY----------- 220
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
L+ +GRTHQIR+H +Y+G + GD KY N + +G
Sbjct: 221 --------------TLINCKLDTGRTHQIRVHLKYIGHPLAGDPKYG---PKNTIKGNGQ 263
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHA L FDHP T + +APLP +AL+S
Sbjct: 264 FLHAAKLGFDHPTTNERMTFEAPLPSSFEKALKS 297
>gi|433535853|ref|ZP_20492372.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
77221]
gi|432276274|gb|ELL31332.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
77221]
Length = 330
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 77/265 (29%), Positives = 113/265 (42%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
D++YED+ L+ ++KP GV V V L E+K L L
Sbjct: 95 DIVYEDDALLVIDKPSGVAVHGGSGVSFGVIEQLRRARPEAKY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H +
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVKLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LFKYTGAQGEKMVRVSEDGQSAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P++++A LP
Sbjct: 290 FLHASELHLNHPLTGEPLVLKAELP 314
>gi|406960537|gb|EKD87564.1| Pseudouridine synthase [uncultured bacterium]
Length = 219
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 74/266 (27%), Positives = 114/266 (42%), Gaps = 67/266 (25%)
Query: 86 VLYEDEWLVAVNKPQGVY---CESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN 142
+L+EDE L+ +NKP G+ +SV AG S+ R + +
Sbjct: 5 ILFEDEDLLVINKPPGIVVNRAQSVKEETIEDWAGKKLTSQVERSG-----------IVH 53
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGP-APKWKRITIISGH---G 198
R+D++TSG ++I K+ V +L + F + ++ KTY+A+ G P+ I G
Sbjct: 54 RIDKETSGCLLIAKTPHVFFELQRQFKEREIHKTYLAIVHGSLVPEEGEIRAPVGRLPWN 113
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
R +FG ++PGG R+ +T ++V + SF
Sbjct: 114 RERFG------------IVPGG---REAMTKYKVRKSDDNYSF----------------- 141
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR--YDG 316
V +P++GRTHQIR+H +Y+ I GD Y G R
Sbjct: 142 ---------------VELYPQTGRTHQIRVHLKYINHPIVGDYLYAGRKTSRADRQVVGR 186
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLP 342
LHA +SF HP T V V+AP+P
Sbjct: 187 VMLHAWKISFTHPSTKKLVTVEAPIP 212
>gi|167855918|ref|ZP_02478667.1| ribosomal large subunit pseudouridine synthase C [Haemophilus
parasuis 29755]
gi|219871480|ref|YP_002475855.1| 23S rRNA pseudouridylate synthase C [Haemophilus parasuis SH0165]
gi|167852955|gb|EDS24220.1| ribosomal large subunit pseudouridine synthase C [Haemophilus
parasuis 29755]
gi|219691684|gb|ACL32907.1| 23S rRNA pseudouridylate synthase C [Haemophilus parasuis SH0165]
Length = 319
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 73/260 (28%), Positives = 113/260 (43%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++ +NKP G+ ++ A R L L +R+D
Sbjct: 98 ILYEDEVMLVINKPSGIAVHGGSGLSFGVIEALRALRPQARF----------LELVHRID 147
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + V K Y+AL G W
Sbjct: 148 RDTSGLLLVAKKRSALRSLHEQLREKVVQKDYLALV--------------------RGQW 187
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ + +V+ + ++ + ++ V+ EG +PSE V+E++ +
Sbjct: 188 QSHV-----KVIKAPLLKNELASGERIVRVSEEG---KPSE------TRFVIEERYPIAT 233
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE----LHA 321
LV+A P +GRTHQIR+H QY G I D KY G E++ K LHA
Sbjct: 234 -------LVKASPVTGRTHQIRVHTQYAGHPIALDDKY-GDREFDQKMQQAGLNRLFLHA 285
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
S+ F HP TG ++V APL
Sbjct: 286 HSIRFVHPKTGEEMVVTAPL 305
>gi|340028922|ref|ZP_08664985.1| ribosomal large subunit pseudouridine synthase C [Paracoccus sp.
TRP]
Length = 350
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 85/304 (27%), Positives = 126/304 (41%), Gaps = 60/304 (19%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLP + R A+ K S ++ +S VL+ DE ++A+NKP G
Sbjct: 65 PPLPVAASGPVPARP-RAAVKQSDAEMIQSCVLWRDEHIIALNKPPG------------- 110
Query: 115 LAGDSAESKSGRLSEGTKLNLL-----ELHLANRLDRDTSGVMVITKSHKVASKLVKAFT 169
L + R +G L+ L +RLD+DTSGV+++ ++ ++A L +AF
Sbjct: 111 LPSQGGSGQGDRHVDGLTAALMFGYKDRPKLVHRLDKDTSGVLLLARTDRIARSLSEAFR 170
Query: 170 DHKVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVT 228
K Y A G P+P+ G K+G L
Sbjct: 171 HRLTRKIYWAAVAGVPSPR---------MGSIKYG-------------LVKAPGRGRGGE 208
Query: 229 SFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRL 288
++++V+ PS + E AVLDA + V P +GRTHQ+R
Sbjct: 209 GEKMMTVH-------PSAVASTEGAKRAHTDFAVLDALGSRTA-WVAMVPVTGRTHQLRA 260
Query: 289 HCQYLGISIRGDVKYEGVYEWN-----GKRYDGH-----ELHAESLSFDHPVTGCPVMVQ 338
H +G I GD KY G + N G + G LHA + F+HP+T + V
Sbjct: 261 HMAGIGHPIVGDGKYGGSGQENPGDGWGAQLGGEISRKLHLHARMIRFEHPITKKLITVT 320
Query: 339 APLP 342
APLP
Sbjct: 321 APLP 324
>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 = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 75/267 (28%), Positives = 116/267 (43%), Gaps = 49/267 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+++YEDE ++ VNKP+G+ S L ++ +G LS + + +R+
Sbjct: 81 EIIYEDEDVIVVNKPKGMVVHPAPGSPSGTLV-NALMHHTGALSNIN--GVYRPGIIHRI 137
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG++++ K++ L + H +++ Y AL G + R TI GR
Sbjct: 138 DKDTSGLLMVAKNNAAHQNLTEQLKAHTITRQYKALVKGIM-ENNRGTIDMPIGRHPKDR 196
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
R+ + + + VT FE L EG
Sbjct: 197 VRMAVVKENSK---------EAVTHFETLKRYAEGY------------------------ 223
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
L++ +GRTHQIR+H Q +G I GD Y+G + N + +G LHAE L
Sbjct: 224 -------TLMQFRLETGRTHQIRVHMQAIGYPIAGDPLYKGD-KKNPFKTEGQCLHAELL 275
Query: 325 SFDHPVTGCPVMVQAPLPLWGTEALQS 351
F HP TG + APLP EA Q+
Sbjct: 276 GFKHPRTGEYMEFSAPLP----EAFQA 298
>gi|226313367|ref|YP_002773261.1| pseudouridine synthase [Brevibacillus brevis NBRC 100599]
gi|226096315|dbj|BAH44757.1| pseudouridine synthase [Brevibacillus brevis NBRC 100599]
Length = 309
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 74/259 (28%), Positives = 116/259 (44%), Gaps = 50/259 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D++YED +V VNKP+G+ V+ P +G + + +N +L + +R
Sbjct: 87 DIVYEDSDVVVVNKPRGL----VVHPAPGHYSGTLVNGLLAHCKDLSGINGVLRPGIVHR 142
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ K L + H V++ Y+AL G P + TI + GR
Sbjct: 143 IDKDTSGLLMVAKNDKAHMGLAEQLKAHTVNRKYVALVHGVIPH-EMGTIEAPIGRDPKN 201
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ + + VT F VL FKE + +VE K
Sbjct: 202 RQQMAVVFENSK---------PAVTHFIVLE-----RFKEYT----------MVELKL-- 235
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+GRTHQIR+H +Y+ + GD KY N DG LHA++
Sbjct: 236 ---------------ETGRTHQIRVHMKYIDYPLAGDPKYG---PKNTLELDGQALHAKT 277
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L F HP TG + +AP+P
Sbjct: 278 LGFIHPRTGEQLEFEAPMP 296
>gi|89053115|ref|YP_508566.1| ribosomal large subunit pseudouridine synthase C [Jannaschia sp.
CCS1]
gi|88862664|gb|ABD53541.1| ribosomal large subunit pseudouridine synthase C [Jannaschia sp.
CCS1]
Length = 354
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 81/280 (28%), Positives = 120/280 (42%), Gaps = 62/280 (22%)
Query: 80 KLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKS-GRLSEGTKLNLLEL 138
K+ R+ V+Y D+ ++A+NKP G+ + G + +S+ L+E K L +
Sbjct: 93 KMIRAAVIYRDDHIIAINKPAGLPTQ-----------GGTGQSRHVDGLAEALKFGLEDK 141
Query: 139 -HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITI--- 193
L +RLD+DTSGV+++ ++ A L AF K Y A G P P+ I +
Sbjct: 142 PRLVHRLDKDTSGVLLMARTRMGAKALTDAFRLRSTRKIYWAAVAGSPLPRMGTIKLGLV 201
Query: 194 -ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
GHGR ++ R +P E+ V+G + E
Sbjct: 202 KAPGHGRG--------GENEKMRAVP----------VDEIAQVDG----------AKRAE 233
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN-- 310
+ V ++ P +GRTHQ+R H +G I GD KY G + N
Sbjct: 234 TDYAVM------SNLGGRVCWCALVPITGRTHQLRAHMAEIGHPIIGDGKYGGSGQENLG 287
Query: 311 ---GKRYDGH-----ELHAESLSFDHPVTGCPVMVQAPLP 342
G + G LHA SLSF HP+TG V + APLP
Sbjct: 288 DGWGAQLGGEISRKLHLHARSLSFRHPMTGAQVNLVAPLP 327
>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 = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 75/274 (27%), Positives = 115/274 (41%), Gaps = 63/274 (22%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+ +ED+ ++ VNKP+G+ + L + L D +G++ G
Sbjct: 80 DIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNA-LLFHCDDLSGINGKIRPG------- 131
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+ L K D + YIAL G K TI +
Sbjct: 132 --IVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKG-TIEAPI 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+K ++ D G R T FEV+ + P
Sbjct: 189 GRAKEDRQKMAVVRD-------GKEAR---THFEVIE-------RLPGY----------- 220
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
L+ +GRTHQIR+H +Y+G + GD KY N + +G
Sbjct: 221 --------------TLINCKLDTGRTHQIRVHLKYIGHPLAGDPKY---GPKNTIKGNGQ 263
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHA L FDHP T + +APLP +AL+S
Sbjct: 264 FLHAAKLGFDHPTTNERMTFEAPLPDSFEQALKS 297
>gi|423279706|ref|ZP_17258619.1| RluA family pseudouridine synthase [Bacteroides fragilis HMW 610]
gi|404584694|gb|EKA89338.1| RluA family pseudouridine synthase [Bacteroides fragilis HMW 610]
Length = 539
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 69/257 (26%), Positives = 107/257 (41%), Gaps = 62/257 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++L+EDEWL+ ++KP+G L SVP G S E + L + +RL
Sbjct: 337 EILFEDEWLLVIHKPEG------LLSVP----GKSEELSAYSLLRARYPEATGPMIVHRL 386
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG++++ K+ +V L F +H + K Y AL G
Sbjct: 387 DMATSGLLLVAKTKEVHQHLQAQFENHSIKKQYTALLEG--------------------- 425
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
+LP D+ ++L P + + E V + V+D
Sbjct: 426 -----------ILPTDEGTIDLPICPDLLD--------RPRQKADRESGKKAVTRYCVID 466
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGHELHA 321
+ I FP++GRTHQ+R+H + L I GD Y GKR + LHA
Sbjct: 467 RKNGRTRIAF--FPQTGRTHQLRVHSAHPSGLNCPIAGDELY-------GKRAERLYLHA 517
Query: 322 ESLSFDHPVTGCPVMVQ 338
E L F HP++G + ++
Sbjct: 518 ERLEFIHPMSGQRIYIE 534
>gi|303230703|ref|ZP_07317450.1| pseudouridine synthase, RluA family [Veillonella atypica
ACS-049-V-Sch6]
gi|302514463|gb|EFL56458.1| pseudouridine synthase, RluA family [Veillonella atypica
ACS-049-V-Sch6]
Length = 306
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 76/266 (28%), Positives = 121/266 (45%), Gaps = 56/266 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE------L 138
+++YEDE+++A+NK V L ++ + G L+ G E
Sbjct: 80 EIVYEDEYILAINKAASV------------LMHPTSTVRDGTLANGVLYYYDETEQAHDF 127
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
H +RLD+DTSG+++I K+ V K T K K Y A+ G P + +TI
Sbjct: 128 HPVHRLDKDTSGIVIIAKTSVVQHAFDKQRT--KFQKVYDAIVEGTMPS-QSLTI----- 179
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
W +GR GS++ TS G+ + + + L H +V
Sbjct: 180 -----KW------PIGR--KAGSIIERCCTSI------GKPARTDVTVLARH-----IVS 215
Query: 259 KKAVLDADAKKNEIL--VRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
+ +D + +IL V+ +GRTHQIR+H +LG + GD Y G ++ ++
Sbjct: 216 QPVQMDKNLSTQQILTHVQCVLHTGRTHQIRVHLSHLGFPLVGDDLYGGHLDYIRRQ--- 272
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L+F HP+T V ++APLP
Sbjct: 273 -ALHAGYLAFTHPMTQEYVELRAPLP 297
>gi|261378098|ref|ZP_05982671.1| ribosomal large subunit pseudouridine synthase C [Neisseria cinerea
ATCC 14685]
gi|269145550|gb|EEZ71968.1| ribosomal large subunit pseudouridine synthase C [Neisseria cinerea
ATCC 14685]
Length = 330
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 78/265 (29%), Positives = 113/265 (42%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
+ +YED+ L+ VNKP GV V V L E+K L L
Sbjct: 95 EAVYEDDALLVVNKPSGVAVHGGSGVSFGVIEQLRRARPEAKY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H +
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVKLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LFKYTGAQGEKMVRVSEDGQAAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHSVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P++++A LP
Sbjct: 290 FLHASELHLNHPLTGEPLVLKAELP 314
>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 = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 78/272 (28%), Positives = 111/272 (40%), Gaps = 77/272 (28%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D+ YED+ ++ VNKP+G+ S + GT +N L H
Sbjct: 80 DIYYEDKDMLVVNKPEGMVVHP-----------------SAGHASGTLVNALLFHCKDLS 122
Query: 140 ---------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
+ +R+D+DTSG++++ K+ L K D + YIAL G K
Sbjct: 123 GINGKIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKG 182
Query: 191 ITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
TI + GR+K ++ D G R T FEV+ E
Sbjct: 183 -TIEAPIGRAKEDRQKMAVVRD-------GKEAR---THFEVI---------------ER 216
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
E ++ K LD +GRTHQIR+H +Y+G + GD KY
Sbjct: 217 LEGYTLINCK--LD---------------TGRTHQIRVHLKYIGHPLAGDPKYGPKNTLK 259
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G +G LHA L FDHP TG + +APLP
Sbjct: 260 G---NGQFLHAAKLGFDHPTTGERMTFEAPLP 288
>gi|339321252|ref|YP_004683774.1| ribosomal large subunit pseudouridine synthaseD [Mycoplasma bovis
Hubei-1]
gi|392430325|ref|YP_006471370.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma bovis
HB0801]
gi|338227377|gb|AEI90439.1| ribosomal large subunit pseudouridine synthaseD [Mycoplasma bovis
Hubei-1]
gi|392051734|gb|AFM52109.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma bovis
HB0801]
Length = 305
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 71/259 (27%), Positives = 120/259 (46%), Gaps = 48/259 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D+ YED+ L+ +NKP G+ + L LS+ LL L + +R+
Sbjct: 77 DIRYEDDNLLVLNKPSGLVVHPAPGHLNDTLVNALMYHFKNNLSDTN--GLLRLGIVHRI 134
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG+++I K ++ ++L K +H++ +TYIA+C G P ++T I+
Sbjct: 135 DKDTSGLLIIAKDNETHNELAKMLKNHQIKRTYIAICEGILP--NKVTKIN--------- 183
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
LP + RD + +++S++ +G + S H ++ K
Sbjct: 184 ------------LP---IQRD-AKNRKLMSIHKDG---KSSVTYVHLLKTFYIDNKPYS- 223
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHELHAES 323
LV+ +GRTHQIR+H Y+ + GD Y V ++N + LHA
Sbjct: 224 --------LVKCELETGRTHQIRVHLAYIKHPVYGDNIYGSHVDDFNQR------LHAYR 269
Query: 324 LSFDHPVTGCPVMVQAPLP 342
LSF HP++ V V + +P
Sbjct: 270 LSFIHPISKKQVDVYSDIP 288
>gi|223932325|ref|ZP_03624328.1| pseudouridine synthase, RluA family [Streptococcus suis 89/1591]
gi|302023845|ref|ZP_07249056.1| RNA pseudouridylate synthase [Streptococcus suis 05HAS68]
gi|330832880|ref|YP_004401705.1| RluA family pseudouridine synthase [Streptococcus suis ST3]
gi|386584272|ref|YP_006080675.1| RluA family pseudouridine synthase [Streptococcus suis D9]
gi|223899006|gb|EEF65364.1| pseudouridine synthase, RluA family [Streptococcus suis 89/1591]
gi|329307103|gb|AEB81519.1| pseudouridine synthase, RluA family [Streptococcus suis ST3]
gi|353736418|gb|AER17427.1| pseudouridine synthase, RluA family [Streptococcus suis D9]
Length = 297
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 79/284 (27%), Positives = 121/284 (42%), Gaps = 56/284 (19%)
Query: 60 ISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDS 119
++ DI ++ S K + L D++YED+ +++NKP G AS+P L +
Sbjct: 56 VTIDIPAEEDLTGSLKPIFFPL---DIVYEDDHFLSINKPVG------YASIPSALHSST 106
Query: 120 -AESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYI 178
A G L E N ++H+ RLDRDTSGVM+ K ++L K + K Y
Sbjct: 107 IANFVKGYLIEQNYENK-QVHIVTRLDRDTSGVMLFAKHGYAHARLDKQLQAKLIHKRYY 165
Query: 179 ALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGE 238
AL G + II+ GR P S++ VT NG+
Sbjct: 166 ALVKGNGQLEETGDIIAPIGR------------------PEDSIITRCVTK------NGK 201
Query: 239 GSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIR 298
+ +Q + + LV +GRTHQIR+H ++G +
Sbjct: 202 YAHTSYRVVQSWGDIH------------------LVDIQLHTGRTHQIRVHFSHIGFPLL 243
Query: 299 GDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
GD Y G E +R LH +L+FD+P + + ++APLP
Sbjct: 244 GDDMYGGSLECGIER---QALHCHNLAFDNPFSAERIDLEAPLP 284
>gi|423241960|ref|ZP_17223071.1| RluA family pseudouridine synthase [Bacteroides dorei CL03T12C01]
gi|392640189|gb|EIY33994.1| RluA family pseudouridine synthase [Bacteroides dorei CL03T12C01]
Length = 540
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 77/257 (29%), Positives = 108/257 (42%), Gaps = 62/257 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+++YED +LV VNKP G + SVP DS L L+ +RL
Sbjct: 338 EIVYEDNYLVVVNKPAG------MLSVPGKGEIDSVYQHIKTLYPDATGPLI----VHRL 387
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSGV++I K+ KV L F + + K YIAL G P SK G
Sbjct: 388 DMATSGVLLIAKNKKVHQHLQAQFKNRMIKKRYIALLDGKIP-------------SKEGT 434
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
LP L +N P ++ +HE + VL+
Sbjct: 435 I----------TLP--------------LRMN---PLDRPRQIVDHEHGKTAITLYRVLN 467
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGHELHA 321
++ L+ +P +GRTHQ+R+H + L IRGD E G++ D LHA
Sbjct: 468 E--QEGRTLIAFYPLTGRTHQLRVHAAHPEGLHCPIRGD-------ELYGRKADRLYLHA 518
Query: 322 ESLSFDHPVTGCPVMVQ 338
ESL F HP+T + V+
Sbjct: 519 ESLEFVHPITKKIIFVE 535
>gi|120610104|ref|YP_969782.1| ribosomal large subunit pseudouridine synthase D [Acidovorax
citrulli AAC00-1]
gi|120588568|gb|ABM32008.1| ribosomal large subunit pseudouridine synthase D [Acidovorax
citrulli AAC00-1]
Length = 339
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 81/269 (30%), Positives = 115/269 (42%), Gaps = 51/269 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-VPCLLAGDSA-ESKSGRLSEGTKLNLLELHLAN 142
D +YEDE L VNKP G+ + LL G A + ++G N+ + +
Sbjct: 112 DTVYEDEHLRIVNKPAGLVVHPAPGNWSGTLLNGLLALDPRAG--------NVPRAGIVH 163
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD+DTSG+MV+ + V LV+ +VS+ Y+AL GH R+
Sbjct: 164 RLDKDTSGLMVVARERSVMDALVRMIAAREVSRQYLAL---------------GH-RAWQ 207
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
GA +GR D + +V+ +P+ +I V
Sbjct: 208 GAQTRVVEEAIGR---------DPRNRLRMAAVDLAVHAGKPAR------TDIAV----- 247
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
D +N LV +GRTHQIR+H +L + D Y G R LHA
Sbjct: 248 --LDTCENGCLVHCTLHTGRTHQIRVHMAWLRHPLVADALYGGEPAAGLSR---QALHAY 302
Query: 323 SLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
L+F HPVTG P++ APLP ALQ+
Sbjct: 303 RLAFAHPVTGQPLLFHAPLPGDMAGALQA 331
>gi|424662232|ref|ZP_18099269.1| RluA family pseudouridine synthase [Bacteroides fragilis HMW 616]
gi|404578021|gb|EKA82757.1| RluA family pseudouridine synthase [Bacteroides fragilis HMW 616]
Length = 539
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 69/257 (26%), Positives = 107/257 (41%), Gaps = 62/257 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++L+EDEWL+ ++KP+G L SVP G S E + L + +RL
Sbjct: 337 EILFEDEWLLVIHKPEG------LLSVP----GKSEELSAYSLLRARYPEATGPMIVHRL 386
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG++++ K+ +V L F +H + K Y AL G
Sbjct: 387 DMATSGLLLVAKTKEVHQHLQAQFENHSIKKQYTALLEG--------------------- 425
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
+LP D+ ++L P + + E V + V+D
Sbjct: 426 -----------ILPTDEGTIDLPICPDLLD--------RPRQKADRESGKKAVTRYRVID 466
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGHELHA 321
+ I FP++GRTHQ+R+H + L I GD Y GK+ + LHA
Sbjct: 467 RKNGRTRIAF--FPQTGRTHQLRVHSAHPSGLNCPIAGDELY-------GKKAERLYLHA 517
Query: 322 ESLSFDHPVTGCPVMVQ 338
E L F HPV+G + ++
Sbjct: 518 ERLEFTHPVSGQRIYIE 534
>gi|421863332|ref|ZP_16295030.1| unnamed protein product [Neisseria lactamica Y92-1009]
gi|309379094|emb|CBX22225.1| unnamed protein product [Neisseria lactamica Y92-1009]
Length = 330
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 77/265 (29%), Positives = 112/265 (42%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
D++YED+ L+ ++KP GV V V L E++ L L
Sbjct: 95 DIVYEDDALLVIDKPSGVAVHGGSGVSFGVIEQLRRARPEARY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H R
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVRLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LFKYTGAQGEKMVRVSGDGQAAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P+ ++A LP
Sbjct: 290 FLHASELHLNHPLTGEPLALKAELP 314
>gi|193215325|ref|YP_001996524.1| RluA family pseudouridine synthase [Chloroherpeton thalassium ATCC
35110]
gi|193088802|gb|ACF14077.1| pseudouridine synthase, RluA family [Chloroherpeton thalassium ATCC
35110]
Length = 346
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 81/282 (28%), Positives = 116/282 (41%), Gaps = 59/282 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D+++EDE+L+ +NKP G+ A+ LAG RLSE K L + +RL
Sbjct: 101 DIVFEDEFLLVINKPAGMVVHPAYANWTGTLAGAVLYHTQNRLSETGK-EALRPGIVHRL 159
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG++V+ K L K F + K Y AL G PK TI + RSK
Sbjct: 160 DKDTSGLIVVAKDDATHYALAKQFAERTTEKIYTALVWG-CPKPPSGTIQTNIWRSKRD- 217
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
R ++ ++ S G K A+ D
Sbjct: 218 -------------------RKIMANYPFESETG---------------------KPAITD 237
Query: 265 ADAKKN---EILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG--VYEWNGKRYDG--- 316
+ K++ L+ +GRTHQIR H Q+LG +I D Y G V + + +
Sbjct: 238 YEVKEDFHWFSLLDLQLHTGRTHQIRAHLQHLGHAIFSDEVYGGKSVRKLGFPQSEAFVR 297
Query: 317 --------HELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
LHA+ L F HP T V +A LP +A+Q
Sbjct: 298 NLFQVIPRQALHAKKLGFKHPATENFVTFEASLPEDMEQAIQ 339
>gi|406993962|gb|EKE13036.1| RluD1 [uncultured bacterium]
Length = 233
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 73/274 (26%), Positives = 114/274 (41%), Gaps = 74/274 (27%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN--- 142
+++ED+ L ++KP G + ++A +K+ + + T L + L N
Sbjct: 5 IIFEDDSLFVIDKPAG------------WIVNEAATTKNQPVLQ-TWLRQFDYPLVNDTD 51
Query: 143 -------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGP-APKWKRITII 194
RLD++TSGVM++ K + KL F + +V KTY AL G P+ I++
Sbjct: 52 CRHGIVHRLDKETSGVMIVAKEKEAFDKLQAEFKNREVQKTYAALVHGKLTPEEGEISVP 111
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
G WR D V+ GG + + N G
Sbjct: 112 VGRL-----PWR----KDRFGVVAGGRASQTFYKVLQFFPGNNAG--------------- 147
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYE------ 308
LV +P++GRTHQIR+HC+Y+G +I D Y G
Sbjct: 148 ----------------HTLVEFYPKTGRTHQIRIHCKYIGHAIVADEFYAGRKTARNDRV 191
Query: 309 WNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
W + + LHA+++ F HPV+G PV + LP
Sbjct: 192 WCPRLF----LHAKTIKFLHPVSGHPVEFSSELP 221
>gi|317492376|ref|ZP_07950805.1| RluA family pseudouridine synthase [Enterobacteriaceae bacterium
9_2_54FAA]
gi|316919715|gb|EFV41045.1| RluA family pseudouridine synthase [Enterobacteriaceae bacterium
9_2_54FAA]
Length = 318
Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 74/259 (28%), Positives = 110/259 (42%), Gaps = 54/259 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++ED++L+ +NKP G ++ G A R L L +RLD
Sbjct: 95 IIFEDDYLLVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSGV+++ K L + + K Y+AL G +W+
Sbjct: 145 RETSGVLLVAKKRSALRALHEQLRMKGMQKDYLALVRG---QWQ-------------SHC 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PSE + E
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVNAEG---KPSETRFKVEERF---------- 226
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYEWNGKRYDGHELHAE 322
+N LV+A P +GRTHQIR+H + G I D +Y E E G D LHA
Sbjct: 227 ---ENATLVKASPVTGRTHQIRVHTLHAGHPIAFDDRYGDREFDSELKGTGLDRLFLHAA 283
Query: 323 SLSFDHPVTGCPVMVQAPL 341
+L F+HP TG + V+APL
Sbjct: 284 ALRFEHPNTGETMRVEAPL 302
>gi|148653020|ref|YP_001280113.1| pseudouridine synthase [Psychrobacter sp. PRwf-1]
gi|148572104|gb|ABQ94163.1| tRNA pseudouridine synthase C [Psychrobacter sp. PRwf-1]
Length = 256
Score = 82.8 bits (203), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 83/284 (29%), Positives = 135/284 (47%), Gaps = 59/284 (20%)
Query: 82 SRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL- 140
++ D++YEDE LVA+NK G+ L L G++ R + + + H+
Sbjct: 13 NKIDIIYEDEHLVAINKEAGL-----LVHRSWLDKGET------RFAMQLTRDAVGCHVF 61
Query: 141 -ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
+RLDR TSGV++ KS VA L +AFT+ KV+K Y+A+
Sbjct: 62 PVHRLDRPTSGVLLFAKSAAVARSLTEAFTERKVTKRYLAVV------------------ 103
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGE-GSFKEPS-ELQEHEENNIVV 257
G + GSV D SF+ ++ + + +P+ E H ++ +
Sbjct: 104 -------------RGFMTEQGSV--DYALSFKPDAIADKFANLDKPAQEAVTHWQSLAQI 148
Query: 258 EKKAVLDADAKKNEI----LVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVY-EWNG 311
E + +KK++ L+R P +GR HQ+R H ++L I GD Y +G + ++
Sbjct: 149 ELPFAV---SKKHDTSRYSLMRLIPETGRKHQLRRHMRHLFHHIIGDTSYGDGRHNKFFR 205
Query: 312 KRYDGHE--LHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSS 353
+YD LHA++LS HPVTG P+M++A T L++ S
Sbjct: 206 TQYDCTRMLLHAQTLSLTHPVTGEPLMLEAGFDDQWTRILEAFS 249
>gi|237708087|ref|ZP_04538568.1| ribosomal large subunit pseudouridine synthase A [Bacteroides sp.
9_1_42FAA]
gi|229457915|gb|EEO63636.1| ribosomal large subunit pseudouridine synthase A [Bacteroides sp.
9_1_42FAA]
Length = 540
Score = 82.8 bits (203), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 77/257 (29%), Positives = 108/257 (42%), Gaps = 62/257 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+++YED +LV VNKP G + SVP DS L L+ +RL
Sbjct: 338 EIVYEDNYLVVVNKPAG------MLSVPGKGEIDSVYQHIKTLYPDATGPLI----VHRL 387
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSGV++I K+ KV L F + + K YIAL G P SK G
Sbjct: 388 DMATSGVLLIAKNKKVHQHLQAQFKNRMIKKRYIALLDGKIP-------------SKEGT 434
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
LP L +N P ++ +HE + VL+
Sbjct: 435 I----------TLP--------------LRMN---PLDRPRQIVDHEHGKTAITLYRVLN 467
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGHELHA 321
++ L+ +P +GRTHQ+R+H + L IRGD E G++ D LHA
Sbjct: 468 E--QEGRTLIAFYPLTGRTHQLRVHAAHPEGLHCPIRGD-------ELYGRKADRLYLHA 518
Query: 322 ESLSFDHPVTGCPVMVQ 338
ESL F HP+T + V+
Sbjct: 519 ESLEFVHPITKKIIFVE 535
>gi|89094316|ref|ZP_01167257.1| ribosomal large subunit pseudouridine synthase C [Neptuniibacter
caesariensis]
gi|89081375|gb|EAR60606.1| ribosomal large subunit pseudouridine synthase C [Oceanospirillum
sp. MED92]
Length = 321
Score = 82.8 bits (203), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 83/281 (29%), Positives = 114/281 (40%), Gaps = 78/281 (27%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE-------- 137
VLYED+ L+ VNKP G+ G L L+E
Sbjct: 98 VLYEDDDLIVVNKPSGIAVHG---------------------GSGISLGLIESFRQMRPQ 136
Query: 138 ---LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITII 194
L L +RLDRDTSG ++I K + + ++K Y AL +G + KR
Sbjct: 137 CKFLELVHRLDRDTSGCILIAKKRSTLKLMHDSLKKSTITKIYHALVVGSWSERKR---- 192
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
R+ A + G VV+ ++ +G+ E LQ
Sbjct: 193 -----------RIDAPLKKNELKSGERVVK--------VTADGKECLTEYKVLQRF---- 229
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK-R 313
+ LV A P +GRTHQIR+HCQ+ G I GD KY GV E N + R
Sbjct: 230 -------------GREATLVEARPITGRTHQIRVHCQFAGHPIVGDEKY-GVDEVNAEMR 275
Query: 314 YDGHE---LHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
G + LHA L F P G V V+APL + +A++S
Sbjct: 276 EKGFKRLFLHAAELRFPLPSGGRQV-VKAPLEMPLQKAIKS 315
>gi|359689391|ref|ZP_09259392.1| pseudouridylate synthase [Leptospira licerasiae serovar Varillal
str. MMD0835]
gi|418749968|ref|ZP_13306256.1| pseudouridine synthase, RluA family [Leptospira licerasiae str.
MMD4847]
gi|418759397|ref|ZP_13315577.1| pseudouridine synthase, RluA family [Leptospira licerasiae serovar
Varillal str. VAR 010]
gi|384113888|gb|EIE00153.1| pseudouridine synthase, RluA family [Leptospira licerasiae serovar
Varillal str. VAR 010]
gi|404274853|gb|EJZ42171.1| pseudouridine synthase, RluA family [Leptospira licerasiae str.
MMD4847]
Length = 299
Score = 82.8 bits (203), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 83/280 (29%), Positives = 122/280 (43%), Gaps = 69/280 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE-------L 138
+LYED +AV KP GD +GR + +LLE +
Sbjct: 61 ILYEDSRYIAVEKP-----------------GDIPIHSAGRYRKNNLTDLLEEDPRFEKI 103
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
+ +RLDR+TSGV+V K + AS++ F+ KV+KTYI+ G P T +S G
Sbjct: 104 YTIHRLDRETSGVVVFGKDSEAASRMADLFSKRKVNKTYISYVWGNFP-----TRLSAKG 158
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
+ SD S++R + EGSF+ +L+ +EN+ E
Sbjct: 159 ---------FLVSDT------SSLIR------KKRKFLAEGSFQ---KLETPDENSETSE 194
Query: 259 KKAVLDADAKKNEI---LVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVY-EW-N 310
+ K + I + FP++GR HQIR LG + GD Y E V+ E+
Sbjct: 195 TNFRKIGEGKLHGIPFSKIYCFPKTGRLHQIRATLYSLGFPLLGDKIYGKDESVFLEFIE 254
Query: 311 GKR--------YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
GK D LH+ SL F HP TG + +++ LP
Sbjct: 255 GKDPDLASKLGMDRQALHSSSLKFIHPFTGKKIKIRSDLP 294
>gi|365836331|ref|ZP_09377725.1| rRNA pseudouridylate synthase [Hafnia alvei ATCC 51873]
gi|364564129|gb|EHM41903.1| rRNA pseudouridylate synthase [Hafnia alvei ATCC 51873]
Length = 318
Score = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 74/259 (28%), Positives = 110/259 (42%), Gaps = 54/259 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++ED++L+ +NKP G ++ G A R L L +RLD
Sbjct: 95 IIFEDDYLLVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSGV+++ K L + + K Y+AL G +W+
Sbjct: 145 RETSGVLLVAKKRSALRALHEQLRMKGMQKDYLALVRG---QWQ-------------SHC 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PSE + E
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVNAEG---KPSETRFKVEERF---------- 226
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYEWNGKRYDGHELHAE 322
+N LV+A P +GRTHQIR+H + G I D +Y E E G D LHA
Sbjct: 227 ---ENATLVKASPVTGRTHQIRVHTLHAGHPIAFDDRYGDREFDSELKGTGLDRLFLHAA 283
Query: 323 SLSFDHPVTGCPVMVQAPL 341
+L F+HP TG + V+APL
Sbjct: 284 ALRFEHPNTGETMRVEAPL 302
>gi|212691882|ref|ZP_03300010.1| hypothetical protein BACDOR_01377 [Bacteroides dorei DSM 17855]
gi|265756237|ref|ZP_06090566.1| ribosomal large subunit pseudouridine synthase A [Bacteroides sp.
3_1_33FAA]
gi|345516539|ref|ZP_08796028.1| ribosomal large subunit pseudouridine synthase A [Bacteroides dorei
5_1_36/D4]
gi|423232143|ref|ZP_17218545.1| RluA family pseudouridine synthase [Bacteroides dorei CL02T00C15]
gi|423246693|ref|ZP_17227746.1| RluA family pseudouridine synthase [Bacteroides dorei CL02T12C06]
gi|212665554|gb|EEB26126.1| pseudouridine synthase, RluA family [Bacteroides dorei DSM 17855]
gi|229436962|gb|EEO47039.1| ribosomal large subunit pseudouridine synthase A [Bacteroides dorei
5_1_36/D4]
gi|263233828|gb|EEZ19437.1| ribosomal large subunit pseudouridine synthase A [Bacteroides sp.
3_1_33FAA]
gi|392625207|gb|EIY19278.1| RluA family pseudouridine synthase [Bacteroides dorei CL02T00C15]
gi|392634908|gb|EIY28818.1| RluA family pseudouridine synthase [Bacteroides dorei CL02T12C06]
Length = 540
Score = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 77/257 (29%), Positives = 108/257 (42%), Gaps = 62/257 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+++YED +LV VNKP G + SVP DS L L+ +RL
Sbjct: 338 EIVYEDNYLVVVNKPAG------MLSVPGKGEIDSVYQHIKTLYPDATGPLI----VHRL 387
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSGV++I K+ KV L F + + K YIAL G P SK G
Sbjct: 388 DMATSGVLLIAKNKKVHQHLQAQFKNRMIKKRYIALLDGKIP-------------SKEGT 434
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
LP L +N P ++ +HE + VL+
Sbjct: 435 I----------TLP--------------LRMN---PLDRPRQIVDHEHGKTAITLYRVLN 467
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGHELHA 321
++ L+ +P +GRTHQ+R+H + L IRGD E G++ D LHA
Sbjct: 468 E--QEGRTLIAFYPLTGRTHQLRVHAAHPEGLHCPIRGD-------ELYGRKADRLYLHA 518
Query: 322 ESLSFDHPVTGCPVMVQ 338
ESL F HP+T + V+
Sbjct: 519 ESLEFVHPITKKIIFVE 535
>gi|407787124|ref|ZP_11134266.1| ribosomal large subunit pseudouridine synthase D [Celeribacter
baekdonensis B30]
gi|407199950|gb|EKE69962.1| ribosomal large subunit pseudouridine synthase D [Celeribacter
baekdonensis B30]
Length = 339
Score = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 72/281 (25%), Positives = 114/281 (40%), Gaps = 60/281 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
+V+YED+ L+ +NKP G+ L + GD+ G G
Sbjct: 86 EVIYEDDDLIVINKPVGMVVHPAPGSPSGTLVNALMYHFGDNLSGIGGEKRPG------- 138
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG----PAPKWKRITI 193
+ +R+D+DTSG++V+ KS K L K F H V + Y AL G P+ + +
Sbjct: 139 --IVHRIDKDTSGLLVVAKSDKAHQGLAKQFEKHTVERKYYALVYGMPDIMDPRLRGVKG 196
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+S G +V+R + ++ G + E
Sbjct: 197 VS---------------------FEGSNVMR-------ITTMLGRHKADRQKQAVSFSEG 228
Query: 254 NIVVEKKAVLDADAKKNEI-LVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
+ + V++ ++ LV + +GRTHQIR+H + G + GD Y G + N K
Sbjct: 229 RHAITRARVVETYGTPVQLCLVECWLETGRTHQIRVHMAHAGHGLVGDQTYGGRRKLNHK 288
Query: 313 -----------RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA L F HPVTG ++ +APLP
Sbjct: 289 ALSEVARDAVAAFPRQALHAAVLGFVHPVTGEDMLFEAPLP 329
>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 = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 82/280 (29%), Positives = 115/280 (41%), Gaps = 63/280 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+LYED LV +NKP G+ L + GD+ G G
Sbjct: 97 DILYEDTDLVVINKPAGLVVHPGNGNWTGTLVNALIHHCGDTLSGIGGVKRPG------- 149
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH----KVSKTYIALCIGPAPKWKRITI 193
+ +RLD++TSGV+V+ K+ L F DH + + Y+A+ G P TI
Sbjct: 150 --IVHRLDKETSGVIVVAKNDLAHRHLSAQFADHGRTGDLERAYLAIVWG-TPDRTTGTI 206
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+ GRS R A V R VT FEVL G
Sbjct: 207 DAHLGRSHRD--RTKQAI----VHEEREDARHAVTHFEVLERFG---------------- 244
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG-- 311
A D+ A + L+ +GRTHQIR+H ++G + GD++Y G Y+
Sbjct: 245 -------AREDSTALAS--LIECQLETGRTHQIRVHMTHIGHPLVGDMEYGGAYKTKANK 295
Query: 312 ---------KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
K +D LHA L+F+HP TG + +APLP
Sbjct: 296 FDEPLQSIVKGFDRQALHARLLAFEHPTTGEIMRFEAPLP 335
>gi|343519555|ref|ZP_08756535.1| rRNA pseudouridylate synthase C [Haemophilus pittmaniae HK 85]
gi|343392625|gb|EGV05190.1| rRNA pseudouridylate synthase C [Haemophilus pittmaniae HK 85]
Length = 322
Score = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 74/262 (28%), Positives = 114/262 (43%), Gaps = 56/262 (21%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S +++ED+ L+ +NKP G+ ++ A R L L +R
Sbjct: 98 SQIIFEDDCLLVLNKPSGIAVHGGSGLNFGVIEALRALRPEARF----------LELVHR 147
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LDRDTSG+++I K L + V K Y+AL G
Sbjct: 148 LDRDTSGILLIAKKRSALRNLHEQLRVKTVQKDYLALV--------------------RG 187
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
W+ + S +L ++ + ++ V+ +G +PSE +E++
Sbjct: 188 QWQSHVKSVQAPLLKN-----ELASGERIVKVSEQG---KPSE------TRFSIEERYA- 232
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD-GHE---L 319
N LV+A P +GRTHQIR+HCQY G I D KY G E++ + D G L
Sbjct: 233 ------NATLVKASPITGRTHQIRVHCQYAGHPIALDDKY-GESEFDAQMRDFGLNRLFL 285
Query: 320 HAESLSFDHPVTGCPVMVQAPL 341
HA S+ F+HP +G + + APL
Sbjct: 286 HAFSIRFEHPKSGEILRLTAPL 307
>gi|126736635|ref|ZP_01752375.1| Pseudouridine synthase, RluD [Roseobacter sp. CCS2]
gi|126713948|gb|EBA10819.1| Pseudouridine synthase, RluD [Roseobacter sp. CCS2]
Length = 351
Score = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 83/303 (27%), Positives = 124/303 (40%), Gaps = 58/303 (19%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLP + + KL +S V+Y+D+ ++A+NKP G+ +
Sbjct: 65 PPLPTEEEAAAAASLAKHGVTKADAKLIQSCVIYKDDHIIAINKPHGLATQ--------- 115
Query: 115 LAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKV 173
G + LSE + E L +RLD+DTSGV+++ ++ +A +L + +
Sbjct: 116 -GGTNTTRHVDGLSEALMFDYDEKPRLVHRLDKDTSGVLLLARTRMMAKQLTENLKHRET 174
Query: 174 SKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEV 232
K Y A G P P+ I K+G + A GR GG
Sbjct: 175 RKIYWAAVAGVPHPRAGTI---------KYG---LVKAPGHGR---GGE----------- 208
Query: 233 LSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY 292
N + P +L E AV+D A + P +GRTHQ+R H
Sbjct: 209 ---NEKMRCVHPRDLDSVEGAKRATSDYAVMDTLASRAAWCA-LVPITGRTHQLRAHMAE 264
Query: 293 LGISIRGDVKYEGVYEWN-------------GKRYDGHELHAESLSFDHPVTGCPVMVQA 339
+G I GD KY G + N G++ LHA SL+ +HP TG + + A
Sbjct: 265 IGHPIVGDGKYGGSGQENLGDGWGAGMGSEIGRKL---HLHARSLTIEHPATGATLHLTA 321
Query: 340 PLP 342
PLP
Sbjct: 322 PLP 324
>gi|296313302|ref|ZP_06863243.1| ribosomal large subunit pseudouridine synthase [Neisseria
polysaccharea ATCC 43768]
gi|296840180|gb|EFH24118.1| ribosomal large subunit pseudouridine synthase [Neisseria
polysaccharea ATCC 43768]
Length = 330
Score = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 78/265 (29%), Positives = 112/265 (42%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
+ +YED+ L+ VNKP GV V V L E+K L L
Sbjct: 95 EAVYEDDALLVVNKPSGVAVHGGSGVSFGVIEQLRRARPEAKY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H +
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVKLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LFKYTGAQGEKMVRVSEDGQAAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P++++A LP
Sbjct: 290 FLHASELHLNHPLTGEPLVLKAELP 314
>gi|260589549|ref|ZP_05855462.1| ribosomal large subunit pseudouridine synthase D [Blautia hansenii
DSM 20583]
gi|331082975|ref|ZP_08332095.1| hypothetical protein HMPREF0992_01019 [Lachnospiraceae bacterium
6_1_63FAA]
gi|260540117|gb|EEX20686.1| ribosomal large subunit pseudouridine synthase D [Blautia hansenii
DSM 20583]
gi|330399970|gb|EGG79628.1| hypothetical protein HMPREF0992_01019 [Lachnospiraceae bacterium
6_1_63FAA]
Length = 294
Score = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 71/258 (27%), Positives = 115/258 (44%), Gaps = 52/258 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D++YEDE ++ VNKP + + + LA A + NRL
Sbjct: 82 DIVYEDEDILLVNKPADMPVHPSINNYDNTLANGIAHYYQ------VQGETFVFRCINRL 135
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
DRDT+G+++I K+ AS L ++ +TY+A+ G PK + TI + R + A
Sbjct: 136 DRDTTGLLIIAKNALSASILSNQMKAREIHRTYLAVVFG-IPKKEADTITAPIARKENSA 194
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
+ R + + R VT+++V++
Sbjct: 195 --------IERCVDFINGER-AVTNYQVVA------------------------------ 215
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
+K++ L++ +GRTHQIR+H +Y+G + GD +Y + R LH+ SL
Sbjct: 216 --SKEDYSLLKLSLETGRTHQIRVHAKYMGNPLLGDY----LYNPDFSRIQRVALHSYSL 269
Query: 325 SFDHPVTGCPVMVQAPLP 342
SF HP+TG P+ APLP
Sbjct: 270 SFIHPLTGQPMKFSAPLP 287
>gi|423120819|ref|ZP_17108503.1| RluA family pseudouridine synthase [Klebsiella oxytoca 10-5246]
gi|376395449|gb|EHT08095.1| RluA family pseudouridine synthase [Klebsiella oxytoca 10-5246]
Length = 232
Score = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 77/263 (29%), Positives = 111/263 (42%), Gaps = 54/263 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LY+DE L+ +NKP G+ S+ P L DS + + G L +RLD
Sbjct: 19 ILYQDEHLLLINKPSGLL--SLSGKNPQNL--DSVHHRLEQQFPGCTL-------VHRLD 67
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
TSG+MV+ K+ + + L F+ V+K Y AL + GH R GA
Sbjct: 68 FGTSGLMVVAKNKTINAALSHQFSQRSVTKVYSAL-------------LCGHLREDEGAI 114
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A D R + ++ G+ + V E+ L
Sbjct: 115 DAAIAKDPARF-----------PRMAICAITGKPA----------RSRYRVTER---LTR 150
Query: 266 DAKKNEIL----VRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH-ELH 320
+ + +L V+ FP +GRTHQ+R+HCQ LG I G Y G+ W G + LH
Sbjct: 151 EGAEGSLLPLSRVQLFPETGRTHQLRIHCQLLGHPILGCDLYGGL-TWPGSAHAPRLMLH 209
Query: 321 AESLSFDHPVTGCPVMVQAPLPL 343
A L F HPV+G PV + P
Sbjct: 210 ASELHFVHPVSGEPVTARNDSPF 232
>gi|56698216|ref|YP_168588.1| ribosomal large subunit pseudouridine synthase A [Ruegeria pomeroyi
DSS-3]
gi|56679953|gb|AAV96619.1| ribosomal large subunit pseudouridine synthase A [Ruegeria pomeroyi
DSS-3]
Length = 215
Score = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 77/260 (29%), Positives = 107/260 (41%), Gaps = 58/260 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
DVL+ED L+ +NKP G L SVP G A LS + L +RL
Sbjct: 13 DVLHEDAELIVLNKPAG------LLSVP----GRGAHLADCLLSR-VQAAFPGALLVHRL 61
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
DRDTSGVMV ++ L + F + K KTY+A
Sbjct: 62 DRDTSGVMVFAQTPHAQRNLGRQFEERKTRKTYVA------------------------- 96
Query: 205 WRVYAASDVGRVLPG-GSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
R++ GR+ P G+V ++ + P ++ HE V VL
Sbjct: 97 -RLW-----GRLEPKTGTVDLPLIVDWP----------NRPRQMVCHETGKPAVTDWRVL 140
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+ VR PR+GR+HQ+R+HCQ LG I GD Y + + LH+E
Sbjct: 141 RYEGDTTR--VRLLPRTGRSHQLRVHCQALGHPILGDPFYA---TGAAQAFPRLMLHSEE 195
Query: 324 LSFDHPVTGCPVMVQAPLPL 343
L HP +G + +AP P
Sbjct: 196 LRLKHPESGRSMTFRAPAPF 215
>gi|340355065|ref|ZP_08677758.1| ribosomal large subunit pseudouridine synthase D [Sporosarcina
newyorkensis 2681]
gi|339622746|gb|EGQ27260.1| ribosomal large subunit pseudouridine synthase D [Sporosarcina
newyorkensis 2681]
Length = 302
Score = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 72/259 (27%), Positives = 117/259 (45%), Gaps = 51/259 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+++YED+ ++ VNKP G+ V+ P L+G + ++ + +N ++ + +R
Sbjct: 81 EIVYEDQDVLVVNKPVGM----VVHPSPGHLSGTLVNGLMHQCTDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ K LV + V++ Y AL G P TI + GR
Sbjct: 137 IDKDTSGLLMVAKNDKAHVSLVDQLVEKSVNRVYTALVHGHIPH-DNGTIDAPIGRDPRD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ A D G+ + VT F+VL G+ +
Sbjct: 196 RQKM-AVVDNGK---------NAVTHFKVLERFGDYT----------------------- 222
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
LV +GRTHQIR+H +Y+G + GD KY + Y G LHA +
Sbjct: 223 ---------LVECRLETGRTHQIRVHMKYIGYPLVGDPKYSPRKTID---YGGQVLHAGT 270
Query: 324 LSFDHPVTGCPVMVQAPLP 342
+ F HP TG + APLP
Sbjct: 271 VGFQHPSTGEYMEFTAPLP 289
>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 = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 75/274 (27%), Positives = 115/274 (41%), Gaps = 63/274 (22%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+ +ED+ ++ VNKP+G+ + L + L D +G++ G
Sbjct: 75 DIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNA-LLFHCDDLSGINGKIRPG------- 126
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+ L K D + YIAL G K TI +
Sbjct: 127 --IVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKG-TIEAPI 183
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+K ++ D G R T FEV+ + P
Sbjct: 184 GRAKEDRQKMAVVRD-------GKEAR---THFEVIE-------RLPGY----------- 215
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
L+ +GRTHQIR+H +Y+G + GD KY N + +G
Sbjct: 216 --------------TLINCKLDTGRTHQIRVHLKYIGHPLAGDPKYG---PKNTIKGNGQ 258
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHA L FDHP T + +APLP +AL+S
Sbjct: 259 FLHAAKLGFDHPTTNERMTFEAPLPDSFEQALKS 292
>gi|323343472|ref|ZP_08083699.1| ribosomal large subunit pseudouridine synthase A [Prevotella oralis
ATCC 33269]
gi|323095291|gb|EFZ37865.1| ribosomal large subunit pseudouridine synthase A [Prevotella oralis
ATCC 33269]
Length = 573
Score = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 80/301 (26%), Positives = 123/301 (40%), Gaps = 91/301 (30%)
Query: 45 TQQNYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYC 104
T N PT +P T A+S ++ +S+ + ++YEDE +V +NKP G
Sbjct: 340 TTPNRPTTCAP----------YTIALSPTNATSVPDIP---IVYEDEAIVVINKPAG--- 383
Query: 105 ESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH--------LANRLDRDTSGVMVITK 156
+ SVP G+ + +L+ + + +RLD TSG+++I K
Sbjct: 384 ---MLSVP------------GKACALSVYDLMRMRYPDSNSPLIVHRLDMATSGLLIIAK 428
Query: 157 SHKVASKLVKAFTDHKVSKTYIALCIG--PAPKWKRITIISGHGRSKFGAWRVYAASDVG 214
+ L + F +H + K YIA+ G + +W IIS R +D
Sbjct: 429 TKNAHRILQRQFAEHTIRKQYIAVLDGVPDSCRWPSAGIISLPLRPDL--------ADRP 480
Query: 215 RVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILV 274
R L ++ VT +++L GE E +
Sbjct: 481 RQLVDFEHGKEAVTEYKILRTAGE--------------------------------ETRI 508
Query: 275 RAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVT 331
FP +GRTHQ+R+HC + L I+GD Y G R LHAES+ F HPV+
Sbjct: 509 ALFPHTGRTHQLRIHCAHPYGLNCPIKGDNLY-------GTRSQRLYLHAESMEFIHPVS 561
Query: 332 G 332
G
Sbjct: 562 G 562
>gi|296126237|ref|YP_003633489.1| pseudouridine synthase [Brachyspira murdochii DSM 12563]
gi|296018053|gb|ADG71290.1| pseudouridine synthase, RluA family [Brachyspira murdochii DSM
12563]
Length = 307
Score = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 68/278 (24%), Positives = 112/278 (40%), Gaps = 68/278 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YED++L+ +NKP G+ SV C SA +G L N+ +
Sbjct: 88 DIIYEDKYLLVINKPAGM-------SVHC-----SASEITGTLVNALLYNIKDFDFIGNK 135
Query: 140 ----LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ +RLD+DTSG+M+I K+ + S + + F + K+ K Y A+ IG K + I
Sbjct: 136 SRAGIIHRLDKDTSGIMIIGKNADIVSSIQEQFKNRKIKKIYHAIVIG-VLKDNYLEINL 194
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNI 255
GR + ++ D + L V++
Sbjct: 195 PIGRHQVYRKKMTVREDGKKALTHIKVLKRF----------------------------- 225
Query: 256 VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD 315
KN L+ ++GRTHQIR+H Y + GD +Y + +Y
Sbjct: 226 -------------KNHTLIEIDLKTGRTHQIRVHSSYKNFPVAGD----KIYSKSSNKYK 268
Query: 316 GHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSS 353
L A+ + F HP+T + + P + E L S +
Sbjct: 269 SLMLVAKKIEFTHPITNEVLEFEIDYPSYFYEFLYSEN 306
>gi|431796026|ref|YP_007222930.1| RluA family pseudouridine synthase [Echinicola vietnamensis DSM
17526]
gi|430786791|gb|AGA76920.1| pseudouridine synthase, RluA family [Echinicola vietnamensis DSM
17526]
Length = 364
Score = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 82/293 (27%), Positives = 122/293 (41%), Gaps = 84/293 (28%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL------ 138
D+++ED+ L+ VNKP G+ + +G L G + +L
Sbjct: 117 DIVHEDDHLLVVNKPAGMVVHPAYGNW------------TGTLVNGLVYHFSQLPEMPGN 164
Query: 139 ----HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITII 194
L +R+D+DTSG++VI KS + + L K F DH + +TYIAL G P+ TI
Sbjct: 165 SGRPGLVHRIDKDTSGLLVIAKSEQAMTGLAKQFFDHSIERTYIALVWG-EPQEDAGTID 223
Query: 195 SGHGRSKFGAWRVYAASD--VGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
+ GRS A D V V P G ++ VT ++VL + S
Sbjct: 224 AHVGRS---------ARDRKVMDVFPEGDQGKNAVTHWKVLK-----RLRYVS------- 262
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
LV+ +GRTHQIR H +YLG + D Y G G
Sbjct: 263 --------------------LVQCNLETGRTHQIRAHMKYLGHPLFNDAVYGGDKIRKGT 302
Query: 313 RYDGHE--------------LHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
++ ++ LHA+SL F HP++ + + LP E +QS
Sbjct: 303 QFSKYKAFVNNCFKLLPRQALHAKSLGFSHPISQDFLQFTSNLP----EDMQS 351
>gi|339500199|ref|YP_004698234.1| pseudouridine synthase, RluA family [Spirochaeta caldaria DSM 7334]
gi|338834548|gb|AEJ19726.1| pseudouridine synthase, RluA family [Spirochaeta caldaria DSM 7334]
Length = 315
Score = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 79/271 (29%), Positives = 111/271 (40%), Gaps = 61/271 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN---------L 135
DV+YED+ ++ +NKPQG+ + +A + R+ G + L
Sbjct: 80 DVIYEDDRVIVINKPQGMVVHPGAGNKQGTMANGILYRRFHRIKNGIANSDVTMMLHSPL 139
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWK-RI-TI 193
L + +RLD+DTSGV++ T S L F K KTY+A+ G P+ K RI T
Sbjct: 140 LRPGIVHRLDKDTSGVIIATYDDAALSFLANQFKHRKTRKTYVAIIRGRLPQHKGRIETF 199
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
IS R K A D+G + VT + V V GS+
Sbjct: 200 IS---RDKHNRKLFCATKDMG---------KHAVTLYRV--VRNYGSYS----------- 234
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
LV P++GRTHQ+R+H +YLG I GD +Y R
Sbjct: 235 -------------------LVLLRPKTGRTHQLRVHMRYLGCPILGD----PLYSSRDPR 271
Query: 314 YDGHE--LHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA L+ P P +APLP
Sbjct: 272 FPEATLMLHALRLTITIPGNKTPTCFKAPLP 302
>gi|325289846|ref|YP_004266027.1| pseudouridine synthase [Syntrophobotulus glycolicus DSM 8271]
gi|324965247|gb|ADY56026.1| pseudouridine synthase, RluA family [Syntrophobotulus glycolicus
DSM 8271]
Length = 299
Score = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 77/260 (29%), Positives = 117/260 (45%), Gaps = 57/260 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL--AN 142
D+L+ED+ L+AVNKP G V+ +G A + +G K N L L +
Sbjct: 85 DLLFEDKILLAVNKPAG----QVVHPTSVYRSGTLANAVTGYW----KKNGLSLPFRPIS 136
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
R+DR+TSG+++I K+ +L H V K Y+ L + GH +S
Sbjct: 137 RIDRNTSGIVMIAKNRYAHQQLAWMSQHHLVGKKYLGL-------------VHGHLKSSA 183
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
G + R+ P +VR+ +G+ S L+E+ +++ E V
Sbjct: 184 GEIALPL-----RLAPDSRIVRET-------HPDGQQSLTLYKVLEEYPYYSLL-EFTLV 230
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
+GRTHQIR HCQ +G S+ GD Y G E ++ LHA
Sbjct: 231 -----------------TGRTHQIRAHCQAIGHSLVGDDLYGGQTELIARQ----ALHAF 269
Query: 323 SLSFDHPVTGCPVMVQAPLP 342
SF HP++G P+ ++APLP
Sbjct: 270 HYSFIHPISGQPIKIEAPLP 289
>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 = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 75/274 (27%), Positives = 115/274 (41%), Gaps = 63/274 (22%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+ +ED+ ++ VNKP+G+ + L + L D +G++ G
Sbjct: 80 DIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNA-LLFHCDDLSGINGKIRPG------- 131
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+ L K D + YIAL G K TI +
Sbjct: 132 --IVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKG-TIEAPI 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+K ++ D G R T FEVL + P
Sbjct: 189 GRAKEDRQKMAVVRD-------GKEAR---THFEVLE-------RLPGF----------- 220
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
L+ +GRTHQIR+H +Y+G + GD KY N + +G
Sbjct: 221 --------------TLINCKLDTGRTHQIRVHLKYIGHPLAGDPKY---GPKNTIKGNGQ 263
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHA L FDHP T + +APLP +AL++
Sbjct: 264 FLHAAKLGFDHPTTNERMTFEAPLPSSFEKALKT 297
>gi|91792374|ref|YP_562025.1| pseudouridine synthase [Shewanella denitrificans OS217]
gi|91714376|gb|ABE54302.1| pseudouridine synthase [Shewanella denitrificans OS217]
Length = 229
Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 72/276 (26%), Positives = 119/276 (43%), Gaps = 78/276 (28%)
Query: 81 LSRSDVLYEDEWLVAVNKPQGVYCES-----VLASVPCLLAGDSAESKSGRLSEGTKLNL 135
L++ +LYEDE ++A++KP G+ S L SV L D A+++
Sbjct: 19 LAQIQILYEDEAILAIDKPSGLLSLSGKNPLNLDSVHYRLVQDFADAR------------ 66
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
L +RLD TSG++++ ++ + L + F + V+KTY AL +G
Sbjct: 67 ----LLHRLDFGTSGIILVARNKHINGLLTQQFQNRSVTKTYQALLMGKL---------- 112
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRD--MVTSFEVLSVNGEGSFKEPSELQEHEEN 253
++D G + + +D + ++ + G+ + E L E+
Sbjct: 113 --------------STDSGVI--DAPIAKDAALFPRLKICELEGKSAMTEYKVLSYCEQT 156
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
++ V+ P +GRTHQ+RLH Q+LG I G Y G+
Sbjct: 157 DLSR----------------VQFTPITGRTHQLRLHSQHLGHPILGCDLYGGI------- 193
Query: 314 YDGHE------LHAESLSFDHPVTGCPVMVQAPLPL 343
DG E LHA+SL+F HP+TG + + P P
Sbjct: 194 VDGREPVSRMMLHAQSLAFTHPLTGGDMQINCPCPF 229
>gi|257784215|ref|YP_003179432.1| pseudouridine synthase, partial [Atopobium parvulum DSM 20469]
gi|257472722|gb|ACV50841.1| pseudouridine synthase [Atopobium parvulum DSM 20469]
Length = 246
Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 69/266 (25%), Positives = 116/266 (43%), Gaps = 45/266 (16%)
Query: 82 SRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
S + LY+D++L+AVNKP G+ S + P L D K L K++L ++
Sbjct: 8 SNLEFLYQDDYLLAVNKPAGMIVHSDGTNEPSL--TDLVCEKLCALESSNKIDLSQVQAL 65
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
NRLD++T+G+++ + + + + ++SK Y+A+ G ++ I G+ +
Sbjct: 66 NRLDKETTGIVLFSLKKETQPQFDQLIASKELSKEYLAVVKGDFG-LNKLLIDKAIGKDR 124
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
A ++ SD G+ P + VR K S Q ++ ++V
Sbjct: 125 HDAQKM-RISDTGK--PSQTEVR---------------LIKVASSAQGQIQSLLLVN--- 163
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE--- 318
+GR HQIR+H LG + GDV Y G+ K H
Sbjct: 164 ----------------LLTGRKHQIRVHLSSLGFPLVGDVLYGGMSSLQRKTKKKHRPQP 207
Query: 319 --LHAESLSFDHPVTGCPVMVQAPLP 342
LHA + F HPVTG ++++ +P
Sbjct: 208 LMLHAYRIGFIHPVTGAKIVIKTDIP 233
>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 = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 76/271 (28%), Positives = 111/271 (40%), Gaps = 77/271 (28%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH------ 139
++YEDE + +NKPQG+ S + GT +N L H
Sbjct: 80 IVYEDEDVAVINKPQGMVVHP-----------------SAGHTHGTMVNALMYHVKDLST 122
Query: 140 --------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
+ +R+D+DTSG++++ K+ + L K D + Y+AL G P K
Sbjct: 123 INGVIRPGIVHRIDKDTSGLLMVAKNDQAHESLAKQLKDKTSLRKYVALVHGEIPHEKG- 181
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
TI + GRSK ++ A + G+ VT F VL E
Sbjct: 182 TINAPIGRSKENR-KMQAIREDGK---------PAVTHFTVL---------------ERF 216
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
E +VE K +GRTHQIR+H +Y+G + GD Y G
Sbjct: 217 EGFTLVELKL-----------------ETGRTHQIRVHMKYIGYPLAGDPVYGPKKTLKG 259
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G LHA+ L F HP T ++ +APLP
Sbjct: 260 ---NGQFLHAQMLGFTHPTTNEKMIFEAPLP 287
>gi|223041614|ref|ZP_03611813.1| ribosomal large subunit pseudouridine synthase [Actinobacillus
minor 202]
gi|223017589|gb|EEF16001.1| ribosomal large subunit pseudouridine synthase [Actinobacillus
minor 202]
Length = 320
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 72/260 (27%), Positives = 112/260 (43%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G+ ++ A R L L +R+D
Sbjct: 98 ILYEDDVMLVINKPSGIAVHGGSGLSFGVIEALRALRPQARF----------LELVHRID 147
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + V K Y+AL G W
Sbjct: 148 RDTSGLLLVAKKRSALRNLHEQLREKVVQKDYLALV--------------------RGQW 187
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ + +V+ + ++ + ++ V+ EG +PSE V+E++
Sbjct: 188 QSHV-----KVIKAPLLKNELASGERIVRVSEEG---KPSE------TRFVIEERY---- 229
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE----LHA 321
LV+A P +GRTHQIR+H QY G I D KY G E++ K LHA
Sbjct: 230 ---PTATLVKASPVTGRTHQIRVHTQYAGHPIALDDKY-GDREFDQKMQQAGLNRLFLHA 285
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
S+ F HP TG ++V APL
Sbjct: 286 HSIRFVHPKTGEEMIVTAPL 305
>gi|74317581|ref|YP_315321.1| ribosomal large subunit pseudouridine synthase C [Thiobacillus
denitrificans ATCC 25259]
gi|74057076|gb|AAZ97516.1| pseudouridine synthase, RluD [Thiobacillus denitrificans ATCC
25259]
Length = 322
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 80/266 (30%), Positives = 118/266 (44%), Gaps = 66/266 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE---LHLAN 142
+LY D+ L+A+NKP G+ G S S+ + E +L L E + L +
Sbjct: 98 ILYRDDALIALNKPAGMAVH-----------GGSGISRG--VIEQLRLELPECRYMELVH 144
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR-SK 201
RLDR+TSGV+++ + L A D K+ K Y+ L G P + + H R ++
Sbjct: 145 RLDRETSGVLLVALKRRALVGLHAAMRDGKIEKRYLTLVAGRWPNPLQHVKLPLHKRVTE 204
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
G RV VRD G+ + L+ + E +
Sbjct: 205 EGEKRV--------------TVRD----------TGQTAHTIFRRLRGYAEFTL------ 234
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE--- 318
L+A+ K +GRTHQIR+H +LG I GD KY G +E N KR
Sbjct: 235 -LEAELK-----------TGRTHQIRVHTSHLGFPIAGDDKY-GDFELN-KRLAKRGLKR 280
Query: 319 --LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L+F HP++G + ++APLP
Sbjct: 281 MFLHAAKLAFAHPISGERMTIEAPLP 306
>gi|433520986|ref|ZP_20477688.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
61103]
gi|432262770|gb|ELL18005.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
61103]
Length = 330
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 77/265 (29%), Positives = 113/265 (42%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
DV+YED+ L+ ++KP GV V V L E++ L L
Sbjct: 95 DVVYEDDALLVIDKPSGVAVHGGSGVSFGVIEQLRRARPEARY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H +
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVKLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LFKYTGAQGEKMVRVSADGQSAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P++++A LP
Sbjct: 290 FLHASELHLNHPLTGEPLVLKAELP 314
>gi|296114939|ref|ZP_06833585.1| pseudouridine synthase, RluA family protein [Gluconacetobacter
hansenii ATCC 23769]
gi|295978497|gb|EFG85229.1| pseudouridine synthase, RluA family protein [Gluconacetobacter
hansenii ATCC 23769]
Length = 325
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 80/293 (27%), Positives = 123/293 (41%), Gaps = 59/293 (20%)
Query: 55 PPLPAISKDIELT-RAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLAS 110
PP+P S+ +T R + + K+ V+Y D+ ++ +NKP G+ + +
Sbjct: 64 PPIPQASRPAPVTHRTLDDRQVREIRKM----VIYSDDQVIVLNKPAGIAVQGGPGITHH 119
Query: 111 VPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTD 170
+ LL G + R L +R+DRDTSG++++ ++ VA+KL +F
Sbjct: 120 IDGLLDGLREQPDDPRPR-----------LVHRIDRDTSGLLLLARTPGVAAKLAASFRS 168
Query: 171 HKVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTS 229
V K Y A+ +G P P + I ++ GA +
Sbjct: 169 RDVRKVYWAVTVGRPTPA----SGIVDQPLTRLGA-----------------------GA 201
Query: 230 FEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLH 289
++ V G L E+E VLDA +K L + P +GRTHQ+R+H
Sbjct: 202 GAIMVVAGRRDKDAVHALSEYE----------VLDAAGRKLSWLALS-PLTGRTHQLRVH 250
Query: 290 CQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
C+ LG I GD KY D LHA L HP G ++V A LP
Sbjct: 251 CEALGTPILGDPKYGDDRAHVEGFPDQLHLHARMLDLPHPAGGR-LVVSADLP 302
>gi|153812383|ref|ZP_01965051.1| hypothetical protein RUMOBE_02782 [Ruminococcus obeum ATCC 29174]
gi|149831545|gb|EDM86632.1| pseudouridine synthase, RluA family [Ruminococcus obeum ATCC 29174]
Length = 293
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 74/257 (28%), Positives = 110/257 (42%), Gaps = 53/257 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
VLYEDE ++ VNKP + L + LA A TK NRLD
Sbjct: 83 VLYEDEDILVVNKPADMPVHPSLGNYTNTLANGVAAYLE------TKGESCPFRCINRLD 136
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG +++ K+ A+ L + ++S+TY+A+ G P+ +S +
Sbjct: 137 RDTSGALILAKNALSAAILSVQMRNRQISRTYLAVVEG-IPR-----------QSGTISA 184
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ A+D SV+ + FE NGE + L+
Sbjct: 185 PISRAAD--------SVIERRI-DFE----NGESAITHYQLLE----------------- 214
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
K N L+ +GRTHQIR+H Y+G + D Y VY+ + LH+ L
Sbjct: 215 -VKNNHSLLEIHLETGRTHQIRVHMGYIGHPLPADYLYNPVYDT----FKRQPLHSLQLK 269
Query: 326 FDHPVTGCPVMVQAPLP 342
F HP+TG P+ + AP+P
Sbjct: 270 FCHPITGTPMCLMAPVP 286
>gi|218767110|ref|YP_002341622.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis Z2491]
gi|421549758|ref|ZP_15995768.1| pseudouridine synthase [Neisseria meningitidis 69166]
gi|433470438|ref|ZP_20427838.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
68094]
gi|433476776|ref|ZP_20434104.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
70012]
gi|433478931|ref|ZP_20436230.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
63041]
gi|433518977|ref|ZP_20475704.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
65014]
gi|433525238|ref|ZP_20481884.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
69096]
gi|433537960|ref|ZP_20494447.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
70030]
gi|433540132|ref|ZP_20496589.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
63006]
gi|121051118|emb|CAM07389.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis Z2491]
gi|254672162|emb|CBA04981.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis alpha275]
gi|402331709|gb|EJU67041.1| pseudouridine synthase [Neisseria meningitidis 69166]
gi|432211871|gb|ELK67815.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
68094]
gi|432217929|gb|ELK73794.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
70012]
gi|432218905|gb|ELK74757.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
63041]
gi|432256942|gb|ELL12253.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
65014]
gi|432263386|gb|ELL18606.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
69096]
gi|432276100|gb|ELL31162.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
70030]
gi|432278113|gb|ELL33157.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
63006]
Length = 330
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 77/265 (29%), Positives = 113/265 (42%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
DV+YED+ L+ ++KP GV V V L E++ L L
Sbjct: 95 DVVYEDDALLVIDKPSGVAVHGGSGVSFGVIEQLRRARPEARY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H +
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVKLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LFKYTGAQGEKMVRVSEDGQSAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P++++A LP
Sbjct: 290 FLHASELHLNHPLTGEPLVLKAELP 314
>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 = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 77/267 (28%), Positives = 113/267 (42%), Gaps = 67/267 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
+++Y+DE +V VNK QG+ SA ++G L ++ +L
Sbjct: 80 EIVYQDEDVVVVNKAQGMVVHP------------SAGHQTGTLVNALMHHITDLSGINGT 127
Query: 140 ----LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ +R+D+DTSG++++ K+ KL D + YIAL G P K TI +
Sbjct: 128 IRPGIVHRIDKDTSGLLMVAKNDAAHEKLAAQLKDKTSLREYIALVHGVIPHEKG-TIDA 186
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNI 255
GRSK + ++ GG R VT F VL FK+ +
Sbjct: 187 PLGRSKQDRKK-------QDIIDGG---RAAVTHFTVLE-----RFKDFT---------- 221
Query: 256 VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD 315
LV +GRTHQIR+H +Y+G + GD Y GK
Sbjct: 222 -----------------LVSLKLETGRTHQIRVHMKYIGYPLAGDPIYGPRKTLEGK--- 261
Query: 316 GHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA +L F HP +G + +APLP
Sbjct: 262 GQFLHATTLGFKHPTSGEFLTFEAPLP 288
>gi|404497687|ref|YP_006721793.1| RNA pseudouridine synthase, RluA family [Geobacter metallireducens
GS-15]
gi|418067343|ref|ZP_12704688.1| pseudouridine synthase, RluA family [Geobacter metallireducens
RCH3]
gi|78195289|gb|ABB33056.1| RNA pseudouridine synthase, RluA family [Geobacter metallireducens
GS-15]
gi|373558948|gb|EHP85265.1| pseudouridine synthase, RluA family [Geobacter metallireducens
RCH3]
Length = 296
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 75/276 (27%), Positives = 108/276 (39%), Gaps = 74/276 (26%)
Query: 67 TRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGR 126
TR + A+ + SL D+L+ED+ +V VNKP G+ L+ D AE +
Sbjct: 67 TRELLAAKRPSL------DILFEDDRIVVVNKPPGLPVHRTAEDEQTLV--DVAERFLAQ 118
Query: 127 LSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAP 186
KL + NRLDR TSG ++ KS A + + + K Y+A+ G P
Sbjct: 119 RGTPAKLRPV-----NRLDRGTSGATILAKSATSAGMFGRFVKETGLGKLYLAVADGKLP 173
Query: 187 KWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSE 246
EG+ P E
Sbjct: 174 --------------------------------------------------AEGTIDTPLE 183
Query: 247 LQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGV 306
+E + + + K+ L+ P +GRTHQIR H G +RGD +Y G
Sbjct: 184 GKEAQTQYRTLFQG--------KSAALLLVTPITGRTHQIRKHLALTGHPVRGDRRYRGA 235
Query: 307 YEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
Y GH LHA +SF HPV+G +++ APLP
Sbjct: 236 PLAA---YPGHCLHAFLVSFRHPVSGEEIVIHAPLP 268
>gi|338532888|ref|YP_004666222.1| ribosomal large subunit pseudouridine synthase A [Myxococcus fulvus
HW-1]
gi|337258984|gb|AEI65144.1| ribosomal large subunit pseudouridine synthase A [Myxococcus fulvus
HW-1]
Length = 569
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 74/264 (28%), Positives = 116/264 (43%), Gaps = 64/264 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPC--LLAGDSAESKSGRLSEGTKLNLLELHLAN 142
D+++EDEWLV V+KP+G L SVP + DS ++ + G +L A+
Sbjct: 365 DIVFEDEWLVVVDKPEG------LLSVPAKDVSVEDSVLARLRARAPGATGTML----AH 414
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD DTSG++V K + + L + F +V K Y+A W + G+ R +
Sbjct: 415 RLDLDTSGLLVAAKDARTYAALQRQFAGREVHKRYVA--------W-----VEGNVRGER 461
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
G++ M + P ++ + V + V
Sbjct: 462 -----------------GTIDFPMRVDLD----------DRPRQIHDPVHGKPAVTEWHV 494
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGHEL 319
L+ + ++ + FP +GRTHQ+R+H + LG I GD +Y G R L
Sbjct: 495 LERSQGRTKVAL--FPLTGRTHQLRVHAAHPLGLGAPIVGDR----LYGHPGSRL---HL 545
Query: 320 HAESLSFDHPVTGCPVMVQAPLPL 343
HAE+LSF HP TG + ++ P P
Sbjct: 546 HAEALSFQHPATGQRLTLERPAPF 569
>gi|444352050|ref|YP_007388194.1| Ribosomal large subunit pseudouridine synthase C (EC 4.2.1.70) ##
LSU Psi955, Psi2504 and Psi2580 [Enterobacter aerogenes
EA1509E]
gi|443902880|emb|CCG30654.1| Ribosomal large subunit pseudouridine synthase C (EC 4.2.1.70) ##
LSU Psi955, Psi2504 and Psi2580 [Enterobacter aerogenes
EA1509E]
Length = 331
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 76/259 (29%), Positives = 111/259 (42%), Gaps = 54/259 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++ +NKP G ++ G A R L L +RLD
Sbjct: 109 ILYEDEHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 158
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + + K Y+AL G +W+ T
Sbjct: 159 RDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRG---QWQSHT------------- 202
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ V+ EG +PSE VE++
Sbjct: 203 KVVQAPLLKNILQSGE---------RIVRVSQEG---KPSE------TRFKVEERYPFAT 244
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYEWNGKRYDGHELHAE 322
LVR P +GRTHQIR+H QY G I D +Y E + +G + LHA
Sbjct: 245 -------LVRCSPVTGRTHQIRVHTQYAGHPIAFDDRYGDREFDKQLSGTGLNRLFLHAA 297
Query: 323 SLSFDHPVTGCPVMVQAPL 341
+L F HP TG + ++APL
Sbjct: 298 ALKFTHPGTGEVMRIEAPL 316
>gi|372489813|ref|YP_005029378.1| RluA family pseudouridine synthase [Dechlorosoma suillum PS]
gi|359356366|gb|AEV27537.1| pseudouridine synthase, RluA family [Dechlorosoma suillum PS]
Length = 217
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 74/260 (28%), Positives = 110/260 (42%), Gaps = 56/260 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D+LYED LV VNKP G L SVP E K+ L + + +A+RL
Sbjct: 13 DLLYEDGALVVVNKPAG------LLSVPG-----RGEDKADCLVSRVQAVFADAMIAHRL 61
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D DTSG++V+ + + KL + F + KVSK Y A+ G
Sbjct: 62 DMDTSGLLVLARGPAMQKKLFEMFRERKVSKRYQAVVAG--------------------- 100
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEV-LSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
V++D ++ L V+ ++ + QE + + + AV
Sbjct: 101 -----------------VLQDKEGEVDLPLIVDWPNRPRQKVDFQEGKPSLTRFRRLAV- 142
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
DA + V P +GRTHQ+R+H +G I GD Y G + +R LHA
Sbjct: 143 --DAAADSSRVELEPVTGRTHQLRVHMAAIGHPILGDELYAGPAQARAERL---LLHASR 197
Query: 324 LSFDHPVTGCPVMVQAPLPL 343
L F HP+T + ++P P
Sbjct: 198 LEFRHPITDEALSFESPPPF 217
>gi|261400963|ref|ZP_05987088.1| ribosomal large subunit pseudouridine synthase C [Neisseria
lactamica ATCC 23970]
gi|269209209|gb|EEZ75664.1| ribosomal large subunit pseudouridine synthase C [Neisseria
lactamica ATCC 23970]
Length = 295
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 76/265 (28%), Positives = 113/265 (42%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
D++YED+ L+ ++KP GV V V L E++ L L
Sbjct: 60 DIVYEDDALLVIDKPSGVAVHGGSGVSFGVIEQLRRARPEARY-------------LELV 106
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H +
Sbjct: 107 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHIKLP 160
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 161 LFKYTGAQGEKMVRVSEDGQSAH---TVFRVLSRFSDG---------------------- 195
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 196 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 254
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P++++A LP
Sbjct: 255 FLHASELHLNHPLTGEPLVLKAELP 279
>gi|383815882|ref|ZP_09971289.1| pseudouridine synthase [Serratia sp. M24T3]
gi|383295310|gb|EIC83637.1| pseudouridine synthase [Serratia sp. M24T3]
Length = 318
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 74/260 (28%), Positives = 111/260 (42%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+L+ED+ L+ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILFEDDHLLILNKPSGTAVHGGSGLSFGVIEGLRALRPDARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLRMKTMQKDYLALVRG---EWQ-------------SHC 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PSE +E+K
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVNSEG---KPSE------TRFKIEEKYAFAT 230
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
L++A P +GRTHQIR+H QY G I D +Y G E++ G + LHA
Sbjct: 231 -------LIKASPVTGRTHQIRVHTQYAGHPIAFDDRY-GDREFDAQLAGAGINRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F+HP G + ++APL
Sbjct: 283 AALRFEHPANGETMRIEAPL 302
>gi|89070524|ref|ZP_01157813.1| ribosomal large subunit pseudouridine synthase C [Oceanicola
granulosus HTCC2516]
gi|89043831|gb|EAR50029.1| ribosomal large subunit pseudouridine synthase C [Oceanicola
granulosus HTCC2516]
Length = 348
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 87/313 (27%), Positives = 122/313 (38%), Gaps = 60/313 (19%)
Query: 42 APQTQQNYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQG 101
AP Q P PL PP E+ A + ++ R+ VLY D+ L+ +NKP G
Sbjct: 57 APGQQVRVP-PLPPP-------GEVRPAGRDEPSAQDAEMMRAAVLYRDDHLIVLNKPPG 108
Query: 102 VYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKV 160
+ + G LS L E L +RLD+DTSG++++ ++
Sbjct: 109 LPTQ----------GGSRQTRHVDGLSAALTFGLEEKPRLVHRLDKDTSGILLLARTRAA 158
Query: 161 ASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPG 219
A L AF + K Y A G P P+ G K+G + G
Sbjct: 159 AKGLTDAFRSRETRKIYWAAVAGVPHPRM---------GTVKYGLVKQPGHGARGE---- 205
Query: 220 GSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPR 279
N + P E+ + V AV++ A++ V P
Sbjct: 206 ----------------NEKMRCIHPDEVLRTPDAKRAVTDYAVIETLARR-AAWVALVPV 248
Query: 280 SGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH----------ELHAESLSFDHP 329
+GRTHQ+R H LG I GD KY G + N G +LHA SLS HP
Sbjct: 249 TGRTHQLRAHMAELGHPIAGDGKYGGSGQENLGDGWGAGLGGDISRKLQLHARSLSLTHP 308
Query: 330 VTGCPVMVQAPLP 342
V+G + APLP
Sbjct: 309 VSGARMTFTAPLP 321
>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 = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 76/271 (28%), Positives = 111/271 (40%), Gaps = 77/271 (28%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN--- 142
++YEDE + +NKPQG+ S + GT +N L H+ +
Sbjct: 80 IVYEDEDVAVINKPQGMVVHP-----------------SAGHTHGTMVNALMYHIKDLST 122
Query: 143 -----------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
R+D+DTSG++++ K+ + L K D + Y+AL G P K
Sbjct: 123 INGVIRPGIVHRIDKDTSGLLMVAKNDQAHESLAKQLKDKTSLRKYVALVHGEIPHEKG- 181
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
TI + GRSK ++ A + G+ VT F VL E
Sbjct: 182 TINAPIGRSKENR-KMQAIREDGK---------PAVTHFTVL---------------ERF 216
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
E +VE K +GRTHQIR+H +Y+G + GD Y G
Sbjct: 217 EGFTLVELKL-----------------ETGRTHQIRVHMKYIGYPLAGDPVYGPKKTLKG 259
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G LHA+ L F HP T ++ +APLP
Sbjct: 260 ---NGQFLHAQMLGFTHPTTNEKMVFEAPLP 287
>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 = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 76/271 (28%), Positives = 111/271 (40%), Gaps = 77/271 (28%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN--- 142
++YEDE + +NKPQG+ S + GT +N L H+ +
Sbjct: 80 IVYEDEDVAVINKPQGMVVHP-----------------SAGHTHGTMVNALMYHIKDLST 122
Query: 143 -----------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
R+D+DTSG++++ K+ + L K D + Y+AL G P K
Sbjct: 123 INGVIRPGIVHRIDKDTSGLLMVAKNDQAHESLAKQLKDKTSLRKYVALVHGEIPHEKG- 181
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
TI + GRSK ++ A + G+ VT F VL E
Sbjct: 182 TINAPIGRSKENR-KMQAIREDGK---------PAVTHFTVL---------------ERF 216
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
E +VE K +GRTHQIR+H +Y+G + GD Y G
Sbjct: 217 EGFTLVELKL-----------------ETGRTHQIRVHMKYIGYPLAGDPVYGPKKTLKG 259
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G LHA+ L F HP T ++ +APLP
Sbjct: 260 ---NGQFLHAQMLGFTHPTTNEKMVFEAPLP 287
>gi|337265946|ref|YP_004610001.1| RluA family pseudouridine synthase [Mesorhizobium opportunistum
WSM2075]
gi|336026256|gb|AEH85907.1| pseudouridine synthase, RluA family [Mesorhizobium opportunistum
WSM2075]
Length = 334
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 82/281 (29%), Positives = 117/281 (41%), Gaps = 66/281 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
DVLYED+ L+ +NKP G+ L + GDS G G
Sbjct: 84 DVLYEDDALIVINKPAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGGVRRPG------- 136
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVS----KTYIALCIGPAPKWKRITI 193
+ +RLD++TSGVMV+ K+ + L +AF DH ++ + Y+AL G P+ T+
Sbjct: 137 --IVHRLDKETSGVMVVAKTDRAHKALSEAFADHGLTGDLERAYLALVWG-IPQRPTGTV 193
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGG-SVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
+ GR+ A RV A V+P G R VT F V GE + QE
Sbjct: 194 DAPLGRA---ADRVRRA-----VVPEGRDDARHAVTHFAVQERFGE-------KQQEFAT 238
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
+ LV +GRTHQIR+H ++G + GD Y +
Sbjct: 239 AS------------------LVECRLETGRTHQIRVHMAHIGHPVIGDPDYGQAFRTKAN 280
Query: 313 R-----------YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
R + LHA L+F HP T + +AP+P
Sbjct: 281 RLPEPLKSQVKAFSRQALHAWLLAFRHPDTHLTMRFEAPIP 321
>gi|389575079|ref|ZP_10165129.1| pseudouridylate synthase [Bacillus sp. M 2-6]
gi|388425134|gb|EIL82969.1| pseudouridylate synthase [Bacillus sp. M 2-6]
Length = 300
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 81/272 (29%), Positives = 118/272 (43%), Gaps = 63/272 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE------L 138
D+L+EDE ++ +NK + + S+P S E ++ G + E +
Sbjct: 86 DILFEDEHVLVLNK------KPYIPSIP------SREHPEHSIANGVLHHYAEQSVRLTV 133
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
HL NRLDRDTSGVM++ K S L KA +V +TY A+ G IT G
Sbjct: 134 HLVNRLDRDTSGVMLVAKHRFAHSLLSKAQKKGEVKRTYRAITHG------MITQKEGTI 187
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
R+K S + R++ ++ VT + V +V+ + S E
Sbjct: 188 RAKIARK---GDSIIERMVDESG--QEAVTHYTVRAVHTHLDMSDVSLTLE--------- 233
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE 318
+GRTHQIR+H Q+LG + GD Y G E G++
Sbjct: 234 ---------------------TGRTHQIRVHMQFLGHPLVGDTLYGGTSERIGRQ----A 268
Query: 319 LHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
LH+E+L F HP+T + APLP T LQ
Sbjct: 269 LHSETLVFPHPITEESMTFSAPLPDDMTLLLQ 300
>gi|336249748|ref|YP_004593458.1| 23S rRNA pseudouridylate synthase C [Enterobacter aerogenes KCTC
2190]
gi|334735804|gb|AEG98179.1| 23S rRNA pseudouridylate synthase C [Enterobacter aerogenes KCTC
2190]
Length = 317
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 76/259 (29%), Positives = 111/259 (42%), Gaps = 54/259 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDEHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + + K Y+AL G +W+ T
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRG---QWQSHT------------- 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ V+ EG +PSE VE++
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVSQEG---KPSE------TRFKVEERYPFAT 230
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYEWNGKRYDGHELHAE 322
LVR P +GRTHQIR+H QY G I D +Y E + +G + LHA
Sbjct: 231 -------LVRCSPVTGRTHQIRVHTQYAGHPIAFDDRYGDREFDKQLSGTGLNRLFLHAA 283
Query: 323 SLSFDHPVTGCPVMVQAPL 341
+L F HP TG + ++APL
Sbjct: 284 ALKFTHPGTGEVMRIEAPL 302
>gi|295677198|ref|YP_003605722.1| RluA family pseudouridine synthase [Burkholderia sp. CCGE1002]
gi|295437041|gb|ADG16211.1| pseudouridine synthase, RluA family [Burkholderia sp. CCGE1002]
Length = 349
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 77/266 (28%), Positives = 120/266 (45%), Gaps = 59/266 (22%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+L+EDE L+ ++KP GV + + G + + R + LEL +RLD
Sbjct: 109 ILFEDEHLLVIDKPAGV----AVHGGSGVAFGVIEQMREAR----PQAKFLEL--VHRLD 158
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSG++++ K L + D+++ K Y A C+ G W
Sbjct: 159 RETSGILMLAKKRAALVNLHEQIRDNRMDKRYYA-CV-------------------HGEW 198
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSE-LQEHEENNIVVEKKAVLD 264
ASD GR V++ + + L+ +GE + ++ L H N+V
Sbjct: 199 ----ASDWGRR----RAVKEPLHKY--LTSDGERRVRVQTDGLASHTIFNLV-------- 240
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------ 318
D + L+ A ++GRTHQIR+H Q+LG+ I GD KY G + N +
Sbjct: 241 -DRWPDYALLEAELKTGRTHQIRVHLQHLGLPIVGDAKY-GDFALNKALARANAKPGIKR 298
Query: 319 --LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP TG P+ ++APLP
Sbjct: 299 MFLHAYRLKLTHPATGAPLQLEAPLP 324
>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 = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 76/279 (27%), Positives = 115/279 (41%), Gaps = 77/279 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D+ YED+ ++ VNKPQG+ +G +S GT +N L H
Sbjct: 80 DIYYEDKDVLVVNKPQGMVVHPA----------------AGHMS-GTLVNALLYHCQDLS 122
Query: 140 ---------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
+ +R+D+DTSG++++ K+ L D + Y+AL G K ++
Sbjct: 123 GINGVIRPGIVHRIDKDTSGLLMVAKNDAAHVSLSSQLKDKTSDRIYLALVHGDI-KHQK 181
Query: 191 ITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
TI + GR+K ++ +D G R T FEV+ G+ +
Sbjct: 182 GTIEAPIGRAKEDRKKMAVVAD-------GKEAR---THFEVVERFGDYT---------- 221
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
L++ +GRTHQIR+H +Y+G + D KY N
Sbjct: 222 ----------------------LIKCQLDTGRTHQIRVHLKYIGHPLAADPKYGPKNTLN 259
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
G G LHA L F+HP TG + +APLP E L
Sbjct: 260 GH---GQFLHASELGFEHPTTGERLHFEAPLPNIFEETL 295
>gi|423119726|ref|ZP_17107410.1| ribosomal large subunit pseudouridine synthase C [Klebsiella
oxytoca 10-5246]
gi|376397565|gb|EHT10196.1| ribosomal large subunit pseudouridine synthase C [Klebsiella
oxytoca 10-5246]
Length = 331
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 77/260 (29%), Positives = 113/260 (43%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 109 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 158
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + + K Y+AL G +W+ T
Sbjct: 159 RDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRG---QWQSHT------------- 202
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ V+ EG +PSE VE++
Sbjct: 203 KVVQAPLLKNILQSGE---------RIVRVSQEG---KPSE------TRFKVEERYT--- 241
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
+ LVR P +GRTHQIR+H QY G I D +Y G E++ G + LHA
Sbjct: 242 ----HATLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRY-GDREFDKQLAGTGLNRLFLHA 296
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP TG + V+APL
Sbjct: 297 AALKFTHPGTGEVMRVEAPL 316
>gi|452965910|gb|EME70927.1| 23S rRNA pseudouridylate synthase [Magnetospirillum sp. SO-1]
Length = 335
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 85/296 (28%), Positives = 124/296 (41%), Gaps = 60/296 (20%)
Query: 55 PPLPAISKDIELTR---AMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASV 111
PPLPA R A A ++ R V+Y D+ ++A+NKP G+ +
Sbjct: 65 PPLPAAEAPGSEARPREARPAPVDEKTARMLRDAVIYMDDDIIALNKPPGLAVQGGTGMA 124
Query: 112 PCLLAG--DSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFT 169
L D+ +GR L +RLD+DTSGV+++ ++ +KL AF
Sbjct: 125 DKHLDAWLDALSFGAGRPK-----------LVHRLDKDTSGVLLLGRTANATAKLAAAFK 173
Query: 170 DHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTS 229
K Y AL G P++ + I + + LPG +
Sbjct: 174 SRAARKCYWALVAG-VPRYPQGRIDAPLAK-----------------LPG--------KA 207
Query: 230 FEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLH 289
E ++V+ E+ V V+D+ K+ L PR+GRTHQ+R H
Sbjct: 208 GEKVAVD-------------KEDGKHAVTYYRVVDSTLKRAAWL-EMEPRTGRTHQLRAH 253
Query: 290 CQYLGISIRGDVKYEG---VYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
C LG I GD KY G + E G H LHA ++ HP TG P+ + APLP
Sbjct: 254 CLLLGTPIMGDGKYGGAAALIEGTGVSRKLH-LHARAVRLPHPRTGKPIEISAPLP 308
>gi|342904097|ref|ZP_08725899.1| putative pseudouridine synthase, RsuA and RluB/C/D/E/F [Haemophilus
haemolyticus M21621]
gi|342904601|ref|ZP_08726400.1| putative pseudouridine synthase, RluC/RluD, site [Haemophilus
haemolyticus M21621]
gi|341953022|gb|EGT79536.1| putative pseudouridine synthase, RluC/RluD, site [Haemophilus
haemolyticus M21621]
gi|341954106|gb|EGT80600.1| putative pseudouridine synthase, RsuA and RluB/C/D/E/F [Haemophilus
haemolyticus M21621]
Length = 224
Score = 82.0 bits (201), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 66/249 (26%), Positives = 113/249 (45%), Gaps = 66/249 (26%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN 142
+ +V+Y+ + +NKP+G+ D AE L +LN+ ++ L +
Sbjct: 2 KIEVVYQHSDFIIINKPEGISVHK-----------DQAEQGLTELV-AKQLNVPQVWLVH 49
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD+ TSG++++ + + A++ + F++HK+ KTY+AL PK K+ II +++
Sbjct: 50 RLDKVTSGLLILALNAESAAEFSRLFSEHKIHKTYLALS-NQKPKKKQGLIIGDMKKARD 108
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
GAW++ D +T FE +S EP+
Sbjct: 109 GAWKLCQTKD-----------NPAITRFESVSC-------EPN----------------- 133
Query: 263 LDADAKKNEILVRAF---PRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
+R F P++G+THQ+R+ + LG I GD G+Y N ++ D L
Sbjct: 134 -----------LRLFILKPQTGKTHQLRVAMKSLGSPILGD----GLYGKNTEKIDSTYL 178
Query: 320 HAESLSFDH 328
HA L FD+
Sbjct: 179 HAAQLEFDY 187
>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 = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 74/268 (27%), Positives = 115/268 (42%), Gaps = 51/268 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D++YED+ + VNKPQG+ + +G + + + + +N ++ + +R
Sbjct: 75 DIIYEDDDVAVVNKPQGMVVHPSVGHT----SGTLVNALMYHIKDLSSINGVIRPGIVHR 130
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG+++I K+ K + L D K + Y+A+ G P R I + GRS+
Sbjct: 131 IDKDTSGLLMIAKNDKAHNALAAELKDKKSLRKYVAIVHGNIPN-DRGVIEAPIGRSEKD 189
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ A + G+ P VT F+VL G
Sbjct: 190 RKK-QAVTAKGK--PA-------VTHFKVLERFG-------------------------- 213
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
N LV +GRTHQIR+H Y+G + GD Y G DG LHA++
Sbjct: 214 ------NYTLVELTLETGRTHQIRVHMAYIGYPVAGDPLYGPRKTLKG---DGQFLHAQT 264
Query: 324 LSFDHPVTGCPVMVQAPLPLWGTEALQS 351
L F HP TG + A P E L++
Sbjct: 265 LGFTHPTTGETLTFTAEAPAIFKETLEN 292
>gi|170747290|ref|YP_001753550.1| RluA family pseudouridine synthase [Methylobacterium radiotolerans
JCM 2831]
gi|170653812|gb|ACB22867.1| pseudouridine synthase, RluA family [Methylobacterium radiotolerans
JCM 2831]
Length = 471
Score = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 81/289 (28%), Positives = 119/289 (41%), Gaps = 49/289 (16%)
Query: 57 LPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLA 116
+P + D R SA+ + RS +LYED ++ +NKP G+ + +V
Sbjct: 203 VPPLRLDQPTERPRSAAREQDDAAFIRSLILYEDADMMILNKPFGLAVQGGSGTV----- 257
Query: 117 GDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKT 176
G L+ T + + L +RLD+DT+G ++I K+ A+ L K+F K
Sbjct: 258 ----RHVDGLLAALTGPDGQKPRLVHRLDKDTAGCLIIAKTRLAAATLAKSFRSRAARKI 313
Query: 177 YIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVN 236
Y AL +G R + G Y A + D V
Sbjct: 314 YWALT-------------AGVPRVRQGRVSTYLAKEE---------PTDADARMRVAKHG 351
Query: 237 GEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAF-PRSGRTHQIRLHCQYLGI 295
EG+ + + A++D A+K L +F P +GRTHQ+R H ++G
Sbjct: 352 DEGA-------------SHALTYYAMVDQAAQKLSWL--SFKPVTGRTHQLRAHAAHIGH 396
Query: 296 SIRGDVKYEGVYEWNGKRYDGHELH--AESLSFDHPVTGCPVMVQAPLP 342
I GD KY V W + LH A + HP TG PV V APLP
Sbjct: 397 PIVGDPKYFSVENWELPGGIQNRLHLLARRIVIPHPRTGKPVDVSAPLP 445
>gi|293363941|ref|ZP_06610677.1| pseudouridine synthase, RluA family [Mycoplasma alligatoris A21JP2]
gi|292552431|gb|EFF41205.1| pseudouridine synthase, RluA family [Mycoplasma alligatoris A21JP2]
Length = 312
Score = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 69/269 (25%), Positives = 121/269 (44%), Gaps = 67/269 (24%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+ YEDE+L+ + KP G+ + E+ L + ++ +++G L G
Sbjct: 76 DIAYEDEYLLVLKKPSGMVVHPAPGHHENTLVNALLYHFKNNLSNENGLLRPG------- 128
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG--PAPKWKRITIIS 195
+ +R+D+DTSG+++I K+++V L + F +++ Y+A+C G +PK K I
Sbjct: 129 --IVHRIDKDTSGLLLIAKNNEVHKILAEGFATKTINRKYVAICDGILKSPKLKLDLPI- 185
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNI 255
GR ++ A ++ + VT E+L SF ++ +
Sbjct: 186 --GRD-IKNRQLMAITNANS--------KSAVTHLELLK-----SFYYENQPKS------ 223
Query: 256 VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD 315
LV+A +GRTHQIR+HC Y+ + GD Y G++ D
Sbjct: 224 -----------------LVKATLETGRTHQIRVHCAYIKNPVFGDPVY-------GRKVD 259
Query: 316 --GHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L F+HP+T +++ + P
Sbjct: 260 DFNQRLHAYKLEFNHPITNKKIVIYSAPP 288
>gi|153002938|ref|YP_001377263.1| RluA family pseudouridine synthase [Anaeromyxobacter sp. Fw109-5]
gi|152026511|gb|ABS24279.1| pseudouridine synthase, RluA family [Anaeromyxobacter sp. Fw109-5]
Length = 339
Score = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 83/280 (29%), Positives = 122/280 (43%), Gaps = 63/280 (22%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL----A 141
VL+ED ++AV+KP G LA+ P + + R GT +L A
Sbjct: 87 VLHEDADVLAVDKPAG------LAAHPGTGISGATLVEMARAHLGTPADLPPTEFKPSPA 140
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTD-HKVSKTYIALCIGPAPKWKRITIISGHGRS 200
+RLDRDTSGV+++ K+ K +L + FTD V KTY+AL G P+ +G
Sbjct: 141 HRLDRDTSGVVLVAKNRKTMVRLTELFTDGADVKKTYLALVKGKMPRE------AGTIDL 194
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
A S R G +++ +T ++V+S + KE S L + +E
Sbjct: 195 PLAEHEQTARSKAAR----GVNLQEALTRWKVVS-----AMKEASLLA------VTIE-- 237
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-------EGVYEWNGKR 313
+GRTHQIR H + +G + GD +Y W +R
Sbjct: 238 -------------------TGRTHQIRRHLEAVGHPVLGDRRYGDFPTNRAARQRWGLRR 278
Query: 314 YDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSS 353
LHA L HP TG P+ ++APLP EAL ++
Sbjct: 279 M---FLHAWRLELPHPTTGAPLRLEAPLPGELLEALSRAN 315
>gi|354722976|ref|ZP_09037191.1| 23S rRNA pseudouridylate synthase C [Enterobacter mori LMG 25706]
Length = 315
Score = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 75/260 (28%), Positives = 111/260 (42%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED++++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDYILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRG---QWQ-------------SHV 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PSE VE++
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVNQEG---KPSE------TRFKVEERYEFAT 230
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
LVR P +GRTHQIR+H Q+ G I D +Y G E++ G LHA
Sbjct: 231 -------LVRCSPVTGRTHQIRVHTQFAGHPIAFDDRY-GDREFDKQLAGTGLSRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP TG + ++APL
Sbjct: 283 AALKFTHPNTGEVIRIEAPL 302
>gi|170759197|ref|YP_001786899.1| RluA family pseudouridine synthase [Clostridium botulinum A3 str.
Loch Maree]
gi|169406186|gb|ACA54597.1| pseudouridine synthase, RluA family [Clostridium botulinum A3 str.
Loch Maree]
Length = 305
Score = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 72/263 (27%), Positives = 118/263 (44%), Gaps = 54/263 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
DV+YED+ ++ VNKPQ E V+ P + +G + + + +N + + +R
Sbjct: 81 DVIYEDKDVIVVNKPQ----EMVVHPAPGVYSGTLVNALLHHCKDLSGINGVARPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++V+ K+ + L F +H +S+ Y+AL G K ++ TI + GR
Sbjct: 137 IDKDTSGILVVAKNDISHNNLAAQFKEHSISRVYMALVEG-IIKNEQGTIEAPIGRHPVD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ D R VT ++V+ F
Sbjct: 196 RIKMAVVKD----------GRHAVTHYKVIK-----RF---------------------- 218
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD--GHELHA 321
KN LV +GRTHQIR+H ++ + GD VY + +R++ G LHA
Sbjct: 219 -----KNHTLVECRLETGRTHQIRVHMSHIMHPLVGD----PVYGYKKQRFNLKGQMLHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLW 344
+ L F HP TG V ++ LP +
Sbjct: 270 KLLGFIHPTTGQYVEFESELPEY 292
>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 = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 69/281 (24%), Positives = 112/281 (39%), Gaps = 76/281 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YEDE ++ VNKP G+ S + GT +N L H
Sbjct: 81 DIIYEDEDVIVVNKPTGMIVHP-----------------SAGIYSGTLVNALLYHCHDLS 123
Query: 140 ---------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
+ +R+D++TSG++++ K+ L K +H V + Y+AL G
Sbjct: 124 AINGITRPGIVHRIDKETSGLLMVAKNDNAHRSLSKQLEEHSVVRRYVALVHG------- 176
Query: 191 ITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
+ H + A + D ++ +D +T+F+VL
Sbjct: 177 ---VINHNVGRIEAPIGRDSKDRKKMAVTSKNAKDAITNFKVL----------------- 216
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
+ + L+ +GRTHQIR+H QY+G + GD +Y G N
Sbjct: 217 ---------------ERYDDMTLIECRLETGRTHQIRVHMQYIGHPVYGDPQY-GF--RN 258
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
+G LHA L F HP T + +APLP + E ++
Sbjct: 259 DDNTNGQYLHARVLGFVHPRTNEHMYFEAPLPDFFEEKIKE 299
>gi|254466117|ref|ZP_05079528.1| pseudouridine synthase, RluD [Rhodobacterales bacterium Y4I]
gi|206687025|gb|EDZ47507.1| pseudouridine synthase, RluD [Rhodobacterales bacterium Y4I]
Length = 348
Score = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 85/304 (27%), Positives = 116/304 (38%), Gaps = 62/304 (20%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPL RAM S + K+ +S V+Y D+ ++ +NKP G+ +
Sbjct: 65 PPLADSDLKPAEPRAMKISDADA--KMIQSCVIYRDDDVIVLNKPAGLAVQ--------- 113
Query: 115 LAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKV 173
G L+E K L E L +R+D+DTSGV+V+ ++ K A L AF
Sbjct: 114 -GGSGTTKHVDGLAEALKFGLEEKPKLVHRIDKDTSGVLVLARNRKAAQGLTAAFRHKNT 172
Query: 174 SKTYIALCIG-PAPKWKRI----TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVT 228
K Y AL G P P I GHG+S G + PG +
Sbjct: 173 RKIYWALVAGVPTPYLGEIKNGLVKAPGHGKSGEGEKMINVHPRDIDDTPGAKRAHTLYA 232
Query: 229 SFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRL 288
+ ++ EP +GRTHQ+R
Sbjct: 233 TLYRVASRAAWVAMEPI----------------------------------TGRTHQLRA 258
Query: 289 HCQYLGISIRGDVKYEGVYEWN-----GKRYDG-----HELHAESLSFDHPVTGCPVMVQ 338
H +G I GD KY G + N G + G LHA + F+HPVT PV V
Sbjct: 259 HMSGMGHPIAGDGKYGGSGQENMGDGWGAQIGGVISKKLHLHARRMVFEHPVTRKPVSVV 318
Query: 339 APLP 342
APLP
Sbjct: 319 APLP 322
>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 = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 74/274 (27%), Positives = 115/274 (41%), Gaps = 63/274 (22%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+ +ED+ ++ VNKP+G+ + L + L D +G++ G
Sbjct: 80 DIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNA-LLFHCDDLSGINGKIRPG------- 131
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+ L K D + YIAL G K + I +
Sbjct: 132 --IVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIIHQKGM-IEAPI 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+K ++ D G R T FEV+ + P
Sbjct: 189 GRAKEDRQKMAVVRD-------GKEAR---THFEVIE-------RLPGY----------- 220
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
L+ +GRTHQIR+H +Y+G + GD KY N + +G
Sbjct: 221 --------------TLINCKLDTGRTHQIRVHLKYIGHPLAGDPKY---GPKNTIKGNGQ 263
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHA L FDHP T + +APLP +AL+S
Sbjct: 264 FLHAAKLGFDHPTTNERMTFEAPLPDSFEQALKS 297
>gi|197120627|ref|YP_002132578.1| pseudouridine synthase [Anaeromyxobacter sp. K]
gi|196170476|gb|ACG71449.1| pseudouridine synthase, RluA family [Anaeromyxobacter sp. K]
Length = 302
Score = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 77/268 (28%), Positives = 104/268 (38%), Gaps = 58/268 (21%)
Query: 77 SLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNL- 135
+L L R +LY D L AV+KP GV + L + G L E L
Sbjct: 74 ALAALGRERLLYADADLCAVDKPAGVPAQPTLTT------------DRGALPELVSALLG 121
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCI-GPAPKWKRITII 194
+ L +RLDR+TSGV V ++ A+ L +AF KTY+ALC P+P R+ +
Sbjct: 122 APVTLVHRLDRETSGVTVFARTRDAAAALAEAFRTGTPEKTYLALCARAPSPAEGRVALA 181
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
G ++ G RV A D T + L G+ E
Sbjct: 182 LGKDPARPGLRRVDPAGD------------PAATRYRTLREAPGGARVE----------- 218
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY 314
A P +GRTHQIR+H LG + GD +Y G
Sbjct: 219 ---------------------ARPETGRTHQIRVHLAALGAPLLGDARYGGPRRVGEVAV 257
Query: 315 DGHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP TG ++ +A P
Sbjct: 258 PRVMLHATRLELPHPATGARMVFEAEPP 285
>gi|423392314|ref|ZP_17369540.1| RluA family pseudouridine synthase [Bacillus cereus BAG1X1-3]
gi|401634961|gb|EJS52723.1| RluA family pseudouridine synthase [Bacillus cereus BAG1X1-3]
Length = 307
Score = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 80/271 (29%), Positives = 117/271 (43%), Gaps = 77/271 (28%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA--- 141
DV+YED+ ++ VNKP+ + D+ S+ GT NL+ H
Sbjct: 86 DVVYEDDHVLIVNKPEQM---------------DTHPSEKN--GTGTLANLVAFHFQMQG 128
Query: 142 --------NRLDRDTSGVMVITKSHKVASKLV-KAFTDHKVSKTYIALCIGPAPKWKRIT 192
+RLD+DT+G +V K H++A ++ + + K+ +TY AL G K K+ T
Sbjct: 129 LETKVRHIHRLDKDTTGGVVFAK-HRIAGAIMDRLLMERKIKRTYAALVEGKVKK-KQGT 186
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
I + GR + A R RV P G +T ++V E F
Sbjct: 187 IDAAIGRDRHHATR-------RRVSPKGD---QAITYYKV-----EKYFN---------- 221
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
K+N LV +GRTHQIR+H Y G + GDV Y G
Sbjct: 222 ---------------KQNATLVTLQLETGRTHQIRVHMSYNGNPLVGDVLYGG-----QT 261
Query: 313 RYDGHE-LHAESLSFDHPVTGCPVMVQAPLP 342
+Y H+ LHA ++F HP+T +MV P P
Sbjct: 262 KYMSHQALHAMKINFLHPITKEEIMVDVPFP 292
>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 = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 76/271 (28%), Positives = 111/271 (40%), Gaps = 77/271 (28%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN--- 142
++YEDE + VNKPQG+ S + GT +N L H+ +
Sbjct: 80 IVYEDEDVAVVNKPQGMVVHP-----------------SAGHTHGTMVNALMYHIKDLST 122
Query: 143 -----------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
R+D+DTSG++++ K+ + L + D + Y+AL G P K
Sbjct: 123 INGVIRPGIVHRIDKDTSGLLMVAKNDQAHESLAQQLKDKTSLRKYVALVHGEIPHEKG- 181
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
TI + GRSK ++ A + G+ VT F VL E
Sbjct: 182 TINAPIGRSKENR-KMQAIREDGK---------SAVTHFTVL---------------ERF 216
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
E +VE K +GRTHQIR+H +Y+G + GD Y G
Sbjct: 217 EGFTLVELKL-----------------ETGRTHQIRVHMKYIGYPLAGDPVYGPKKTLKG 259
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G LHA+ L F HP T ++ +APLP
Sbjct: 260 ---NGQFLHAQMLGFTHPTTNEKMIFEAPLP 287
>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 = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 70/263 (26%), Positives = 114/263 (43%), Gaps = 58/263 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P + G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHVTGTLVNGLMAHCNDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHG-VISHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + + + VT F VL F++ +
Sbjct: 196 RQSMTVTRESSK---------NAVTHFHVLE-----RFQDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTIDFNGQAL 267
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA L FDHP TG + +APLP
Sbjct: 268 HAGILGFDHPRTGEYIEFEAPLP 290
>gi|229016637|ref|ZP_04173574.1| Pseudouridine synthase [Bacillus cereus AH1273]
gi|229022852|ref|ZP_04179372.1| Pseudouridine synthase [Bacillus cereus AH1272]
gi|228738387|gb|EEL88863.1| Pseudouridine synthase [Bacillus cereus AH1272]
gi|228744627|gb|EEL94692.1| Pseudouridine synthase [Bacillus cereus AH1273]
Length = 307
Score = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 80/271 (29%), Positives = 117/271 (43%), Gaps = 77/271 (28%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA--- 141
DV+YED+ ++ VNKP+ + D+ S+ GT NL+ H
Sbjct: 86 DVVYEDDHVLIVNKPEQM---------------DTHPSEKN--GTGTLANLVAFHFQMQG 128
Query: 142 --------NRLDRDTSGVMVITKSHKVASKLV-KAFTDHKVSKTYIALCIGPAPKWKRIT 192
+RLD+DT+G +V K H++A ++ + + K+ +TY AL G K K+ T
Sbjct: 129 LETKVRHIHRLDKDTTGGVVFAK-HRIAGAIMDRLLMERKIKRTYAALVEGKVKK-KQGT 186
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
I + GR + A R RV P G +T ++V E F
Sbjct: 187 IDAAIGRDRHHATR-------RRVSPKGD---QAITYYKV-----EKYFN---------- 221
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
K+N LV +GRTHQIR+H Y G + GDV Y G
Sbjct: 222 ---------------KQNATLVTLQLETGRTHQIRVHMSYNGNPLVGDVLYGG-----QT 261
Query: 313 RYDGHE-LHAESLSFDHPVTGCPVMVQAPLP 342
+Y H+ LHA ++F HP+T +MV P P
Sbjct: 262 KYMSHQALHAMKINFLHPITKEEIMVDVPFP 292
>gi|422023014|ref|ZP_16369520.1| 23S rRNA pseudouridylate synthase C [Providencia sneebia DSM 19967]
gi|414094744|gb|EKT56408.1| 23S rRNA pseudouridylate synthase C [Providencia sneebia DSM 19967]
Length = 318
Score = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 76/265 (28%), Positives = 108/265 (40%), Gaps = 66/265 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++ +NKP G ++ G A R L L +RLD
Sbjct: 94 ILYEDESILVINKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 143
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + ++ K Y+AL G W+ T
Sbjct: 144 RDTSGILLVAKKRSALRALHEQLRLKQMQKDYMALVRG---NWQSHT------------- 187
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PSE + E
Sbjct: 188 KVIQAPLLKNILQSGE---------RIVRVNPEG---KPSETRFKVEERF---------- 225
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------- 318
N LV+A P +GRTHQIR+H + G I D +Y K++D
Sbjct: 226 ---DNATLVKASPVTGRTHQIRVHTLHAGHPIAFDNRY------GDKQFDAQLAGTGLKR 276
Query: 319 --LHAESLSFDHPVTGCPVMVQAPL 341
LHA SL F HP TG + +QAPL
Sbjct: 277 LFLHASSLKFTHPKTGEEMRLQAPL 301
>gi|117924690|ref|YP_865307.1| pseudouridine synthase [Magnetococcus marinus MC-1]
gi|117608446|gb|ABK43901.1| pseudouridine synthase [Magnetococcus marinus MC-1]
Length = 255
Score = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 72/260 (27%), Positives = 110/260 (42%), Gaps = 54/260 (20%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL-HLAN 142
S +LY D L+ +NKP G+ AG + L G + L + LA+
Sbjct: 13 SRLLYRDGLLLIINKPAGIPVH----------AGPGGGANLEALFGGLRFGLPKAPALAH 62
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLDRDTSG +V+ + K SKL K F+ KV KTY A+ G P+ G F
Sbjct: 63 RLDRDTSGCLVLGRHAKALSKLGKLFSQGKVQKTYWAVVQGGPPQ--------AQGSMDF 114
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
+++ A R++ + +T + VL + S+ E +
Sbjct: 115 PLYKISTAQQGWRMVVDPEQGKSSLTLYRVLGRSATHSWLELT----------------- 157
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
P++GRTHQIR+HC ++G+ I GD++Y + + H LHA
Sbjct: 158 ---------------PKTGRTHQIRVHCAHVGLPIEGDLQYGAAP--SEPQLTLH-LHAR 199
Query: 323 SLSFDHPVTGCPVMVQAPLP 342
+ + P+ V AP P
Sbjct: 200 QIILPISASKAPINVSAPPP 219
>gi|406984445|gb|EKE05460.1| hypothetical protein ACD_19C00284G0002 [uncultured bacterium]
Length = 247
Score = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 74/278 (26%), Positives = 118/278 (42%), Gaps = 73/278 (26%)
Query: 86 VLYEDEWLVAVNKPQGVYCESV-----------LASVPCLLAGDSAESKSGRLSEGTKLN 134
V+YED LV ++KP G+ + L +V LL D+ E R G
Sbjct: 10 VIYEDSDLVVLDKPAGLVINAAETQKDNITLQDLIAVSDLLEEDT-EYSEFRDRSG---- 64
Query: 135 LLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKW---KRI 191
+ +RLD+DTSG++++ K+ + L + F KV K Y+AL G +
Sbjct: 65 -----IVHRLDKDTSGIIIVAKTRESFENLQEQFKSRKVHKVYLALVYGVIKDLTVGETF 119
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSV---NGEGSFKEPSELQ 248
I + GR+ R +A + G+ + T F+++ + +G F
Sbjct: 120 EINAPIGRNPKNRQR-FAIVESGK---------EAATKFKLIKIINSKSDGKFS------ 163
Query: 249 EHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYE 308
L+ +P++GRTHQIR+H LG S+ GD Y G +
Sbjct: 164 ------------------------LLECYPKTGRTHQIRVHLTALGNSVVGDFLYSG--K 197
Query: 309 WNGKR----YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
GKR + LHA + F HP+TG + +++ LP
Sbjct: 198 TRGKRDRHIFTRQFLHANKIEFLHPITGELLKLESKLP 235
>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 = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 79/278 (28%), Positives = 116/278 (41%), Gaps = 66/278 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLLAGDSAESKSGRLSEGTKLNLLELH 139
D++YEDE ++ VNKPQG+ V LL + +G G
Sbjct: 81 DIVYEDEDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHSPLSTINGEFRPG--------- 131
Query: 140 LANRLDRDTSGVMVITK---SHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
+ +R+D+DTSG++++ K +H+ + +KA T+ + Y+AL G K + TI +
Sbjct: 132 IVHRIDKDTSGLLMVAKNDMAHRSLTAQLKAKTN---KREYVALVHG-VIKEDKGTIDAP 187
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
GRS + D R VT F VL
Sbjct: 188 LGRSLKDRKKQAVVVDG----------RHAVTHFNVL----------------------- 214
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
+ KN LV +GRTHQIR+H +Y+G + GD Y G +G
Sbjct: 215 ---------ERFKNYTLVACQLETGRTHQIRVHMKYIGHPLAGDPLYGPRKTLAG---NG 262
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
LHA L F HP TG ++ APLP + T+ L+ K
Sbjct: 263 QYLHARLLGFKHPRTGKEMVFTAPLPAYFTKMLEHLRK 300
>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 = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 72/263 (27%), Positives = 116/263 (44%), Gaps = 58/263 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P + G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHVTGTLVNGLMAHCNDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHG-VISHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + GS ++ VT F VL F++ +
Sbjct: 196 RQSMTVTRE-------GS--KNAVTHFHVLE-----RFQDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTVDFNGQAL 267
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA L FDHP TG + +APLP
Sbjct: 268 HAGILGFDHPRTGEYMEFEAPLP 290
>gi|424827321|ref|ZP_18252130.1| RluA family pseudouridine synthase [Clostridium sporogenes PA 3679]
gi|365980244|gb|EHN16280.1| RluA family pseudouridine synthase [Clostridium sporogenes PA 3679]
Length = 305
Score = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 71/263 (26%), Positives = 119/263 (45%), Gaps = 54/263 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D++YED+ ++ VNKPQ E V+ P + +G + + + +N + + +R
Sbjct: 81 DIIYEDKDVIVVNKPQ----EMVVHPAPGVYSGTLVNALLSHCKDLSGINGVARPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++V+ K+ + L F +H +S+ Y+AL G K ++ TI + GR
Sbjct: 137 IDKDTSGILVVAKNDISHNNLAAQFKEHSISRVYMALVEG-IIKNEQGTIEAPIGRHPVD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ D GR VT ++V+
Sbjct: 196 RIKMAVVKD-GRY---------AVTHYKVI------------------------------ 215
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD--GHELHA 321
+ KN LV +GRTHQIR+H ++ + GD VY + +R++ G LHA
Sbjct: 216 --ERFKNHTLVECKLETGRTHQIRVHMSHIMHPLVGD----PVYGYKKQRFNLKGQMLHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLW 344
+ L F HP TG V ++ LP +
Sbjct: 270 KLLGFIHPTTGQYVEFESQLPEY 292
>gi|436835980|ref|YP_007321196.1| pseudouridine synthase, RluA family [Fibrella aestuarina BUZ 2]
gi|384067393|emb|CCH00603.1| pseudouridine synthase, RluA family [Fibrella aestuarina BUZ 2]
Length = 343
Score = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 79/277 (28%), Positives = 108/277 (38%), Gaps = 66/277 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAG----DSAESKSGRLSEGTKLNLLELHL 140
D++YED L+ VNKP G+ + L +GR EG L
Sbjct: 97 DIVYEDNELLVVNKPAGMVVHPAHGNWDGTLVNALVYHMQNLPTGRNGEGRP------GL 150
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHGR 199
+R+D+DTSG+MVI K+ S L + F DH + +TY+AL G P P IT G
Sbjct: 151 VHRIDKDTSGLMVIAKTEYAMSHLARQFFDHSIERTYVALVWGQPDPADGTITGYIGRSA 210
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
+ +Y G+ VT + L E N V
Sbjct: 211 ADRKVMTIYDDETKGKW---------SVTHYRTL-----------------EPLNFVS-- 242
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG------KR 313
LV+ +GRTHQIR H +++G + D Y G G K
Sbjct: 243 -------------LVQCNLETGRTHQIRAHFRHIGHPLFNDAMYGGDRILRGSVNGSFKA 289
Query: 314 YDGH--------ELHAESLSFDHPVTGCPVMVQAPLP 342
+ G+ LHA SL F HP TG + +PLP
Sbjct: 290 FVGNAFALLPRQALHARSLGFTHPRTGERLQFDSPLP 326
>gi|400288184|ref|ZP_10790216.1| pseudouridylate synthase [Psychrobacter sp. PAMC 21119]
Length = 261
Score = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 79/269 (29%), Positives = 130/269 (48%), Gaps = 59/269 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL--AN 142
+++YEDE+LVA+NK G+ L L G++ R + + + H+ +
Sbjct: 21 EIIYEDEFLVAINKEAGL-----LVHRSWLDKGET------RFAMQLTRDAVGCHVFPVH 69
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD+ TSGV++ KS VA L +AFT HKVSK Y+A+ G P+
Sbjct: 70 RLDKPTSGVLLFAKSSAVARSLTEAFTAHKVSKQYLAVVRGFMPE--------------- 114
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGE-GSFKEPS-ELQEHEENNIVVEKK 260
G+V D SF+ ++ + + +P+ E H ++ +E
Sbjct: 115 ----------------QGTV--DYALSFKPDAIADKFANLDKPAQEAVTHWQSLAQIELP 156
Query: 261 AVLDADAKKNEI----LVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVY-EWNGKRY 314
+ +KK+E L+R P +GR HQ+R H ++L I GD + +G + + +Y
Sbjct: 157 FAV---SKKHETSRYSLMRLTPETGRKHQLRRHMRHLFHHIVGDTSHGDGRHNRFFRTQY 213
Query: 315 DGHE--LHAESLSFDHPVTGCPVMVQAPL 341
D LHA++L+ HPVTG P++++A L
Sbjct: 214 DCARMLLHAQTLALSHPVTGEPLLLKAGL 242
>gi|329120429|ref|ZP_08249095.1| ribosomal large subunit pseudouridine synthase C [Neisseria
bacilliformis ATCC BAA-1200]
gi|327462113|gb|EGF08441.1| ribosomal large subunit pseudouridine synthase C [Neisseria
bacilliformis ATCC BAA-1200]
Length = 435
Score = 81.6 bits (200), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 77/273 (28%), Positives = 111/273 (40%), Gaps = 68/273 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE------- 137
D++YED+ L+ ++KP GV G ++E
Sbjct: 197 DIVYEDDALLVIDKPAGVAVHG---------------------GSGVSFGVIEQIRRARP 235
Query: 138 ----LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
L L +RLD+DTSG+++I K KL +A + K Y+AL G R+
Sbjct: 236 EARYLELVHRLDKDTSGLLMIAKKRSALVKLHEAIRNDHPKKIYLALGAG------RLEN 289
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
H R + A + RV G T F+VL+ +G
Sbjct: 290 DRFHVRLPLFKYTGAAGEKMVRVSEDGHSAH---TVFKVLNRFSDG-------------- 332
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
+L N LV A ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 333 --------LLHRVGLSNLTLVEATLKTGRTHQIRVHMQSQGCPIAGDERY-GDYQANRRL 383
Query: 314 ----YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L DHP+TG ++++APLP
Sbjct: 384 QKLGLKRMFLHAAELHLDHPLTGEKLVLKAPLP 416
>gi|423420666|ref|ZP_17397755.1| RluA family pseudouridine synthase [Bacillus cereus BAG3X2-1]
gi|401101233|gb|EJQ09224.1| RluA family pseudouridine synthase [Bacillus cereus BAG3X2-1]
Length = 307
Score = 81.6 bits (200), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 80/271 (29%), Positives = 117/271 (43%), Gaps = 77/271 (28%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA--- 141
DV+YED+ ++ VNKP+ + D+ S+ GT NL+ H
Sbjct: 86 DVVYEDDHVLIVNKPEQM---------------DTHPSEKN--GAGTLANLVAFHFQMQG 128
Query: 142 --------NRLDRDTSGVMVITKSHKVASKLV-KAFTDHKVSKTYIALCIGPAPKWKRIT 192
+RLD+DT+G +V K H++A ++ + + K+ +TY AL G K K+ T
Sbjct: 129 LETKVRHIHRLDKDTTGGVVFAK-HRIAGAIMDRLLMERKIKRTYAALVEGKVKK-KQGT 186
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
I + GR + A R RV P G +T ++V E F
Sbjct: 187 IDAAIGRDRHHATR-------RRVSPKGD---QAITYYKV-----EKYFN---------- 221
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
K+N LV +GRTHQIR+H Y G + GDV Y G
Sbjct: 222 ---------------KQNATLVTLQLETGRTHQIRVHMSYNGNPLVGDVLYGG-----QT 261
Query: 313 RYDGHE-LHAESLSFDHPVTGCPVMVQAPLP 342
+Y H+ LHA ++F HP+T +MV P P
Sbjct: 262 KYMSHQALHAMKINFLHPITKEEIMVDVPFP 292
>gi|429108353|ref|ZP_19170222.1| Ribosomal large subunit pseudouridine synthase C ## LSU Psi955,
Psi2504 and Psi2580 [Cronobacter malonaticus 681]
gi|429109857|ref|ZP_19171627.1| Ribosomal large subunit pseudouridine synthase C ## LSU Psi955,
Psi2504 and Psi2580 [Cronobacter malonaticus 507]
gi|426295076|emb|CCJ96335.1| Ribosomal large subunit pseudouridine synthase C ## LSU Psi955,
Psi2504 and Psi2580 [Cronobacter malonaticus 681]
gi|426311014|emb|CCJ97740.1| Ribosomal large subunit pseudouridine synthase C ## LSU Psi955,
Psi2504 and Psi2580 [Cronobacter malonaticus 507]
Length = 317
Score = 81.6 bits (200), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 75/266 (28%), Positives = 112/266 (42%), Gaps = 68/266 (25%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + D + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLRDKGMQKDYLALVRG---QWQ---------------- 185
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
S V V ++++++ S E ++ VN EG +PSE + E +
Sbjct: 186 -----SHVKNV--QAPLLKNILQSGERIVRVNQEG---KPSETRFKVEERFAIA------ 229
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------ 318
LVR P +GRTHQIR+H QY G I D +Y + +D
Sbjct: 230 -------TLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRY------GDRAFDAQLASTGLN 276
Query: 319 ---LHAESLSFDHPVTGCPVMVQAPL 341
LHA +L F+HP TG + ++APL
Sbjct: 277 RLFLHAAALRFEHPGTGETMRIEAPL 302
>gi|86605450|ref|YP_474213.1| RluA family pseudouridine synthase [Synechococcus sp. JA-3-3Ab]
gi|86553992|gb|ABC98950.1| pseudouridine synthase, RluA family [Synechococcus sp. JA-3-3Ab]
Length = 310
Score = 81.6 bits (200), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 76/270 (28%), Positives = 112/270 (41%), Gaps = 69/270 (25%)
Query: 85 DVLYEDEWLVAVNKPQGV------------YCESVLASVPCLLAGDSAESKSGRLSEGTK 132
D+LYEDE L+ +NKP+G+ ++LA P L +G + E + G
Sbjct: 83 DILYEDEDLLVINKPRGLVVHPAPGHASGTLVHALLAHCPRL-SGINGEQRPG------- 134
Query: 133 LNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRIT 192
+ +RLD+DT+G +VI K + L + Y+ + G P + T
Sbjct: 135 -------IVHRLDKDTTGALVIAKHDQAHQHLQAQIQAKTARRIYLGVVFG-RPAQSQGT 186
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
I + GR ++ V+P G R VT ++VL G
Sbjct: 187 ISAPIGRHPVDRQKMA-------VVPPGQG-RAAVTHWQVLERLG--------------- 223
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
N L++ +GRTHQIR+H +L + I GD Y + +
Sbjct: 224 -----------------NYTLMQFELETGRTHQIRVHAAHLRLPIVGDPLYTQ-SKTSPV 265
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ G LHA LSF HP TG P+ V APLP
Sbjct: 266 KLSGQALHAWKLSFVHPRTGQPLQVTAPLP 295
>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 = 81.6 bits (200), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 76/271 (28%), Positives = 111/271 (40%), Gaps = 77/271 (28%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH------ 139
++YEDE + +NKPQG+ S + GT +N L H
Sbjct: 80 IVYEDEDVAVINKPQGMVVHP-----------------SAGHTHGTMVNALMYHVKDLST 122
Query: 140 --------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
+ +R+D+DTSG++++ K+ + L K D + Y+AL G P K
Sbjct: 123 INGVIRPGIVHRIDKDTSGLLMVAKNDQAHESLAKQLKDKTSLRKYVALVHGEIPHEKG- 181
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
TI + GRSK ++ A + G+ VT F VL E
Sbjct: 182 TINAPIGRSKENR-KMQAIREDGK---------PAVTHFTVL---------------ERF 216
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
E +VE K +GRTHQIR+H +Y+G + GD Y G
Sbjct: 217 EGFTLVELKL-----------------ETGRTHQIRVHMKYIGYPLAGDPVYGPKKTLKG 259
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G LHA+ L F HP T ++ +APLP
Sbjct: 260 ---NGQFLHAQMLGFTHPTTNEKMIFEAPLP 287
>gi|311280008|ref|YP_003942239.1| RluA family pseudouridine synthase [Enterobacter cloacae SCF1]
gi|308749203|gb|ADO48955.1| pseudouridine synthase, RluA family [Enterobacter cloacae SCF1]
Length = 341
Score = 81.6 bits (200), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 76/260 (29%), Positives = 112/260 (43%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 121 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 170
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + D + K Y+AL G +W+ T
Sbjct: 171 RDTSGVLLVAKKRSALRSLHEQLRDKGMQKDYLALVRG---QWQSHT------------- 214
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ V+ EG +PS E VE++
Sbjct: 215 KVVQAPLLKNILQSGE---------RIVRVSSEG---KPS------ETRFKVEERFAF-- 254
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
LVR P +GRTHQIR+H Q+ G I D +Y G E++ G + LHA
Sbjct: 255 -----ATLVRCSPVTGRTHQIRVHTQHAGHPIAFDDRY-GDREFDKQLAGTGLNRLFLHA 308
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP TG + V+AP+
Sbjct: 309 AALKFTHPGTGETMRVEAPM 328
>gi|258542797|ref|YP_003188230.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus IFO 3283-01]
gi|384042718|ref|YP_005481462.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus IFO 3283-12]
gi|384051235|ref|YP_005478298.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus IFO 3283-03]
gi|384054343|ref|YP_005487437.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus IFO 3283-07]
gi|384057577|ref|YP_005490244.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus IFO 3283-22]
gi|384060218|ref|YP_005499346.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus IFO 3283-26]
gi|384063510|ref|YP_005484152.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus IFO 3283-32]
gi|384119520|ref|YP_005502144.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus IFO 3283-01-42C]
gi|256633875|dbj|BAH99850.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus IFO 3283-01]
gi|256636934|dbj|BAI02903.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus IFO 3283-03]
gi|256639987|dbj|BAI05949.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus IFO 3283-07]
gi|256643043|dbj|BAI08998.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus IFO 3283-22]
gi|256646098|dbj|BAI12046.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus IFO 3283-26]
gi|256649151|dbj|BAI15092.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus IFO 3283-32]
gi|256652138|dbj|BAI18072.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus IFO 3283-01-42C]
gi|256655195|dbj|BAI21122.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus IFO 3283-12]
Length = 328
Score = 81.6 bits (200), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 81/294 (27%), Positives = 123/294 (41%), Gaps = 62/294 (21%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLASV 111
PP+P +K R + L + R V+Y+D+ ++A+NKP G+ + + V
Sbjct: 64 PPIPMAAKP---ARDVPRPLDEKLAREIRKMVVYQDKHVIALNKPAGLAVQGGPGITKHV 120
Query: 112 PCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH 171
+L G E L +R+D+DTSG++++ ++ VA+KL +F
Sbjct: 121 DMMLDGLREEDDP------------RPRLVHRIDKDTSGLLLLARTPGVAAKLAASFRGR 168
Query: 172 KVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSF 230
V K Y A+ +G P P I ++ GA
Sbjct: 169 DVKKIYWAVVVGRPDPLSGEID----QPLARLGA-------------------------- 198
Query: 231 EVLSVNGEGSFKEPSELQEHEENNI--VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRL 288
G GS ++ ++ + + V E VLD+ A+K L P +GRTHQ+R+
Sbjct: 199 ------GPGSITVAADRKDADAQSARSVYE---VLDSAARKFSWL-ELSPLTGRTHQLRV 248
Query: 289 HCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
HC+ LG I GD KY G D LHA L HP G + V A LP
Sbjct: 249 HCESLGTPILGDPKYGGAAAHPSGFTDRLHLHARMLDMPHPAGGR-LTVSAELP 301
>gi|399066658|ref|ZP_10748517.1| pseudouridine synthase, RluA family [Novosphingobium sp. AP12]
gi|398027820|gb|EJL21351.1| pseudouridine synthase, RluA family [Novosphingobium sp. AP12]
Length = 314
Score = 81.6 bits (200), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 84/333 (25%), Positives = 131/333 (39%), Gaps = 78/333 (23%)
Query: 23 KTFFSLASMSNPTEPTSQNAPQTQQNYPTPLSPP----LPAISKDIELTRAMSASSKSSL 78
K +S +P +Q + + + P + P AI++DI L
Sbjct: 35 KALMGEGRVSLAGKPAAQASLKVEPGTPFAIEVPEAVAAEAIAQDIPL------------ 82
Query: 79 YKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL 138
+V++EDE+L+ V+KP G+ ++ L G+LS G +
Sbjct: 83 ------NVVFEDEYLIVVDKPAGLVVHPAAGNLDGTLVNALLHHCRGQLS-GIG-GVARP 134
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRIT---II 194
+ +R+D+DTSG++V+ K+ K L F DH + + Y+A+ G P P + +T
Sbjct: 135 GIVHRIDKDTSGLLVVAKTDKAHEGLAVQFADHSIVRAYLAVVGGRPMPMARTVTGAIAR 194
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
S H R K A + GR + VT F +
Sbjct: 195 SPHDRKKM------ALVEDGR-------GKHAVTHFRTV--------------------- 220
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYE-----W 309
+A K LV +GRTHQ+R+H +G ++ GD Y
Sbjct: 221 -----------EALKGATLVECRLETGRTHQVRVHMASIGHALLGDPVYGRTPSSLRAIL 269
Query: 310 NGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G + LHA L F HPVTG V +PLP
Sbjct: 270 SGLDFSRQALHAAELGFVHPVTGKNVHFASPLP 302
>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 = 81.3 bits (199), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 70/263 (26%), Positives = 114/263 (43%), Gaps = 58/263 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P + G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHVTGTLVNGLMAHCNDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHG-VISHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + + + VT F VL F++ +
Sbjct: 196 RQSMTVTRESSK---------NAVTHFHVLE-----RFQDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTIDFNGQAL 267
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA L FDHP TG + +APLP
Sbjct: 268 HAGILGFDHPRTGEYIEFEAPLP 290
>gi|407716439|ref|YP_006837719.1| ribosomal large subunit pseudouridine synthase C [Cycloclasticus
sp. P1]
gi|407256775|gb|AFT67216.1| ribosomal large subunit pseudouridine synthase C [Cycloclasticus
sp. P1]
Length = 312
Score = 81.3 bits (199), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 79/268 (29%), Positives = 109/268 (40%), Gaps = 72/268 (26%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
V+YEDE L+ +NKP G+ A+ ++ R L L +RLD
Sbjct: 94 VIYEDEHLLVLNKPSGMAVHGGTANSHGVIETLRFLRPEERY----------LELVHRLD 143
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG---------PAPKWKRITIISG 196
+ TSG ++I K+ K+ + L + +SKTY AL G AP KR T+ SG
Sbjct: 144 KATSGCLLIAKNRKMLNGLQSLLRNRTISKTYTALLCGVIHKQSVNVNAPLEKR-TLESG 202
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
R RV P G + T FE L+
Sbjct: 203 EHRV--------------RVHPEG---KKSETLFEKLA---------------------- 223
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
K LV A P++GRTHQIR+H ++ G I GD +Y ++ R G
Sbjct: 224 ----------QYKGATLVSASPKTGRTHQIRVHAKHFGHPIAGDERYSTPAQYKSYREKG 273
Query: 317 HE---LHAESLSFDHPVTGCPVMVQAPL 341
LHA L F HP++ VM +APL
Sbjct: 274 LMRLFLHASKLEFIHPLSEKKVMFEAPL 301
>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 = 81.3 bits (199), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 73/271 (26%), Positives = 121/271 (44%), Gaps = 49/271 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+++ED ++ VNKP+G+ V+ P +G + + + +N ++ + +R
Sbjct: 82 DIIHEDRDIIVVNKPRGM----VVYPAPGNYSGTLVNALLYHTKDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD+DTSGV+V+ K+ +L F + V KTY+A+ G P+ R TI + GR
Sbjct: 138 LDKDTSGVIVVAKNDMAHRELAMQFKNKLVKKTYLAVVWGNIPE-DRATIEAPIGRHPAK 196
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G ++ +T F+VL + +F E NI
Sbjct: 197 RVEMAVTAKNG---------KEAITHFKVLERFEDFTFIEV---------NI-------- 230
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+GRTHQIR+H ++G + GD Y + + +G LHA
Sbjct: 231 ---------------ETGRTHQIRVHMSFIGHPVVGDPLYS--RKKSPFNINGQALHAYR 273
Query: 324 LSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
L +HP TG + +AP+P TE L + K
Sbjct: 274 LGLNHPRTGEFMTFEAPIPQDITEILNTLRK 304
>gi|330814384|ref|YP_004358623.1| ribosomal large subunit pseudouridine synthase D [Candidatus
Pelagibacter sp. IMCC9063]
gi|327487479|gb|AEA81884.1| ribosomal large subunit pseudouridine synthase D [Candidatus
Pelagibacter sp. IMCC9063]
Length = 327
Score = 81.3 bits (199), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 75/277 (27%), Positives = 119/277 (42%), Gaps = 67/277 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYC-------ESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
DV+YED+ L+ +NKP G+ + L + ++ +G L G
Sbjct: 84 DVVYEDDDLLVINKPIGMVVHPGAGNPDGTLVNALLHHCKENLSGINGELRPG------- 136
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRI-TIIS 195
+ +R+D+DTSG++V+ K+ + L K F DH + +TY+A G P P RI T+I
Sbjct: 137 --IVHRIDKDTSGLLVVAKNDIAHNVLAKQFEDHSIQRTYLAFVWGMPKPIHGRIETLI- 193
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNI 255
GRSK+ ++ A G+ D +T+++ L V FK
Sbjct: 194 --GRSKYNRQKMSAEVGSGK---------DAITNYKTLEV-----FK------------- 224
Query: 256 VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY----EGVYEWNG 311
K + D L+ +GRTHQIR+H + G I GD Y + + +
Sbjct: 225 ---GKTIPDIS------LIECRLETGRTHQIRVHLAHQGNPILGDQMYGKKVRKIRDLDE 275
Query: 312 K------RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ + LHA+SL F HP + + LP
Sbjct: 276 QLSILLENINFQALHAQSLGFLHPKSDKELFFTTELP 312
>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 = 81.3 bits (199), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 71/265 (26%), Positives = 106/265 (40%), Gaps = 57/265 (21%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+LYED+ L+ VNKP G+ + L G+ G G
Sbjct: 80 DILYEDDQLLIVNKPAGMVVHPAPGHATGTLVHALLFYCGEQLTGVGGVQRPG------- 132
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +RLD++T+G MV+ K+ L + + Y+ + G APK ++ TI
Sbjct: 133 --IVHRLDKNTTGAMVVAKTETALCNLQQQIQAKTAKREYLGIVNG-APKAEQGTIDQPI 189
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR ++ +LP S R +T ++ + G
Sbjct: 190 GRHPKHRKKM-------SILPVESGGRTAITHWKTVERLG-------------------- 222
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
N L+ +GRTHQIR+H YLG+ I GD Y G + G + G
Sbjct: 223 ------------NYTLIHFQLETGRTHQIRVHSAYLGLPIIGDPDY-GSTRFPGVKLPGQ 269
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L+ HP+T V +APLP
Sbjct: 270 ALHAFRLTLSHPITQAVVSAEAPLP 294
>gi|433624304|ref|YP_007257934.1| Pseudouridine synthase [Mycoplasma cynos C142]
gi|429534330|emb|CCP23832.1| Pseudouridine synthase [Mycoplasma cynos C142]
Length = 305
Score = 81.3 bits (199), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 66/248 (26%), Positives = 113/248 (45%), Gaps = 47/248 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-SVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
+++Y+DE+L ++KP G+ S + L+ G K+ +E LL + +R
Sbjct: 76 NIIYDDEYLCIIDKPSGLVVHPSPGHTSKTLVNGLLYHFKNNLSNEN---GLLRPGIVHR 132
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG+++I K++ V +KL + F H V++ Y+A+C G
Sbjct: 133 IDKDTSGLLIIAKNNLVHNKLAEMFATHNVNRKYLAICDG-------------------- 172
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + LP G V+D + ++N + + N+ + K L
Sbjct: 173 ---ILEDKKLRLNLPIGRSVKDR-QKMTITNINSKPAI-----------TNVTLLKSFYL 217
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+ K LV+ +GRTHQIR+H +Y+ + GD Y + G+R LHA
Sbjct: 218 NNQPKS---LVKCELETGRTHQIRVHLKYIKNPVYGDPLYNKEVDNFGQR-----LHAYK 269
Query: 324 LSFDHPVT 331
L F HP+T
Sbjct: 270 LEFFHPIT 277
>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 = 81.3 bits (199), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 70/259 (27%), Positives = 115/259 (44%), Gaps = 51/259 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D++YEDE ++ VNKP+G+ V+ P +G + +N +L + +R
Sbjct: 83 DIVYEDEDVLVVNKPRGL----VVHPAPGHYSGTLVNGLLAHCQNLSGINGILRPGIVHR 138
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ + L K ++H+V + Y+AL G TI + GR+
Sbjct: 139 IDKDTSGLLMVAKNDRAHLSLAKQLSEHRVIRKYVALVHGQV-GHNSGTINAPIGRNPHN 197
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ S GG + VT F+V+ F +
Sbjct: 198 RQQMAVVS-------GG---KPAVTHFQVIK-----RFNRYT------------------ 224
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
L+ +GRTHQIR+H +Y+G + GD Y K G LHA+
Sbjct: 225 ---------LIECQLETGRTHQIRVHLKYIGHPLAGDPVYGPAKTLPIK---GQALHAKV 272
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L F+HP TG ++ +PLP
Sbjct: 273 LGFEHPATGRQMIFDSPLP 291
>gi|338997099|ref|ZP_08635804.1| ribosomal large subunit pseudouridine synthase C [Halomonas sp.
TD01]
gi|338766172|gb|EGP21099.1| ribosomal large subunit pseudouridine synthase C [Halomonas sp.
TD01]
Length = 313
Score = 81.3 bits (199), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 81/283 (28%), Positives = 117/283 (41%), Gaps = 87/283 (30%)
Query: 91 EWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE-----------LH 139
+W+V +NKP G+ G K+ L+E L
Sbjct: 99 DWMV-INKPSGLAVHG---------------------GSGVKIGLIEALRQVRDDLTFLE 136
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
L +RLDRDTSG +++ KS L ++ H + K Y+AL G P K T +S
Sbjct: 137 LVHRLDRDTSGCLLLAKSRDALVTLNESLKKHAMDKRYLALVSGRWPARK--TYVS---- 190
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
++ + RV P G V R T F V+ +F++ +
Sbjct: 191 ARLDRFDAGNGERRVRVDPNGKVSR---THFSVVE-----TFEKVT-------------- 228
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN--------G 311
L+ A P +GRTHQIR+H + G ++ GD KY G E N G
Sbjct: 229 -------------LIEAEPVTGRTHQIRVHAAHAGHALLGDDKY-GTRESNHMAQRLGLG 274
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
+ + LHA +L+F P G PV V+APLP EAL+ + K
Sbjct: 275 RLF----LHARALTFPEPGNGRPVTVKAPLPEALEEALKRARK 313
>gi|404371419|ref|ZP_10976724.1| RluA family pseudouridine synthase [Clostridium sp. 7_2_43FAA]
gi|226912453|gb|EEH97654.1| RluA family pseudouridine synthase [Clostridium sp. 7_2_43FAA]
Length = 305
Score = 81.3 bits (199), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 72/274 (26%), Positives = 118/274 (43%), Gaps = 54/274 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+++YEDE ++ +NKPQGV V+ P +G + + +N ++ + +R
Sbjct: 82 NIVYEDEDVIVLNKPQGV----VVHPAPGNYSGTLVNGLLYHCKDLSGINGVIRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++VI K+ + L K F +H + + Y AL G K + T+ GR+K
Sbjct: 138 IDKDTSGILVIAKNDDAHNHLAKQFKNHSIKREYYALVEGKFSKIEG-TVDKPIGRNKKD 196
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ D R VT + VL G+
Sbjct: 197 RLKMAIMEDGKRA----------VTHYNVLEQYNNGT----------------------- 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK---RYDGHELH 320
LV+ +GRTHQIR+H +G + GD +Y N K + G LH
Sbjct: 224 --------ALVKCTLETGRTHQIRVHMASIGHPLVGD----PLYNSNKKQKFKLQGQVLH 271
Query: 321 AESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
A++L F HP + + + LP + E L++ K
Sbjct: 272 AKTLGFIHPRSNEYIEFDSELPKYYLELLENIRK 305
>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 = 81.3 bits (199), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 81/269 (30%), Positives = 113/269 (42%), Gaps = 70/269 (26%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEG--------TKLN-L 135
+++YEDE L+ VNKP+G ++ A K G L + +N +
Sbjct: 82 EIIYEDEDLLVVNKPRG------------MVVHPGAGHKRGTLVNALLYHCRSLSGINGV 129
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPA-PKWKRITI- 193
L + +RLD+DTSG++++ K+ L + +V K Y AL G P RI
Sbjct: 130 LRPGIVHRLDKDTSGLLMVAKNDAAHLSLSAQLKERRVLKEYWALVYGEVKPAQGRIEAP 189
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
I H R +R A V+ GG R VT +EV+
Sbjct: 190 IGRHPR-----YRQKMA-----VVAGG---RPAVTHYEVV-------------------- 216
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
+ L+R P +GRTHQIR+H YLG I GD+KY G
Sbjct: 217 ------------EYFPGYTLLRVRPETGRTHQIRVHLHYLGHPIVGDLKYGPARPHLG-- 262
Query: 314 YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G LHA L F HP TG + +APLP
Sbjct: 263 LEGQFLHAGVLGFTHPRTGEFLRFEAPLP 291
>gi|325841309|ref|ZP_08167410.1| pseudouridine synthase, RluA family [Turicibacter sp. HGF1]
gi|325489990|gb|EGC92337.1| pseudouridine synthase, RluA family [Turicibacter sp. HGF1]
Length = 297
Score = 81.3 bits (199), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 75/269 (27%), Positives = 112/269 (41%), Gaps = 76/269 (28%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL-------- 136
DV+YEDE+L+ +NKP G+ ++P L R E T N L
Sbjct: 82 DVVYEDEYLLVINKPAGI------PTIPSL-----------RHPEKTLANALIHYYNEHE 124
Query: 137 ---ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+H NRLDRDTSG++++ K + L K ++ + Y L G K T+
Sbjct: 125 IASTIHFVNRLDRDTSGLLMVAKYRHIHHLLTKDVK--QIKRKYYTLVKGVMEK-NSGTV 181
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+ R G R +D D +T ++VL V
Sbjct: 182 HAPIARESEGNVRRCVRADGD----------DSITHYQVLEV------------------ 213
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
EK +++ + + +GRTHQIR+H YLG + GD Y+ E+ +
Sbjct: 214 ---WEKSTLVECELE-----------TGRTHQIRVHMNYLGHPLVGDTLYD---EFALEL 256
Query: 314 YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+GH LH+ LSF HP+T + Q LP
Sbjct: 257 EEGHLLHSYELSFTHPITKERHLFQTDLP 285
>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 = 81.3 bits (199), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 72/261 (27%), Positives = 115/261 (44%), Gaps = 54/261 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+++YED ++ VNKP+G+ V+ P +G + + +N +L + +R
Sbjct: 81 EIVYEDGDVLVVNKPRGM----VVHPAPGNYSGTLVNGLMAHCRDLSGINGVLRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DT+G++++ K+ LV ++ Y A+ G P R TI + GR K
Sbjct: 137 IDKDTTGLLMVAKNDMAHESLVNQLKAKTTTRKYKAIVHGNMPH-DRGTIDAPIGRDK-- 193
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
SD R+ RD +T F VL + +F E +L+
Sbjct: 194 -------SDRQRMTVTDENSRDAITHFRVLERFPDFTFVE-CQLE--------------- 230
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
+GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 231 ----------------TGRTHQIRVHLKYIGFPLAGDPKYGPKKTLDINGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLP 342
L FDHP TG + + PLP
Sbjct: 270 GVLGFDHPRTGEYMEFEVPLP 290
>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 = 81.3 bits (199), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 77/263 (29%), Positives = 112/263 (42%), Gaps = 58/263 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-VPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
D++YED +V VNKP+G+ L L+ G K G ++ + +R
Sbjct: 74 DIVYEDSDVVVVNKPRGLVVHPALGHYTGTLVNGLMYHCKDLSGING----VMRPGIVHR 129
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG+++I K+ K + L +H V++ Y+AL G P + TI + GR
Sbjct: 130 IDKDTSGLLMIAKNDKAHASLAAQLKEHTVNRKYVALVHGEIPH-EMGTIDAPIGRDPKN 188
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
R A G P VT F VL
Sbjct: 189 --RQQMAVVFGNSKPA-------VTHFVVL------------------------------ 209
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
+ K+ LV +GRTHQIR+H +Y+G + GD KY G R +G L
Sbjct: 210 --ERMKDFTLVELKLETGRTHQIRVHMKYIGYPLAGDPKY-------GPRKTLDINGQAL 260
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA++L F HP TG + +A LP
Sbjct: 261 HAKTLGFIHPSTGEYMEFEADLP 283
>gi|224368793|ref|YP_002602954.1| protein RluD1 [Desulfobacterium autotrophicum HRM2]
gi|223691509|gb|ACN14792.1| RluD1 [Desulfobacterium autotrophicum HRM2]
Length = 313
Score = 81.3 bits (199), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 86/290 (29%), Positives = 119/290 (41%), Gaps = 84/290 (28%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D L+ED+W+V VNKP G+ AG+S+ GT LN L H
Sbjct: 82 DFLHEDQWIVVVNKPAGMVVHPG--------AGNSS---------GTLLNALLHHFPSLT 124
Query: 140 -----------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKW 188
+ +RLD+DTSG +V+ KS K L K F +V K YIAL G +
Sbjct: 125 DTHCDPPLRGGIVHRLDKDTSGTIVVAKSKKAYEFLQKEFRFRRVEKRYIALATGIITET 184
Query: 189 K-RITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSEL 247
+ RIT+ G + R A + R P ++ R + ++
Sbjct: 185 QGRITLPIG----RHPIHRKRMAVNTERARPAETLWRVL------------------GQM 222
Query: 248 QEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVY 307
H +LD K +GRTHQIR+H + LG + GD VY
Sbjct: 223 AGH----------TLLDVGLK-----------TGRTHQIRVHFRALGHPLAGDR----VY 257
Query: 308 EWNGK---RYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
+ GK R LHA +L F HP +G V APLP E L+ ++
Sbjct: 258 GFRGKQSARAPRQMLHAGTLGFRHPWSGKRVEFTAPLPEDMVEVLERLNR 307
>gi|402775791|ref|YP_006629735.1| Pseudouridylate synthase [Bacillus subtilis QB928]
gi|402483460|gb|AFQ59969.1| Pseudouridylate synthase [Bacillus subtilis QB928]
Length = 303
Score = 81.3 bits (199), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 74/275 (26%), Positives = 118/275 (42%), Gaps = 59/275 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P L G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHLTGTLVNGLMAHCTDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLISH-DDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D ++ VT F VL F++ +
Sbjct: 196 RQSMTVTRDG----------KNAVTHFHVLE-----RFQDFT------------------ 222
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 223 ---------LVECQLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTIDFNGQAL 266
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
HA L FDHP TG V +A LP E +++ K
Sbjct: 267 HAGVLGFDHPRTGEYVEFEASLPEDMAELIENLRK 301
>gi|261868551|ref|YP_003256473.1| 23S rRNA pseudouridylate synthase C [Aggregatibacter
actinomycetemcomitans D11S-1]
gi|416076879|ref|ZP_11585719.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans serotype b str. SCC1398]
gi|416104395|ref|ZP_11589864.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans serotype c str. SCC2302]
gi|444344847|ref|ZP_21153027.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans serotype b str. SCC4092]
gi|444345908|ref|ZP_21153911.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans serotype c str. AAS4A]
gi|261413883|gb|ACX83254.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans D11S-1]
gi|348004380|gb|EGY44892.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans serotype b str. SCC1398]
gi|348007331|gb|EGY47648.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans serotype c str. SCC2302]
gi|443542332|gb|ELT52675.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans serotype c str. AAS4A]
gi|443543145|gb|ELT53409.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans serotype b str. SCC4092]
Length = 319
Score = 81.3 bits (199), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 72/265 (27%), Positives = 112/265 (42%), Gaps = 66/265 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++ED +L+ +NKP G+ ++ A + R L L +RLD
Sbjct: 97 IIFEDNYLLVLNKPSGIAVHGGSGLDFGVIEALRALRPAARF----------LELVHRLD 146
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + V K Y+AL G +W+
Sbjct: 147 RDTSGILLVAKKRSALRNLHEQLREKTVQKDYLALVRG---QWQ-------------SHC 190
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + L GG ++ V+ +G +PSE VE++
Sbjct: 191 KVVQAPLLKNELAGGE---------RIVKVSEQG---KPSE------TRFSVEERYT--- 229
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------- 318
N L++A P +GRTHQIR+H QY G I D KY K +D H
Sbjct: 230 ----NATLIKASPVTGRTHQIRVHTQYAGHPIAFDSKY------GDKEFDQHMVELGLNR 279
Query: 319 --LHAESLSFDHPVTGCPVMVQAPL 341
LHA ++ F+HP +G + + APL
Sbjct: 280 LFLHAYTIRFEHPHSGETLRLTAPL 304
>gi|395782121|ref|ZP_10462526.1| RluA family pseudouridine synthase [Bartonella rattimassiliensis
15908]
gi|395419611|gb|EJF85909.1| RluA family pseudouridine synthase [Bartonella rattimassiliensis
15908]
Length = 332
Score = 81.3 bits (199), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 73/280 (26%), Positives = 112/280 (40%), Gaps = 63/280 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+L+ED+ ++ +NKP G+ L + G+S G G
Sbjct: 82 DILFEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIYHCGNSLSGIGGVKRPG------- 134
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH----KVSKTYIALCIGPAPKWKRITI 193
+ +RLD++TSGVMV+ K+ L F+DH + + Y AL G P TI
Sbjct: 135 --IVHRLDKNTSGVMVVAKNDLAHKSLSAQFSDHGRTCALDRRYHALIWG-TPHRNIWTI 191
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+ GRS + + + S R VT F +L G +
Sbjct: 192 DASLGRSP------HNRTKQAVIHNKNSYARHAVTHFSLLEKYGTHT------------- 232
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK- 312
D+ L+ +GRTHQIR+H ++G + GD Y ++
Sbjct: 233 ------------DSTSFASLLECRLETGRTHQIRVHMAHIGHPLVGDTVYGNAFKTKSNT 280
Query: 313 ----------RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+++ H LHA SL+F+HP TG + APLP
Sbjct: 281 LNPIIKNAIDQFNRHALHAASLTFEHPSTGNVISFSAPLP 320
>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 = 81.3 bits (199), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 75/271 (27%), Positives = 111/271 (40%), Gaps = 77/271 (28%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN--- 142
++YEDE + +NKPQG+ S + GT +N L H+ +
Sbjct: 80 IVYEDEDVAVINKPQGMVVHP-----------------SAGHTHGTMVNALMYHIKDLST 122
Query: 143 -----------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
R+D+DTSG++++ K+ + L + D + Y+AL G P K
Sbjct: 123 INGVIRPGIVHRIDKDTSGLLMVAKNDQAHESLAQQLKDKTSLRKYVALVHGEIPHEKG- 181
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
TI + GRSK ++ A + G+ VT F VL E
Sbjct: 182 TINAPIGRSKENR-KMQAIREDGK---------SAVTHFTVL---------------ERF 216
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
E +VE K +GRTHQIR+H +Y+G + GD Y G
Sbjct: 217 EGFTLVELKL-----------------ETGRTHQIRVHMKYIGYPLAGDPVYGPKKTLKG 259
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G LHA+ L F HP T ++ +APLP
Sbjct: 260 ---NGQFLHAQMLGFTHPTTNEKMIFEAPLP 287
>gi|13473214|ref|NP_104781.1| pseudouridine synthase [Mesorhizobium loti MAFF303099]
gi|14023962|dbj|BAB50567.1| pseudouridine synthase [Mesorhizobium loti MAFF303099]
Length = 329
Score = 81.3 bits (199), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 82/281 (29%), Positives = 115/281 (40%), Gaps = 66/281 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
DVLYED+ L+ +NKP G+ L + GDS G G
Sbjct: 79 DVLYEDDALIVINKPAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGGVRRPG------- 131
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH----KVSKTYIALCIGPAPKWKRITI 193
+ +RLD++TSGVMV+ K+ + L +AF DH + + Y+AL G P+ T+
Sbjct: 132 --IVHRLDKETSGVMVVAKTDRAHKALSEAFADHGRTGDLERAYLALVWG-IPQRPTGTV 188
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGG-SVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
+ GR+ A RV A V+P G R VT F V GE QE
Sbjct: 189 DAPLGRA---ADRVRRA-----VVPEGRDDARHAVTHFAVQERFGENQ-------QEFAT 233
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
+ LV +GRTHQIR+H ++G + GD Y +
Sbjct: 234 AS------------------LVECRLETGRTHQIRVHMAHIGHPVIGDPDYGQAFRTKAN 275
Query: 313 R-----------YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
R + LHA L+F HP T + +AP+P
Sbjct: 276 RLPEPLKSQVKAFSRQALHAWLLAFRHPDTHLTMRFEAPIP 316
>gi|336250873|ref|YP_004594583.1| Pseudouridine synthase [Enterobacter aerogenes KCTC 2190]
gi|334736929|gb|AEG99304.1| Pseudouridine synthase [Enterobacter aerogenes KCTC 2190]
Length = 228
Score = 81.3 bits (199), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 72/258 (27%), Positives = 105/258 (40%), Gaps = 48/258 (18%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED L+ ++KP G+ S+ P DS + R G L +RLD
Sbjct: 19 ILYEDAHLLLIDKPSGLL--SLSGKNP--QNQDSVHHRLVRDFPGCTL-------VHRLD 67
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
TSG+MV+ ++ + + L + F+ VSK Y AL + GH G
Sbjct: 68 FGTSGLMVVARNKTINAALCQQFSQRAVSKVYHAL-------------LCGHPEEDEGII 114
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A D F ++++ S Q V+ ++ + A
Sbjct: 115 DAPIAKDPAL--------------FPRMAISARNGKPARSRYQ-------VLSREWLPIA 153
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
VR P +GRTHQ+R+HCQ+LG I G Y G+ E R LHA L
Sbjct: 154 GGSLAVTRVRLLPETGRTHQLRIHCQHLGYPILGCDLYGGLVEHQASRL---MLHASELH 210
Query: 326 FDHPVTGCPVMVQAPLPL 343
F HPV+G + + P P
Sbjct: 211 FHHPVSGKAIAARQPSPF 228
>gi|126724897|ref|ZP_01740740.1| Pseudouridine synthase, RluD [Rhodobacterales bacterium HTCC2150]
gi|126706061|gb|EBA05151.1| Pseudouridine synthase, RluD [Rhodobacteraceae bacterium HTCC2150]
Length = 347
Score = 81.3 bits (199), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 77/274 (28%), Positives = 123/274 (44%), Gaps = 50/274 (18%)
Query: 80 KLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL- 138
KL V+Y+D++++A+NKP G+ + G + LSE + + E
Sbjct: 87 KLMMDMVIYKDDYIIALNKPPGIPVQ----------GGSGQKRHIDGLSEALRFDSDEKP 136
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
L +RLD+DTSGV+++ ++ + AS+L F + K Y A +G P K TI
Sbjct: 137 RLVHRLDKDTSGVLLLARNQRSASELTAVFRSRESRKIYWA-AVGGVPHPKMGTI----- 190
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
+FG + G GG +++ ++ P ++ + +
Sbjct: 191 --RFGLVKAPGHGPSG----GGE---------KMICIH-------PRDIDKTDGAKRATT 228
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN-----GKR 313
AV+ A+++ + P +GRTHQ+R H LG I GD KY G + N G +
Sbjct: 229 DYAVMTTLARRSAWMA-LVPVTGRTHQLRAHMAELGHPIIGDGKYGGSGQENLGDGWGAQ 287
Query: 314 YDGH-----ELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA SL+ HPVTG + + A LP
Sbjct: 288 LGGDISKNLHLHARSLTLKHPVTGARLHLVAELP 321
>gi|261339387|ref|ZP_05967245.1| ribosomal large subunit pseudouridine synthase [Enterobacter
cancerogenus ATCC 35316]
gi|288318188|gb|EFC57126.1| ribosomal large subunit pseudouridine synthase [Enterobacter
cancerogenus ATCC 35316]
Length = 315
Score = 81.3 bits (199), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 76/260 (29%), Positives = 110/260 (42%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRG---QWQ-------------SHV 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PSE VE++
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVNQEG---KPSE------TRFKVEERYEFAT 230
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
LVR P +GRTHQIR+H QY G I D +Y G E++ G LHA
Sbjct: 231 -------LVRCSPVTGRTHQIRVHTQYAGHPIAFDDRY-GDREFDKQLAGTGLSRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP TG + ++APL
Sbjct: 283 AALKFTHPNTGEVIRIEAPL 302
>gi|121593575|ref|YP_985471.1| ribosomal large subunit pseudouridine synthase D [Acidovorax sp.
JS42]
gi|120605655|gb|ABM41395.1| ribosomal large subunit pseudouridine synthase D [Acidovorax sp.
JS42]
Length = 334
Score = 81.3 bits (199), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 72/258 (27%), Positives = 112/258 (43%), Gaps = 47/258 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
DV+YEDE ++ ++KP G+ V+ P +G + GR + + + + +RL
Sbjct: 107 DVVYEDEHILVIHKPAGL----VVHPAPGNWSGTLLNALLGR--DAQAMQVPRAGIVHRL 160
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG+MV+ +S LV+ +VS+ Y+AL G ++ + GR
Sbjct: 161 DKDTSGLMVVARSRSAMDALVRMIAAREVSRQYVALGWGGWTGAAHRSVHAPIGRDPRNR 220
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
R+ A D+ + PG ++ T F+++
Sbjct: 221 LRM-AVVDLAQ-HPG----KEARTDFDLI------------------------------- 243
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
DA + LVR +GRTHQIR+H + + D Y G R LHA L
Sbjct: 244 -DANEEVCLVRCTLHTGRTHQIRVHMASIRHPLVADALYGGALAGPMHR---QALHAFRL 299
Query: 325 SFDHPVTGCPVMVQAPLP 342
+F HPVTG + APLP
Sbjct: 300 AFVHPVTGAALEFHAPLP 317
>gi|365966303|ref|YP_004947865.1| 23S rRNA pseudouridylate synthase C [Aggregatibacter
actinomycetemcomitans ANH9381]
gi|365745216|gb|AEW76121.1| 23S rRNA pseudouridylate synthase C [Aggregatibacter
actinomycetemcomitans ANH9381]
Length = 319
Score = 81.3 bits (199), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 72/265 (27%), Positives = 112/265 (42%), Gaps = 66/265 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++ED +L+ +NKP G+ ++ A + R L L +RLD
Sbjct: 97 IIFEDNYLLVLNKPSGIAVHGGSGLDFGVIEALRALRPAARF----------LELVHRLD 146
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + V K Y+AL G +W+
Sbjct: 147 RDTSGILLVAKKRSALRNLHEQLREKTVQKDYLALVRG---QWQ-------------SHC 190
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + L GG ++ V+ +G +PSE VE++
Sbjct: 191 KVVQAPLLKNELAGGE---------RIVKVSEQG---KPSE------TRFSVEERYT--- 229
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------- 318
N L++A P +GRTHQIR+H QY G I D KY K +D H
Sbjct: 230 ----NATLIKASPVTGRTHQIRVHTQYAGHPIAFDSKY------GDKEFDQHMVELGLNR 279
Query: 319 --LHAESLSFDHPVTGCPVMVQAPL 341
LHA ++ F+HP +G + + APL
Sbjct: 280 LFLHAYTIRFEHPHSGETLRLTAPL 304
>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 = 81.3 bits (199), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 78/271 (28%), Positives = 114/271 (42%), Gaps = 60/271 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLLAGDSAESKSGRLSEGTKLNLLELH 139
D++YED+ ++ VNKPQG+ V LLA +G G
Sbjct: 80 DIVYEDDQVLVVNKPQGMVVHPSPGHPNGTLVNALLAHTPLSEINGVFRPG--------- 130
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
+ +R+D+DTSG++++ K+++ L + + Y+AL G + TI + GR
Sbjct: 131 IVHRIDKDTSGLLMVAKTNEAHESLSEQLKAKSNLREYLALVHGNI-EEDEGTIDAPIGR 189
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
SK R+ A ++P G R VT FEV VE+
Sbjct: 190 SKLD--RMKQA-----IVPDG---RPAVTHFEV------------------------VER 215
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
+ L+R +GRTHQIR+H Y+ + GD Y GK G L
Sbjct: 216 FT--------DYTLIRCRLETGRTHQIRVHLAYINRPVAGDPTYGPRKTLPGK---GQFL 264
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
HA L F HP TG + +APLP + LQ
Sbjct: 265 HAAVLGFKHPTTGENMRFEAPLPAIFEKTLQ 295
>gi|408675561|ref|YP_006875309.1| pseudouridine synthase, RluA family [Emticicia oligotrophica DSM
17448]
gi|387857185|gb|AFK05282.1| pseudouridine synthase, RluA family [Emticicia oligotrophica DSM
17448]
Length = 343
Score = 81.3 bits (199), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 77/282 (27%), Positives = 120/282 (42%), Gaps = 76/282 (26%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL------ 138
D++YED+ L+ VNKP P ++ + + SG L G L L
Sbjct: 99 DIVYEDDDLMIVNKP------------PRMVVHPAVGNWSGTLVNGLVYYLKNLPTHRNG 146
Query: 139 ----HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITII 194
L +R+D+DTSG++VI K+ + L K F++H + +TY AL G PK TI
Sbjct: 147 EIRPGLVHRIDKDTSGLLVIAKNDFAMTFLAKQFSEHTIERTYYALVWG-VPKNPSGTIH 205
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
GRS + V P GS +D +T +++L +K S +Q + E
Sbjct: 206 QFIGRS-------LKNRKIIEVYPDGSHGKDSITHYKILK-----DYKYVSLIQCNLE-- 251
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY 314
+GRTHQIR+H ++LG ++ D +Y G G++
Sbjct: 252 -------------------------TGRTHQIRVHMKFLGHTLFSDSEYGGDKILRGQQS 286
Query: 315 DGHE--------------LHAESLSFDHPVTGCPVMVQAPLP 342
++ LHA++L F HP T + + LP
Sbjct: 287 GSYKKFVENCFEIMPRQALHAKTLGFVHPTTKKWMQFDSELP 328
>gi|326692704|ref|ZP_08229709.1| ribosomal large subunit pseudouridine synthase D [Leuconostoc
argentinum KCTC 3773]
Length = 308
Score = 81.3 bits (199), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 73/272 (26%), Positives = 112/272 (41%), Gaps = 57/272 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLLAGDSAESKSGRLSEGTKLNLLELH 139
D++YED L+ VNKPQG+ V LL + +G G
Sbjct: 80 DIVYEDADLLVVNKPQGMVVHPAAGHTSGTLVNGLLHHAPLSTINGEFRPG--------- 130
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
+ +R+DRDTSG++++ K+ + L HK + Y AL G +++ T
Sbjct: 131 IVHRIDRDTSGLLMVAKNDQAHQALSAQLKAHKNDRIYYALVRG---EFEENTGTINAPI 187
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
++ R A V GG R+ VT FEV++
Sbjct: 188 ARHAIDRKKQA-----VQEGG---REAVTHFEVIA------------------------- 214
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
L++ +GRTHQIR+H Y+G I GD Y G + +G G L
Sbjct: 215 -------RYVGYTLLKVRLETGRTHQIRVHLTYIGHPIVGDPVYGGAQKLSGVNLAGQLL 267
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
HA++LS P TG ++ + LP + +AL +
Sbjct: 268 HAKTLSLTQPTTGENLIFDSELPAYFEQALAT 299
>gi|385208626|ref|ZP_10035494.1| pseudouridine synthase, RluA family [Burkholderia sp. Ch1-1]
gi|385180964|gb|EIF30240.1| pseudouridine synthase, RluA family [Burkholderia sp. Ch1-1]
Length = 323
Score = 80.9 bits (198), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 77/268 (28%), Positives = 120/268 (44%), Gaps = 63/268 (23%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDE L+ ++KP GV + + G + + R + LEL +RLD
Sbjct: 83 IIFEDEHLLVIDKPAGV----AVHGGSGVAFGVIEQMREAR----PQAKFLEL--VHRLD 132
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSG++++ K L + ++K+ K Y A C+ G W
Sbjct: 133 RETSGILMLAKKRSALVNLHEQIRENKMDKRYYA-CV-------------------HGEW 172
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFK-EPSELQEHEENNIVVE--KKAV 262
ASD GR V++ + + L+ +GE + +P L H N++ + A+
Sbjct: 173 ----ASDWGR----RRAVKEPLHKY--LTADGERRVRVQPDGLASHTVFNLIDRWPEYAL 222
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE---- 318
L+A+ K +GRTHQIR+H Q+LG+ I GD KY G + N +
Sbjct: 223 LEAELK-----------TGRTHQIRVHLQHLGLPIVGDAKY-GDFALNKALARANAKPGL 270
Query: 319 ----LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP TG P+ APLP
Sbjct: 271 KRMFLHAYRLKLTHPATGEPLQFDAPLP 298
>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 = 80.9 bits (198), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 74/273 (27%), Positives = 114/273 (41%), Gaps = 63/273 (23%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+ +ED+ ++ VNKP+G+ + L + L D +G++ G
Sbjct: 80 DIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNA-LLFHCDDLSGINGKIRPG------- 131
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++++ K+ L K D + YIAL G K TI +
Sbjct: 132 --IVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKG-TIEAPI 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+K ++ D G R T FEV+ + P
Sbjct: 189 GRAKEDRQKMAVVRD-------GKEAR---THFEVIE-------RLPGY----------- 220
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
L+ +GRTHQIR+H +Y+G + GD KY N + +G
Sbjct: 221 --------------TLINCKLDTGRTHQIRVHLKYIGHPLAGDPKYG---PKNTIKGNGQ 263
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
LHA L FDHP T + +APLP +AL+
Sbjct: 264 YLHAAKLGFDHPTTNERMTFEAPLPSSFEKALK 296
>gi|388567414|ref|ZP_10153848.1| RluA family pseudouridine synthase [Hydrogenophaga sp. PBC]
gi|388265436|gb|EIK90992.1| RluA family pseudouridine synthase [Hydrogenophaga sp. PBC]
Length = 345
Score = 80.9 bits (198), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 74/259 (28%), Positives = 114/259 (44%), Gaps = 65/259 (25%)
Query: 85 DVLYEDEWLVAVNKPQGV--------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL 136
DV++EDE L+ ++KP G+ + ++L + AG +A ++G
Sbjct: 112 DVVFEDEHLLVIDKPAGLVVHPAAGHWGGTLLNGLLAHHAGAAALPRAG----------- 160
Query: 137 ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
+ +RLD+DTSG+M++ KS + LV A +V + Y+A+
Sbjct: 161 ---IVHRLDKDTSGLMMVAKSRQAMQALVNAIAAREVGRQYLAIA--------------- 202
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
GAWR V P G R+ + ++V GEG+ K P++
Sbjct: 203 -----HGAWRHEGLRSVRE--PIGRDPRNRLR----MAVVGEGAGK-PAQ---------- 240
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
L D + +LV +GRTHQIR+H +LG + GD Y G W +R
Sbjct: 241 ---SDFLALDRSDDAMLVACKLHTGRTHQIRVHMAWLGHPLVGDALYGGRPLWGLQR--- 294
Query: 317 HELHAESLSFDHPVTGCPV 335
LHA SL HPV+G P+
Sbjct: 295 QALHAISLRLSHPVSGAPL 313
>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 = 80.9 bits (198), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 71/269 (26%), Positives = 115/269 (42%), Gaps = 54/269 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D++YED ++ VNKPQG+ V+ + G + S+ + +N + + +R
Sbjct: 81 DIVYEDSDVIVVNKPQGM----VVHPASGVYTGTLVNALLNHCSDLSGINGVTRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++V+ K+ K +KL + DH +++ Y AL G K TI GR
Sbjct: 137 IDKDTSGILVVAKNDKSHNKLAEQLKDHSMTRAYTALVEG-ILKEDEGTIDKPLGRHPVE 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ D R VT + VL
Sbjct: 196 RIKISVIKDGKRA----------VTHYRVL------------------------------ 215
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--DGHELHA 321
+ K+ LV +GRTHQIR+H Y+G + GD VY + +++ +G LHA
Sbjct: 216 --ERFKSNTLVECVLETGRTHQIRVHMAYIGHPLVGD----PVYGYKKQKFNLNGQMLHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
+ L F HP T + + LP + + L
Sbjct: 270 KKLGFIHPSTNEYIEFTSDLPDYFKKVLN 298
>gi|212556804|gb|ACJ29258.1| Pseudouridylate synthase, 23S RNA-specific [Shewanella
piezotolerans WP3]
Length = 256
Score = 80.9 bits (198), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 74/260 (28%), Positives = 114/260 (43%), Gaps = 44/260 (16%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LY+DE ++ +NKP G+ S+ P L DS + +L G L +RLD
Sbjct: 39 ILYQDEVMLLINKPSGLL--SLSGKNPANL--DSVHYRLVKLFPGCSL-------VHRLD 87
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS-GHGRSKFGA 204
TSG+MVI + + + L + F++ V K Y A+ +G + K + + + F
Sbjct: 88 FGTSGIMVIALNKDINALLCRQFSERSVLKRYTAILLGELKEDKGVICAAIAKDKPNFPL 147
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
++ G R + ++VLS GS +E +A+ +
Sbjct: 148 MKLCELE--------GKAARSL---YQVLSKEYLGSANSAAE-------------RALDE 183
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN-GKRYDGHELHAES 323
+ E+ P +GRTHQ+R+H QY+G I G Y Y R LHA
Sbjct: 184 VSVTRVELT----PETGRTHQLRIHSQYIGHPIIGCDLYGSAYSRQLASRL---MLHATR 236
Query: 324 LSFDHPVTGCPVMVQAPLPL 343
L FDHPVTG V+ +P P
Sbjct: 237 LEFDHPVTGVRVLGYSPCPF 256
>gi|410632029|ref|ZP_11342700.1| 23S rRNA pseudouridine955/2504/2580 synthase [Glaciecola arctica
BSs20135]
gi|410148565|dbj|GAC19567.1| 23S rRNA pseudouridine955/2504/2580 synthase [Glaciecola arctica
BSs20135]
Length = 317
Score = 80.9 bits (198), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 76/263 (28%), Positives = 109/263 (41%), Gaps = 62/263 (23%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+WL+ +NKP G ++ A + L L +RLD
Sbjct: 95 ILYEDDWLIVLNKPSGTAVHGGSGLSFGVIEALRALRPQQKF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG ++I K L + D KV K Y AL G P
Sbjct: 145 RDTSGCLLIAKKRSALKNLHEQLRDRKVDKRYQALVAGEWP------------------- 185
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
R ++++ + S E ++ V+ EG +PSE + +L+
Sbjct: 186 -------ANRFKVKAPLLKNTLKSGERIVLVDDEG---KPSE-----------TRYRILE 224
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY------EGVYEWNGKRYDGHE 318
+ + LV A P +GRTHQIR+HC + G I D +Y + Y+ KR
Sbjct: 225 SFNQAT--LVEASPITGRTHQIRVHCLHAGHPIAADNRYGDKDFDQRTYKLGLKRL---F 279
Query: 319 LHAESLSFDHPVTGCPVMVQAPL 341
LHA SL+F HP T V +APL
Sbjct: 280 LHAHSLAFIHPNTDERVSYKAPL 302
>gi|85373063|ref|YP_457125.1| pseudouridine synthase D large subunit [Erythrobacter litoralis
HTCC2594]
gi|84786146|gb|ABC62328.1| pseudouridine synthase D large subunit [Erythrobacter litoralis
HTCC2594]
Length = 322
Score = 80.9 bits (198), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 74/277 (26%), Positives = 116/277 (41%), Gaps = 50/277 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
DV++EDE L+ VNKP G+ + L G+LS G + + +R+
Sbjct: 89 DVVFEDEHLLVVNKPAGMVVHPAAGNPDGTLVNALLHHCRGQLS-GIN-GVARPGIVHRI 146
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG++V+ K+ L F +H +++ Y+ALC G P TI GRS+
Sbjct: 147 DKDTSGLLVVAKTDNAHEGLAAQFAEHTINRRYLALCAG-HPNPAEGTIEGRIGRSE--- 202
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
D ++ P E S +H + ++
Sbjct: 203 ------RDRKKMAP----------------------LPEDSSRGKHAVTHYKTLRRL--- 231
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR-------YDGH 317
++ L+ +GRTHQ+R+HCQ +G + GD Y + G R +
Sbjct: 232 ----RDCALIECRLETGRTHQVRVHCQSIGHPLLGDPTYG--RDPKGLRPILKELGFARQ 285
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
LHA L F+HPVTG V A LP E + +++
Sbjct: 286 ALHAAMLGFEHPVTGQWVEFTADLPADMQELIDETAR 322
>gi|383787005|ref|YP_005471574.1| RluA family pseudouridine synthase [Fervidobacterium pennivorans
DSM 9078]
gi|383109852|gb|AFG35455.1| pseudouridine synthase, RluA family [Fervidobacterium pennivorans
DSM 9078]
Length = 344
Score = 80.9 bits (198), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 77/266 (28%), Positives = 113/266 (42%), Gaps = 59/266 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASV------PCLLAGDSAESKSGRLSEGTKLNLLEL 138
D++YED ++ +NK G+ + + L + G L G
Sbjct: 112 DIIYEDRDILVINKQPGIITHPIPSHTSGTIVNAVLYHCKDLQGVGGVLRPG-------- 163
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
+ +RLD+DTSGVMVI K+ L K F D K Y+ L G K
Sbjct: 164 -IVHRLDKDTSGVMVIAKNDLAHQSLTKQFKDRVTEKLYVCLVKGVPEK----------- 211
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
D+ + V+R +T + ++ +P+ L ++ V+
Sbjct: 212 ----------NEGDINVSIARNPVLRVKMTV-------TQSAYGKPA-LTHYK----VIR 249
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE 318
K L + LV A+P++GRTHQIR+H +YLG + GD Y E +++D H
Sbjct: 250 KFGNLAS-------LVFAWPKTGRTHQIRVHMKYLGHPLMGDEVYGKAKE--DEKFDIHR 300
Query: 319 --LHAESLSFDHPVTGCPVMVQAPLP 342
LHA SLSF HP TG V A LP
Sbjct: 301 QMLHALSLSFFHPRTGERVKFIARLP 326
>gi|429760194|ref|ZP_19292682.1| pseudouridine synthase, RluA family [Veillonella atypica KON]
gi|429178038|gb|EKY19323.1| pseudouridine synthase, RluA family [Veillonella atypica KON]
Length = 306
Score = 80.9 bits (198), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 76/266 (28%), Positives = 121/266 (45%), Gaps = 56/266 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE------L 138
+++YEDE ++AVNK GV L ++ + G L+ G E
Sbjct: 80 EIVYEDEHILAVNKAAGV------------LMHPTSTVRDGTLANGVLYYYDETEQAHDF 127
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
H +RLD+DTSG+++I K+ V K T K K Y A+ G P + +TI
Sbjct: 128 HPVHRLDKDTSGIVIIAKTSVVQHAFDKQRT--KFKKVYDAIVEGTMPS-QSLTI----- 179
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
W +GR GS++ TS G+ + + + L H +V
Sbjct: 180 -----KW------PIGR--KAGSIIERCCTSI------GKPARTDVTVLARH-----IVS 215
Query: 259 KKAVLDADAKKNEIL--VRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
+ ++ + ++L V+ +GRTHQIR+H +LG + GD Y G ++ ++
Sbjct: 216 QPVQMNKNLSTQQVLTHVQCVLHTGRTHQIRVHLSHLGCPLAGDDLYGGHLDYIRRQ--- 272
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L+F HP+T V ++APLP
Sbjct: 273 -ALHAGYLAFTHPMTQEYVELRAPLP 297
>gi|392382839|ref|YP_005032036.1| pseudouridine synthase [Azospirillum brasilense Sp245]
gi|356877804|emb|CCC98656.1| pseudouridine synthase [Azospirillum brasilense Sp245]
Length = 350
Score = 80.9 bits (198), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 82/282 (29%), Positives = 117/282 (41%), Gaps = 75/282 (26%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLLA--GDSAESKSGRLSEGTKLNLLE 137
DV+YEDE ++ ++KP G+ + V LLA GDS G G
Sbjct: 107 DVVYEDEDVLVIDKPAGMVVHPAAGNPDGTLVNALLAHCGDSLSGIGGVRRPG------- 159
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISG 196
+ +RLD+DTSG+MV+ K+ + L + F+ +S+TY AL G P+P+ RI
Sbjct: 160 --IVHRLDKDTSGLMVVAKNDRAHHALTEQFSGRTLSRTYQALVWGVPSPREGRIE--GN 215
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
GRS ++ V+ GG + T + V+ G
Sbjct: 216 IGRSSTDRKKMA-------VVTGGG--KHAATRYRVVRSFGTAL---------------- 250
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY------------- 303
LV +GRTHQIR+H ++G I GD Y
Sbjct: 251 ---------------ALVECTLETGRTHQIRVHMAHIGHPIVGDPLYGKGRAGRAGGKHA 295
Query: 304 EGVYEWNGKRYDG---HELHAESLSFDHPVTGCPVMVQAPLP 342
+ E + +R+ G LHA L+F HP TG V QAPLP
Sbjct: 296 SALPEPDRERFVGFPRQALHAVGLTFRHPATGETVRFQAPLP 337
>gi|304389009|ref|ZP_07371056.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis ATCC 13091]
gi|385342762|ref|YP_005896633.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis M01-240149]
gi|385856345|ref|YP_005902857.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis NZ-05/33]
gi|416167879|ref|ZP_11607759.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis OX99.30304]
gi|416181350|ref|ZP_11611596.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis M13399]
gi|416186231|ref|ZP_11613592.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis M0579]
gi|304337143|gb|EFM03330.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis ATCC 13091]
gi|325131027|gb|EGC53753.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis OX99.30304]
gi|325135123|gb|EGC57750.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis M13399]
gi|325137030|gb|EGC59626.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis M0579]
gi|325202968|gb|ADY98422.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis M01-240149]
gi|325207234|gb|ADZ02686.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis NZ-05/33]
Length = 330
Score = 80.9 bits (198), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 77/265 (29%), Positives = 112/265 (42%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
DV+YED+ L+ ++KP GV V V L E+K L L
Sbjct: 95 DVVYEDDALLVIDKPSGVAVHGGSGVSFGVIEQLRRARPEAKY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H +
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVKLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LFKYTGAQGEKMVRVSADGQSAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P++++ LP
Sbjct: 290 FLHASELHLNHPLTGEPLVLKVGLP 314
>gi|444348453|ref|ZP_21156113.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans serotype b str. S23A]
gi|443546966|gb|ELT56548.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans serotype b str. S23A]
Length = 285
Score = 80.9 bits (198), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 72/265 (27%), Positives = 112/265 (42%), Gaps = 66/265 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++ED +L+ +NKP G+ ++ A + R L L +RLD
Sbjct: 63 IIFEDNYLLVLNKPSGIAVHGGSGLDFGVIEALRALRPAARF----------LELVHRLD 112
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + V K Y+AL G +W+
Sbjct: 113 RDTSGILLVAKKRSALRNLHEQLREKTVQKDYLALVRG---QWQ-------------SHC 156
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + L GG ++ V+ +G +PSE VE++
Sbjct: 157 KVVQAPLLKNELAGGE---------RIVKVSEQG---KPSE------TRFSVEERYT--- 195
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------- 318
N L++A P +GRTHQIR+H QY G I D KY K +D H
Sbjct: 196 ----NATLIKASPVTGRTHQIRVHTQYAGHPIAFDSKY------GDKEFDQHMVELGLNR 245
Query: 319 --LHAESLSFDHPVTGCPVMVQAPL 341
LHA ++ F+HP +G + + APL
Sbjct: 246 LFLHAYTIRFEHPHSGETLRLTAPL 270
>gi|332525768|ref|ZP_08401915.1| RluA family pseudouridine synthase [Rubrivivax benzoatilyticus JA2]
gi|332109325|gb|EGJ10248.1| RluA family pseudouridine synthase [Rubrivivax benzoatilyticus JA2]
Length = 305
Score = 80.9 bits (198), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 76/264 (28%), Positives = 108/264 (40%), Gaps = 57/264 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
VL+EDE L+A+ KP GV G S + + L L +RLD
Sbjct: 82 VLFEDEHLLAIAKPAGVAVHG----------GSGVSSGVIEQLRRARPDARFLELVHRLD 131
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH-GRSKFGA 204
++TSGV+++ K + L F K Y+AL +G PK ++ ++ H G G
Sbjct: 132 KETSGVLLLAKKRSALTALQDQFRARDTGKNYLALVVGVWPKKLKVLDLALHKGTDAAGE 191
Query: 205 WRV-YAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
V A+D +VVR SV G +
Sbjct: 192 RHVRVVAADAPDARRSITVVR---------SVRAVGPYS--------------------- 221
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG-----KRYDGHE 318
L+ ++GRTHQIR+H + G I GD KY G + N KR+
Sbjct: 222 ---------LLEIGLKTGRTHQIRVHLAHSGHPIVGDPKY-GDFALNKTVAREKRFARMF 271
Query: 319 LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L+FDHP +G + + APLP
Sbjct: 272 LHAVELAFDHPASGERITLHAPLP 295
>gi|420263260|ref|ZP_14765898.1| pseudouridylate synthase [Enterococcus sp. C1]
gi|394769548|gb|EJF49393.1| pseudouridylate synthase [Enterococcus sp. C1]
Length = 302
Score = 80.9 bits (198), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 79/278 (28%), Positives = 116/278 (41%), Gaps = 67/278 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN--- 142
++Y+D + +NKPQG+ SA +G L ++ +L N
Sbjct: 81 IVYQDADVAVINKPQGMVVHP------------SAGHPNGTLVNALLYHMDDLSTINDVV 128
Query: 143 ------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
R+D+DTSG+++I K+ + L K D + Y+AL G K TI +
Sbjct: 129 RPGIVHRIDKDTSGLLMIAKNDQAHESLAKQLKDKTSLRKYVALVHGTISHEKG-TINAP 187
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
GRSK ++ A + G+ P VT F VL E E +
Sbjct: 188 IGRSKVN-RKMQAVIENGK--PA-------VTHFTVL---------------ERFEQFTL 222
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
VE + +GRTHQIR+H QY+G + GD Y G +G
Sbjct: 223 VELQL-----------------ETGRTHQIRVHMQYIGFPLAGDPLYGPKRTLKG---NG 262
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
LHA+ L F HP TG ++ +APLP T+ L+ K
Sbjct: 263 QFLHAKLLGFTHPTTGESLVFEAPLPELFTDTLKKLRK 300
>gi|251789227|ref|YP_003003948.1| pseudouridine synthase, RluA family [Dickeya zeae Ech1591]
gi|247537848|gb|ACT06469.1| pseudouridine synthase, RluA family [Dickeya zeae Ech1591]
Length = 320
Score = 80.9 bits (198), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 79/259 (30%), Positives = 112/259 (43%), Gaps = 54/259 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ L+ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDHLLLLNKPSGTAVHGGSGLSFGVIEGLRALRPDARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + K Y+AL G +W+ H +S
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLRGKGMQKDYLALVRG---QWQ------SHCKS----- 190
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A + VL G ++ VN EG +PSE VE++ D
Sbjct: 191 --VQAPLLKNVLQSGE---------RIVRVNSEG---KPSE------TLFKVEER--FDC 228
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYEWNGKRYDGHELHAE 322
LVRA P +GRTHQIR+H QY G I D +Y + + G LHA+
Sbjct: 229 -----ATLVRASPVTGRTHQIRVHTQYAGHPIAFDDRYGDRDFDAQLTGTGLKRLFLHAQ 283
Query: 323 SLSFDHPVTGCPVMVQAPL 341
+L F+HP TG + ++APL
Sbjct: 284 ALRFEHPHTGEMLRIEAPL 302
>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 = 80.9 bits (198), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 77/265 (29%), Positives = 106/265 (40%), Gaps = 61/265 (23%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
DV+YED ++ VNKP+G+ + + L + G S G L G
Sbjct: 80 DVVYEDGDVIVVNKPKGLVVHPAPGHPDGTLVNALLHHCGSSLSGIGGVLRPG------- 132
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+DRDTSG+++ K+ KL DH +++TY + +G + SG
Sbjct: 133 --IVHRIDRDTSGLIIAAKNDFAHQKLAAQLQDHTLARTYECIVLG------NLKEESGS 184
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
+ G R V+PGG R VT +EV++
Sbjct: 185 VDAPIG--RCPGDRKKQAVVPGG---RRAVTHWEVVA----------------------- 216
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
VR +GRTHQIR+H YLG I GD Y G G
Sbjct: 217 ---------RYSGYTHVRCRLETGRTHQIRVHMAYLGHPILGDTVYGAKKPVPG--LHGQ 265
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L F HP TG PV + PLP
Sbjct: 266 CLHAVGLRFIHPRTGKPVELSCPLP 290
>gi|153940691|ref|YP_001390824.1| RluA family pseudouridine synthase [Clostridium botulinum F str.
Langeland]
gi|384461876|ref|YP_005674471.1| RluA family pseudouridine synthase [Clostridium botulinum F str.
230613]
gi|152936587|gb|ABS42085.1| pseudouridine synthase, RluA family [Clostridium botulinum F str.
Langeland]
gi|295318893|gb|ADF99270.1| pseudouridine synthase, RluA family [Clostridium botulinum F str.
230613]
Length = 305
Score = 80.9 bits (198), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 69/263 (26%), Positives = 118/263 (44%), Gaps = 54/263 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D++YED+ ++ VNKPQ E V+ P + +G + + + +N + + +R
Sbjct: 81 DIIYEDKDVIVVNKPQ----EMVVHPAPGVYSGTLVNALLHHCKDLSGINGVARPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++V+ K+ + L F +H +S+ Y+AL G K+++ TI + GR
Sbjct: 137 IDKDTSGILVVAKNDISHNNLAAQFKEHSISRVYMALVEG-IIKYEQGTIEAPIGRHPVD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ D R VT ++V+
Sbjct: 196 RIKMAVVKD----------GRHAVTHYKVI------------------------------ 215
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD--GHELHA 321
+ KN LV +GRTHQIR+H ++ + GD VY + +R++ G LHA
Sbjct: 216 --ERFKNHTLVECRLETGRTHQIRVHMSHIMHPLVGD----PVYGYKKQRFNLKGQMLHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLW 344
+ L F HP T V ++ LP +
Sbjct: 270 KLLGFIHPTTRQYVEFESELPEY 292
>gi|427407864|ref|ZP_18898066.1| RluA family pseudouridine synthase [Sphingobium yanoikuyae ATCC
51230]
gi|425713827|gb|EKU76839.1| RluA family pseudouridine synthase [Sphingobium yanoikuyae ATCC
51230]
Length = 316
Score = 80.9 bits (198), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 81/306 (26%), Positives = 126/306 (41%), Gaps = 74/306 (24%)
Query: 47 QNYPTPLSPP--LPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYC 104
Q+Y L P L A+++DI L D+++ED L+ V+KP G+
Sbjct: 63 QDYSITLPAPVALDAVAQDIPL------------------DIVHEDADLIVVDKPAGLVV 104
Query: 105 ESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKL 164
++ L G+LS G + + +R+D+DTSG++V+ KS K L
Sbjct: 105 HPAAGNLDGTLVNALLHHCDGQLS-GIG-GVARPGIVHRIDKDTSGLLVVAKSDKAHEGL 162
Query: 165 VKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVV 223
+ F DH + + Y A+ G P P G AW SD R
Sbjct: 163 ARQFKDHSIDRLYAAIVYGIPTP-----------GSGTVDAW--IGRSDADR-------- 201
Query: 224 RDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRT 283
+ ++V+ EG K H + V ++ + +V +GRT
Sbjct: 202 -------KKMAVHREGRGK-------HAVTHYRVMERL-------RGAAMVECRLETGRT 240
Query: 284 HQIRLHCQYLGISIRGDVKY-------EGVYEWNGKRYDGHELHAESLSFDHPVTGCPVM 336
HQ+R+H +LG + GD Y + + E G + LHA+ L F HPVT P+
Sbjct: 241 HQVRVHMAHLGHPLIGDPVYGRDRKGFKSILETLG--FKRQALHAKRLGFIHPVTEEPLA 298
Query: 337 VQAPLP 342
+PLP
Sbjct: 299 FDSPLP 304
>gi|357015132|ref|ZP_09080131.1| RluA family pseudouridine synthase [Paenibacillus elgii B69]
Length = 290
Score = 80.9 bits (198), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 79/280 (28%), Positives = 120/280 (42%), Gaps = 59/280 (21%)
Query: 66 LTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSG 125
L R S + + + +VL+ED++ + +KP G+ S G + G
Sbjct: 55 LLRLFPEESLQYMPEWTGIEVLFEDDFCLVADKPAGMKVHPTGES-----EGGTLLHAVG 109
Query: 126 RLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPA 185
E T + H+ +RLD DT+G +++ K +L +A + KV +TY+AL G
Sbjct: 110 WHLESTGQSCRPRHI-HRLDEDTTGPVLMAKYPWAQVRLDEAMREKKVERTYVALVHG-- 166
Query: 186 PKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPS 245
R++ G + G R +A RV PGG VT +EV+
Sbjct: 167 ----RLSPNRGRVDAPIGRDRHHATRR--RVSPGGERA---VTHYEVV------------ 205
Query: 246 ELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG 305
++ ++ LVR +GRTHQIR+H YLG + GD Y
Sbjct: 206 --------------------ESYRSATLVRLRLETGRTHQIRVHLSYLGHPLIGDTLY-- 243
Query: 306 VYEWNGKRYDGHE---LHAESLSFDHPVTGCPVMVQAPLP 342
G R +G E LH E L+F HP +G + VQ+P P
Sbjct: 244 -----GGRSEGMERQALHGERLTFPHPWSGESIEVQSPWP 278
>gi|297583963|ref|YP_003699743.1| RluA family pseudouridine synthase [Bacillus selenitireducens
MLS10]
gi|297142420|gb|ADH99177.1| pseudouridine synthase, RluA family [Bacillus selenitireducens
MLS10]
Length = 307
Score = 80.9 bits (198), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 73/272 (26%), Positives = 119/272 (43%), Gaps = 50/272 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D++YED+ ++ VNKP G+ V+ P +G + + +N + + +R
Sbjct: 79 DIVYEDQDVIVVNKPAGM----VVHPAPGHPSGTLVNGLMYHCQDLSGINGVARPGIVHR 134
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K K LV + + Y AL +G P K T+ + GR
Sbjct: 135 IDKDTSGLLMVAKHDKAHESLVDQLKNKTTIRQYEALVVGTIPHEKG-TVDAPIGRD--- 190
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLS-VNGEGSFKEPSELQEHEENNIVVEKKAV 262
D ++ RD VT F+V+ +NG +++ E +
Sbjct: 191 ------PQDRQKMTVTEENARDAVTHFQVIERMNGY--------------THVLCELE-- 228
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
+GRTHQIR+H +Y+G I GD KY G + + +G LHA
Sbjct: 229 -----------------TGRTHQIRVHMKYIGYPIVGDPKY-GPRKKHDFSIEGQALHAR 270
Query: 323 SLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
+L F HPVTG + +A +P E L +
Sbjct: 271 TLGFVHPVTGEQMTFEAEVPERFKETLDQMKR 302
>gi|16125533|ref|NP_420097.1| ribosomal large subunit pseudouridine synthase D [Caulobacter
crescentus CB15]
gi|221234280|ref|YP_002516716.1| ribosomal large subunit pseudouridine synthase C [Caulobacter
crescentus NA1000]
gi|13422619|gb|AAK23265.1| ribosomal large subunit pseudouridine synthase D [Caulobacter
crescentus CB15]
gi|220963452|gb|ACL94808.1| ribosomal large subunit pseudouridine synthase C [Caulobacter
crescentus NA1000]
Length = 270
Score = 80.9 bits (198), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 78/272 (28%), Positives = 111/272 (40%), Gaps = 70/272 (25%)
Query: 82 SRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL----- 136
++S VLYEDE ++ +NKP G+ S+ GR+ T +LL
Sbjct: 32 AQSWVLYEDETIIVLNKPAGL------------------SSQGGRIKAHTLDDLLWAFAR 73
Query: 137 ----ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRIT 192
L +RLDRDTSGV++ K+ A+ L KA + K+Y+A+ G AP+ K
Sbjct: 74 PNRPRPKLVHRLDRDTSGVILTAKTKPAAAMLGKALEAKRFRKSYLAIVAG-APEPKGGM 132
Query: 193 IISGHGRSKFG--AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
I S R G A+ D P R + + L+ NG +
Sbjct: 133 IDSPLRRESIGREAYMRVCEPD----HPDAETAR---SRYRTLAHNGLAA---------- 175
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
LV P +GR HQ+R+H +G + GD +Y G
Sbjct: 176 ----------------------LVELSPDTGRMHQLRVHMASIGRPLAGDSRYGGALMLG 213
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA SL+F HP+ G + APLP
Sbjct: 214 GVPAPRLMLHAASLAFPHPLGGE-RKILAPLP 244
>gi|423455161|ref|ZP_17432014.1| RluA family pseudouridine synthase [Bacillus cereus BAG5X1-1]
gi|401134944|gb|EJQ42551.1| RluA family pseudouridine synthase [Bacillus cereus BAG5X1-1]
Length = 307
Score = 80.9 bits (198), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 78/270 (28%), Positives = 116/270 (42%), Gaps = 75/270 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA--- 141
+V++ED+ ++ VNKP+ + + P SG+ GT NL+ H
Sbjct: 86 NVVFEDDHVLIVNKPEQ------MDTHP-----------SGKNGTGTLANLVAFHFQMQG 128
Query: 142 --------NRLDRDTSGVMVITKSHKVASKLV-KAFTDHKVSKTYIALCIGPAPKWKRIT 192
+RLD+DT+G +V K H++A ++ + + K+ +TY AL G K K+ T
Sbjct: 129 LETKVRHIHRLDKDTTGGVVFAK-HRIAGAIMDRLLMERKIKRTYTALVEGKVKK-KQGT 186
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
I GR + A R RV P G +T ++V E FK
Sbjct: 187 IDEAIGRDRHHATRR-------RVSPKGD---QAITYYKV-----EKYFK---------- 221
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
K+N LV +GRTHQIR+H Y G + GDV Y G K
Sbjct: 222 ---------------KQNATLVTLQLETGRTHQIRVHMSYNGNPLVGDVLYGG----QTK 262
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA ++F HP+T +++ P P
Sbjct: 263 YMSGQALHAMKINFLHPITKEEIVLDVPFP 292
>gi|299470964|emb|CBN79948.1| Pseudouridine synthase, RluD [Ectocarpus siliculosus]
Length = 489
Score = 80.9 bits (198), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 78/280 (27%), Positives = 120/280 (42%), Gaps = 62/280 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLL------AGDS-----AESKSGRLS 128
D+LYED+ ++AV+KP G+ S V L+ D AE+ +
Sbjct: 181 DILYEDDEIIAVSKPAGMVVHPAPGSWNGTFVNALVFHLEKSGADGNGLGVAEAAFQSVP 240
Query: 129 EGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKW 188
+G L + +RLD+ T+GV++ K+ + +KL + F ++SK+Y+A+C+G K
Sbjct: 241 DGEHNPSLRPGIVHRLDKGTTGVLLAAKNPTMQAKLAELFAQRRISKSYLAVCVGNPGKA 300
Query: 189 KRITI-ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSEL 247
I + I H R + R+ A ++ + S LSV +F
Sbjct: 301 ATIDVPIGRHPRDR---QRMVAV----------PTIQPNIRSRRALSVVTTVAF------ 341
Query: 248 QEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVY 307
D E+ + +GRTHQIR+H Q+ + GD Y G
Sbjct: 342 ----------------DGKLSVAEVSI----ETGRTHQIRVHLQHRRTPVLGDEVY-GNN 380
Query: 308 EWNGKRYDGHE-----LHAESLSFDHPVTGCPVMVQAPLP 342
+WN + LHA SL F HP TG V + APLP
Sbjct: 381 DWNRRLRQSTGLTRPLLHARSLEFKHPNTGEVVSLAAPLP 420
>gi|226330541|ref|ZP_03806059.1| hypothetical protein PROPEN_04459 [Proteus penneri ATCC 35198]
gi|225201336|gb|EEG83690.1| pseudouridine synthase, RluA family [Proteus penneri ATCC 35198]
Length = 317
Score = 80.9 bits (198), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 75/260 (28%), Positives = 113/260 (43%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ L+ +NKP G ++ G A R L L +RLD
Sbjct: 94 ILYEDDHLMLINKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 143
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV++I K L + ++ K Y+AL G +W+ T
Sbjct: 144 RDTSGVLLIAKKRSALRALHEQLRLKQMQKDYLALVRG---QWQSHT------------- 187
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G V+ V+ EG +PSE + E
Sbjct: 188 KVVQAPLLKNILQSGE---------RVVKVSNEG---KPSETRFKVEERF---------- 225
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
+ LV+A P +GRTHQIR+H + G I D +Y G +++ G + + LHA
Sbjct: 226 ---EFATLVKASPVTGRTHQIRVHTLHAGHPIAFDDRY-GDRDFDSQLVGTKLNRLFLHA 281
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
SL+F HP TG + ++AP+
Sbjct: 282 SSLTFTHPSTGDQMRIEAPM 301
>gi|402306779|ref|ZP_10825817.1| rRNA pseudouridylate synthase C [Haemophilus sputorum HK 2154]
gi|400374207|gb|EJP27128.1| rRNA pseudouridylate synthase C [Haemophilus sputorum HK 2154]
Length = 320
Score = 80.9 bits (198), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 72/262 (27%), Positives = 112/262 (42%), Gaps = 55/262 (20%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
+LYEDE L+ +NKP G+ ++ A R L L +R
Sbjct: 96 QQILYEDEVLLVINKPSGIAVHGGSGLNFGVIEALRALRPQARF----------LELVHR 145
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DRDTSG++++ K L + + V K Y+AL G
Sbjct: 146 IDRDTSGILLVAKKRSALRHLHEQLREKTVQKDYLALV--------------------RG 185
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
W+ + + +L ++ + ++ V+ G +PSE +E++
Sbjct: 186 QWQSHVKAIKAPLLKN-----ELASGERIVKVSEAG---KPSE------TRFQIEERYGQ 231
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
+A LV+A P +GRTHQIR+H QY G I D KY G E++ K + L
Sbjct: 232 EA------TLVKASPVTGRTHQIRVHTQYAGHPIACDDKY-GEAEFDAKMQTLGLNRLFL 284
Query: 320 HAESLSFDHPVTGCPVMVQAPL 341
HA S+ F HP TG +++ APL
Sbjct: 285 HAYSIRFTHPKTGEEMVITAPL 306
>gi|84515394|ref|ZP_01002756.1| ribosomal large subunit pseudouridine synthase D [Loktanella
vestfoldensis SKA53]
gi|84510677|gb|EAQ07132.1| ribosomal large subunit pseudouridine synthase D [Loktanella
vestfoldensis SKA53]
Length = 349
Score = 80.9 bits (198), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 76/286 (26%), Positives = 113/286 (39%), Gaps = 70/286 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVY-------CESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
DV++ED+ L+ +NKP G+ + L + GDS G G
Sbjct: 92 DVVFEDDDLIVINKPAGMVVHPAPGTADGTLVNALIHHCGDSLSGVGGLKRPG------- 144
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISG 196
+ +R+D+DTSG++V+ KS + L F DH V + YIA+C G P R+ I G
Sbjct: 145 --IVHRIDKDTSGLLVVAKSDRAHHHLADQFADHTVERRYIAVCYGVPEANDPRLRGIKG 202
Query: 197 HG---------RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSEL 247
+++ G R +D R + R VT +L+ G
Sbjct: 203 TSFEPGNILKIQTQLGRHR----TDRQRQAVSFTAGRHAVTRVRILAALG---------- 248
Query: 248 QEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVY 307
A LV + +GRTHQIR+H + G ++ GD Y
Sbjct: 249 -------------------AMPVAALVECWLETGRTHQIRVHLAHCGHALIGDPTYGSRR 289
Query: 308 EWNGK-----------RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ + K + LHA +L F HPVT + APLP
Sbjct: 290 KMSPKALGEAGVAAVAAFPRQALHAATLGFVHPVTEEFLEFSAPLP 335
>gi|442318450|ref|YP_007358471.1| RluA family pseudouridine synthase [Myxococcus stipitatus DSM
14675]
gi|441486092|gb|AGC42787.1| RluA family pseudouridine synthase [Myxococcus stipitatus DSM
14675]
Length = 309
Score = 80.9 bits (198), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 74/258 (28%), Positives = 103/258 (39%), Gaps = 55/258 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
VL+EDE ++AV+KP G+ + A V L D + GR E L +RLD
Sbjct: 84 VLFEDEEVLAVDKPAGLPAQPTEARVGGSLV-DQVSAYLGR----------EAGLVHRLD 132
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPA-PKWKRITIISGHGRSKFGA 204
R+TSGV V K + S L F K Y+A GP P + + S+ G
Sbjct: 133 RETSGVTVFGKEPRATSALAAEFRHGSARKRYVA-ATGPGLPASGTVDLPLSRDPSRPGR 191
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
WR A++ +P +T F L E
Sbjct: 192 WRATRAANG---VP-------ALTHFRTLYAGAE-------------------------- 215
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
+V P++GRTHQ+R H LG I GD +Y G G LHA++L
Sbjct: 216 ------FCVVELLPQTGRTHQLRAHLTALGAPILGDSRYGGAARVGGVEVARCLLHAQAL 269
Query: 325 SFDHPVTGCPVMVQAPLP 342
HP P+ ++AP+P
Sbjct: 270 ELLHPRWERPIRMEAPVP 287
>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 = 80.9 bits (198), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 75/271 (27%), Positives = 111/271 (40%), Gaps = 77/271 (28%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN--- 142
++YEDE + +NKPQG+ S + GT +N L H+ +
Sbjct: 80 IVYEDEDVAVINKPQGMVVHP-----------------SAGHTHGTMVNALMYHIKDLST 122
Query: 143 -----------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
R+D+DTSG++++ K+ + L + D + Y+AL G P K
Sbjct: 123 INGVIRPGIVHRIDKDTSGLLMVAKNDQAHESLAQQLKDKTSLRKYVALVHGEIPHEKG- 181
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
TI + GRSK ++ A + G+ VT F VL E
Sbjct: 182 TINAPIGRSKENR-KMQAIREDGK---------PAVTHFTVL---------------ERF 216
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
E +VE K +GRTHQIR+H +Y+G + GD Y G
Sbjct: 217 EGFTLVELKL-----------------ETGRTHQIRVHMKYIGYPLAGDPVYGPKKTLKG 259
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G LHA+ L F HP T ++ +APLP
Sbjct: 260 ---NGQFLHAQMLGFTHPTTNEKMIFEAPLP 287
>gi|354604250|ref|ZP_09022241.1| hypothetical protein HMPREF9450_01156 [Alistipes indistinctus YIT
12060]
gi|353348017|gb|EHB92291.1| hypothetical protein HMPREF9450_01156 [Alistipes indistinctus YIT
12060]
Length = 363
Score = 80.9 bits (198), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 72/280 (25%), Positives = 119/280 (42%), Gaps = 72/280 (25%)
Query: 85 DVLYEDEWLVAVNKPQGV--------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL 136
D+ YED+ L+ VNK G+ Y +++ ++ L D ++G + G
Sbjct: 110 DIRYEDDDLIIVNKAAGMVVHPGHGNYSGTLVNALTYHLK-DLPLFQNGDMRAG------ 162
Query: 137 ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
L +R+D++TSG++VI K+ + ++L K F DH + + Y AL G + + T+
Sbjct: 163 ---LVHRIDKNTSGILVIAKNERAHARLAKQFYDHTIDRVYCALAWGNM-ESEEGTVTGN 218
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
GRS ++ V P G+ + VT ++VL
Sbjct: 219 VGRSLKDRMKM-------AVFPDGTQGKHAVTHYKVL----------------------- 248
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
E+ ++ L+ +GRTHQIR+H +Y+G + D +Y G G +
Sbjct: 249 -ERLGYVN--------LLECRLETGRTHQIRVHMEYIGHPLFNDERYGGDRILKGTTFSK 299
Query: 317 --------------HELHAESLSFDHPVTGCPVMVQAPLP 342
H LHA SL F HP TG + ++ LP
Sbjct: 300 YKQFVENCFQQLPRHALHARSLGFVHPSTGKYIYFESDLP 339
>gi|312130058|ref|YP_003997398.1| ribosomal large subunit pseudouridine synthase d [Leadbetterella
byssophila DSM 17132]
gi|311906604|gb|ADQ17045.1| ribosomal large subunit pseudouridine synthase D [Leadbetterella
byssophila DSM 17132]
Length = 347
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 73/279 (26%), Positives = 113/279 (40%), Gaps = 70/279 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYC-------ESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D++YED+ ++ VNK Q + + L + G+ ++ G + G
Sbjct: 101 DIVYEDDDVLLVNKAQEMVVHPGHGNPDGTLVNALVYHFGNLPSARDGEIRPG------- 153
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
L +R+D+ TSG++VI K+ L K F DH +TY AL G PK + TI +
Sbjct: 154 --LVHRIDKGTSGLLVIAKNEYALQFLAKQFADHTTERTYYALIWG-EPKEPKGTINAHI 210
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR + + V P G ++ +T +EVL S + S
Sbjct: 211 GRG-------FKDRRISDVFPEGEYGKEAITHYEVLK-----SLRYVS------------ 246
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
L++ +GRTHQIR H +YLG + D Y G G+ + +
Sbjct: 247 ---------------LIKCNLETGRTHQIRAHMKYLGHPLFNDAAYGGDRVLRGEIFSKY 291
Query: 318 E--------------LHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA+SL F HP T + + LP
Sbjct: 292 KQFVENCFEIIPRQALHAKSLGFIHPTTKKWMQFDSELP 330
>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 = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 70/263 (26%), Positives = 114/263 (43%), Gaps = 58/263 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P + G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHVTGTLVNGLMAHCNDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHG-VISHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + + + VT F VL F++ +
Sbjct: 196 RQSMTVTRESSK---------NAVTHFHVLE-----RFQDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTIDFNGQAL 267
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA L FDHP TG + +APLP
Sbjct: 268 HAGILGFDHPRTGEYMEFEAPLP 290
>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 = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 70/263 (26%), Positives = 114/263 (43%), Gaps = 58/263 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P + G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHVTGTLVNGLMAHCNDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHG-MISHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + + + VT F VL F++ +
Sbjct: 196 RQSMTVTRESSK---------NAVTHFHVLE-----RFQDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTVDFNGQAL 267
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA L FDHP TG + +APLP
Sbjct: 268 HAGILGFDHPRTGEYMEFEAPLP 290
>gi|325267840|ref|ZP_08134490.1| ribosomal large subunit pseudouridine synthase C [Kingella
denitrificans ATCC 33394]
gi|324980721|gb|EGC16383.1| ribosomal large subunit pseudouridine synthase C [Kingella
denitrificans ATCC 33394]
Length = 326
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 87/289 (30%), Positives = 129/289 (44%), Gaps = 60/289 (20%)
Query: 67 TRAMSASSKSSLYKL--SRSDVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAE 121
R ++KSSL + +++YED+ L+ VNKP GV V V L E
Sbjct: 72 VRTAEKTAKSSLQPVPARHFEIVYEDDALLVVNKPSGVAVHGGSGVSFGVIEQLRRARPE 131
Query: 122 SKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALC 181
+K L L +RLD+DTSG++++ K KL + + K Y AL
Sbjct: 132 AKY-------------LELVHRLDKDTSGLLMVAKKRSALVKLHEMLRNDHPKKIYWALG 178
Query: 182 IG---PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVL-SVNG 237
+G PA + R+ ++ G + RV +A D G S T F VL + +G
Sbjct: 179 VGTWQPALRHVRLPLVKYTGAAGEKMVRVGSAED------GQSAH----TVFRVLDTFSG 228
Query: 238 EGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISI 297
E +++ V ++++A K +GRTHQIR+H Q G I
Sbjct: 229 E------------RPHSVGVSALSLVEATLK-----------TGRTHQIRVHMQASGCPI 265
Query: 298 RGDVKYEGVYEWNGKR----YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
GD +Y G Y+ N + LHA SL DHP+TG +++QA LP
Sbjct: 266 AGDERY-GDYQANRRLQKLGLKRMFLHAYSLELDHPLTGEKLVLQAALP 313
>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 = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/271 (27%), Positives = 111/271 (40%), Gaps = 77/271 (28%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN--- 142
++YEDE + +NKPQG+ S + GT +N L H+ +
Sbjct: 80 IVYEDEDVAVINKPQGMVVHP-----------------SAGHTHGTMVNALMYHIKDLST 122
Query: 143 -----------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
R+D+DTSG++++ K+ + L + D + Y+AL G P K
Sbjct: 123 INGVIRPGIVHRIDKDTSGLLMVAKNDQAHESLAQQLKDKTSLRKYVALVHGEIPHEKG- 181
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
TI + GRSK ++ A + G+ VT F VL E
Sbjct: 182 TINAPIGRSKENR-KMQAIREDGK---------PAVTHFTVL---------------ERF 216
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
E +VE K +GRTHQIR+H +Y+G + GD Y G
Sbjct: 217 EGFTLVELKL-----------------ETGRTHQIRVHMKYIGYPLAGDPVYGPKKTLKG 259
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G LHA+ L F HP T ++ +APLP
Sbjct: 260 ---NGQFLHAQMLGFTHPTTNEKMIFEAPLP 287
>gi|339009228|ref|ZP_08641800.1| pseudouridine synthase [Brevibacillus laterosporus LMG 15441]
gi|338773706|gb|EGP33237.1| pseudouridine synthase [Brevibacillus laterosporus LMG 15441]
Length = 310
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/266 (28%), Positives = 113/266 (42%), Gaps = 64/266 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN----LLELHL 140
D++YED +V VNKP+G+ L L +G + L+ ++ +
Sbjct: 86 DIVYEDSDVVVVNKPRGLVVHPALGHYTGTLV-------NGLMHHCKDLSGINGVMRPGI 138
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
+R+D+DTSG+++I K+ K + L +H V++ Y+AL G P + TI + GR
Sbjct: 139 VHRIDKDTSGLLMIAKNDKAHASLAAQLKEHTVNRKYVALVHGEIPH-EMGTIDAPIGRD 197
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
R A G P VT F VL
Sbjct: 198 PKN--RQQMAVVFGNSKPA-------VTHFVVL--------------------------- 221
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDG 316
+ K+ LV +GRTHQIR+H +Y+G + GD KY G R +G
Sbjct: 222 -----ERMKDFTLVELKLETGRTHQIRVHMKYIGYPLAGDPKY-------GPRKTLDING 269
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLP 342
LHA++L F HP TG + +A +P
Sbjct: 270 QALHAKTLGFIHPSTGEYMEFEAEIP 295
>gi|293374677|ref|ZP_06620987.1| pseudouridine synthase, RluA family [Turicibacter sanguinis PC909]
gi|292646694|gb|EFF64694.1| pseudouridine synthase, RluA family [Turicibacter sanguinis PC909]
Length = 297
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/269 (27%), Positives = 112/269 (41%), Gaps = 76/269 (28%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL-------- 136
DV+YEDE+L+ +NKP G+ ++P L R E T N L
Sbjct: 82 DVVYEDEYLLVINKPAGI------PTIPSL-----------RHPEKTLANALIHYYNEHE 124
Query: 137 ---ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+H NRLDRDTSG++++ K + L K ++ + Y L G K T+
Sbjct: 125 IASTIHFVNRLDRDTSGLLMVAKYRHIHHLLTKDVK--QIKRKYYTLVKGVMEK-NSGTV 181
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+ R G R +D D +T ++VL V
Sbjct: 182 HAPIARESEGNVRRCVRADGD----------DSITHYQVLEV------------------ 213
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
EK +++ + + +GRTHQIR+H YLG + GD Y+ E+ +
Sbjct: 214 ---WEKLTLVECELE-----------TGRTHQIRVHMNYLGHPLVGDTLYD---EFALEL 256
Query: 314 YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+GH LH+ LSF HP+T + Q LP
Sbjct: 257 EEGHLLHSYELSFTHPITKERHLFQTDLP 285
>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 = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/271 (27%), Positives = 111/271 (40%), Gaps = 77/271 (28%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN--- 142
++YEDE + +NKPQG+ S + GT +N L H+ +
Sbjct: 80 IVYEDEDVAVINKPQGMVVHP-----------------SAGHTHGTMVNALMYHIKDLST 122
Query: 143 -----------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
R+D+DTSG++++ K+ + L + D + Y+AL G P K
Sbjct: 123 INGVIRPGIVHRIDKDTSGLLMVAKNDQAHESLAQQLKDKTSLRKYVALVHGEIPHEKG- 181
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
TI + GRSK ++ A + G+ VT F VL E
Sbjct: 182 TINAPIGRSKENR-KMQAIREDGK---------PAVTHFTVL---------------ERF 216
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
E +VE K +GRTHQIR+H +Y+G + GD Y G
Sbjct: 217 EGFTLVELKL-----------------ETGRTHQIRVHMKYIGYPLAGDPVYGPKKTLKG 259
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G LHA+ L F HP T ++ +APLP
Sbjct: 260 ---NGQFLHAQMLGFTHPTTNEKMIFEAPLP 287
>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 = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 81/281 (28%), Positives = 116/281 (41%), Gaps = 66/281 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
DVLYED+ L+ +NKP G+ L + GDS G G
Sbjct: 96 DVLYEDDELIVINKPAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGGVRRPG------- 148
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVS----KTYIALCIGPAPKWKRITI 193
+ +RLD++TSGVMV+ K+ + L +AF DH ++ + Y+AL G P+ +
Sbjct: 149 --IVHRLDKETSGVMVVAKTDRAHKSLSEAFADHGLTGDLERAYLALVWG-IPQRPTGRV 205
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGG-SVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
+ GR+ A RV A V+P G R VT F V GE Q+
Sbjct: 206 DAPLGRA---ADRVRRA-----VVPEGRDDARHAVTHFAVQERFGES--------QQEFA 249
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
+VE + +GRTHQIR+H ++G + GD Y +
Sbjct: 250 TASMVECRL-----------------ETGRTHQIRVHMAHIGHPVIGDPDYGQAFRTKAN 292
Query: 313 R-----------YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
R + LHA L+F HP T + +APLP
Sbjct: 293 RLPEPLKSQVKAFPRQALHAWLLAFRHPTTHLTMRFEAPLP 333
>gi|410085889|ref|ZP_11282603.1| Ribosomal large subunit pseudouridine synthase A [Morganella
morganii SC01]
gi|409767437|gb|EKN51513.1| Ribosomal large subunit pseudouridine synthase A [Morganella
morganii SC01]
Length = 253
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 71/259 (27%), Positives = 105/259 (40%), Gaps = 44/259 (16%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D+LY+DE L+ +NKP G+ S+ P L DS + +L G L +RL
Sbjct: 39 DILYQDEHLLLINKPAGLL--SLSGKNPQNL--DSVHYRLVQLFPGCTL-------VHRL 87
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG++++ ++ + + L + F++ V K Y AL + GH G
Sbjct: 88 DFGTSGLLLVARNKAINAALCRQFSERTVEKGYSAL-------------LCGHLNENEGI 134
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
D + + +V G+ P+ E + L
Sbjct: 135 IDAAITKDPA-----------LFPRMTICAVRGK-----PARSHYQVTERFYYETEDELS 178
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
+ V P +GRTHQ+R+HCQYLG I G Y G LHA L
Sbjct: 179 LPVTR----VALTPETGRTHQLRIHCQYLGHPILGCDLYGGKLLPGTGNIPRLMLHAGEL 234
Query: 325 SFDHPVTGCPVMVQAPLPL 343
F HPV+G PV ++P P
Sbjct: 235 DFVHPVSGEPVNARSPCPF 253
>gi|383759939|ref|YP_005438925.1| ribosomal large subunit pseudouridine synthase C RluC [Rubrivivax
gelatinosus IL144]
gi|381380609|dbj|BAL97426.1| ribosomal large subunit pseudouridine synthase C RluC [Rubrivivax
gelatinosus IL144]
Length = 305
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 74/264 (28%), Positives = 108/264 (40%), Gaps = 57/264 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+L+EDE L+A+ KP GV G S + + L L +RLD
Sbjct: 82 ILFEDEHLLAIAKPAGVAVHG----------GSGVSSGVIEQLRRARPDARFLELVHRLD 131
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH-GRSKFGA 204
++TSGV+++ K + L F K Y+AL +G PK ++ ++ H G G
Sbjct: 132 KETSGVLLLAKKRSALTALQDQFRARDTGKNYLALVVGAWPKKLKVLDLALHKGTDAAGE 191
Query: 205 WRV-YAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
V A+D ++VR SV G +
Sbjct: 192 RHVRVVAADAPDARRSITIVR---------SVRAVGPYS--------------------- 221
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG-----KRYDGHE 318
L+ ++GRTHQIR+H + G I GD KY G + N KR+
Sbjct: 222 ---------LLEIGLKTGRTHQIRVHLAHSGHPIVGDPKY-GDFALNKTVAREKRFARMF 271
Query: 319 LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L+FDHP +G + + APLP
Sbjct: 272 LHAVELAFDHPASGERITLHAPLP 295
>gi|337280513|ref|YP_004619985.1| uracil hydrolyase [Ramlibacter tataouinensis TTB310]
gi|334731590|gb|AEG93966.1| Uracil hydrolyase [Ramlibacter tataouinensis TTB310]
Length = 330
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 77/266 (28%), Positives = 115/266 (43%), Gaps = 41/266 (15%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
VL+EDE L+A+ KP GV + G + + R G K L L +RLD
Sbjct: 80 VLFEDEHLLAIAKPAGVAVHGG----SGVSFGVIEQLRQAR--PGAKF----LELVHRLD 129
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSG++++ K ++L F + + KTY+AL G P +++ + H + GA
Sbjct: 130 RETSGILLVAKRRSALTRLQDQFRERETGKTYLALVGGAWPASRKVIDVPLHKYLQAGAA 189
Query: 206 RVYAASD-----VGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
AS+ V + P G +V + LS+ L+E + +
Sbjct: 190 GTSGASERRVRVVAKDDPDGMRAITLVKVAQRLSLPPPPGEGGGGGLREATLLEVTI--- 246
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY-DGHE- 318
++GRTHQIR+H G I GD KY G +E N + G +
Sbjct: 247 ------------------KTGRTHQIRVHLASQGHPIAGDDKY-GDFELNKALHRQGLKR 287
Query: 319 --LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L F HP + V + APLP
Sbjct: 288 MFLHACRLQFLHPASLARVELLAPLP 313
>gi|421492075|ref|ZP_15939437.1| hypothetical protein MU9_0604 [Morganella morganii subsp. morganii
KT]
gi|455739547|ref|YP_007505813.1| Ribosomal large subunit pseudouridine synthase A [Morganella
morganii subsp. morganii KT]
gi|400193835|gb|EJO26969.1| hypothetical protein MU9_0604 [Morganella morganii subsp. morganii
KT]
gi|455421110|gb|AGG31440.1| Ribosomal large subunit pseudouridine synthase A [Morganella
morganii subsp. morganii KT]
Length = 253
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 71/259 (27%), Positives = 105/259 (40%), Gaps = 44/259 (16%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D+LY+DE L+ +NKP G+ S+ P L DS + +L G L +RL
Sbjct: 39 DILYQDEHLLLINKPAGLL--SLSGKNPQNL--DSVHYRLVQLFPGCTL-------VHRL 87
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG++++ ++ + + L + F++ V K Y AL + GH G
Sbjct: 88 DFGTSGLLLVARNKAINAALCRQFSERTVEKGYSAL-------------LCGHLNENEGI 134
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
D + + +V G+ P+ E + L
Sbjct: 135 IDAAITKDPA-----------LFPRMTICAVRGK-----PARSHYQVTERFYYETEDGLS 178
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
+ V P +GRTHQ+R+HCQYLG I G Y G LHA L
Sbjct: 179 LPVTR----VALTPETGRTHQLRIHCQYLGHPILGCDLYGGKLLPGTGNIPRLMLHAGEL 234
Query: 325 SFDHPVTGCPVMVQAPLPL 343
F HPV+G PV ++P P
Sbjct: 235 DFVHPVSGEPVNARSPCPF 253
>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 = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/280 (26%), Positives = 113/280 (40%), Gaps = 63/280 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+LYED+ ++ +NKP G+ L + G+S G G
Sbjct: 82 DILYEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIYHCGNSLSGIGGVKRPG------- 134
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH----KVSKTYIALCIGPAPKWKRITI 193
+ +RLD++TSGVMV+ K+ L F+DH + + Y AL G P TI
Sbjct: 135 --VVHRLDKNTSGVMVVAKNDLAHKSLSAQFSDHGRTCALDRRYHALIWG-TPHRNVWTI 191
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+ GRS + + V + P R VT F +L G
Sbjct: 192 DASLGRSPHNRTK---QAVVHKQTPHA---RHAVTHFSLLEKYGT--------------- 230
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK- 312
AD+ L+ +GRTHQIR+H ++G + GD Y ++
Sbjct: 231 ----------HADSTSFASLLECRLETGRTHQIRVHMAHIGHPLIGDTVYGNAFKTKSNT 280
Query: 313 ----------RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+++ H LHA SL+F+HP +G + APLP
Sbjct: 281 LNPTLKNAIDQFNRHALHAASLTFEHPSSGKVISFSAPLP 320
>gi|134298263|ref|YP_001111759.1| RluA family pseudouridine synthase [Desulfotomaculum reducens MI-1]
gi|134050963|gb|ABO48934.1| pseudouridine synthase, RluA family [Desulfotomaculum reducens
MI-1]
Length = 303
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 72/262 (27%), Positives = 110/262 (41%), Gaps = 65/262 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE------LH 139
++ EDE + VNK G+ LA SG L+ G + LE H
Sbjct: 85 IISEDEDIALVNKQPGMCVHPTLAY------------PSGTLANGLVYHWLENNPAPTFH 132
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
NR+DR+TSG++++ K+ A KL +++++Y+AL G I+ +G
Sbjct: 133 AVNRIDRNTSGLVLVAKNSYSAQKLFLQRKRKQLARSYVALVHG--------KIVQRNGY 184
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
+ + ++ G + +T FEVL
Sbjct: 185 IDLPLEKCEGKTTKRQISSTG---QQALTRFEVL-------------------------- 215
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
+ + D L+R P +GRTHQIR+H +LG + GD Y G G+ H L
Sbjct: 216 QYITDCT------LIRLMPETGRTHQIRVHLSHLGHPLVGDTLYGGSIAQIGR----HCL 265
Query: 320 HAESLSFDHPVTGCPVMVQAPL 341
HA+ +SF HP TG P+ Q PL
Sbjct: 266 HADKISFLHPRTGHPMSFQIPL 287
>gi|159042871|ref|YP_001531665.1| ribosomal large subunit pseudouridine synthase C [Dinoroseobacter
shibae DFL 12]
gi|157910631|gb|ABV92064.1| ribosomal large subunit pseudouridine synthase C [Dinoroseobacter
shibae DFL 12]
Length = 348
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 86/303 (28%), Positives = 128/303 (42%), Gaps = 60/303 (19%)
Query: 55 PPLPAISKDIELT-RAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPC 113
PPLPA E+T R A + ++ + V+Y D ++A+NKP G+ +
Sbjct: 65 PPLPAPG---EITARPARARISDADREMLQGTVIYRDADILALNKPAGLPVQ-------- 113
Query: 114 LLAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHK 172
G E ++E + L E L +RLD+DTSGV+++ ++ + A+ L AF +
Sbjct: 114 --GGSGQERHIDGMAEALQFELDEPPRLVHRLDKDTSGVLLMARTRRSAAALTAAFRARQ 171
Query: 173 VSKTYIALCIG-PAPKWK--RITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTS 229
K Y A G P P+ R ++ G K G
Sbjct: 172 TRKIYWAAVAGVPQPQLGTVRYALMKAPGHGKRG------------------------EG 207
Query: 230 FEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLH 289
++L ++ P ++ H + AVL A ++ V P +GRTHQ+R H
Sbjct: 208 EKMLCID-------PRQMDAHPDAKRATTDYAVLSALGRRVAWCV-LVPITGRTHQLRAH 259
Query: 290 CQYLGISIRGDVKYEGVYEWN-----GKRYDGH-----ELHAESLSFDHPVTGCPVMVQA 339
LG I GD KY G + N G + G LHA LS HPVTG + + A
Sbjct: 260 MAELGHPIIGDGKYGGSGQENLGDGWGAQLGGEMSKKLHLHARHLSLTHPVTGAQLSLTA 319
Query: 340 PLP 342
PLP
Sbjct: 320 PLP 322
>gi|451948094|ref|YP_007468689.1| ribosomal large subunit pseudouridine synthase D [Desulfocapsa
sulfexigens DSM 10523]
gi|451907442|gb|AGF79036.1| ribosomal large subunit pseudouridine synthase D [Desulfocapsa
sulfexigens DSM 10523]
Length = 329
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/271 (27%), Positives = 112/271 (41%), Gaps = 73/271 (26%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D+LYED+ L+ V+KP G+ + + +GT +N L H
Sbjct: 95 DLLYEDDSLLIVSKPPGIVVHPAVGN-----------------PDGTLVNGLLYHCQEIA 137
Query: 140 ---------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
+ +RLD+DTSG+MV+ K+ + L +AF + V K Y+AL G + +
Sbjct: 138 DVGDTIRPGIVHRLDKDTSGIMVVAKTAQCHRLLGEAFKERTVEKKYLALVFGVLSQ-RS 196
Query: 191 ITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
I++ R ++ A + GR R +S+ VL EG
Sbjct: 197 GRIVAPIARHPLQRQKM-AVCEEGRG-------RYAASSWRVLEEYSEGCS--------- 239
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
LV+ +GRTHQIR+H LG + GD Y N
Sbjct: 240 ----------------------LVQVLIETGRTHQIRVHMASLGHPVAGDSLYG--RARN 275
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQAPL 341
++Y LHA SLS HP++G P+ APL
Sbjct: 276 TRQYPRQMLHAHSLSLVHPISGVPLSFTAPL 306
>gi|381199618|ref|ZP_09906765.1| ribosomal large subunit pseudouridine synthase D [Sphingobium
yanoikuyae XLDN2-5]
Length = 298
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 81/306 (26%), Positives = 126/306 (41%), Gaps = 74/306 (24%)
Query: 47 QNYPTPLSPP--LPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYC 104
Q+Y L P L A+++DI L D+++ED L+ V+KP G+
Sbjct: 45 QDYSITLPAPVALDAVAQDIPL------------------DIVHEDADLIVVDKPAGLVV 86
Query: 105 ESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKL 164
++ L G+LS G + + +R+D+DTSG++V+ KS K L
Sbjct: 87 HPAAGNLDGTLVNALLHHCDGQLS-GIG-GVARPGIVHRIDKDTSGLLVVAKSDKAHEGL 144
Query: 165 VKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVV 223
+ F DH + + Y A+ G P P G AW SD R
Sbjct: 145 ARQFKDHSIDRLYAAIVYGIPTP-----------GSGTVDAW--IGRSDADR-------- 183
Query: 224 RDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRT 283
+ ++V+ EG K H + V ++ + +V +GRT
Sbjct: 184 -------KKMAVHREGRGK-------HAVTHYRVMERL-------RGAAMVECRLETGRT 222
Query: 284 HQIRLHCQYLGISIRGDVKY-------EGVYEWNGKRYDGHELHAESLSFDHPVTGCPVM 336
HQ+R+H +LG + GD Y + + E G + LHA+ L F HPVT P+
Sbjct: 223 HQVRVHMAHLGHPLIGDPVYGRDRKGFKSILETLG--FKRQALHAKRLGFIHPVTEEPLA 280
Query: 337 VQAPLP 342
+PLP
Sbjct: 281 FDSPLP 286
>gi|366088576|ref|ZP_09455049.1| ribosomal large subunit pseudouridine synthase [Lactobacillus
acidipiscis KCTC 13900]
Length = 300
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 76/275 (27%), Positives = 106/275 (38%), Gaps = 60/275 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLLAGDSAESKSGRLSEGTKLNLLELH 139
D++YED+ ++ VNKP G+ V LL +G L G
Sbjct: 77 DIVYEDDDVLVVNKPAGMVVHPAPGHPDQTLVNALLYHCPLSKINGTLRPG--------- 127
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
+ +R+DRDTSG++++ K+ L + D + YIAL G I HG
Sbjct: 128 IVHRIDRDTSGLLMVAKNDHAHHSLAQQLKDKTTIRYYIALVHG--------IIKEDHGT 179
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
R V+ GG R VT FEVL
Sbjct: 180 VNAPLARSPKDRKKQAVVAGG---RRAVTHFEVLR------------------------- 211
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
+N LV+ +GRTHQIR+H +Y+G + GD Y G G L
Sbjct: 212 -------RYQNYTLVKCRLETGRTHQIRVHLKYIGHPVAGDPVYGPKKTLAGP---GQFL 261
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
HA L F HPVT + +APLP + + + K
Sbjct: 262 HAAELGFTHPVTKKRLDFKAPLPNYFKKTIDDLDK 296
>gi|429095682|ref|ZP_19157788.1| Ribosomal large subunit pseudouridine synthase C ## LSU Psi955,
Psi2504 and Psi2580 [Cronobacter dublinensis 582]
gi|426282022|emb|CCJ83901.1| Ribosomal large subunit pseudouridine synthase C ## LSU Psi955,
Psi2504 and Psi2580 [Cronobacter dublinensis 582]
Length = 317
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/266 (28%), Positives = 113/266 (42%), Gaps = 68/266 (25%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + D + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLRDKGMQKDYLALVRG---QWQ---------------- 185
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
S V V ++++++ S E ++ VN EG +PSE + E
Sbjct: 186 -----SHVKTV--QAPLLKNILQSGERIVRVNQEG---KPSETRFKVEERF--------- 226
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------ 318
++ LVR P +GRTHQIR+H QY G I D +Y + +D
Sbjct: 227 ----EHATLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRY------GDRAFDAQLAATGLN 276
Query: 319 ---LHAESLSFDHPVTGCPVMVQAPL 341
LHA +L F+HP TG + V+AP+
Sbjct: 277 RLFLHAAALRFEHPGTGETMRVEAPM 302
>gi|223992757|ref|XP_002286062.1| predicted protein [Thalassiosira pseudonana CCMP1335]
gi|220977377|gb|EED95703.1| predicted protein [Thalassiosira pseudonana CCMP1335]
Length = 246
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 82/279 (29%), Positives = 116/279 (41%), Gaps = 75/279 (26%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
VLY D+ +V ++KP L SVP A +S ++ G S+ +LH+ +RLD
Sbjct: 23 VLYSDDDIVVIDKPAN------LRSVPGH-ASNSPDADDGSKSK------YQLHVVHRLD 69
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHK-VSKTYIALCIGPAPKWKR------ITIISGHG 198
TSG+MV+ ++ ASKL A+ + V KTY+A C P I +
Sbjct: 70 CQTSGIMVVARNSTAASKLCHAWRERDIVQKTYLAYCQRWPPYHDEQLSEGTIDLPLAAS 129
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
R++ W V A D G+ L K ++ +N +V+E
Sbjct: 130 RTERIKWEVRALEDGGKPL------------------------KSELTVERDNDNGVVLE 165
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNG-KRYDG 316
K P +GRTHQ+R+HC +G I GD Y + EW G K G
Sbjct: 166 LK-----------------PITGRTHQLRIHCATIGSGIVGDSLYGDSPVEWFGDKPQHG 208
Query: 317 HE-----------LHAESLSFDHPVTGCPVMVQAPLPLW 344
+ LHA L F HP TG V +P LW
Sbjct: 209 QQTISQSDTQTLRLHAHKLVFPHPSTGSEVTFVSP-KLW 246
>gi|197104730|ref|YP_002130107.1| ribosomal large subunit pseudouridine synthase D [Phenylobacterium
zucineum HLK1]
gi|196478150|gb|ACG77678.1| ribosomal large subunit pseudouridine synthase D [Phenylobacterium
zucineum HLK1]
Length = 243
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 71/253 (28%), Positives = 101/253 (39%), Gaps = 46/253 (18%)
Query: 81 LSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL 140
L RS VLYED ++A+NKP G+ + V L A +K G+ L
Sbjct: 16 LVRSLVLYEDADILALNKPAGLSSQGGRGQVNTLDELLWAFAKPGKARP---------RL 66
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
+RLDRDTSGV++ K+ A L KA SKTY+A+ AP
Sbjct: 67 IHRLDRDTSGVILTAKTKPAAGFLGKALMKRAFSKTYLAIVTPGAP-------------- 112
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
+P V+ + E G ++ E +H + +
Sbjct: 113 ----------------VPAKGVIDRPLRRVE----EGREAYMRVCE-PDHPDAEAAASRY 151
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELH 320
L + LV P +GR HQ+R+H +G I GD +Y G G+ LH
Sbjct: 152 RTLKEG--EGAALVELSPETGRMHQLRVHLAAVGRPIAGDARYGGALMVGGRPVPRLMLH 209
Query: 321 AESLSFDHPVTGC 333
A +L+F HP G
Sbjct: 210 ARALAFPHPAGGT 222
>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 = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/268 (27%), Positives = 117/268 (43%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+V YED ++ VNKP+G+ V+ P G ++ + +N ++ + +R
Sbjct: 82 EVYYEDADVLVVNKPRGM----VVHPAPGHTKGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVL------------------------------ 216
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
+ KN LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 217 --ERFKNFTLVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P EAL
Sbjct: 270 GILGFDHPRTGEYIEFEAPIPEVFEEAL 297
>gi|306841397|ref|ZP_07474100.1| pseudouridine synthase, RluA family [Brucella sp. BO2]
gi|306288582|gb|EFM59931.1| pseudouridine synthase, RluA family [Brucella sp. BO2]
Length = 294
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 74/280 (26%), Positives = 112/280 (40%), Gaps = 63/280 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+LYED+ L+ +NKP G+ L + GDS G G
Sbjct: 41 DILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNALIYHCGDSLSGIGGIRRPG------- 93
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH----KVSKTYIALCIGPAPKWKRITI 193
+ +RLD+DTSGVMV+ K+++ L + F DH + + Y+AL G + + T+
Sbjct: 94 --IVHRLDKDTSGVMVVAKNNRAHRHLSEQFADHGRTGDLERAYLALVWGMTER-PQGTV 150
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+ GRS RD + +E E H
Sbjct: 151 DAYLGRSH----------------------RDRTK---------QAVVREEREDARHAIT 179
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
+ +K DA LV +GRTHQIR+H ++G + GD+ Y Y+ +
Sbjct: 180 HYATVEKFSPREDATALASLVECRLETGRTHQIRVHMAHIGHPLVGDMDYGSAYKTKANK 239
Query: 314 -----------YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA L+F HP+T + +APLP
Sbjct: 240 LPEPLKQAVQGFHRQALHAWLLAFTHPITEELMRFEAPLP 279
>gi|167837371|ref|ZP_02464254.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
thailandensis MSMB43]
gi|424903424|ref|ZP_18326937.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
thailandensis MSMB43]
gi|390931297|gb|EIP88698.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
thailandensis MSMB43]
Length = 335
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 77/280 (27%), Positives = 116/280 (41%), Gaps = 85/280 (30%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE------- 137
++L+ED+ ++A+NKP GV G ++E
Sbjct: 102 EILFEDDAIIALNKPAGVAVHG---------------------GSGVAFGVIEQMRHARP 140
Query: 138 ----LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
L LA+RLDR+TSG++++ K L + ++++ K Y A C+
Sbjct: 141 HAKFLELAHRLDRETSGILMLAKKRSALVGLHEQIRENRMDKRYFA-CV----------- 188
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTS--FEVLSVNGEGSFK-EPSELQEH 250
G W A+D GR R V + F+ + +GE + + L H
Sbjct: 189 --------HGDW----AADWGR--------RRTVKAPLFKYATPDGERRVRVQEDGLPSH 228
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
N+V D + LV A ++GRTHQIR+H +LG+ I GD KY G + N
Sbjct: 229 TVFNLV---------DRWPDYALVEAELKTGRTHQIRVHLAHLGLPIVGDAKY-GDFALN 278
Query: 311 GKRYDGHE--------LHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA L F HP+TG P+ APLP
Sbjct: 279 KALSRANAAPSIKRMFLHAHRLRFAHPLTGEPLQFDAPLP 318
>gi|406957954|gb|EKD85773.1| hypothetical protein ACD_37C00625G0001 [uncultured bacterium]
Length = 240
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 80/273 (29%), Positives = 121/273 (44%), Gaps = 61/273 (22%)
Query: 86 VLYEDEWLVAVNKPQGVYC---------ESVLASVPCLLAGDSAESKSGRLSEGTKLNLL 136
++YEDE + +KP G+ ++V V L D+A S S LS + ++
Sbjct: 3 IIYEDEAIAVTDKPSGITVNRSDTTRNEKTVQDWVDSELKIDTAGS-SDDLSFKDRSGIV 61
Query: 137 ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGP-APKWKRITIIS 195
+RLD++TSG+++I K+ + L K F D V K Y AL G P I +
Sbjct: 62 -----HRLDKETSGILLIAKTMQAFESLQKQFKDRLVEKAYKALVHGRLTPSEGEIVVPV 116
Query: 196 GH---GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSF-KEPSELQEHE 251
G R +FG +L GG R+ T+++VL + F K+P + +E
Sbjct: 117 GRLPWNRKRFG------------ILAGG---REATTNYKVLEIK---RFEKKPGKTEELS 158
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG--VYEW 309
L+ A+P++GRTHQIR+H +Y G I D Y G V
Sbjct: 159 ---------------------LLEAYPKTGRTHQIRVHLKYCGHPIFSDSLYAGRKVARE 197
Query: 310 NGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ K LHA +SF HP++ V + LP
Sbjct: 198 DRKFLPRLFLHAAKISFIHPLSEKRVSFDSDLP 230
>gi|319641478|ref|ZP_07996168.1| pseudouridine synthase [Bacteroides sp. 3_1_40A]
gi|345520091|ref|ZP_08799494.1| ribosomal large subunit pseudouridine synthase A [Bacteroides sp.
4_3_47FAA]
gi|317386879|gb|EFV67768.1| pseudouridine synthase [Bacteroides sp. 3_1_40A]
gi|345457005|gb|EET16952.2| ribosomal large subunit pseudouridine synthase A [Bacteroides sp.
4_3_47FAA]
Length = 540
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/257 (29%), Positives = 111/257 (43%), Gaps = 62/257 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+++YED +LV +NKP G + SVP DS L T L+ +RL
Sbjct: 338 EIVYEDNYLVVINKPAG------MLSVPGKGEIDSVYQHIKILYPDTTGPLI----VHRL 387
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSGV++I K+ +V L F + + K YIAL + G SK G
Sbjct: 388 DMATSGVLLIAKNKEVHQHLQAQFKNRMIKKRYIAL-------------LDGKISSKEGT 434
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
+LP L ++ P ++ +HE + + VL
Sbjct: 435 I----------ILP--------------LRMD---PLDRPRQVVDHEHGKTAITQYQVL- 466
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGHELHA 321
+ ++ L+ +P +GRTHQ+R+H + L IRGD E G++ D LHA
Sbjct: 467 -NEQEGNTLIAFYPLTGRTHQLRVHAAHPEGLHCPIRGD-------ELYGQKADRLYLHA 518
Query: 322 ESLSFDHPVTGCPVMVQ 338
ESL F HPVT + V+
Sbjct: 519 ESLEFVHPVTKEIIFVE 535
>gi|219128013|ref|XP_002184218.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1]
gi|217404449|gb|EEC44396.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1]
Length = 325
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 76/279 (27%), Positives = 116/279 (41%), Gaps = 81/279 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR- 143
D+++EDE ++ +NK + AG+ +GT +N L +LANR
Sbjct: 74 DIIFEDEHMIVINKAANMVVHPA--------AGNW---------DGTVVNALAYYLANRS 116
Query: 144 ------------LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
LD+ T+GV+V+ K+ + + L F +V KTY+A+ +G K +
Sbjct: 117 ESISFRPGIVHRLDKGTTGVLVVAKTSQTLATLSNFFAARQVKKTYMAITVGNP--GKHV 174
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPG----GSVVRDMVTSFEVLSVNGEGSFKEPSEL 247
I GR R+ RV+P S R ++ + L+ +G+ S
Sbjct: 175 VIDKPIGRHPLHRQRM-------RVVPDPHQKNSTGRRALSYVDTLAFDGKLS------- 220
Query: 248 QEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVY 307
LV+ +GRTHQIR+H Q I GD Y G+
Sbjct: 221 -------------------------LVQVRIETGRTHQIRVHLQDRHTPIYGDDIY-GLA 254
Query: 308 EWNGKRYDGHE-----LHAESLSFDHPVTGCPVMVQAPL 341
+WN K H LHA L +HPVTG P++ +A L
Sbjct: 255 DWNKKLSKTHRIVRPLLHAYKLEINHPVTGEPMVFKASL 293
>gi|406591831|ref|YP_006739011.1| RluA family pseudouridine synthase [Chlamydia psittaci CP3]
gi|406593996|ref|YP_006741171.1| RluA family pseudouridine synthase [Chlamydia psittaci MN]
gi|410858011|ref|YP_006973951.1| putative pseudouridine synthase [Chlamydia psittaci 01DC12]
gi|405782428|gb|AFS21176.1| pseudouridine synthase, RluA family protein [Chlamydia psittaci MN]
gi|405787703|gb|AFS26446.1| pseudouridine synthase, RluA family protein [Chlamydia psittaci
CP3]
gi|410810906|emb|CCO01549.1| putative pseudouridine synthase [Chlamydia psittaci 01DC12]
Length = 325
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 66/261 (25%), Positives = 111/261 (42%), Gaps = 55/261 (21%)
Query: 87 LYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL----HLAN 142
+YEDE ++ +NKP+ + V+ P G + + E K E + +
Sbjct: 87 IYEDEMILVINKPRDM----VVHPAPGHTRGTVVHALLHEIGERLKQEFPEEPWRPGIIH 142
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHGRSK 201
RLD+DTSG+++ K+ + + F ++ K+Y+A+C+G P+ + H + K
Sbjct: 143 RLDKDTSGLLITAKTRQAKMIYSELFATKQLKKSYLAICVGKPSASIIHTKLARHHTKRK 202
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
A S +G ++ +T EVL+ NG+ SF
Sbjct: 203 -----EMAVSSIG---------KEAITRCEVLAYNGKLSF-------------------- 228
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
V +P +GRTHQ+R+H ++L I GD Y + D +LHA
Sbjct: 229 ------------VLLYPETGRTHQLRVHMKHLSTPILGDPVYGSASANSCYGLDKQQLHA 276
Query: 322 ESLSFDHPVTGCPVMVQAPLP 342
S++F HP T + + LP
Sbjct: 277 YSVNFIHPQTHKHLNLTTELP 297
>gi|384264700|ref|YP_005420407.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens subsp. plantarum YAU B9601-Y2]
gi|387897663|ref|YP_006327959.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens Y2]
gi|380498053|emb|CCG49091.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens subsp. plantarum YAU B9601-Y2]
gi|387171773|gb|AFJ61234.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens Y2]
Length = 297
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 78/264 (29%), Positives = 115/264 (43%), Gaps = 65/264 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE------L 138
D+LYED+ ++ VNK + ++S+P S E SG ++ G + + +
Sbjct: 83 DILYEDDHVLVVNK------QPYVSSIP------SREHPSGSIANGVISHYRKSGVPSTV 130
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
HL RLDRDTSG M+I K S L A VS+ Y+A+ G P+ K T+ + G
Sbjct: 131 HLVTRLDRDTSGAMLIAKHRLSHSLLSAAQKKGLVSRRYLAVVHGIMPQ-KEGTVDAPIG 189
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
R S++ MVT EG + + Q + +
Sbjct: 190 RKH------------------DSIIERMVTP--------EGQ-RAVTHFQTEKAGHAFTL 222
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE 318
L+ +GRTHQIR+H YLG + GD Y G E ++
Sbjct: 223 AALRLE---------------TGRTHQIRVHMSYLGHPLVGDTLYGGKNEGIARQ----A 263
Query: 319 LHAESLSFDHPVTGCPVMVQAPLP 342
LH+E LSF HP+TG ++ AP+P
Sbjct: 264 LHSERLSFVHPMTGETLVFHAPVP 287
>gi|254419979|ref|ZP_05033703.1| pseudouridine synthase, RluA family [Brevundimonas sp. BAL3]
gi|196186156|gb|EDX81132.1| pseudouridine synthase, RluA family [Brevundimonas sp. BAL3]
Length = 341
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 72/264 (27%), Positives = 112/264 (42%), Gaps = 54/264 (20%)
Query: 81 LSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL 140
++S VLYED+ ++A+NKP G+ + G RL + L
Sbjct: 99 FAKSLVLYEDDMVIAINKPHGLAVQ----------GGTKTSRHVDRLLSAWGEGMDRPRL 148
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHGR 199
+RLDRDTSGV+++ K + A +L AF + KTY A+ IG P P +I +
Sbjct: 149 VHRLDRDTSGVLLLGKGPEAAKRLAGAFARRQAKKTYWAIVIGNPKPYSGQIDM------ 202
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
+ + + FE++ P++ ++ +
Sbjct: 203 ---------------------PLKKTGINDFEMM---------RPADRKDPKAEPAETAF 232
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGH 317
+ A + + +R F +GRTHQ+R H +G I GD KY E E +G
Sbjct: 233 STISRASHRAAWMALRPF--TGRTHQLRAHMAGIGHPILGDPKYGDEKSRELSGPLK--L 288
Query: 318 ELHAESLSFDHPVTGCPVMVQAPL 341
+LHA S+ DHP G + V APL
Sbjct: 289 QLHARSIELDHPRGGL-LKVTAPL 311
>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 = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 80/291 (27%), Positives = 117/291 (40%), Gaps = 98/291 (33%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN-- 142
D+LYEDE ++ +NKPQG+ AG+ + GT +N L H N
Sbjct: 83 DILYEDEDIIVINKPQGMVVHPA--------AGNYS---------GTLVNALLYHCKNLS 125
Query: 143 ------------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
RLD+DTSGVMV+ K+ K L + V K K
Sbjct: 126 GINGILRPGIVHRLDKDTSGVMVVAKNDKAHMSLSNQIKERSVLK-------------KY 172
Query: 191 ITIISGHGRSKFGAWRVYAASDVGR---------VLPGGSVVRDMVTSFEVLSVNGEGSF 241
I I+ G + + G + +GR V+ G R +T ++VL
Sbjct: 173 IAIVEGVIKEEEGK----VEAPIGRHPVDRKRMAVVQEG---RYALTLYKVL-------- 217
Query: 242 KEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDV 301
+ KN V A ++GRTHQIR+H Y+G + GD
Sbjct: 218 ------------------------ERFKNNTFVEATIKTGRTHQIRVHFSYIGHPVVGD- 252
Query: 302 KYEGVYEWNGKRY--DGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
VY + +R+ +G LH++ L F HP G + +APLP + T L+
Sbjct: 253 ---PVYGYKKQRFKLEGQALHSKVLGFIHPTKGVYMEFEAPLPDYFTRLLE 300
>gi|170752009|ref|YP_001758269.1| RluA family pseudouridine synthase [Methylobacterium radiotolerans
JCM 2831]
gi|170658531|gb|ACB27586.1| pseudouridine synthase, RluA family [Methylobacterium radiotolerans
JCM 2831]
Length = 334
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 72/284 (25%), Positives = 110/284 (38%), Gaps = 82/284 (28%)
Query: 86 VLYEDEWLVAVNKPQGV------------YCESVLASVPCLLAGDSAESKSGRLSEGTKL 133
++YED+ L+ ++KP G+ +++A L+G + G
Sbjct: 86 IVYEDDDLIVIDKPAGLVVHPAPGHESGTLVNALIAHCGASLSGIGGVRRPG-------- 137
Query: 134 NLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVS----KTYIALCIGPAPKWK 189
+ +RLD+DTSG++V+ K+ L F DH S + Y A+ G P+ +
Sbjct: 138 ------IVHRLDKDTSGLIVVAKNDTAHQGLTAQFADHGRSGPLERAYAAVVWG-LPQPR 190
Query: 190 RITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQE 249
TI + RS+F ++ SD + R VT + V GE +
Sbjct: 191 AGTIQANLARSRFHREKIAVVSD--------ASGRHAVTHYAVAEAYGEAA--------- 233
Query: 250 HEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEW 309
LVR +GRTHQIR+H + G + GD Y G +
Sbjct: 234 -----------------------LVRCRLETGRTHQIRVHLAHRGHPLLGDTVYGGAFRT 270
Query: 310 NGKRYDG-----------HELHAESLSFDHPVTGCPVMVQAPLP 342
R LHAE L F HP TG + ++PLP
Sbjct: 271 KAARLSSEARAALTALGRQALHAELLGFSHPRTGTTLRFESPLP 314
>gi|296284607|ref|ZP_06862605.1| pseudouridine synthase D large subunit [Citromicrobium
bathyomarinum JL354]
Length = 314
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 83/316 (26%), Positives = 124/316 (39%), Gaps = 70/316 (22%)
Query: 35 TEPTSQNAPQTQQNYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLV 94
T P+++ A T P PL A +DI L V YED L+
Sbjct: 49 TSPSAKVAAGTPFTIALPAPTPLEAEPQDIPLV------------------VAYEDAHLI 90
Query: 95 AVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMV 153
V+KP G+ + L G+LS +N +E + +R+D+DTSG++V
Sbjct: 91 VVDKPAGMVVHPAAGNRDGTLVNALLYHCRGQLS---GINGVERPGIVHRIDKDTSGLLV 147
Query: 154 ITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDV 213
+ K+ L + F DH +S+ Y+A+C G P+ TI + GRS ++
Sbjct: 148 VAKTDAAHEGLARQFADHSISRRYVAVCAG-QPRPAEGTIDARLGRSDRDRKKMAVLD-- 204
Query: 214 GRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEIL 273
P + + VT + G S E L+
Sbjct: 205 ----PQSTRGKHAVTHYRTTKTFGVASILE-CRLE------------------------- 234
Query: 274 VRAFPRSGRTHQIRLHCQYLGISIRGDVKY-------EGVYEWNGKRYDGHELHAESLSF 326
+GRTHQ+R+HC +G + GD +Y + E R LHA SL F
Sbjct: 235 ------TGRTHQVRVHCASIGHPLLGDPQYGRDPKALRPIIEKLAFRR--QALHAASLGF 286
Query: 327 DHPVTGCPVMVQAPLP 342
HP TG + +A LP
Sbjct: 287 IHPATGERLEFRADLP 302
>gi|254419052|ref|ZP_05032776.1| pseudouridine synthase, RluA family [Brevundimonas sp. BAL3]
gi|196185229|gb|EDX80205.1| pseudouridine synthase, RluA family [Brevundimonas sp. BAL3]
Length = 339
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 81/272 (29%), Positives = 108/272 (39%), Gaps = 58/272 (21%)
Query: 86 VLYEDEWLVAVNKPQGVY------CESVLASVPCLLA--GDSAESKSGRLSEGTKLNLLE 137
VLYED L+ ++KP G+ CE+ V LLA GDS G G
Sbjct: 98 VLYEDADLIVIDKPAGMAAHPAPGCETG-TLVNALLAHCGDSLSGIGGVARPG------- 149
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +RLD+DTSGVMV K+ + L F H + +TYIAL G AP R I +
Sbjct: 150 --IVHRLDKDTSGVMVAAKTDRAHQGLSALFATHDIERTYIALTRG-APSPSRGRIETRI 206
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GRS ++ VL G R+ +T + V ++ GE + + L +
Sbjct: 207 GRSTGDRKKIA-------VLKAGG--REAITDYVVQAIFGEPAKASGAPLAARVACTL-- 255
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-------EGVYEWN 310
+GRTHQIR+H G I GD Y
Sbjct: 256 ---------------------HTGRTHQIRVHLSSKGSPILGDATYGSGSPAAAVRAVVA 294
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L F HPVTG + + P P
Sbjct: 295 EAGLARQALHAAVLGFVHPVTGETLRFETPPP 326
>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 = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 72/274 (26%), Positives = 113/274 (41%), Gaps = 63/274 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYC-------ESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D++YED+ L+ VNKPQ + E+ L + D+ S +G + G
Sbjct: 86 DIVYEDDDLLIVNKPQDMVVHPAPGNYENTLVNAILYHCKDNLSSINGVIRPG------- 138
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG+++I K++ + L + DH +++ Y +C G K +IT+
Sbjct: 139 --IVHRIDKDTSGILMIAKNNNAHNSLAEQLKDHSITREYEFICHG-VVKEDKITVDRPI 195
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+ ++ D R VT FEV+
Sbjct: 196 GRNPKDRLKMAIVKDGKRA----------VTHFEVIK----------------------- 222
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK-RYDG 316
+N ++A +GRTHQIR+H +G + GD Y N K + G
Sbjct: 223 ---------RYENFTHMKANLETGRTHQIRVHAASIGHPLLGDPIYG---PKNSKIKCKG 270
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
LHA L F HP T V + LP + E L
Sbjct: 271 QTLHARKLGFIHPTTKQYVEFNSDLPDYFVEILN 304
>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 = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/271 (27%), Positives = 111/271 (40%), Gaps = 77/271 (28%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN--- 142
++YEDE + +NKPQG+ S + GT +N L H+ +
Sbjct: 80 IVYEDEDVAVINKPQGMVVHP-----------------SAGHTHGTMVNALMYHIKDLST 122
Query: 143 -----------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
R+D+DTSG++++ K+ + L + D + Y+AL G P K
Sbjct: 123 INGVIRPGIVHRIDKDTSGLLMVAKNDQAHESLAEQLKDKTSLRKYVALVHGEIPHEKG- 181
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
TI + GRSK ++ A + G+ VT F VL E
Sbjct: 182 TINAPIGRSKENR-KMQAIREDGK---------PAVTHFTVL---------------ERF 216
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
E +VE K +GRTHQIR+H +Y+G + GD Y G
Sbjct: 217 EGFTLVELKL-----------------ETGRTHQIRVHMKYIGYPLAGDPVYGPKKTLKG 259
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G LHA+ L F HP T ++ +APLP
Sbjct: 260 ---NGQFLHAQMLGFTHPTTNEKMVFEAPLP 287
>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 = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 74/269 (27%), Positives = 119/269 (44%), Gaps = 55/269 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L FDHP TG + +AP+P EAL
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPEVFEEALN 298
>gi|82702194|ref|YP_411760.1| pseudouridine synthase RluD [Nitrosospira multiformis ATCC 25196]
gi|82410259|gb|ABB74368.1| ribosomal large subunit pseudouridine synthase C [Nitrosospira
multiformis ATCC 25196]
Length = 328
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 83/280 (29%), Positives = 117/280 (41%), Gaps = 86/280 (30%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
VL+ED+ L+AVNKP GV ++ A+ R L LA+RLD
Sbjct: 86 VLFEDDALIAVNKPPGVAVHGGSGISFGVIEQLRAQHPDWRF----------LELAHRLD 135
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG-A 204
R+TSGV+++ K+ +L + +V K Y+ L G +W+ +GR +
Sbjct: 136 RETSGVLLLAKNRAALVELHRQLRMGEVEKHYLTLVKG---RWR-------NGRQSVRLS 185
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
R Y + PGG E + VEK D
Sbjct: 186 LRKY-------LTPGG-------------------------------ERRVAVEK----D 203
Query: 265 ADAKKNEI----------------LVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYE 308
AD KK + L+ A ++GRTHQIR+H YLG I GD KY G +
Sbjct: 204 ADEKKGGMSAHTVFILRESWQSFSLLEAELKTGRTHQIRVHLAYLGFPIAGDDKY-GDFV 262
Query: 309 WN---GKRYDG---HELHAESLSFDHPVTGCPVMVQAPLP 342
N +R G LHA ++ F HPVT + ++APLP
Sbjct: 263 LNKDIARRVPGLGRMFLHAWAVEFTHPVTHEKLRLEAPLP 302
>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 = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/263 (28%), Positives = 112/263 (42%), Gaps = 58/263 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL-HLANR 143
DV+YED ++ +NKP+G+ V +G + + + +N ++ + +R
Sbjct: 81 DVVYEDSDVIVINKPKGMVVHPAAGHV----SGTLVNALLHHCQDLSGINGVKRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ L + D + YIAL G P + TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDLAHESLAQQLKDKTTERLYIALVHGEIPH-ELGTIEAPVGRDK-- 193
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+D R+ + VT F VL E E VVE K
Sbjct: 194 -------NDRQRMTVTDKNSKAAVTHFRVL---------------ERYEGFTVVECKL-- 229
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
+GRTHQIR+H +Y+G + GD KY G R +G L
Sbjct: 230 ---------------ETGRTHQIRVHMRYIGFPLAGDPKY-------GPRKTMKMNGQAL 267
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA L F HP TG + +APLP
Sbjct: 268 HAAVLGFKHPRTGEMLHFEAPLP 290
>gi|58698525|ref|ZP_00373428.1| ribosomal large subunit pseudouridine synthase C, putative
[Wolbachia endosymbiont of Drosophila ananassae]
gi|225630144|ref|YP_002726935.1| ribosomal large subunit pseudouridine synthase C, putative
[Wolbachia sp. wRi]
gi|225677282|ref|ZP_03788264.1| ribosomal large subunit pseudouridine synthase C, putative
[Wolbachia endosymbiont of Muscidifurax uniraptor]
gi|58534967|gb|EAL59063.1| ribosomal large subunit pseudouridine synthase C, putative
[Wolbachia endosymbiont of Drosophila ananassae]
gi|225590674|gb|EEH11919.1| ribosomal large subunit pseudouridine synthase C, putative
[Wolbachia endosymbiont of Muscidifurax uniraptor]
gi|225592125|gb|ACN95144.1| ribosomal large subunit pseudouridine synthase C, putative
[Wolbachia sp. wRi]
Length = 307
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 73/267 (27%), Positives = 116/267 (43%), Gaps = 58/267 (21%)
Query: 78 LYKLSRSDVLYEDEWLVAVNKPQGVYCE---SVLASVPCLLAGDSAESKSGRLSEGTKLN 134
L L R ++LYEDE+++A+NKP GV + V S+ LL ++ EG
Sbjct: 82 LVNLLRENILYEDEYILAINKPAGVIVQGGVKVKISMSDLL---------DQIREGETFK 132
Query: 135 LLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITII 194
++ +RLDRDTSGV++ ++ VA L++ F +V KTY+AL G K
Sbjct: 133 IV-----HRLDRDTSGVIIFARNANVARYLMEEFKGRRVKKTYLALTSGIPSK------- 180
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
G++ +V + V+G+ E + E+ N
Sbjct: 181 -----------------------DSGTIDYPLVKKY----VSGQ----EKVVVDENSPQN 209
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY 314
+ A +K N ++ P +GRTHQ+R H ++ I GD KY G +
Sbjct: 210 ATTHFSII--AKSKHNVAYLKLQPITGRTHQLRAHLAHINCPILGDGKYGGKKAFIDGIA 267
Query: 315 DGHELHAESLSFDHPVTGCPVMVQAPL 341
+ LH+ SLS P + + AP+
Sbjct: 268 NKIHLHSHSLSLKLP-NNKEITITAPI 293
>gi|157962324|ref|YP_001502358.1| RluA family pseudouridine synthase [Shewanella pealeana ATCC
700345]
gi|157847324|gb|ABV87823.1| pseudouridine synthase, RluA family [Shewanella pealeana ATCC
700345]
Length = 319
Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/261 (28%), Positives = 107/261 (40%), Gaps = 58/261 (22%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+L+ED++L+ +NKP G+ + G E + L L +RLD
Sbjct: 98 ILFEDKYLIVLNKPSGI----------AVHGGSGVEFGVIEAMRSLRTQQKFLELVHRLD 147
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
++TSGV++I K L K+ K Y+AL G +W+ H +
Sbjct: 148 KETSGVLLIAKKRSALRHLHDQLRYKKMQKDYVALVRG---EWQ------SHDK------ 192
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEP--SELQEHEENNIVVEKKAVL 263
V A + L G ++ VN EG E LQ +E++
Sbjct: 193 -VIKAPLLKLTLKSGE---------RIVRVNKEGKESETRFKILQRYEDST--------- 233
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE---LH 320
LV+A P +GRTHQIR+HCQ+ G I D KY + R G LH
Sbjct: 234 ---------LVQASPVTGRTHQIRVHCQFAGHPIACDEKYSEQKFDDSMRAQGLNRLFLH 284
Query: 321 AESLSFDHPVTGCPVMVQAPL 341
A L F HP T + V+APL
Sbjct: 285 AAQLKFTHPETEEVMQVKAPL 305
>gi|42520290|ref|NP_966205.1| ribosomal large subunit pseudouridine synthase C [Wolbachia
endosymbiont of Drosophila melanogaster]
gi|42410028|gb|AAS14139.1| ribosomal large subunit pseudouridine synthase C, putative
[Wolbachia endosymbiont of Drosophila melanogaster]
Length = 307
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 72/267 (26%), Positives = 114/267 (42%), Gaps = 58/267 (21%)
Query: 78 LYKLSRSDVLYEDEWLVAVNKPQGVYCE---SVLASVPCLLAGDSAESKSGRLSEGTKLN 134
L L R ++LYEDE+++A+NKP GV + V S+ LL ++ EG
Sbjct: 82 LVNLLRENILYEDEYILAINKPAGVIVQGGVKVKISMSDLL---------DQIREGETFK 132
Query: 135 LLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITII 194
++ +RLDRDTSGV++ ++ VA L++ F +V KTY+AL G K
Sbjct: 133 IV-----HRLDRDTSGVIIFARNANVARYLMEEFKGRRVKKTYLALTSGIPSK------- 180
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
G + + Y + V+ S ++ T F ++
Sbjct: 181 -DSGTIDYPLVKKYVSGQEKVVVDENS-PQNATTHFSII--------------------- 217
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY 314
A +K N ++ P +GRTHQ+R H ++ I GD KY G +
Sbjct: 218 ----------AKSKHNVAYLKLQPITGRTHQLRAHLAHINCPILGDGKYGGKKAFIDGIA 267
Query: 315 DGHELHAESLSFDHPVTGCPVMVQAPL 341
+ LH+ SLS P + + AP+
Sbjct: 268 NKIHLHSHSLSLKLP-NNKEITITAPI 293
>gi|187779872|ref|ZP_02996345.1| hypothetical protein CLOSPO_03468 [Clostridium sporogenes ATCC
15579]
gi|187773497|gb|EDU37299.1| pseudouridine synthase, RluA family [Clostridium sporogenes ATCC
15579]
Length = 305
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 71/265 (26%), Positives = 119/265 (44%), Gaps = 54/265 (20%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLA 141
+ D++YED+ ++ VNKPQ E V+ P + +G + + + +N + +
Sbjct: 79 KLDIIYEDKDVIVVNKPQ----EMVVHPAPGVYSGTLVNALLSHCKDLSGINGVARPGIV 134
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+R+D+DTSG++V+ K+ + L F +H +S+ Y+AL G K + TI + GR
Sbjct: 135 HRIDKDTSGILVVAKNDISHNNLAAQFKEHSISRVYMALVEG-IIKDGQGTIEAPIGRHP 193
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
++ D GR VT ++V+
Sbjct: 194 VDRIKMAVVKD-GRY---------AVTHYKVI---------------------------- 215
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD--GHEL 319
+ KN LV +GRTHQIR+H ++ + GD VY + +R++ G L
Sbjct: 216 ----ERFKNHTLVECKLETGRTHQIRVHMSHIMHPLVGD----PVYGYKKQRFNLKGQML 267
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLW 344
HA+ L F HP TG V ++ LP +
Sbjct: 268 HAKLLGFIHPTTGQYVEFESQLPEY 292
>gi|220928062|ref|YP_002504971.1| pseudouridine synthase [Clostridium cellulolyticum H10]
gi|219998390|gb|ACL74991.1| pseudouridine synthase, RluA family [Clostridium cellulolyticum
H10]
Length = 304
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 70/269 (26%), Positives = 117/269 (43%), Gaps = 64/269 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLA-------GDSAESKSGRLSEGTKLNLLE 137
D++YED+ ++ +NKP+G+ + + L GDS +G + G
Sbjct: 79 DIVYEDKHIIVINKPKGMVVHPAVGNYTGTLVNALMKHCGDSLSDINGVIRPG------- 131
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++V+ KS+ +L + H + + YIAL G + I +
Sbjct: 132 --IVHRIDKDTSGLLVVAKSNIAHERLSEKLKTHDIKREYIALVDGIIYE-NSGKIDAPI 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+ ++ ++ G R+ +T F+VL F+ + L+ E
Sbjct: 189 GRNPVERKKMCVNTENG---------RNAITHFKVLE-----RFQNATYLELKLE----- 229
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--D 315
+GRTHQIR+H Y+ I GD+ VY ++Y
Sbjct: 230 ----------------------TGRTHQIRVHMAYINHPIIGDM----VYGRRKQKYKTK 263
Query: 316 GHELHAESLSFDHPVTGCPVMVQAPLPLW 344
G LHA LSF HP+TG V + +P +
Sbjct: 264 GQVLHAWRLSFQHPITGEEVKFETAVPEY 292
>gi|429727610|ref|ZP_19262374.1| pseudouridine synthase, RluA family [Peptostreptococcus anaerobius
VPI 4330]
gi|429151914|gb|EKX94755.1| pseudouridine synthase, RluA family [Peptostreptococcus anaerobius
VPI 4330]
Length = 320
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 68/276 (24%), Positives = 116/276 (42%), Gaps = 65/276 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYC-------ESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D++YED++L+ VNK QG+ + L + GD S +G + G
Sbjct: 97 DIVYEDDYLMVVNKQQGMVVHPAPGNPDRTLVNAVLFHCGDRLSSINGVIRPG------- 149
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D++TSG++VI K ++ L F H +++ Y +CIG +W+ TI
Sbjct: 150 --IVHRIDKNTSGLLVIAKDNQTHQGLSDQFKVHSITREYEMICIGNV-EWQEKTIDGPI 206
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+ ++ G + VT F ++ N +G + L+
Sbjct: 207 GRNPKDRMKMAIVKTNG---------KRAVTHFRLVE-NYDGYSHLSARLE--------- 247
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--- 314
+GRTHQIR+H + I GD +Y + K++
Sbjct: 248 ----------------------TGRTHQIRVHISSINRPILGD----NLYGYKVKKFAKL 281
Query: 315 DGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
+G LHA L F HP++G + + LP + + L
Sbjct: 282 EGQCLHARKLGFIHPISGKYMEFDSDLPEYFEDVLN 317
>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 = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 74/269 (27%), Positives = 119/269 (44%), Gaps = 55/269 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L FDHP TG + +AP+P EAL
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPEVFEEALN 298
>gi|99034362|ref|ZP_01314387.1| hypothetical protein Wendoof_01000811, partial [Wolbachia
endosymbiont of Drosophila willistoni TSC#14030-0811.24]
Length = 264
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 73/267 (27%), Positives = 116/267 (43%), Gaps = 58/267 (21%)
Query: 78 LYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLN 134
L L R ++LYEDE+++A+NKP GV + V S+ LL ++ EG
Sbjct: 39 LVNLLRENILYEDEYILAINKPAGVIVQGGVKVKISMSDLL---------DQIREGETFK 89
Query: 135 LLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITII 194
++ +RLDRDTSGV++ ++ VA L++ F +V KTY+AL G K
Sbjct: 90 IV-----HRLDRDTSGVIIFARNANVARYLMEEFKGRRVKKTYLALTSGIPSK------- 137
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
G++ +V + V+G+ E + E+ N
Sbjct: 138 -----------------------DSGTIDYPLVKKY----VSGQ----EKVVVDENSPQN 166
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY 314
+ A +K N ++ P +GRTHQ+R H ++ I GD KY G +
Sbjct: 167 ATTHFSII--AKSKHNVAYLKLQPITGRTHQLRAHLAHINCPILGDGKYGGKKAFIDGIA 224
Query: 315 DGHELHAESLSFDHPVTGCPVMVQAPL 341
+ LH+ SLS P + + AP+
Sbjct: 225 NKIHLHSHSLSLKLP-NNKEITITAPI 250
>gi|416159287|ref|ZP_11605752.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis N1568]
gi|433472578|ref|ZP_20429948.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
97021]
gi|433481004|ref|ZP_20438276.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2006087]
gi|433483126|ref|ZP_20440364.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2002038]
gi|433485226|ref|ZP_20442432.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
97014]
gi|325129115|gb|EGC51964.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis N1568]
gi|432212462|gb|ELK68400.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
97021]
gi|432219357|gb|ELK75204.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2006087]
gi|432223572|gb|ELK79352.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
2002038]
gi|432224686|gb|ELK80449.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
97014]
Length = 330
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 76/266 (28%), Positives = 113/266 (42%), Gaps = 52/266 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
+ +YED+ L+ ++KP GV V V L E++ L L
Sbjct: 95 EAVYEDDALLVIDKPSGVAVHGGSGVSFGVIEQLRRARPEARY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H +
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVKLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LFKYTGAQGEKMVRVSADGQSAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPL 343
LHA L +HP+TG P++++A LPL
Sbjct: 290 FLHASELHLNHPLTGEPLVLKAELPL 315
>gi|49477179|ref|YP_035519.1| ribosomal large subunit pseudouridylate synthase D [Bacillus
thuringiensis serovar konkukian str. 97-27]
gi|49328735|gb|AAT59381.1| ribosomal large subunit pseudouridylate synthase D [Bacillus
thuringiensis serovar konkukian str. 97-27]
Length = 307
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 80/270 (29%), Positives = 119/270 (44%), Gaps = 77/270 (28%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA---- 141
V+YED+ ++ VNKP+ + D+ S+ G + GT NL+ H
Sbjct: 87 VVYEDDHVLIVNKPEKM---------------DTHPSEKGGM--GTLANLVAFHFQMQGL 129
Query: 142 -------NRLDRDTSGVMVITKSHKVASKLV-KAFTDHKVSKTYIALCIGPAPKWKRITI 193
+RLD+DT+G +V K H++A ++ + + K+ +TY AL G K K+ TI
Sbjct: 130 ETKVRHIHRLDKDTTGGVVFAK-HRIAGAIMDRLLMERKIKRTYAALVEGKVKK-KQGTI 187
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+ GR + A R RV P G +T ++V E FK
Sbjct: 188 DAAIGRDRHHATR-------RRVSPKGD---QAITYYKV-----EEYFK----------- 221
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
K+N LV +GRTHQIR+H Y G + GDV Y G G +
Sbjct: 222 --------------KQNVTLVTLQLETGRTHQIRVHMSYNGNPLVGDVLYGG-----GTK 262
Query: 314 YDGHE-LHAESLSFDHPVTGCPVMVQAPLP 342
Y + LHA +++F HP+T + V P P
Sbjct: 263 YMSRQALHAMTINFLHPITKEEIEVDVPFP 292
>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 = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/271 (27%), Positives = 110/271 (40%), Gaps = 77/271 (28%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN--- 142
++YEDE + +NKPQG+ S + GT +N L H+ +
Sbjct: 80 IVYEDEDVAVINKPQGMVVHP-----------------SAGHTHGTMVNALMYHIKDLST 122
Query: 143 -----------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
R+D+DTSG++++ K+ + L + D + Y+AL G P K
Sbjct: 123 INGVIRPGIVHRIDKDTSGLLMVAKNDQAHESLAQQLKDKTSLRKYVALVHGEIPHEKG- 181
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
TI + GRSK ++ A + G+ VT F VL E
Sbjct: 182 TINAPIGRSKENR-KMQAIREDGK---------PAVTHFTVL---------------ERF 216
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
E +VE K +GRTHQIR+H +Y+G + GD Y G
Sbjct: 217 EGFTLVELKL-----------------ETGRTHQIRVHMKYIGYPLAGDPVYGPKKTLKG 259
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G LHA+ L F HP T + +APLP
Sbjct: 260 ---NGQFLHAQMLGFTHPTTNEKMFFEAPLP 287
>gi|240017486|ref|ZP_04724026.1| RluC [Neisseria gonorrhoeae FA6140]
gi|268604570|ref|ZP_06138737.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae PID1]
gi|268588701|gb|EEZ53377.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae PID1]
Length = 330
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 78/265 (29%), Positives = 112/265 (42%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
+V+YED+ L+ VNKP GV V V L E+K L L
Sbjct: 95 EVVYEDDALLVVNKPSGVAVHGGSGVSFGVIEQLRRARPEAKY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H +
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVKLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LFKYTGAQGEKMVRVSEDGQSAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P++++A P
Sbjct: 290 FLHASELHLNHPLTGDPLVLKAEPP 314
>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 = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 74/269 (27%), Positives = 119/269 (44%), Gaps = 55/269 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L FDHP TG + +AP+P EAL
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPEVFEEALN 298
>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 = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 70/263 (26%), Positives = 114/263 (43%), Gaps = 58/263 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P + G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHVTGTLVNGLMAHCNDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLI-SHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + + + VT F VL F++ +
Sbjct: 196 RQSMTVTRESSK---------NAVTHFHVLE-----RFQDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTIDFNGQAL 267
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA L FDHP TG + +APLP
Sbjct: 268 HAGILGFDHPRTGEYMEFEAPLP 290
>gi|313675550|ref|YP_004053546.1| ribosomal large subunit pseudouridine synthase d [Marivirga
tractuosa DSM 4126]
gi|312942248|gb|ADR21438.1| ribosomal large subunit pseudouridine synthase D [Marivirga
tractuosa DSM 4126]
Length = 343
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 78/295 (26%), Positives = 115/295 (38%), Gaps = 86/295 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YED L+ VNK G+ + EGT +N L H
Sbjct: 97 DIVYEDSDLLIVNKEAGMVVHPAHQN-----------------WEGTLVNALAYHFQQLP 139
Query: 140 ----------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWK 189
L +R+D+DTSG++VI K+ K + L K F DH + +TY AL G +
Sbjct: 140 EMQGNEGRPGLVHRIDKDTSGLLVIAKTEKSMTALAKQFFDHSIERTYYALVWGELED-E 198
Query: 190 RITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQE 249
TI GRS F R+ A P G R +T ++VL
Sbjct: 199 EGTIDVNLGRS-FKDRRITDA------FPEGDFGRTAITHYKVL---------------- 235
Query: 250 HEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEW 309
+ + L++ +GRTHQIR H +Y+G + D Y G
Sbjct: 236 ----------------ERLRYVTLIQCNLETGRTHQIRAHMKYIGHPLFNDATYGGDRIL 279
Query: 310 NGKRYDGHE--------------LHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
G ++ ++ LHA+SL F HP + V ++ LP E L+
Sbjct: 280 KGTQFSKYKSFVDNCFKIIPRQALHAKSLGFIHPSSNKSVHFESELPKDFEEVLE 334
>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 = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/269 (27%), Positives = 117/269 (43%), Gaps = 55/269 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+V YED ++ VNKP+G+ V+ P G ++ + +N ++ + +R
Sbjct: 82 EVYYEDADVLVVNKPRGM----VVHPAPGHTKGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDVAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVL------------------------------ 216
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
D K+ LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 217 --DRFKDFTLVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L FDHP TG + +AP+P EAL
Sbjct: 270 GILGFDHPRTGEYIEFEAPIPEVFEEALN 298
>gi|59802102|ref|YP_208814.1| protein RluC [Neisseria gonorrhoeae FA 1090]
gi|194099977|ref|YP_002003116.1| protein RluC [Neisseria gonorrhoeae NCCP11945]
gi|240015038|ref|ZP_04721951.1| RluC [Neisseria gonorrhoeae DGI18]
gi|240122106|ref|ZP_04735068.1| RluC [Neisseria gonorrhoeae PID24-1]
gi|254494662|ref|ZP_05107833.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae 1291]
gi|268593835|ref|ZP_06128002.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae 35/02]
gi|268599970|ref|ZP_06134137.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae MS11]
gi|268602307|ref|ZP_06136474.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae PID18]
gi|268683306|ref|ZP_06150168.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae SK-92-679]
gi|268687455|ref|ZP_06154317.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae SK-93-1035]
gi|291042839|ref|ZP_06568580.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae DGI2]
gi|293398142|ref|ZP_06642347.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae F62]
gi|385336885|ref|YP_005890832.1| protein RluC [Neisseria gonorrhoeae TCDC-NG08107]
gi|59718997|gb|AAW90402.1| putative ribosomal large subunit pseudouridine synthase C
[Neisseria gonorrhoeae FA 1090]
gi|193935267|gb|ACF31091.1| RluC [Neisseria gonorrhoeae NCCP11945]
gi|226513702|gb|EEH63047.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae 1291]
gi|268547224|gb|EEZ42642.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae 35/02]
gi|268584101|gb|EEZ48777.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae MS11]
gi|268586438|gb|EEZ51114.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae PID18]
gi|268623590|gb|EEZ55990.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae SK-92-679]
gi|268627739|gb|EEZ60139.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae SK-93-1035]
gi|291013273|gb|EFE05239.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae DGI2]
gi|291611405|gb|EFF40475.1| ribosomal large subunit pseudouridine synthase C [Neisseria
gonorrhoeae F62]
gi|317165428|gb|ADV08969.1| RluC [Neisseria gonorrhoeae TCDC-NG08107]
Length = 330
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 78/265 (29%), Positives = 112/265 (42%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
+V+YED+ L+ VNKP GV V V L E+K L L
Sbjct: 95 EVVYEDDALLVVNKPSGVAVHGGSGVSFGVIEQLRRARPEAKY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H +
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVKLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LFKYTGAQGEKMVRVSEDGQSAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P++++A P
Sbjct: 290 FLHASELHLNHPLTGEPLVLKAEPP 314
>gi|407975175|ref|ZP_11156081.1| ribosomal large subunit pseudouridine synthase D [Nitratireductor
indicus C115]
gi|407429260|gb|EKF41938.1| ribosomal large subunit pseudouridine synthase D [Nitratireductor
indicus C115]
Length = 349
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 83/282 (29%), Positives = 116/282 (41%), Gaps = 67/282 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLL--AGDSAESKSGRLSEGTKLNLLE 137
D+LYED LV VNKP G+ + V LL GD+ G G
Sbjct: 98 DILYEDADLVVVNKPAGLVVHPAPGNWTGTLVNALLHHCGDTLSGIGGVRRPG------- 150
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH----KVSKTYIALCIGPAPKWKRITI 193
+ +RLDRDTSGVMV+ K+ + L +AF DH + + Y AL G AP +I
Sbjct: 151 --IVHRLDRDTSGVMVVAKTDRAHRALSEAFADHGRSGDLERAYEALVWG-APDRMAGSI 207
Query: 194 ISGHGRSKFGAWRVYAASDVGR-VLPGG-SVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
+ GR +A S R V+P G S R VT ++
Sbjct: 208 DAALGR--------HAQSRTLRAVVPAGRSDARHAVTHYQ-------------------- 239
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
V+K+ D L+ +GRTHQIR+H ++G + GD +Y +
Sbjct: 240 -----VKKRYGSDGRGGAFAALLECRLETGRTHQIRVHLAHIGHPLVGDQEYGRAFRTKI 294
Query: 312 KR-----------YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
R + LHA L+F HP +G + +AP P
Sbjct: 295 NRLPEEVRPIVAAFGRQALHARLLAFRHPASGELMRFEAPPP 336
>gi|415768136|ref|ZP_11483475.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans D17P-2]
gi|348658090|gb|EGY75666.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans D17P-2]
Length = 319
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 72/265 (27%), Positives = 112/265 (42%), Gaps = 66/265 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++ED +L+ +NKP G+ ++ A + R L L +RLD
Sbjct: 97 IIFEDNYLLVLNKPSGIAVHGGSGLDFGVIEALRALRPAARF----------LELVHRLD 146
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + V K Y+AL G +W+
Sbjct: 147 RDTSGILLVAKKRSALRNLHEQLREKTVQKDYLALVRG---QWQL-------------HC 190
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + L GG ++ V+ +G +PSE VE++
Sbjct: 191 KVVQAPLLKNELAGGE---------RIVKVSEQG---KPSE------TRFSVEERYT--- 229
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------- 318
N L++A P +GRTHQIR+H QY G I D KY K +D H
Sbjct: 230 ----NATLIKASPVTGRTHQIRVHTQYAGHPIAFDSKY------GDKEFDQHMVELGLNR 279
Query: 319 --LHAESLSFDHPVTGCPVMVQAPL 341
LHA ++ F+HP +G + + APL
Sbjct: 280 LFLHAYTIRFEHPHSGETLRLTAPL 304
>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 = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/271 (27%), Positives = 111/271 (40%), Gaps = 77/271 (28%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN--- 142
++YEDE + +NKPQG+ S + GT +N L H+ +
Sbjct: 80 IVYEDEDVAVINKPQGMVVHP-----------------SAGHTHGTMVNALIYHIKDLST 122
Query: 143 -----------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
R+D+DTSG++++ K+ + L + D + Y+AL G P K
Sbjct: 123 INGVIRPGIVHRIDKDTSGLLMVAKNDQAHESLAQQLKDKTSLRKYVALVHGEIPHEKG- 181
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
TI + GRSK ++ A + G+ VT F VL E
Sbjct: 182 TINAPIGRSKENR-KMQAIREDGK---------PAVTHFTVL---------------ERF 216
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
E +VE K +GRTHQIR+H +Y+G + GD Y G
Sbjct: 217 EGFTLVELKL-----------------ETGRTHQIRVHMKYIGYPLAGDPVYGPKKTLKG 259
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G LHA+ L F HP T ++ +APLP
Sbjct: 260 ---NGQFLHAQMLGFTHPTTNEKMIFEAPLP 287
>gi|429090938|ref|ZP_19153640.1| Ribosomal large subunit pseudouridine synthase C ## LSU Psi955,
Psi2504 and Psi2580 [Cronobacter dublinensis 1210]
gi|426744593|emb|CCJ79753.1| Ribosomal large subunit pseudouridine synthase C ## LSU Psi955,
Psi2504 and Psi2580 [Cronobacter dublinensis 1210]
Length = 331
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/266 (28%), Positives = 113/266 (42%), Gaps = 68/266 (25%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 109 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 158
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + D + K Y+AL G +W+
Sbjct: 159 RDTSGVLLVAKKRSALRSLHEQLRDKGMQKDYLALVRG---QWQ---------------- 199
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
S V V ++++++ S E ++ VN EG +PSE + E
Sbjct: 200 -----SHVKTV--QAPLLKNILQSGERIVRVNQEG---KPSETRFKVEERF--------- 240
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------ 318
++ LVR P +GRTHQIR+H QY G I D +Y + +D
Sbjct: 241 ----EHATLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRY------GDRAFDAQLAATGLN 290
Query: 319 ---LHAESLSFDHPVTGCPVMVQAPL 341
LHA +L F+HP TG + V+AP+
Sbjct: 291 RLFLHAAALRFEHPGTGETMRVEAPM 316
>gi|423481270|ref|ZP_17457960.1| RluA family pseudouridine synthase [Bacillus cereus BAG6X1-2]
gi|401146030|gb|EJQ53550.1| RluA family pseudouridine synthase [Bacillus cereus BAG6X1-2]
Length = 307
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 78/267 (29%), Positives = 115/267 (43%), Gaps = 69/267 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-------SVLAS-VPCLLAGDSAESKSGRLSEGTKLNLL 136
+V+YED+ ++ VNKP+ + LA+ V C E+K +
Sbjct: 86 NVVYEDDHVLVVNKPEQMDTHPSEKNGTGTLANLVACHFQMQGLETKVRHI--------- 136
Query: 137 ELHLANRLDRDTSGVMVITKSHKVASKLV-KAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+RLD+DT+G +V K H++A ++ + + K+ +TY AL G K K+ TI +
Sbjct: 137 -----HRLDKDTTGGVVFAK-HRIAGAVMDRLLMERKIKRTYTALVEGKVKK-KQGTIDA 189
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNI 255
GR + A R RV P G +T ++V E FK
Sbjct: 190 AIGRDRHHATR-------RRVSPKGD---QAITYYKV-----EKYFK------------- 221
Query: 256 VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD 315
K+N LV +GRTHQIR+H Y G + GDV Y G K
Sbjct: 222 ------------KQNATLVTLQLETGRTHQIRVHMSYNGNPLVGDVLYGG----QTKYMS 265
Query: 316 GHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA ++F HP+T ++V P P
Sbjct: 266 GQALHAMKINFLHPITKEEIVVDIPFP 292
>gi|398310646|ref|ZP_10514120.1| pseudouridylate synthase [Bacillus mojavensis RO-H-1]
Length = 303
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 71/263 (26%), Positives = 112/263 (42%), Gaps = 59/263 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED+ ++ VNKP+G+ V+ P L G ++ + +N ++ + +R
Sbjct: 81 DIYYEDQDVLVVNKPRGM----VVHPAPGHLTGTLVNGLMAHCTDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRVYTAVVHGII-SHDDGTIDAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D ++ VT F VL F+E +
Sbjct: 196 RQSMTVTRDG----------KNAVTHFHVLD-----RFQEFT------------------ 222
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
LV +GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 223 ---------LVECQLETGRTHQIRVHMKYIGFPLAGDPKY-------GPRKTIDFNGQAL 266
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA L F HP T + +APLP
Sbjct: 267 HAGILGFQHPRTDEYIEFEAPLP 289
>gi|365851190|ref|ZP_09391631.1| pseudouridine synthase, RluA family [Lactobacillus parafarraginis
F0439]
gi|363717389|gb|EHM00767.1| pseudouridine synthase, RluA family [Lactobacillus parafarraginis
F0439]
Length = 297
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 76/258 (29%), Positives = 114/258 (44%), Gaps = 54/258 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCL-LAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+++EDE + VNKP GV ASVP A DS ++ E ++H+A RL
Sbjct: 81 IVFEDEHFLIVNKPAGV------ASVPAHNKANDSLVNRVKGYYERMGYANRKIHIATRL 134
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG+++ K H S L K D ++ KTY+A+ G T S H
Sbjct: 135 DKDTSGLVIFGKHHFAHSVLDKQLKDRQIQKTYLAIVAG--------TFSSAH------- 179
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
+ +Y +GRV PG V R ++ G+ S E + K+ V
Sbjct: 180 FEIYLP--IGRV-PGSLVKRQVIWP-------GKMSVTEAWPV-----------KRLV-- 216
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
L+R +GRTHQIR+H +G + GD +Y + + + LH +
Sbjct: 217 -----GHTLIRLRIHTGRTHQIRVHMSAIGHPLVGD----WLYNPSDQSFPRQALHCAEV 267
Query: 325 SFDHPVTGCPVMVQAPLP 342
F +P +G + APLP
Sbjct: 268 RFFNPFSGRYIDCHAPLP 285
>gi|117618171|ref|YP_856003.1| ribosomal large subunit pseudouridine synthase A [Aeromonas
hydrophila subsp. hydrophila ATCC 7966]
gi|117559578|gb|ABK36526.1| ribosomal large subunit pseudouridine synthase A [Aeromonas
hydrophila subsp. hydrophila ATCC 7966]
Length = 243
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 71/259 (27%), Positives = 108/259 (41%), Gaps = 45/259 (17%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++L+EDE L+ +NKP G+ S+ P L DS + + G L +RL
Sbjct: 18 EILFEDEHLLLINKPSGLL--SLSGKNPQNL--DSVHHRLVQAYPGCAL-------VHRL 66
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG+M++ ++ + + L + F+ VSK Y AL + GH G
Sbjct: 67 DFGTSGIMLVARNKAINALLCRQFSQRAVSKAYSAL-------------LCGHLAKDEGV 113
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
A D + + +VNG+ + V+E+ A
Sbjct: 114 IDAPIAKDPA-----------LFPLMSICAVNGKPA----------RSRYQVIERLAQQI 152
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
VR P +GRTHQ+R+H Q LG I G Y G+ +R LHA L
Sbjct: 153 QGQTVPLTSVRLVPETGRTHQLRIHSQQLGHPILGCDLYGGLLPPGCERAPRLMLHASEL 212
Query: 325 SFDHPVTGCPVMVQAPLPL 343
F HPV+G P+ +++ P
Sbjct: 213 DFVHPVSGEPMQIRSEAPF 231
>gi|385850466|ref|YP_005896981.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis M04-240196]
gi|385854378|ref|YP_005900891.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis M01-240355]
gi|325203319|gb|ADY98772.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis M01-240355]
gi|325205289|gb|ADZ00742.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis M04-240196]
Length = 330
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 75/265 (28%), Positives = 115/265 (43%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
DV+YED+ L+ ++KP GV V V L E++ L L
Sbjct: 95 DVVYEDDALLVIDKPSGVAVHGGSGVSFGVIEQLRRARPEARY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + K
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLP--------DDNFHVK 193
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
++ A G +VR +S +G+ + L +
Sbjct: 194 LPLFKYTGAQ-------GEKMVR--------VSADGQSAHTVFRALNRFSD--------G 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P++++A LP
Sbjct: 290 FLHASELHLNHPLTGEPLVLKAELP 314
>gi|187924897|ref|YP_001896539.1| pseudouridine synthase [Burkholderia phytofirmans PsJN]
gi|187716091|gb|ACD17315.1| pseudouridine synthase, RluA family [Burkholderia phytofirmans
PsJN]
Length = 341
Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 76/268 (28%), Positives = 120/268 (44%), Gaps = 63/268 (23%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDE L+ ++KP GV + + G + + R + LEL +RLD
Sbjct: 101 IIFEDEHLLVIDKPAGV----AVHGGSGVAFGVIEQMREAR----PQAKFLEL--VHRLD 150
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSG++++ K L + ++K+ K Y A C+ G W
Sbjct: 151 RETSGILMLAKKRSALVNLHEQIRENKMDKRYYA-CV-------------------HGDW 190
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFK-EPSELQEHEENNIVVE--KKAV 262
ASD GR V++ + + L+ +GE + +P L H N++ + A+
Sbjct: 191 ----ASDWGR----RRAVKEPLHKY--LTADGERRVRVQPDGLASHTVFNLIDRWPEYAL 240
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE---- 318
L+A+ K +GRTHQIR+H Q+L + I GD KY G + N +
Sbjct: 241 LEAELK-----------TGRTHQIRVHLQHLELPIVGDAKY-GDFALNKALARANAKPGL 288
Query: 319 ----LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP TG P+ +APLP
Sbjct: 289 KRMFLHAYRLKLTHPATGAPLQFEAPLP 316
>gi|325264047|ref|ZP_08130779.1| ribosomal large subunit pseudouridine synthase, RluA family
[Clostridium sp. D5]
gi|324030531|gb|EGB91814.1| ribosomal large subunit pseudouridine synthase, RluA family
[Clostridium sp. D5]
Length = 296
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 74/261 (28%), Positives = 113/261 (43%), Gaps = 58/261 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSA--ESKSGRLSEGTKLNLLELHLAN 142
D++YEDE ++ +NKP G+ + + LA A + G+ N
Sbjct: 82 DIIYEDEDIIVINKPAGMPVHPSMNNYSNTLANGLAWYYQEQGKP--------FIFRCTN 133
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFT-DHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
RLDRDTSG+ VI K H ++S ++ T H++++ Y+A ++ G R
Sbjct: 134 RLDRDTSGLTVIAK-HMLSSNILSRMTVRHEITREYLA-------------VVRGSVRPS 179
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
G + + R PG + R FE NGE + ++E
Sbjct: 180 EGI----ICAPLSRK-PGSIIER--TVDFE----NGEKAVTHYHAVEE------------ 216
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
K LV +GRTHQIR+H +YLG + GD Y E+ ++ LH+
Sbjct: 217 ------KNGHSLVSLVLETGRTHQIRIHMKYLGFPLIGDYLYNPDMEYIQRQ----ALHS 266
Query: 322 ESLSFDHPVTGCPVMVQAPLP 342
L+F HP+TG + APLP
Sbjct: 267 CRLAFSHPITGEKLEFTAPLP 287
>gi|15618629|ref|NP_224915.1| pseudouridine synthase [Chlamydophila pneumoniae CWL029]
gi|15836251|ref|NP_300775.1| pseudouridine synthase [Chlamydophila pneumoniae J138]
gi|16752321|ref|NP_444579.1| ribosomal large subunit pseudouridine synthase D [Chlamydophila
pneumoniae AR39]
gi|33242078|ref|NP_877019.1| ribosomal large subunit pseudouridine synthase A [Chlamydophila
pneumoniae TW-183]
gi|384449015|ref|YP_005661617.1| RluA family pseudouridine synthase [Chlamydophila pneumoniae
LPCoLN]
gi|4377023|gb|AAD18858.1| predicted Pseudouridine Synthase [Chlamydophila pneumoniae CWL029]
gi|7188966|gb|AAF37922.1| ribosomal large subunit pseudouridine synthase D [Chlamydophila
pneumoniae AR39]
gi|8979091|dbj|BAA98926.1| pseudouridine synthase [Chlamydophila pneumoniae J138]
gi|33236588|gb|AAP98676.1| ribosomal large subunit pseudouridine synthase A [Chlamydophila
pneumoniae TW-183]
gi|269302507|gb|ACZ32607.1| pseudouridine synthase, RluA family [Chlamydophila pneumoniae
LPCoLN]
Length = 325
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 71/263 (26%), Positives = 111/263 (42%), Gaps = 55/263 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL----HL 140
D +YED ++ +NKP+ + V+ P G + + E K E +
Sbjct: 83 DKVYEDGMILVINKPR----DMVVHPAPGHFHGTLVHALLHEIGERLKEEFPEEPWRPGI 138
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
+RLD+DTSG+++ K+ + + F+ ++ K+Y+A+CIG R T I H
Sbjct: 139 VHRLDKDTSGLIITAKTRQAKKVFSELFSTKRLKKSYLAVCIGKP----RSTTIHTHISR 194
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
+ S G ++ VT +VL+ NG+ SF
Sbjct: 195 HQNKRKEMTVSSQG---------KEAVTHCQVLAFNGKLSF------------------- 226
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR-YDGHEL 319
V P +GRTHQ+R+H ++LG I GD Y G+ N D +L
Sbjct: 227 -------------VALSPETGRTHQLRVHMKHLGTPILGDPVY-GIPSMNSSYGLDKQQL 272
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA S+ F HP T ++A LP
Sbjct: 273 HAYSVDFTHPETRQFCSLKAGLP 295
>gi|374335219|ref|YP_005091906.1| pseudouridylate synthase [Oceanimonas sp. GK1]
gi|372984906|gb|AEY01156.1| pseudouridylate synthase [Oceanimonas sp. GK1]
Length = 254
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 76/265 (28%), Positives = 116/265 (43%), Gaps = 51/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL--AN 142
+++YED+WLVAVNK G+ L+ + R + N + H+ +
Sbjct: 4 ELVYEDDWLVAVNKEPGL-----------LVHRSWLDRHETRFAMQLTRNAVGCHVFPVH 52
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLDR TSG+++ KS +VA L + F + +V+KTY+AL G + G GR +
Sbjct: 53 RLDRPTSGLLLFAKSAEVARTLTEDFAERRVNKTYLALVRG---------YLEGEGRLDY 103
Query: 203 GAWRVYAASDVG-RVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
R D+ + +D VT ++ G G + P + V KK
Sbjct: 104 ALTR--ELDDIADQFADADKPAQDAVTRWQ-----GLGRIELP----------VAVSKK- 145
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYL-----GISIRGDVKYEGVYEWNGKRYDG 316
A LV+ P +GR HQ+R H +L G + GD ++ + R +
Sbjct: 146 ----HATSRYSLVQLSPETGRKHQLRRHMAHLRHPIVGDTSHGDGRHNRFFR-ETYRCER 200
Query: 317 HELHAESLSFDHPVTGCPVMVQAPL 341
LHA L HPVTG + + APL
Sbjct: 201 LMLHAARLGLTHPVTGEALRLDAPL 225
>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 = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 77/278 (27%), Positives = 115/278 (41%), Gaps = 67/278 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH------ 139
++Y+D+ + +NKPQG+ SA +G L ++ +L
Sbjct: 80 IVYQDQDVAVINKPQGMVVHP------------SAGHPNGTLVNALLYHMTDLSSINDVV 127
Query: 140 ---LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
+ +R+D+DTSG+++I K+ L K D + Y+AL G K TI +
Sbjct: 128 RPGIVHRIDKDTSGLLMIAKNDHAHEALAKQLKDKTSLRKYVALVHGNISHEKG-TINAP 186
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
GRSK ++ A + G+ P VT F VL F + +
Sbjct: 187 IGRSKVN-RKMQAVQEDGK--PA-------VTHFTVLE-----RFDQFT----------- 220
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
LV +GRTHQIR+H QY+G + GD Y G +G
Sbjct: 221 ----------------LVELQLETGRTHQIRVHMQYIGFPLAGDPVYGPKKTLKG---NG 261
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
LHA+ L F HP TG ++ +APLP E L+ K
Sbjct: 262 QFLHAKLLGFTHPTTGESMVFEAPLPELFEETLKKLRK 299
>gi|359299253|ref|ZP_09185092.1| 23S rRNA pseudouridylate synthase C [Haemophilus [parainfluenzae]
CCUG 13788]
Length = 320
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 72/262 (27%), Positives = 112/262 (42%), Gaps = 55/262 (20%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
+LYEDE L+ +NKP G+ ++ A R L L +R
Sbjct: 96 QQILYEDEVLLVINKPSGIAVHGGSGLNFGVIEALRALRPQARF----------LELVHR 145
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DRDTSG++++ K L + + V K Y+AL G
Sbjct: 146 IDRDTSGILLVAKKRSSLRHLHEQLREKTVQKDYLALV--------------------RG 185
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
W+ + + +L ++ + ++ V+ G +PSE +E++
Sbjct: 186 QWQSHVKAIKAPLLKN-----ELASGERIVKVSEAG---KPSE------TRFQIEERYGQ 231
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
+A LV+A P +GRTHQIR+H QY G I D KY G E++ K + L
Sbjct: 232 EA------TLVKASPITGRTHQIRVHTQYAGHPIACDDKY-GEAEFDAKMQMLGLNRLFL 284
Query: 320 HAESLSFDHPVTGCPVMVQAPL 341
HA S+ F HP TG +++ APL
Sbjct: 285 HAYSIRFTHPKTGEEMVITAPL 306
>gi|46201801|ref|ZP_00054336.2| COG0564: Pseudouridylate synthases, 23S RNA-specific
[Magnetospirillum magnetotacticum MS-1]
Length = 324
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 87/293 (29%), Positives = 126/293 (43%), Gaps = 59/293 (20%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLPA + + + K + ++ R VLY D+ ++A+NKP G+ +
Sbjct: 59 PPLPADEAPVREAKPVVVDEK--IARMLRDAVLYMDDDVIALNKPPGLAVQGGTGMADKH 116
Query: 115 LAG--DSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHK 172
L D+ +GR L +RLD+DTSGV+++ ++ ASKL AF
Sbjct: 117 LDAWLDALCFGAGRPK-----------LVHRLDKDTSGVLLLGRTANAASKLAAAFKSRS 165
Query: 173 VSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEV 232
K Y AL G P++ + I + + LPG + E
Sbjct: 166 ARKCYWALVAG-VPRYPQGRIDAPLAK-----------------LPG--------KAGEK 199
Query: 233 LSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY 292
++V+ EE V V+D+ K+ L PR+GRTHQ+R HC
Sbjct: 200 MAVD-------------KEEGKHAVTYYRVVDSTLKRAAWL-EMEPRTGRTHQLRAHCLL 245
Query: 293 LGISIRGDVKYEG---VYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
LG I GD KY G + E G H LHA ++ HP TG + V APLP
Sbjct: 246 LGTPIMGDGKYGGQDALIEGTGVSRKLH-LHARAVRLPHPRTGKMLEVAAPLP 297
>gi|378767349|ref|YP_005195814.1| ribosomal large subunit pseudouridine synthase A RluA [Pantoea
ananatis LMG 5342]
gi|365186827|emb|CCF09777.1| ribosomal large subunit pseudouridine synthase A RluA [Pantoea
ananatis LMG 5342]
Length = 232
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 74/258 (28%), Positives = 108/258 (41%), Gaps = 44/258 (17%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LY+D+ LV ++KP G+ S+ P L DS + + G L +RLD
Sbjct: 19 ILYQDDHLVLIDKPSGLL--SLSGKNPQNL--DSVHYRLVTIFPGCTL-------VHRLD 67
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
TSG+MV+ ++ + + L K F+ V+K Y AL + GH + G
Sbjct: 68 FGTSGLMVVARNKTINAALSKQFSARTVAKHYSAL-------------LCGHLPDEEGII 114
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A D R F +S+ E S + E N + +V+
Sbjct: 115 DAPIAKDPAR--------------FPRMSICAEWGKPARSRYRVVERFNPKRDDASVIPL 160
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
V P +GRTHQ+R+HCQ LG I G Y G+ ++ LHA L
Sbjct: 161 TR------VTLIPETGRTHQLRIHCQLLGHPILGCDLYGGLLLPGTEQTPRLMLHASELQ 214
Query: 326 FDHPVTGCPVMVQAPLPL 343
F HPVTG P + +P P
Sbjct: 215 FIHPVTGEPFHIVSPSPF 232
>gi|84685385|ref|ZP_01013283.1| ribosomal large subunit pseudouridine synthase C [Maritimibacter
alkaliphilus HTCC2654]
gi|84666542|gb|EAQ13014.1| ribosomal large subunit pseudouridine synthase C [Rhodobacterales
bacterium HTCC2654]
Length = 350
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 85/304 (27%), Positives = 123/304 (40%), Gaps = 63/304 (20%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLP E A S ++ R V+Y D+ ++A+NKP G+ +
Sbjct: 65 PPLPDPG---ERPAAPRPSVTDKDAQMIRDCVIYRDDHIIALNKPPGLPTQ--------- 112
Query: 115 LAGDSAESKSGRLSEGTKLNLL-----ELHLANRLDRDTSGVMVITKSHKVASKLVKAFT 169
SK R +G L + L +RLD+DTSGV+++ ++ +VA L AF
Sbjct: 113 -----GGSKQTRHVDGLAEVLTFGYDDKPRLVHRLDKDTSGVLLLARTRQVAKDLTDAFR 167
Query: 170 DHKVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVT 228
K Y A+ G P P R W + A G G ++ +
Sbjct: 168 HRNTRKIYWAVVAGVPLP------------RKGTVKWGLVKAPGHGGQGEGEKML--CIH 213
Query: 229 SFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRL 288
EV V G + E + +V+E A + V P +GRTHQ+R
Sbjct: 214 PSEVAKVEG---------AKRAETDYVVIENLA-------QRAAWVGLTPITGRTHQLRA 257
Query: 289 HCQYLGISIRGDVKYEGVYEWN-----GKRYDGH-----ELHAESLSFDHPVTGCPVMVQ 338
H +G I GD KY G + N G G LHA S+ +HPVT P+ ++
Sbjct: 258 HMAEMGHPIVGDGKYGGSGQENLGDGWGAMLGGEISKKLHLHARSIEIEHPVTKKPIFIE 317
Query: 339 APLP 342
A LP
Sbjct: 318 AALP 321
>gi|401763195|ref|YP_006578202.1| 23S rRNA pseudouridylate synthase C [Enterobacter cloacae subsp.
cloacae ENHKU01]
gi|400174729|gb|AFP69578.1| 23S rRNA pseudouridylate synthase C [Enterobacter cloacae subsp.
cloacae ENHKU01]
Length = 315
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 75/260 (28%), Positives = 110/260 (42%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRG---QWQ-------------SHV 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PSE VE++
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVNQEG---KPSE------TRFKVEERYEFAT 230
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
LVR P +GRTHQIR+H Q+ G I D +Y G E++ G LHA
Sbjct: 231 -------LVRCSPVTGRTHQIRVHTQFAGHPIAFDDRY-GDREFDKQLAGTGLSRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP TG + ++APL
Sbjct: 283 AALKFTHPNTGEVIRIEAPL 302
>gi|299535889|ref|ZP_07049209.1| putative RNA pseudouridine synthase ylyB [Lysinibacillus fusiformis
ZC1]
gi|424738829|ref|ZP_18167258.1| putative RNA pseudouridine synthase ylyB [Lysinibacillus fusiformis
ZB2]
gi|298728641|gb|EFI69196.1| putative RNA pseudouridine synthase ylyB [Lysinibacillus fusiformis
ZC1]
gi|422947313|gb|EKU41710.1| putative RNA pseudouridine synthase ylyB [Lysinibacillus fusiformis
ZB2]
Length = 303
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 71/259 (27%), Positives = 113/259 (43%), Gaps = 51/259 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D++YED ++ VNKP+G+ V+ P + G + + +N +L + +R
Sbjct: 81 DIVYEDADVLVVNKPKGM----VVHPAPGHMGGTLVNGLMYHCKDLSGINGVLRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ YIAL G K TI + GR +
Sbjct: 137 IDKDTSGLLMVAKNDTAHESLVNQLVNKTVTRKYIALVHGHIAHDKG-TIDAPIGRDQKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ A D G+ VT F+V+ G+ +
Sbjct: 196 RQK-QAVVDNGK---------HAVTHFQVVERFGDYT----------------------- 222
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
LV +GRTHQIR+H Y+G + GD KY + + G LHA +
Sbjct: 223 ---------LVECRLETGRTHQIRVHMNYIGFPLVGDPKYGPKKTID---FGGQVLHAAT 270
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L FDHP +G + + PLP
Sbjct: 271 LGFDHPSSGEYLEFETPLP 289
>gi|395217330|ref|ZP_10401583.1| pseudouridine synthase [Pontibacter sp. BAB1700]
gi|394455011|gb|EJF09565.1| pseudouridine synthase [Pontibacter sp. BAB1700]
Length = 361
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 80/284 (28%), Positives = 111/284 (39%), Gaps = 80/284 (28%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL------ 138
+++YEDE L+ +NK P ++ + SG L +L +L
Sbjct: 116 NIMYEDEELLIINKE------------PGMVVHPGFNNWSGTLVNALTYHLQQLPTTRNG 163
Query: 139 ----HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITII 194
L +R+D+DTSG++VI K+ + L K F H + +TY AL G PK TI+
Sbjct: 164 EGRPGLVHRIDKDTSGLLVIAKTEYSMAFLAKQFFKHTIERTYYALVWG-VPKQDEGTIV 222
Query: 195 SGHGRSKFGAWRVYAASD--VGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
GRS A D V V P G + VT ++VL +K S
Sbjct: 223 GHVGRS---------AKDRRVMTVYPNGEFGKHAVTHYKVLQ-----KYKYVS------- 261
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG- 311
LV+ +GRTHQIR H +YLG + D Y G G
Sbjct: 262 --------------------LVQCNLETGRTHQIRAHMKYLGHPLFSDATYGGDKILQGM 301
Query: 312 -------------KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
K LHA+SL F HP T + + LP
Sbjct: 302 PTGSYKTFVENAFKLMPRQALHAKSLGFIHPTTKEFIQFNSELP 345
>gi|297566959|ref|YP_003685931.1| RluA family pseudouridine synthase [Meiothermus silvanus DSM 9946]
gi|296851408|gb|ADH64423.1| pseudouridine synthase, RluA family [Meiothermus silvanus DSM 9946]
Length = 315
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 77/272 (28%), Positives = 112/272 (41%), Gaps = 66/272 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSE-----GTKLN----- 134
++LYED+ LV VNKP G+ + P + +G + GR +E T+L
Sbjct: 74 EILYEDQDLVVVNKPAGM----ITHPAPGVTSGTLVNAILGRYAELRGVLATQLEDEEAP 129
Query: 135 ----LLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
L+ + +RLD+DTSGV+++ + +L +AF V K Y+A+ +G K
Sbjct: 130 PRPELIRPGIVHRLDKDTSGVILVARHEAAHRRLSEAFRGRSVYKRYLAITVGHP---KE 186
Query: 191 ITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
T + GR D R+ GG R T FE+L++ GE +
Sbjct: 187 GTFAAPIGRHPV---------DRTRMHVGGIAPRYAETDFEILAIAGEYA---------- 227
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
LV A +GRTHQIR+H + L I GD VY
Sbjct: 228 ----------------------LVSAILHTGRTHQIRVHLKALHAPILGD----DVYGKP 261
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP +G + AP+P
Sbjct: 262 SGLIARQALHAYELRIQHPRSGKYLEFTAPVP 293
>gi|398382781|ref|ZP_10540862.1| pseudouridine synthase, RluA family [Sphingobium sp. AP49]
gi|397726181|gb|EJK86622.1| pseudouridine synthase, RluA family [Sphingobium sp. AP49]
Length = 298
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 81/323 (25%), Positives = 131/323 (40%), Gaps = 72/323 (22%)
Query: 28 LASMSNPTEPTSQNAPQTQQNYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVL 87
++S S P+ + A + P L A+++DI L D++
Sbjct: 28 ISSGSRSLNPSMKVAAGQDFSITLPAPVALDAVAQDIPL------------------DIV 69
Query: 88 YEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRD 147
+ED L+ V+KP G+ ++ L G+LS G + + +R+D+D
Sbjct: 70 HEDADLIVVDKPAGLVVHPAAGNLDGTLVNALLHHCDGQLS-GIG-GVARPGIVHRIDKD 127
Query: 148 TSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWR 206
TSG++V+ KS K L + F DH + + Y A+ G P P G AW
Sbjct: 128 TSGLLVVAKSDKAHEGLARQFKDHSIDRLYAAIVYGIPTP-----------GSGTVDAW- 175
Query: 207 VYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDAD 266
SD R + ++V+ EG K H + V ++
Sbjct: 176 -IGRSDADR---------------KKMAVHREGRGK-------HAVTHYRVMERL----- 207
Query: 267 AKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR-------YDGHEL 319
+ +V +GRTHQ+R+H +LG + GD Y + G + + L
Sbjct: 208 --RGAAMVECRLETGRTHQVRVHMAHLGHPLIGDPVYG--RDRKGFKSILETLSFKRQAL 263
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA+ L F HP+TG P+ +PLP
Sbjct: 264 HAKRLGFIHPLTGEPLAFDSPLP 286
>gi|334122475|ref|ZP_08496513.1| ribosomal large subunit pseudouridine synthase C [Enterobacter
hormaechei ATCC 49162]
gi|419957492|ref|ZP_14473558.1| 23S rRNA pseudouridylate synthase C [Enterobacter cloacae subsp.
cloacae GS1]
gi|333392082|gb|EGK63189.1| ribosomal large subunit pseudouridine synthase C [Enterobacter
hormaechei ATCC 49162]
gi|388607650|gb|EIM36854.1| 23S rRNA pseudouridylate synthase C [Enterobacter cloacae subsp.
cloacae GS1]
Length = 315
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 75/260 (28%), Positives = 110/260 (42%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRG---QWQ-------------SHV 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PSE VE++
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVNQEG---KPSE------TRFKVEERYEFAT 230
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
LVR P +GRTHQIR+H Q+ G I D +Y G E++ G LHA
Sbjct: 231 -------LVRCSPVTGRTHQIRVHTQFAGHPIAFDDRY-GDREFDKQLAGTGLSRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP TG + ++APL
Sbjct: 283 AALKFTHPNTGEVIRIEAPL 302
>gi|323144879|ref|ZP_08079445.1| rRNA pseudouridylate synthase C [Succinatimonas hippei YIT 12066]
gi|322415346|gb|EFY06114.1| rRNA pseudouridylate synthase [Succinatimonas hippei YIT 12066]
Length = 335
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 75/265 (28%), Positives = 113/265 (42%), Gaps = 57/265 (21%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN 142
+ + +E+E L+ V+KP G+ G E + L LA+
Sbjct: 111 KDRICFENEALIVVDKPAGIAAH----------GGSGIEFGLIEALRALRPEFSFLELAH 160
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLDR+TSG +++ K L + F + K Y+ L G KW R R K
Sbjct: 161 RLDRETSGCLIVAKRRSALRNLHEQFRSRVIKKRYLTLVPG---KWDR--------RLK- 208
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
L +VR+ + S E ++ VN + + EE N
Sbjct: 209 --------------LVEAPLVRNELRSGERMVEVNFKSGAPSATGFDIVEELN------- 247
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK-RYDGHE-- 318
+ L+ A P +GRTHQIR+HC Y+ + GDVKY G E+N + + G +
Sbjct: 248 --------DATLMAAMPHTGRTHQIRVHCAYVKHPVGGDVKY-GSEEFNDRLKALGLKRM 298
Query: 319 -LHAESLSFDHPVTGCPVMVQAPLP 342
LHA ++F PV+G + V+APLP
Sbjct: 299 FLHAAKITFTDPVSGKLLKVEAPLP 323
>gi|281421451|ref|ZP_06252450.1| ribosomal large subunit pseudouridine synthase A [Prevotella copri
DSM 18205]
gi|281404523|gb|EFB35203.1| ribosomal large subunit pseudouridine synthase A [Prevotella copri
DSM 18205]
Length = 556
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 70/276 (25%), Positives = 120/276 (43%), Gaps = 62/276 (22%)
Query: 71 SASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEG 130
+ +++++Y ++ + LYED L + KP+G L SVP D+A+ L
Sbjct: 328 TQQTETTIY--NKVETLYEDRELAVIYKPEG------LLSVP---GKDAAQPSVYALMRR 376
Query: 131 TKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
+ +RLD TSG+M+I K+ +L K F +H+V K Y+A+
Sbjct: 377 KYQEATGPLIVHRLDMATSGLMIIAKTEFAYHRLQKEFLNHRVQKKYVAIVC-------- 428
Query: 191 ITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
G+ K R+ ++ GR G + ++ F P ++
Sbjct: 429 -------GKDKESCNRILKEAEGGR----GYISLPLIADF----------LDRPRQMVNR 467
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVY 307
E+ + + VL+ + + +P++GRTHQ+R+HC + L I GD Y
Sbjct: 468 EQGKEAITEYEVLER-IDDTHLRLALYPKTGRTHQLRVHCAHQEGLNAPIIGDPLY---- 522
Query: 308 EWNGKRYDGHE------LHAESLSFDHPVTGCPVMV 337
G+E LHAE ++F+HP+TG + V
Sbjct: 523 --------GNEPATRLHLHAEEITFEHPMTGKKMTV 550
>gi|410696658|gb|AFV75726.1| pseudouridine synthase, RluA family [Thermus oshimai JL-2]
Length = 304
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 74/260 (28%), Positives = 105/260 (40%), Gaps = 55/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGR---LSEGTKLNLLELHLAN 142
VLYEDE ++ +NKP G+ P + G + GR + E + + +
Sbjct: 74 VLYEDEDMLVLNKPPGLLTHPA----PGVYTGTVVNALLGRYYEVEEAEPPERVRPGIVH 129
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD+DTSGV+V+ K L +AF + V K Y+AL G K T+I+ GR
Sbjct: 130 RLDKDTSGVLVVAKHGGALEALARAFRNRLVFKRYLALTEG---HPKEGTLIAPIGRHPV 186
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
R++ GG R T +L+ G +
Sbjct: 187 ERHRMHV---------GGIAARYAETDIALLATQGPYA---------------------- 215
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
LV A P +GRTHQIR+H ++L I GD +Y LHA
Sbjct: 216 ----------LVEARPHTGRTHQIRVHLKHLRAPILGD----ELYGRKSPHIPRQALHAY 261
Query: 323 SLSFDHPVTGCPVMVQAPLP 342
L HP TG + +AP+P
Sbjct: 262 ELRLPHPRTGRILEFRAPVP 281
>gi|418465793|ref|ZP_13036725.1| 23S rRNA pseudouridylate synthase C [Aggregatibacter
actinomycetemcomitans RhAA1]
gi|359755291|gb|EHK89455.1| 23S rRNA pseudouridylate synthase C [Aggregatibacter
actinomycetemcomitans RhAA1]
Length = 319
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 72/265 (27%), Positives = 111/265 (41%), Gaps = 66/265 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++ED +L+ +NKP G+ ++ A R L L +RLD
Sbjct: 97 IIFEDNYLLVLNKPSGIAVHGGSGLDFGVIEALRALRPEARF----------LELVHRLD 146
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + V K Y+AL G +W+
Sbjct: 147 RDTSGILLVAKKRSALRNLHEQLREKTVQKDYLALVRG---QWQ-------------SHC 190
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + L GG ++ V+ +G +PSE VE++
Sbjct: 191 KVVQAPLLKNELAGGE---------RIVKVSEQG---KPSE------TRFSVEERYA--- 229
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------- 318
N L++A P +GRTHQIR+H QY G I D KY K +D H
Sbjct: 230 ----NATLIKASPVTGRTHQIRVHTQYAGHPIAFDSKY------GDKEFDQHMAELGLNR 279
Query: 319 --LHAESLSFDHPVTGCPVMVQAPL 341
LHA ++ F+HP +G + + APL
Sbjct: 280 LFLHAYAIRFEHPHSGEMLRLTAPL 304
>gi|372279855|ref|ZP_09515891.1| ribosomal large subunit pseudouridine synthase D [Oceanicola sp.
S124]
Length = 350
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 78/292 (26%), Positives = 113/292 (38%), Gaps = 82/292 (28%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLLA--GDSAESKSGRLSEGTKLNLLE 137
D+++ED +V VNKP G+ S V LLA GDS G G
Sbjct: 94 DIVFEDAEMVIVNKPAGMVVHPAPGSPGGTLVNALLAHCGDSLSGIGGEKRPG------- 146
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISG 196
+ +R+D++TSG++V+ KS + L F H + Y+ALC G P P R+ + G
Sbjct: 147 --IVHRIDKETSGLLVVAKSDRAHHALAAQFEKHTAERAYLALCHGVPDPADPRLRGVRG 204
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
SFE G G K ++L H +
Sbjct: 205 -------------------------------ASFE-----GGGVLKLQTQLGRHRSDR-- 226
Query: 257 VEKKAVLDADAKKNEILVRAFPR---------------SGRTHQIRLHCQYLGISIRGDV 301
+K+AV + R R +GRTHQIR+H + G ++ GD
Sbjct: 227 -QKQAVYFDQGRHAVTRARLLQRYGTPPSLALVECRLETGRTHQIRVHMAHAGHALVGDP 285
Query: 302 KYEGVYEWNGK-----------RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
Y G + + K + LHA L HPV+G + +APLP
Sbjct: 286 TYGGRRKASVKALGAVGAVAVDAFPRQALHAALLGVAHPVSGELLRFEAPLP 337
>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 = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 75/263 (28%), Positives = 112/263 (42%), Gaps = 58/263 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL-HLANR 143
DV+YED ++ +NKP+G+ V +G + + + +N ++ + +R
Sbjct: 81 DVVYEDGDVIVINKPKGMVVHPAAGHV----SGTLVNALLHHCQDLSGINGVKRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ L + D + YIAL G P + TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDLAHESLAQQLKDKTTERLYIALVHGEIPH-ELGTIEAPVGRDK-- 193
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+D R+ + VT F VL E E VVE K
Sbjct: 194 -------NDRQRMTVTDKNSKAAVTHFRVL---------------ERYEGFTVVECKL-- 229
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
+GRTHQIR+H +Y+G + GD KY G R +G L
Sbjct: 230 ---------------ETGRTHQIRVHMRYIGFPLAGDPKY-------GPRKTMKMNGQAL 267
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA L F HP TG + +APLP
Sbjct: 268 HAAVLGFKHPRTGKMLHFEAPLP 290
>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 = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 77/278 (27%), Positives = 116/278 (41%), Gaps = 66/278 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLLAGDSAESKSGRLSEGTKLNLLELH 139
D++YED+ ++ VNKPQG+ V LL + +G G
Sbjct: 81 DIVYEDDDVIVVNKPQGMVVHPAPGHPNHTLVNALLYHSPLSTINGEFRPG--------- 131
Query: 140 LANRLDRDTSGVMVITK---SHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
+ +R+D+DTSG++++ K +H+ + +KA T+ + Y+AL G K + TI +
Sbjct: 132 IVHRIDKDTSGLLMVAKNDMAHRSLTAQLKAKTN---KREYVALVHG-VIKEDKGTIDAP 187
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
GRS + D R +T F VL
Sbjct: 188 LGRSLKDRKKQAVVVDG----------RHAITHFNVL----------------------- 214
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
+ KN LV +GRTHQIR+H +Y+G + GD Y G +G
Sbjct: 215 ---------ERFKNYTLVACQLETGRTHQIRVHMKYIGHPLAGDPLYGPRKTLAG---NG 262
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
LHA L F HP TG ++ APLP + T+ L+ K
Sbjct: 263 QYLHARLLGFKHPRTGKEMVFTAPLPAYFTKMLEHLRK 300
>gi|291545793|emb|CBL18901.1| pseudouridine synthase, RluA family [Ruminococcus sp. SR1/5]
Length = 298
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 74/260 (28%), Positives = 113/260 (43%), Gaps = 57/260 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSA--ESKSGRLSEGTKLNLLELHLAN 142
D+LYEDE ++ +NKP + + LA A + G+ N
Sbjct: 85 DILYEDEDILVLNKPADMPVHPSAGNYENTLANGVAWYYKQQGKA--------FVYRCIN 136
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLDRDT+GV+V+ K+ + L ++ +TY+AL G P+ I+
Sbjct: 137 RLDRDTTGVLVLAKNPLSGALLSAQMKQRQIRRTYLALTDGIPPERGTIS---------- 186
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
+ V R+ SV+ V +FE GE + E+ AV
Sbjct: 187 --------APVARM--DASVITREV-NFE----RGEAAVTH-------------YERLAV 218
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
+ A LV +GRTHQIR+H +Y+G + GD Y V++ G++ LH+
Sbjct: 219 SNGYA-----LVELHLDTGRTHQIRVHMKYIGCPLPGDFLYHPVFDRIGRQ----ALHSF 269
Query: 323 SLSFDHPVTGCPVMVQAPLP 342
L F HP+TG P+ AP+P
Sbjct: 270 QLEFAHPITGEPMCFLAPVP 289
>gi|119775123|ref|YP_927863.1| pseudouridylate synthase [Shewanella amazonensis SB2B]
gi|119767623|gb|ABM00194.1| ribosomal large subunit pseudouridine synthase C [Shewanella
amazonensis SB2B]
Length = 330
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 83/295 (28%), Positives = 122/295 (41%), Gaps = 68/295 (23%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PP+ KD R +++ + + +L +L+ED+ ++ +NKP G+ +
Sbjct: 81 PPVRVAEKDY---RTAPSANLNRVAQLE-DRILFEDKQIIVLNKPAGI----------AV 126
Query: 115 LAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVS 174
G + + L L +RLDRDTSGV++I K L + ++
Sbjct: 127 HGGSGVDYGVIESLRSLRPTCKFLELVHRLDRDTSGVLLIAKKRMALRHLHDQLRNKQMQ 186
Query: 175 KTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLS 234
K Y AL G +W+ H R V A + L G ++
Sbjct: 187 KVYQALVRG---QWQE------HDR-------VVKAPLLKITLKSGE---------RIVR 221
Query: 235 VNGEGSFKEPSE-----LQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLH 289
VN EG +PSE L+ +E + LV A P +GRTHQIR+H
Sbjct: 222 VNSEG---KPSETRFRVLRRFDEAS------------------LVEASPVTGRTHQIRVH 260
Query: 290 CQYLGISIRGDVKYEGVYEWNGKRYDGHE---LHAESLSFDHPVTGCPVMVQAPL 341
CQY G I D KY + R G + LHA L+F HP + + VQAPL
Sbjct: 261 CQYQGHPIACDDKYSEQKFDDAMRAKGLQRLFLHAAQLTFTHPESETQMTVQAPL 315
>gi|421852911|ref|ZP_16285594.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus subsp. pasteurianus LMG 1262 =
NBRC 106471]
gi|371478910|dbj|GAB30797.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus subsp. pasteurianus LMG 1262 =
NBRC 106471]
Length = 328
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 80/294 (27%), Positives = 122/294 (41%), Gaps = 62/294 (21%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLASV 111
PP+P +K R + L + R V+Y+D+ ++ +NKP G+ + + V
Sbjct: 64 PPIPMAAKP---ARDVPRPLDEKLAREIRKMVVYQDKHVIVLNKPAGLAVQGGPGITKHV 120
Query: 112 PCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH 171
+L G E L +R+D+DTSG++++ ++ VA+KL +F
Sbjct: 121 DMMLDGLREEDDP------------RPRLVHRIDKDTSGLLLLARTPGVAAKLAASFRGR 168
Query: 172 KVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSF 230
V K Y A+ +G P P I ++ GA
Sbjct: 169 DVKKIYWAVVVGRPDPLSGEID----QPLARLGA-------------------------- 198
Query: 231 EVLSVNGEGSFKEPSELQEHEENNI--VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRL 288
G GS ++ ++ + + V E VLD+ A+K L P +GRTHQ+R+
Sbjct: 199 ------GPGSITVAADRKDADAQSARSVYE---VLDSAARKFSWL-ELSPLTGRTHQLRV 248
Query: 289 HCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
HC+ LG I GD KY G D LHA L HP G + V A LP
Sbjct: 249 HCESLGTPILGDPKYGGAAAHPSGFTDRLHLHARMLDMPHPAGGR-LTVSAELP 301
>gi|242239020|ref|YP_002987201.1| pseudouridine synthase [Dickeya dadantii Ech703]
gi|242131077|gb|ACS85379.1| pseudouridine synthase, RluA family [Dickeya dadantii Ech703]
Length = 319
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 77/261 (29%), Positives = 116/261 (44%), Gaps = 58/261 (22%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED++L+ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDYLLVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + K Y+AL G W
Sbjct: 145 RDTSGVLLVAKKRSALRALHEQLRSKGMQKDYLALV--------------------RGQW 184
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
+ + S ++++++ S E ++ VNGEG +PSE VE++ D
Sbjct: 185 QSHCKS------VQAPLLKNILKSGERIVRVNGEG---KPSE------TLFKVEER--FD 227
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD-GHE---LH 320
LV+A P +GRTHQIR+H QY G I D +Y G ++ + D G + LH
Sbjct: 228 C-----ATLVKASPVTGRTHQIRVHAQYAGHPIAFDDRY-GDRAFDQQLADTGLKRLFLH 281
Query: 321 AESLSFDHPVTGCPVMVQAPL 341
A +L +HP TG + +APL
Sbjct: 282 AHALRLEHPHTGETLRFEAPL 302
>gi|449308658|ref|YP_007441014.1| 23S rRNA pseudouridylate synthase C [Cronobacter sakazakii SP291]
gi|449098691|gb|AGE86725.1| 23S rRNA pseudouridylate synthase C [Cronobacter sakazakii SP291]
Length = 317
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 74/266 (27%), Positives = 112/266 (42%), Gaps = 68/266 (25%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRG---QWQ---------------- 185
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
S V V ++++++ S E ++ VN EG +PSE + E +
Sbjct: 186 -----SHVKNV--QAPLLKNILQSGERIVRVNQEG---KPSETRFKVEERFAIA------ 229
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------ 318
LVR P +GRTHQIR+H QY G I D +Y + +D
Sbjct: 230 -------TLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRY------GDRAFDAQLASTGLN 276
Query: 319 ---LHAESLSFDHPVTGCPVMVQAPL 341
LHA +L F+HP TG + ++APL
Sbjct: 277 RLFLHAAALRFEHPGTGETMRIEAPL 302
>gi|421849506|ref|ZP_16282485.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus NBRC 101655]
gi|371459693|dbj|GAB27688.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase C
[Acetobacter pasteurianus NBRC 101655]
Length = 328
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 80/294 (27%), Positives = 122/294 (41%), Gaps = 62/294 (21%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLASV 111
PP+P +K R + L + R V+Y+D+ ++ +NKP G+ + + V
Sbjct: 64 PPIPMAAKP---ARDVPRPLDEKLAREIRKMVVYQDKHVIVLNKPAGLAVQGGPGITKHV 120
Query: 112 PCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH 171
+L G E L +R+D+DTSG++++ ++ VA+KL +F
Sbjct: 121 DMMLDGLREEDDP------------RPRLVHRIDKDTSGLLLLARTPGVAAKLAASFRGR 168
Query: 172 KVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSF 230
V K Y A+ +G P P I ++ GA
Sbjct: 169 DVKKIYWAVVVGRPDPLSGEID----QPLARLGA-------------------------- 198
Query: 231 EVLSVNGEGSFKEPSELQEHEENNI--VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRL 288
G GS ++ ++ + + V E VLD+ A+K L P +GRTHQ+R+
Sbjct: 199 ------GPGSITVAADRKDADAQSARSVYE---VLDSAARKFSWL-ELSPLTGRTHQLRV 248
Query: 289 HCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
HC+ LG I GD KY G D LHA L HP G + V A LP
Sbjct: 249 HCESLGTPILGDPKYGGAAAHPSGFTDRLHLHARMLDMPHPAGGR-LTVSAELP 301
>gi|400755741|ref|YP_006564109.1| ribosomal large subunit pseudouridine synthase C [Phaeobacter
gallaeciensis 2.10]
gi|398654894|gb|AFO88864.1| ribosomal large subunit pseudouridine synthase C [Phaeobacter
gallaeciensis 2.10]
Length = 348
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 85/304 (27%), Positives = 119/304 (39%), Gaps = 62/304 (20%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPL A D++ A S + K+ R V+Y+D+ ++ +NKP G+ +
Sbjct: 65 PPLGA--SDLKPAEAPSYRISEADAKMIRGCVIYKDDAVIVLNKPAGLAVQ--------- 113
Query: 115 LAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKV 173
G LS + + E L +RLD+DTSGV+V+ ++ A L AF
Sbjct: 114 -GGSGTTKHVDGLSAALQFDAEEKPRLVHRLDKDTSGVLVLARTRLAAQSLTAAFRHRAT 172
Query: 174 SKTYIALCIG-PAPKWKRITI----ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVT 228
K Y AL G P P I GHG+S G + +
Sbjct: 173 RKIYWALVAGVPTPYLGEIKCGLVKAPGHGKSGEGEKMI------------------AIH 214
Query: 229 SFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRL 288
S EV S G H V +A V P +GRTHQ+R
Sbjct: 215 SNEVDSTPG------AKRSHTHYATLYRVASRAA----------WVAMEPITGRTHQLRA 258
Query: 289 HCQYLGISIRGDVKYEGVYEWN-----GKRYDG-----HELHAESLSFDHPVTGCPVMVQ 338
H +G I GD KY G + N G + G LH ++F+HP T P+ +
Sbjct: 259 HMAEIGHPIAGDGKYGGSSQENLGDGWGAQLGGIISKKLHLHCRRMAFEHPTTKKPLSIT 318
Query: 339 APLP 342
APLP
Sbjct: 319 APLP 322
>gi|73666929|ref|YP_302945.1| ribosomal large subunit pseudouridine synthase C [Ehrlichia canis
str. Jake]
gi|72394070|gb|AAZ68347.1| ribosomal large subunit pseudouridine synthase C [Ehrlichia canis
str. Jake]
Length = 308
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 74/291 (25%), Positives = 131/291 (45%), Gaps = 61/291 (20%)
Query: 67 TRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCE---SVLASVPCLLAGDSAESK 123
T+ + + S L L + +LYED+ ++ +NKP GV + V S+ +L
Sbjct: 74 TKRICKTDSSYLINLISNSILYEDDDVLIINKPAGVSVQGGTKVRISISDIL-------- 125
Query: 124 SGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG 183
++ +G + + +RLD+DTSG++++ ++ + + ++ F + +V K Y+AL G
Sbjct: 126 -DKIRDGE-----SMRIVHRLDKDTSGILMLARNARASRLIMHEFKNRRVEKKYLALTQG 179
Query: 184 PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKE 243
PK I + K + ++G G S+ ++ +TSF VL K
Sbjct: 180 -IPKNDVGEINHSITKKKHNFY-----ENIG---TGNSIFQEAITSFFVLK-------KL 223
Query: 244 PSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY 303
P ++ L+ P++GR HQIR+H ++G SI GD KY
Sbjct: 224 PYDIG------------------------LLELKPKTGRKHQIRIHLSHIGCSIIGDKKY 259
Query: 304 EGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
G + N D +LHA LS D + + AP+P + + + + K
Sbjct: 260 -GKF-CNHVLNDHLQLHAHFLSID--IGNKKLSFTAPMPDYMKDTIMNLEK 306
>gi|398336436|ref|ZP_10521141.1| ribosomal large subunit pseudouridine synthase C [Leptospira kmetyi
serovar Malaysia str. Bejo-Iso9]
Length = 354
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 84/284 (29%), Positives = 120/284 (42%), Gaps = 56/284 (19%)
Query: 83 RSD--VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL---- 136
R+D +LYED+++VAV+KP GD +G +G L LL
Sbjct: 99 RTDYTILYEDDFIVAVDKP-----------------GDLPVHPAGVYRKGNLLTLLQESG 141
Query: 137 ---ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWK-RIT 192
EL +RLDR+TSGV++ K K AS L F+ + K YI G PK K
Sbjct: 142 NFGELFTIHRLDRETSGVVLFAKDSKTASFLSGLFSSGNIQKYYITKVYGDFPKRKIGYG 201
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
++ SK R + V R L ++ +++V +S + EE
Sbjct: 202 VLKSDATSKIRKKRAFEERKVDRSLR--TLKKNVVLETSTVS-------------EADEE 246
Query: 253 NNIVVEKKAVLDADAKKNE-ILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVY- 307
+ +K K N+ LV P +GR HQIR LG + GD Y E V+
Sbjct: 247 ICLTYFRKMECTKSIKLNDSSLVLCKPITGRMHQIRATLYSLGFPLWGDKLYGKDENVFL 306
Query: 308 EWNGKR---------YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
E+ ++ + LHA S+ F HPVT + APLP
Sbjct: 307 EFIDEKNPDLSARLGMERQALHAYSIRFTHPVTKKRTRISAPLP 350
>gi|167623698|ref|YP_001673992.1| RluA family pseudouridine synthase [Shewanella halifaxensis
HAW-EB4]
gi|167353720|gb|ABZ76333.1| pseudouridine synthase, RluA family [Shewanella halifaxensis
HAW-EB4]
Length = 319
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 73/259 (28%), Positives = 109/259 (42%), Gaps = 54/259 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+L+ED++L+ +NKP G+ + G E + L L +RLD
Sbjct: 98 ILFEDKYLIVLNKPSGI----------AVHGGSGVEFGVIEAMRSLRTQQKFLELVHRLD 147
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
++TSGV++I K L K+ K Y+AL G +W+ H +
Sbjct: 148 KETSGVLLIAKKRSALRHLHDQLRYKKMQKDYVALVRG---EWQ------SHDK------ 192
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
V A + L G ++ VN EG +E E ++++ +
Sbjct: 193 -VIKAPLLKLTLKSGE---------RIVRVNKEG--------KESETRFKILQRYS---- 230
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE---LHAE 322
+ LV+A P +GRTHQIR+HCQ+ G I D KY + R G LHA
Sbjct: 231 ----DSTLVQASPVTGRTHQIRVHCQFAGHPIACDEKYSEQKFDDSMRAQGLNRLFLHAA 286
Query: 323 SLSFDHPVTGCPVMVQAPL 341
L F HP T + V+APL
Sbjct: 287 QLKFTHPETEEVMQVKAPL 305
>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 = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 79/278 (28%), Positives = 118/278 (42%), Gaps = 66/278 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLLAGDSAESKSGRLSEGTKLNLLELH 139
D++YED+ ++ VNKPQG+ V LL + +G G
Sbjct: 81 DIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHSPLSTINGEFRPG--------- 131
Query: 140 LANRLDRDTSGVMVITK---SHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
+ +R+D+DTSG++++ K +H+ + +KA T+ + Y+AL G K + TI +
Sbjct: 132 IVHRIDKDTSGLLMVAKNDMAHRSLTAQLKAKTN---KREYVALVHG-VIKEDKGTIDAP 187
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
GRS + G V+ G R VT F VL
Sbjct: 188 LGRS------LKDRKKQGVVVDG----RHAVTHFNVL----------------------- 214
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
+ KN LV +GRTHQIR+H +Y+G + GD Y G +G
Sbjct: 215 ---------ERFKNYTLVACQLETGRTHQIRVHMKYIGHPLAGDPLYGPRKTLAG---NG 262
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
LHA L F HP TG ++ APLP + + L+ K
Sbjct: 263 QYLHARLLGFKHPRTGKEMVFTAPLPAYFVKMLEHLRK 300
>gi|455646412|gb|EMF25439.1| ribosomal large subunit pseudouridine synthase A [Citrobacter
freundii GTC 09479]
Length = 232
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 72/247 (29%), Positives = 103/247 (41%), Gaps = 44/247 (17%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++LY DE LV +NKP G+ S+ P L DS + ++ G L +RL
Sbjct: 18 EILYRDEHLVLINKPSGLL--SLSGKNPQNL--DSVHHRLVQIYPGCTL-------VHRL 66
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG+MV+ ++ + + L + F+ V+K Y AL + GH + G
Sbjct: 67 DFGTSGLMVVARNKAINAALCQQFSQRTVTKVYSAL-------------LCGHLENDEGV 113
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
A D F ++S+ G S Q E EK A+L
Sbjct: 114 IDAAIAKDPAL--------------FPLMSICGLNGKPARSRYQVVERFYHRQEKGALLP 159
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
V+ P +GRTHQ+R+HCQ LG I G Y G +R LHA L
Sbjct: 160 LTR------VQLMPETGRTHQLRIHCQLLGHPILGCDLYGGRLLPGTERAPRLMLHASEL 213
Query: 325 SFDHPVT 331
F HP++
Sbjct: 214 HFRHPIS 220
>gi|328946974|ref|YP_004364311.1| pseudouridine synthase [Treponema succinifaciens DSM 2489]
gi|328447298|gb|AEB13014.1| pseudouridine synthase [Treponema succinifaciens DSM 2489]
Length = 248
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 71/273 (26%), Positives = 107/273 (39%), Gaps = 69/273 (25%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
V+Y D+ +V +NK G+ L+A D ++++ RL + L +R+D
Sbjct: 9 VIYSDDEIVVLNKKSGL-----------LVAADRYDAEAPRLDLLAEKEFGSLFAVHRID 57
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG+++ K+ + + FT+ V KTY L G P W T+
Sbjct: 58 KDTSGIVIYAKTPEAHRNISIQFTERTVKKTYHCLVNG-HPAWDNFTV---------DLP 107
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ D R + + VT EV+ G S+
Sbjct: 108 LLPDGDDRHRTVINKKFGKPSVTYLEVVGHCGPYSW------------------------ 143
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG----------VYEWNGKRYD 315
++AFP++GRTHQIR H Q G I D Y G +WNG Y+
Sbjct: 144 --------IKAFPKTGRTHQIRAHLQSTGFPIVCDPLYSGNQKPVRLSDIKRKWNGDVYE 195
Query: 316 GH------ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA S+ HP TG ++ AP P
Sbjct: 196 ERPLLNRLALHAYSIEIAHPKTGEQIIFTAPYP 228
>gi|429118971|ref|ZP_19179715.1| Ribosomal large subunit pseudouridine synthase C ## LSU Psi955,
Psi2504 and Psi2580 [Cronobacter sakazakii 680]
gi|426326521|emb|CCK10452.1| Ribosomal large subunit pseudouridine synthase C ## LSU Psi955,
Psi2504 and Psi2580 [Cronobacter sakazakii 680]
Length = 317
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 74/266 (27%), Positives = 112/266 (42%), Gaps = 68/266 (25%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRG---QWQ---------------- 185
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
S V V ++++++ S E ++ VN EG +PSE + E +
Sbjct: 186 -----SHVKNV--QAPLLKNILQSGERIVRVNQEG---KPSETRFKVEERFAIA------ 229
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------ 318
LVR P +GRTHQIR+H QY G I D +Y + +D
Sbjct: 230 -------TLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRY------GDRAFDAQLASTGLN 276
Query: 319 ---LHAESLSFDHPVTGCPVMVQAPL 341
LHA +L F+HP TG + ++APL
Sbjct: 277 RLFLHAAALRFEHPGTGETMRIEAPL 302
>gi|365855074|ref|ZP_09395131.1| pseudouridine synthase, RluA family [Acetobacteraceae bacterium
AT-5844]
gi|363719513|gb|EHM02820.1| pseudouridine synthase, RluA family [Acetobacteraceae bacterium
AT-5844]
Length = 326
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 78/278 (28%), Positives = 119/278 (42%), Gaps = 57/278 (20%)
Query: 68 RAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRL 127
R +S +L ++ +L++DE ++A+NKP G+ + G + + +
Sbjct: 79 REVSPEDAKALERM----ILFQDESIIALNKPHGLPVQ----------GGPNIKKHLDGM 124
Query: 128 SEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAP 186
+ + E L +RLDRDTSGV+++ + + AS L KAF KTY A+ +G P
Sbjct: 125 LDALRFGHEERPRLVHRLDRDTSGVILLARDQRAASFLAKAFRSRDAKKTYWAIVVG-QP 183
Query: 187 KWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSE 246
++ + GR+ DM L+ G G E
Sbjct: 184 QY-----------------------EAGRI--------DM-----PLAKQGGGPQGERVV 207
Query: 247 LQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHC-QYLGISIRGDVKYEG 305
E +E V + D A+++ + P +GRTHQ+R+HC L I GD KY G
Sbjct: 208 PAEGKEGAFAVTEYTTRDV-ARRHATWLELHPLTGRTHQLRVHCASALETPILGDGKYGG 266
Query: 306 -VYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G + H LHA L HP G + V APLP
Sbjct: 267 QAAHLEGMSHSLH-LHARHLHIPHPDGGT-LDVTAPLP 302
>gi|282882144|ref|ZP_06290785.1| ribosomal large subunit pseudouridine synthase D [Peptoniphilus
lacrimalis 315-B]
gi|281298174|gb|EFA90629.1| ribosomal large subunit pseudouridine synthase D [Peptoniphilus
lacrimalis 315-B]
Length = 295
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 72/271 (26%), Positives = 116/271 (42%), Gaps = 73/271 (26%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEG---------TKLNL 135
+V+YEDE++ ++KPQ + V + AG+S SG L G + L+
Sbjct: 76 NVIYEDEYIAVISKPQDL--------VVHIGAGNS----SGTLVNGLLYKFKNQLSDLDP 123
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
L + +RLD++TSG+M+I K+++ LV F + ++ K Y+A+ G P+ I
Sbjct: 124 LRPGIVHRLDKNTSGLMIIAKNNQAHINLVDQFKNSQIKKYYLAIVHGKTPESGIIAEPI 183
Query: 196 G---HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
G + R K VY S + +T +K+ E QE+
Sbjct: 184 GRNPNDRKKMAV--VYKNS------------KQAIT-----------KYKKLKEFQEYSL 218
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
NI + +GRTHQIR+H Y+G + GD+ Y N
Sbjct: 219 LNINL---------------------LTGRTHQIRVHMAYIGYPVLGDIIYG---RKNSL 254
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLPL 343
+ D LH+ L F+HP+T + P+
Sbjct: 255 KIDKQMLHSYKLIFNHPITNQKMEFTDEFPI 285
>gi|389841401|ref|YP_006343485.1| 23S rRNA pseudouridylate synthase C [Cronobacter sakazakii ES15]
gi|387851877|gb|AFJ99974.1| 23S rRNA pseudouridylate synthase C [Cronobacter sakazakii ES15]
Length = 317
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 74/266 (27%), Positives = 112/266 (42%), Gaps = 68/266 (25%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRG---QWQ---------------- 185
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
S V V ++++++ S E ++ VN EG +PSE + E +
Sbjct: 186 -----SHVKNV--QAPLLKNILQSGERIVRVNQEG---KPSETRFKVEERFAIA------ 229
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------ 318
LVR P +GRTHQIR+H QY G I D +Y + +D
Sbjct: 230 -------TLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRY------GDRAFDAQLASTGLN 276
Query: 319 ---LHAESLSFDHPVTGCPVMVQAPL 341
LHA +L F+HP TG + ++APL
Sbjct: 277 RLFLHAAALRFEHPGTGETMRIEAPL 302
>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 = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 70/263 (26%), Positives = 104/263 (39%), Gaps = 60/263 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLLAGDSAESKSGRLSEGTKLNLLELH 139
D++YEDE ++ VNKPQG+ V LLA + +G G
Sbjct: 78 DIVYEDEDVLVVNKPQGMVVHPSPGHPDKTLVNALLAHSPLSTINGEFRPG--------- 128
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
+ +R+D+DTSG++++ K+ + L + YIAL G I +G+
Sbjct: 129 IVHRIDKDTSGLLMVAKNDQAHRSLAAQLKAKTNIREYIALVHG--------VIKEDNGK 180
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
R V+ GG R+ VT F V+
Sbjct: 181 IDAPLGRSPKDRKKQAVVSGG---RNAVTRFSVIK------------------------- 212
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
+N L++ +GRTHQIR+H +Y+G + GD Y G +G L
Sbjct: 213 -------RYQNYTLIKCILETGRTHQIRVHLKYIGHPLVGDPLYGPSKTIKG---NGQFL 262
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA L F HP TG ++ PLP
Sbjct: 263 HAGKLGFKHPRTGKELVFDVPLP 285
>gi|422013857|ref|ZP_16360475.1| 23S rRNA pseudouridylate synthase C [Providencia burhodogranariea
DSM 19968]
gi|414102369|gb|EKT63962.1| 23S rRNA pseudouridylate synthase C [Providencia burhodogranariea
DSM 19968]
Length = 319
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 74/265 (27%), Positives = 108/265 (40%), Gaps = 66/265 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 94 ILYEDDSILVINKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 143
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + ++ K Y+AL G W+ T
Sbjct: 144 RDTSGILLVAKKRSALRALHEQLRLKQMQKDYMALVRG---NWQSHT------------- 187
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PSE + E
Sbjct: 188 KVVQAPLLKNILQSGE---------RIVRVNSEG---KPSETRFKVEERF---------- 225
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------- 318
N LV+A P +GRTHQIR+H + G I D +Y K++D
Sbjct: 226 ---DNATLVKASPVTGRTHQIRVHTLHAGHPIAFDNRY------GDKQFDSQLAGTGLKR 276
Query: 319 --LHAESLSFDHPVTGCPVMVQAPL 341
LHA SL F HP +G + +QAPL
Sbjct: 277 LFLHASSLKFTHPKSGEEMRIQAPL 301
>gi|386079495|ref|YP_005993020.1| ribosomal large subunit pseudouridine synthase A RluA [Pantoea
ananatis PA13]
gi|354988676|gb|AER32800.1| ribosomal large subunit pseudouridine synthase A RluA [Pantoea
ananatis PA13]
Length = 232
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 75/259 (28%), Positives = 111/259 (42%), Gaps = 46/259 (17%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LY+D+ LV ++KP G+ S+ P L DS + + G L +RLD
Sbjct: 19 ILYQDDHLVLIDKPSGLL--SLSGKNPQNL--DSVHYRLVTIFPGCTL-------VHRLD 67
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
TSG+MV+ ++ + + L + F+ V+K Y AL + GH + G
Sbjct: 68 FGTSGLMVVARNKTINAALSQQFSARTVAKHYSAL-------------LCGHLPDEEGII 114
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A D R F +S+ E S + VVE+ +
Sbjct: 115 DAPIAKDPAR--------------FPRMSICAEWGKPARSRYR-------VVERFNLKRD 153
Query: 266 DAKKNEIL-VRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
DA+ + V P +GRTHQ+R+HCQ LG I G Y G+ ++ LHA L
Sbjct: 154 DARVIPLTRVTLIPETGRTHQLRIHCQLLGHPILGCDLYGGLLLPGMEQTPRLMLHASEL 213
Query: 325 SFDHPVTGCPVMVQAPLPL 343
F HPVTG P + +P P
Sbjct: 214 QFIHPVTGEPFHIVSPSPF 232
>gi|317049313|ref|YP_004116961.1| pseudouridine synthase [Pantoea sp. At-9b]
gi|316950930|gb|ADU70405.1| pseudouridine synthase [Pantoea sp. At-9b]
Length = 259
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 75/262 (28%), Positives = 120/262 (45%), Gaps = 46/262 (17%)
Query: 85 DVLYEDEWLVAVNKPQG-VYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
+++Y+DEWLVAVNKP G + S L ++ + + G+ + A+R
Sbjct: 3 EIIYQDEWLVAVNKPAGWLVHRSWLDRKEKVVVMQTVRDQIGQ----------HVFTAHR 52
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LDR TSGV+++ S +V L + F H++ KTY A+ G W ++
Sbjct: 53 LDRPTSGVLLMGLSSEVGRLLAQQFEQHQIRKTYHAVLRG----W----LMESGTLDYPL 104
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ +D P G + VT F++L+ H E + + + A
Sbjct: 105 VEELDKIADKFATEPRGP--QPAVTDFQMLA---------------HTEMPVAIGRYAT- 146
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
A+ + LV PR+GR HQ+R H +L I GD + + + G D L
Sbjct: 147 ---ARYS--LVEMQPRTGRKHQLRRHMAHLRHPIIGDTTHGDLRQNRGAAANFGLDRLML 201
Query: 320 HAESLSFDHPVTGCPVMVQAPL 341
HA +LS +HPVTG P++++A L
Sbjct: 202 HASALSLNHPVTGEPLVIRAGL 223
>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 = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 76/271 (28%), Positives = 108/271 (39%), Gaps = 77/271 (28%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN--- 142
++YEDE + +NKPQG+ S + GT +N L H+ +
Sbjct: 80 IVYEDEDVAVINKPQGMVVHP-----------------SAGHTHGTMVNALMYHIKDLST 122
Query: 143 -----------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
R+D+DTSG++++ K+ + L + D + Y+AL G P K
Sbjct: 123 INGVIRPGIVHRIDKDTSGLLMVAKNDQAHESLAQQLKDKTSLRKYVALVHGEIPHEKG- 181
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
TI + GRSK D G S V T F VL E
Sbjct: 182 TINAPIGRSKENRKMQVIRED------GKSAV----THFTVL---------------ERF 216
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
E +VE K +GRTHQIR+H +Y+G + GD Y G
Sbjct: 217 EGFTLVELKL-----------------ETGRTHQIRVHMKYIGYPLAGDPVYGPKKTLKG 259
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G LHA+ L F HP T ++ +APLP
Sbjct: 260 ---NGQFLHAQMLGFTHPTTNEKMIFEAPLP 287
>gi|152979496|ref|YP_001345125.1| 23S rRNA pseudouridylate synthase C [Actinobacillus succinogenes
130Z]
gi|150841219|gb|ABR75190.1| pseudouridine synthase, RluA family [Actinobacillus succinogenes
130Z]
Length = 319
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 77/259 (29%), Positives = 112/259 (43%), Gaps = 54/259 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++ED+ L+ +NKP G+ ++ G A R L L +RLD
Sbjct: 96 IIFEDDCLLVLNKPSGIAVHGGSGLSFGVIEGLRALRPHARF----------LELVHRLD 145
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K V L + V K Y+AL G +W+
Sbjct: 146 RDTSGILLVAKKRSVLRNLHEQLRLKTVQKDYLALVRG---QWQ-------------SHV 189
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ A + L GG ++ V+ +G +PSE VE++ A
Sbjct: 190 KAVKAPLLKNELSGGE---------RMVRVSEQG---KPSE------TRFSVEERY---A 228
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE---LHAE 322
DA LV+A P +GRTHQIR+H QY G I D KY G G LHA
Sbjct: 229 DA----TLVKASPVTGRTHQIRVHAQYAGHPIAMDDKYGDRNFDAGMAALGLNRLFLHAA 284
Query: 323 SLSFDHPVTGCPVMVQAPL 341
++ F+HP TG P+ + APL
Sbjct: 285 NIRFEHPKTGEPLRLNAPL 303
>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 = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 71/279 (25%), Positives = 110/279 (39%), Gaps = 82/279 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YED+ ++ +NKP+ D +GT LN L H
Sbjct: 85 DIVYEDDDILVINKPR-----------------DFVVHPGAGTPDGTVLNALLHHCPSLA 127
Query: 140 ------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+ +RLD+DT+G+MV+ K+ + ++LV+A K+++ Y AL IG +
Sbjct: 128 EVPRAGIVHRLDKDTTGLMVVAKTIQAQTRLVRALQKRKITREYEALAIGQMTGGGTVEK 187
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
G +K V+ +D +T + V +EH
Sbjct: 188 PIGRHSTKRTCMAVHEMG------------KDAITHYRV-----------AERFREH--- 221
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGV------- 306
I++R +GRTHQIR+H YL + GDV Y G
Sbjct: 222 ----------------TRIVLRL--ETGRTHQIRVHMSYLSHPLIGDVTYGGRPRPPRNA 263
Query: 307 ---YEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ + +D LHA L DHP+TG + APLP
Sbjct: 264 SPEFIQALRAFDRQALHARMLRLDHPITGEKMEWHAPLP 302
>gi|190570815|ref|YP_001975173.1| ribosomal large subunit pseudouridine synthase C [Wolbachia
endosymbiont of Culex quinquefasciatus Pel]
gi|213019659|ref|ZP_03335464.1| ribosomal large subunit pseudouridine synthase C, putative
[Wolbachia endosymbiont of Culex quinquefasciatus JHB]
gi|190357087|emb|CAQ54492.1| ribosomal large subunit pseudouridine synthase C, putative
[Wolbachia endosymbiont of Culex quinquefasciatus Pel]
gi|212994700|gb|EEB55343.1| ribosomal large subunit pseudouridine synthase C, putative
[Wolbachia endosymbiont of Culex quinquefasciatus JHB]
Length = 307
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 73/268 (27%), Positives = 114/268 (42%), Gaps = 58/268 (21%)
Query: 78 LYKLSRSDVLYEDEWLVAVNKPQGVYCE---SVLASVPCLLAGDSAESKSGRLSEGTKLN 134
L L R ++LYEDE+++A+NKP GV + V S+ LL D +
Sbjct: 82 LVNLLRENILYEDEYILAINKPAGVIVQGGIKVKISISDLL--DQIRERE---------- 129
Query: 135 LLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITII 194
+ +RLDRDTSGV++ ++ VA L++ F ++ KTY+AL G K
Sbjct: 130 --IFKIVHRLDRDTSGVIIFARNASVAKYLMEEFKGRRIKKTYLALTFGIPSK------- 180
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
D G + +V+ ++ E + V+ + P H
Sbjct: 181 -----------------DNGTI--DYPLVKKYISGQEKVVVDEDS----PQNATTH---- 213
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY 314
++ A K N ++ P +GRTHQ+R H ++ I GD KY G +
Sbjct: 214 ------FLIIARLKHNVAYLKLQPITGRTHQLRAHLAHINCPILGDGKYGGKKAFIDGVA 267
Query: 315 DGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LH+ SLS P V + AP+P
Sbjct: 268 NQIHLHSYSLSLKLP-NNKEVTITAPVP 294
>gi|423555848|ref|ZP_17532151.1| RluA family pseudouridine synthase [Bacillus cereus MC67]
gi|401196190|gb|EJR03136.1| RluA family pseudouridine synthase [Bacillus cereus MC67]
Length = 307
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 78/270 (28%), Positives = 116/270 (42%), Gaps = 75/270 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA--- 141
+V++ED+ ++ VNKP+ + D+ S+ GT NL+ H
Sbjct: 86 NVVFEDDHVLIVNKPEQM---------------DTHPSEKN--GTGTLANLVAFHFQMQG 128
Query: 142 --------NRLDRDTSGVMVITKSHKVASKLV-KAFTDHKVSKTYIALCIGPAPKWKRIT 192
+RLD+DT+G +V K H++A ++ + + K+ +TY AL G K K+ T
Sbjct: 129 LETKVRHIHRLDKDTTGGVVFAK-HRIAGAIMDRLLMERKIKRTYTALVEGRVKK-KQGT 186
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
I + GR + A R RV P G +T ++V E FK
Sbjct: 187 IDAAIGRDRHHATR-------RRVSPKGD---QAITYYKV-----EKYFK---------- 221
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
K+N LV +GRTHQIR+H Y G + GDV Y G K
Sbjct: 222 ---------------KQNATLVTLQLETGRTHQIRVHMSYNGNPLVGDVLYGG----QTK 262
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA ++F HP+T ++V P P
Sbjct: 263 YMSGQALHAMKINFLHPITKEEIVVDVPFP 292
>gi|86156624|ref|YP_463409.1| pseudouridine synthase [Anaeromyxobacter dehalogenans 2CP-C]
gi|85773135|gb|ABC79972.1| Pseudouridine synthase, RluD [Anaeromyxobacter dehalogenans 2CP-C]
Length = 299
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 79/271 (29%), Positives = 108/271 (39%), Gaps = 58/271 (21%)
Query: 74 SKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKL 133
+ S+ L R +LY D L AV+KP GV + L + G L E
Sbjct: 71 AASAPAALGRERLLYADADLCAVDKPAGVPAQPTLTT------------DRGALPELVSA 118
Query: 134 NL-LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCI-GPAPKWKRI 191
L + L +RLDR+TSGV V ++ + A+ L +AF KTY+ALC P+P R+
Sbjct: 119 LLGAPVTLVHRLDRETSGVTVFARTREAAAALAEAFRTGAPEKTYLALCARAPSPAEGRV 178
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
+ G ++ G RV A D T + L + P Q
Sbjct: 179 ALALGKDPARPGLRRVDPAGD------------PAATRYRTLR-------EAPGGAQ--- 216
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
V A P +GRTHQIR+H LG + GD +Y G
Sbjct: 217 ----------------------VEARPETGRTHQIRVHLAALGAPLLGDARYGGPRRVGE 254
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HPVTG ++ +A P
Sbjct: 255 VAVPRVMLHAARLELPHPVTGVRMVFEAEPP 285
>gi|449471578|ref|XP_004153349.1| PREDICTED: ribosomal large subunit pseudouridine synthase C-like
[Cucumis sativus]
Length = 306
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 75/260 (28%), Positives = 110/260 (42%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 86 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 135
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + + K Y+AL G +W+
Sbjct: 136 RDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRG---QWQ-------------SHV 179
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PSE VE++
Sbjct: 180 KVVQAPLLKNILQSGE---------RIVRVNQEG---KPSE------TRFKVEERYEFAT 221
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
LVR P +GRTHQIR+H Q+ G I D +Y G E++ G LHA
Sbjct: 222 -------LVRCSPVTGRTHQIRVHTQFAGHPIAFDDRY-GDREFDKQLAGTGLSRLFLHA 273
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP TG + ++APL
Sbjct: 274 AALKFTHPNTGEVIRIEAPL 293
>gi|294645548|ref|ZP_06723244.1| pseudouridine synthase, RluA family [Bacteroides ovatus SD CC 2a]
gi|294808025|ref|ZP_06766800.1| pseudouridine synthase, RluA family [Bacteroides xylanisolvens SD
CC 1b]
gi|292639122|gb|EFF57444.1| pseudouridine synthase, RluA family [Bacteroides ovatus SD CC 2a]
gi|294444778|gb|EFG13470.1| pseudouridine synthase, RluA family [Bacteroides xylanisolvens SD
CC 1b]
Length = 615
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 73/285 (25%), Positives = 127/285 (44%), Gaps = 58/285 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++++EDEWL+ VNKP G + SVP + +S RL + + + +RL
Sbjct: 346 EIVFEDEWLLVVNKPAG------MLSVPG--KAEDRDSVYHRLKKKYPEATGPM-IVHRL 396
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRIT--------IISG 196
D TSG++++ K+ +V L F + + K Y+A+ G K ++ T +++
Sbjct: 397 DMATSGLLLVAKTKEVHQDLQAQFANRSIKKRYVAVLDGAIIKTEKETKPIAEKAILLAK 456
Query: 197 HGRSKFGAWRVYAASDVGRV----------LPGGSVVR----DMVTSFEVLSVN------ 236
S + + GR+ P V R + +T ++++S +
Sbjct: 457 ETVSTKKTAKAERTGNTGRIELPLCLNPLDRPRQMVSREHGKEAITEYQIISESERITSE 516
Query: 237 GEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY---L 293
E +F E + + E E + ++ K I+ +P +GRTHQ+R+H + L
Sbjct: 517 SENTFNESNRIDESERS---------INESRKYTRIIF--YPLTGRTHQLRVHAAHPEGL 565
Query: 294 GISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQ 338
G I GD Y GK+ D LHAE + F HP+ G + +Q
Sbjct: 566 GCPILGDELY-------GKKADRLYLHAEYIEFRHPIYGDILCIQ 603
>gi|429769324|ref|ZP_19301437.1| pseudouridine synthase, RluA family [Brevundimonas diminuta 470-4]
gi|429187338|gb|EKY28254.1| pseudouridine synthase, RluA family [Brevundimonas diminuta 470-4]
Length = 331
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 71/263 (26%), Positives = 113/263 (42%), Gaps = 54/263 (20%)
Query: 82 SRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
++S VLYED ++A+NKP G+ + G RL + L
Sbjct: 90 AKSLVLYEDHMVIALNKPHGLAVQ----------GGTKTTKHVDRLLSAWGEGMQRPRLV 139
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHGRS 200
+RLDRDTSGV+++ K + A +L AF + KTY A+ IG P P +I +
Sbjct: 140 HRLDRDTSGVLLLGKGPEAAKRLAGAFARRQAKKTYWAIVIGNPKPSAGQIDM------- 192
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
++ + + FE++ P+E ++ +
Sbjct: 193 --------------------ALKKTGINDFEMM---------RPAEAKDPKGEPAETAFA 223
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHE 318
+ A + + +R F +GRTHQ+R H +G I GD KY + E +G +
Sbjct: 224 TISRAAHRAAWMALRPF--TGRTHQLRAHMAAIGHPILGDPKYGDDKSRELSGPLK--LQ 279
Query: 319 LHAESLSFDHPVTGCPVMVQAPL 341
LHA + DHP G ++V+APL
Sbjct: 280 LHARRIELDHP-GGGKLIVEAPL 301
>gi|27904809|ref|NP_777935.1| ribosomal large subunit pseudouridine synthase D [Buchnera
aphidicola str. Bp (Baizongia pistaciae)]
gi|34395769|sp|Q89AH2.1|RLUC_BUCBP RecName: Full=Ribosomal large subunit pseudouridine synthase C;
AltName: Full=23S rRNA pseudouridine(955/2504/2580)
synthase; AltName: Full=rRNA pseudouridylate synthase C;
AltName: Full=rRNA-uridine isomerase C
gi|27904207|gb|AAO27040.1| ribosomal large subunit pseudouridine synthase D [Buchnera
aphidicola str. Bp (Baizongia pistaciae)]
Length = 315
Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 89/342 (26%), Positives = 142/342 (41%), Gaps = 85/342 (24%)
Query: 21 FRKTF----FSLASMSNPTEPTSQNAPQTQQNYPTPL--SPPLPAISKDIELTRAMSASS 74
RKTF F+L T N + QNY L S +P I+ + + + ++
Sbjct: 26 LRKTFKRLPFNLICKIIRTGQIRINKKRINQNYKLKLGDSVRIPPITIQSDSNKKIKLNT 85
Query: 75 KSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN 134
+ S+ + + +LYED + + +NKP G+ S S SG ++ G N
Sbjct: 86 RLSI--IFNNMILYEDNYFLILNKPSGM----------------SVHSGSG-INYGMIEN 126
Query: 135 LL-------ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPK 187
L L L +RLDRDTSGV++I K + L + + K+ K Y+AL G P
Sbjct: 127 LRILRPYNRYLDLVHRLDRDTSGVLIIAKKRSILRNLHEQLREKKIKKKYVALVHGVWPD 186
Query: 188 -WKRIT--IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEP 244
K I+ ++ R ++ ++ P G ++ +T F
Sbjct: 187 ILKSISKPLLKTSSR---------KNKNIVKIDPKG---KESITHFN------------- 221
Query: 245 SELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYE 304
++KK + L+ P +GRTHQIR+H +L I D KY
Sbjct: 222 ------------IKKKYTKNT-------LISITPITGRTHQIRVHLLHLNYPIVLDAKY- 261
Query: 305 GV-----YEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPL 341
G+ + N + LHAES++F HP +++ APL
Sbjct: 262 GIKKLDYFIKNKFNINRLLLHAESINFFHPKRKKNILITAPL 303
>gi|83593991|ref|YP_427743.1| ribosomal large subunit pseudouridine synthase C [Rhodospirillum
rubrum ATCC 11170]
gi|386350743|ref|YP_006048991.1| ribosomal large subunit pseudouridine synthase C [Rhodospirillum
rubrum F11]
gi|83576905|gb|ABC23456.1| ribosomal large subunit pseudouridine synthase C [Rhodospirillum
rubrum ATCC 11170]
gi|346719179|gb|AEO49194.1| ribosomal large subunit pseudouridine synthase C [Rhodospirillum
rubrum F11]
Length = 330
Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 75/266 (28%), Positives = 109/266 (40%), Gaps = 60/266 (22%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN 142
R +L+ED L+ +NK G+ + + P L G ES L++G + L +
Sbjct: 93 RRAILHEDAHLIVINKEAGLAVQGGTGT-PHHLDG-MLES----LADGGETP----RLVH 142
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD+DTSGV+V+ ++ A L AF + K Y A+ +G P
Sbjct: 143 RLDKDTSGVLVLARTQAAARALTSAFRSREALKVYWAIVVGRPP---------------- 186
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
+++ + G G E +E EE V V
Sbjct: 187 -------------------MLQGTIKGALAKVAGGRGERMEINE----EEGKRAVTDFRV 223
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE---- 318
+D AK V PR+GRTHQ+R+HC +G I GD KY G G +G E
Sbjct: 224 VDQAAKAC-AWVELHPRTGRTHQLRVHCLEMGTPILGDGKYGG----PGAFLEGTELPKR 278
Query: 319 --LHAESLSFDHPVTGCPVMVQAPLP 342
LHA +L+ HP G ++ P P
Sbjct: 279 MHLHARALALPHPAGGVLEIIAPPPP 304
>gi|423472733|ref|ZP_17449476.1| RluA family pseudouridine synthase [Bacillus cereus BAG6O-2]
gi|402427294|gb|EJV59403.1| RluA family pseudouridine synthase [Bacillus cereus BAG6O-2]
Length = 307
Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 78/270 (28%), Positives = 115/270 (42%), Gaps = 75/270 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA--- 141
+V++ED+ ++ VNKP+ + D+ S+ GT NL+ H
Sbjct: 86 NVVFEDDHVLIVNKPEQM---------------DTHPSEKN--GTGTLANLVAFHFQMQG 128
Query: 142 --------NRLDRDTSGVMVITKSHKVASKLV-KAFTDHKVSKTYIALCIGPAPKWKRIT 192
+RLD+DT+G +V K H++A ++ + + K+ +TY AL G K K+ T
Sbjct: 129 LETKVRHIHRLDKDTTGGVVFAK-HRIAGAIMDRLLMERKIKRTYTALVEGKVKK-KQGT 186
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
I GR + A R RV P G +T ++V E FK
Sbjct: 187 IDEAIGRDRHHATR-------RRVSPKGD---QAITYYKV-----EKYFK---------- 221
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
K+N LV +GRTHQIR+H Y G + GDV Y G K
Sbjct: 222 ---------------KQNATLVTLQLETGRTHQIRVHMSYNGNPLVGDVLYGG----QTK 262
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA ++F HP+T ++V P P
Sbjct: 263 YMSGQALHAMKINFLHPITKEEIVVDVPFP 292
>gi|28211276|ref|NP_782220.1| ribosomal large subunit pseudouridine synthase D [Clostridium
tetani E88]
gi|28203716|gb|AAO36157.1| ribosomal large subunit pseudouridine synthase D [Clostridium
tetani E88]
Length = 307
Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 71/259 (27%), Positives = 110/259 (42%), Gaps = 50/259 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-SVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
++LYEDE ++ +NKPQG+ V + L+ G A KS G + + +R
Sbjct: 83 NILYEDEDIIVINKPQGMVVHPGVGNTKGTLVNGLLAHCKSLSNINGEE----RPGIVHR 138
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++VI K+++ L DH + + Y+AL G K TI GR+
Sbjct: 139 IDKDTSGILVIAKTNRAHEHLANQLKDHSMLRVYMALTEG-VIKEDMGTIDKDLGRNPSD 197
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ +A D G + VT ++V++
Sbjct: 198 RIK-FAVVDEG---------KRAVTHYKVIN----------------------------- 218
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
N L+ +GRTHQIR+H Y+G I GD Y Y+ + G LHA+
Sbjct: 219 ---RYNNNSLIECRLETGRTHQIRVHMSYIGHPIVGDPTYG--YKRQKFKLKGQMLHAKK 273
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L F HP G + + +P
Sbjct: 274 LGFIHPTNGEYMEFDSEIP 292
>gi|150390556|ref|YP_001320605.1| RluA family pseudouridine synthase [Alkaliphilus metalliredigens
QYMF]
gi|149950418|gb|ABR48946.1| pseudouridine synthase, RluA family [Alkaliphilus metalliredigens
QYMF]
Length = 310
Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 68/268 (25%), Positives = 117/268 (43%), Gaps = 51/268 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D++YED+ L+ VNKPQ + + + G+LS ++ + +R+
Sbjct: 81 DIVYEDDDLLVVNKPQDMVVHPAPGNYENTMVNALLYHCKGKLSSIN--GIIRPGIVHRI 138
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG++++ K++ L + DH ++ Y + +G K +R TI + R +
Sbjct: 139 DKDTSGLLMVAKNNHAHQFLSEQLKDHSTTRKYHGISVGTI-KEERATINAPIARHQTDR 197
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
++ VL GG R+ VT +VL+ G+ ++ E
Sbjct: 198 LKM-------AVLAGG---RNAVTHIQVLNRFGDHTYME--------------------- 226
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD--GHELHAE 322
A +GRTHQIR+H Y+G + GD VY +++ G LHA+
Sbjct: 227 -----------AQLETGRTHQIRVHLGYIGHPLLGDF----VYGHKKSKFNLKGQVLHAK 271
Query: 323 SLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
+L F HP + A LP + + L+
Sbjct: 272 TLGFIHPTKKTYMEFNAALPTYFEKLLR 299
>gi|399991417|ref|YP_006571657.1| ribosomal large subunit pseudouridine synthase C [Phaeobacter
gallaeciensis DSM 17395 = CIP 105210]
gi|398655972|gb|AFO89938.1| ribosomal large subunit pseudouridine synthase C [Phaeobacter
gallaeciensis DSM 17395 = CIP 105210]
Length = 343
Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 85/304 (27%), Positives = 119/304 (39%), Gaps = 62/304 (20%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPL A D++ A S + K+ R V+Y+D+ ++ +NKP G+ +
Sbjct: 60 PPLGA--SDLKPAEAPSYRISEADAKMIRGCVIYKDDAVIVLNKPAGLAVQ--------- 108
Query: 115 LAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKV 173
G LS + + E L +RLD+DTSGV+V+ ++ A L AF
Sbjct: 109 -GGSGTTKHVDGLSAALQFDAEEKPRLVHRLDKDTSGVLVLARTRLAAQSLTAAFRHRAT 167
Query: 174 SKTYIALCIG-PAPKWKRITI----ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVT 228
K Y AL G P P I GHG+S G + +
Sbjct: 168 RKIYWALVAGVPTPYLGEIKCGLVKAPGHGKSGEGEKMI------------------AIH 209
Query: 229 SFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRL 288
S EV S G H V +A V P +GRTHQ+R
Sbjct: 210 SNEVDSTPG------AKRSHTHYATLYRVASRAA----------WVAMEPITGRTHQLRA 253
Query: 289 HCQYLGISIRGDVKYEGVYEWN-----GKRYDG-----HELHAESLSFDHPVTGCPVMVQ 338
H +G I GD KY G + N G + G LH ++F+HP T P+ +
Sbjct: 254 HMAEIGHPIAGDGKYGGSSQENLGDGWGAQLGGIISKKLHLHCRRMAFEHPTTKKPLSIT 313
Query: 339 APLP 342
APLP
Sbjct: 314 APLP 317
>gi|357044121|ref|ZP_09105805.1| hypothetical protein HMPREF9138_02277 [Prevotella histicola F0411]
gi|355367671|gb|EHG15099.1| hypothetical protein HMPREF9138_02277 [Prevotella histicola F0411]
Length = 563
Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 76/252 (30%), Positives = 111/252 (44%), Gaps = 54/252 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+++YED +L +NKP G L SVP S S +G E + +RL
Sbjct: 352 EIIYEDSYLAVINKPSG------LLSVPGKSEKPSVYSILKERWKGEN----EPFMVHRL 401
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG++VI ++ V L K F H+VSK Y+AL ++ + H +
Sbjct: 402 DMSTSGLLVIARNLSVYKALQKQFLHHEVSKRYVALL--------PLSFLEKHKPTD--- 450
Query: 205 WRVYAASDVGRV-LPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
GR+ LP V D V +NG+ + E ++V + K
Sbjct: 451 ---------GRITLPLTPDVNDRPRQM-VDHINGKSAIT---------EYHVVGKTKYGK 491
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGHELH 320
D + I ++ P++GRTHQ+R+HC + L I GD Y GKR + LH
Sbjct: 492 D---NQEAIKIQLHPQTGRTHQLRVHCAHKEGLDTPIIGDTLY-------GKRDERLWLH 541
Query: 321 AESLSFDHPVTG 332
AE L F HP+T
Sbjct: 542 AEHLEFTHPITA 553
>gi|422009054|ref|ZP_16356037.1| 23S rRNA pseudouridylate synthase C [Providencia rettgeri Dmel1]
gi|414092872|gb|EKT54544.1| 23S rRNA pseudouridylate synthase C [Providencia rettgeri Dmel1]
Length = 319
Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 74/260 (28%), Positives = 109/260 (41%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+L+ED+ L+ +NKP G ++ G A R L L +RLD
Sbjct: 94 ILFEDDILLVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 143
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + ++ K Y+AL G W+
Sbjct: 144 RDTSGILLVAKKRSALRALHEQLRLKQMQKDYLALVRG---NWQ-------------SHM 187
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G V+ V+ EG +PSE + E
Sbjct: 188 KVIQAPLLKNILQSGE---------RVVKVSSEG---KPSETRFKVEERF---------- 225
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
N LV+A P +GRTHQIR+H Y G I D +Y G +++ G + LHA
Sbjct: 226 ---DNATLVKASPVTGRTHQIRVHTLYAGHPIAFDDRY-GDKQFDSQLAGTGLNRLFLHA 281
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP TG + +QAPL
Sbjct: 282 SALKFTHPKTGEEMRLQAPL 301
>gi|229576380|gb|ACQ82580.1| At1g56345-like protein [Solanum hirtum]
gi|229576382|gb|ACQ82581.1| At1g56345-like protein [Solanum quitoense]
gi|229576384|gb|ACQ82582.1| At1g56345-like protein [Solanum quitoense]
Length = 56
Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 35/48 (72%), Positives = 45/48 (93%)
Query: 68 RAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLL 115
RA++ASSKS+L+ LSRS V++EDEWL+AVNKPQG+YCESVL+S+P LL
Sbjct: 6 RALTASSKSALFSLSRSHVIFEDEWLIAVNKPQGIYCESVLSSLPDLL 53
>gi|89055892|ref|YP_511343.1| ribosomal large subunit pseudouridine synthase D [Jannaschia sp.
CCS1]
gi|88865441|gb|ABD56318.1| ribosomal large subunit pseudouridine synthase D [Jannaschia sp.
CCS1]
Length = 310
Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 74/280 (26%), Positives = 116/280 (41%), Gaps = 67/280 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSE--GTKLNLLELHLAN 142
D+++ED+ L+ VNKP G+ S L G+LS G K + +
Sbjct: 61 DIVHEDDDLIVVNKPAGMVVHPAPGSPSGTLVNALLHHFGGKLSGVGGEK----RPGIVH 116
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHGRSK 201
R+D+DTSG++V+ KS + L F DH + + Y+ALC G P R+ + G
Sbjct: 117 RIDKDTSGLLVVAKSDRAHHGLAAQFADHSMEREYLALCHGVPDGSDPRLRGVKG----- 171
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
SFE +V K ++L H+ + +++A
Sbjct: 172 --------------------------VSFEGSTV------KITTQLARHKTDR---QRQA 196
Query: 262 VLDADAKKNEILVRAFP------------RSGRTHQIRLHCQYLGISIRGDVKYEGVYEW 309
VL + + VR +GRTHQIR+H ++G ++ GD Y G +
Sbjct: 197 VLFSGGRHAVTRVRVLEAHGPVALVSCRLETGRTHQIRVHMSHVGHALIGDQTYGGRRKI 256
Query: 310 NGK--------RYDGHELHAESLSFDHPVTGCPVMVQAPL 341
+ K + LHA +L F HPV+ + APL
Sbjct: 257 SAKLPGAEAVNAFPRQALHAATLGFVHPVSQDVMRFDAPL 296
>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 = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 75/268 (27%), Positives = 118/268 (44%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+V YED ++ VNKP+G+ V+ P G ++ + +N ++ + +R
Sbjct: 82 EVYYEDADVLVVNKPRGM----VVHPAPGHTKGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P EAL
Sbjct: 270 GILGFDHPRTGEYIEFEAPIPEVFEEAL 297
>gi|429083131|ref|ZP_19146177.1| Ribosomal large subunit pseudouridine synthase C ## LSU Psi955,
Psi2504 and Psi2580 [Cronobacter condimenti 1330]
gi|426547946|emb|CCJ72218.1| Ribosomal large subunit pseudouridine synthase C ## LSU Psi955,
Psi2504 and Psi2580 [Cronobacter condimenti 1330]
Length = 317
Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 72/266 (27%), Positives = 109/266 (40%), Gaps = 68/266 (25%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + K Y+AL G W
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLRQKGMQKDYLALV--------------------RGQW 184
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
+ + S ++++++ S E ++ VN EG +PSE + E
Sbjct: 185 QSHVKS------VQAPLLKNILQSGERIVRVNQEG---KPSETRFKVEERFA-------- 227
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------ 318
N LVR P +GRTHQIR+H Q+ G I D +Y + +D
Sbjct: 228 -----NATLVRCSPVTGRTHQIRVHTQFAGHPIAFDDRY------GDRAFDAQLAATGLN 276
Query: 319 ---LHAESLSFDHPVTGCPVMVQAPL 341
LHA +L F+HP TG + V+AP+
Sbjct: 277 RLFLHAAALRFEHPGTGETMRVEAPM 302
>gi|254517296|ref|ZP_05129353.1| tRNA pseudouridine synthase C [gamma proteobacterium NOR5-3]
gi|219674134|gb|EED30503.1| tRNA pseudouridine synthase C [gamma proteobacterium NOR5-3]
Length = 248
Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 70/266 (26%), Positives = 110/266 (41%), Gaps = 56/266 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA--- 141
DV+Y+D LV ++KP G+ SK R L +L L
Sbjct: 7 DVIYQDRDLVVIDKPPGLLVH---------------RSKIDRHETQFALQMLRDQLGQHV 51
Query: 142 ---NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
+RLD+ TSG+++ S +VA+ L + F + V+K Y+A+ G P+
Sbjct: 52 FPVHRLDKPTSGLLIFALSSEVATLLSEQFENRAVAKRYLAVVRGYCPQ----------- 100
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
GG + + + + + K P E H VE
Sbjct: 101 --------------------GGEIDHALTEKHDRIVDKRARADKAPQEALTHYRTLAQVE 140
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVY-EWNGKRYDG 316
+D + LV P++GR HQ+R H +++G I GD + +GV+ + +R+D
Sbjct: 141 WPEAVDRYPQARYSLVELRPQTGRKHQLRRHMKHIGHPIIGDATHGKGVHNRFFARRFDC 200
Query: 317 HE--LHAESLSFDHPVTGCPVMVQAP 340
L L FDHPVTG P+ + AP
Sbjct: 201 GRLLLACTGLEFDHPVTGQPLQLSAP 226
>gi|373467577|ref|ZP_09558871.1| pseudouridine synthase Rlu family protein [Haemophilus sp. oral
taxon 851 str. F0397]
gi|371758298|gb|EHO47071.1| pseudouridine synthase Rlu family protein [Haemophilus sp. oral
taxon 851 str. F0397]
Length = 224
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 65/249 (26%), Positives = 113/249 (45%), Gaps = 66/249 (26%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN 142
+ +V+Y+ + +NKP+G+ D AE L +LN+ ++ L +
Sbjct: 2 KIEVVYQHSDFIIINKPEGISVHK-----------DQAEQGLTELV-AKQLNVPQVWLVH 49
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD+ TSG++++ + + A++ + F++HK+ KTY+AL PK K+ II +++
Sbjct: 50 RLDKVTSGLLILALNTESAAEFSRLFSEHKIHKTYLALS-NQKPKKKQGLIIGDMKKARD 108
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
GAW++ + +T FE +S EP+
Sbjct: 109 GAWKLCQTKE-----------NPAITRFESVSC-------EPN----------------- 133
Query: 263 LDADAKKNEILVRAF---PRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
+R F P++G+THQ+R+ + LG I GD G+Y N ++ D L
Sbjct: 134 -----------LRLFILKPQTGKTHQLRVAMKSLGSPILGD----GLYAKNTEKIDRTYL 178
Query: 320 HAESLSFDH 328
HA L FD+
Sbjct: 179 HAAQLEFDY 187
>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 = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 82/321 (25%), Positives = 132/321 (41%), Gaps = 76/321 (23%)
Query: 39 SQNAPQTQQNYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNK 98
+QNA + NY + A+ D M ++ +L DV YEDE ++ +NK
Sbjct: 44 NQNA--VKANYKVKADDCITAVFND-----EMEMEARPEKMEL---DVRYEDEDVIVINK 93
Query: 99 PQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH---------LANRLDRDTS 149
P+ + +A ++SG L G + +L + +R+D+DT+
Sbjct: 94 PKNIVVHP------------AAGNQSGTLVNGLLYHCKDLSGINGTLRPGIVHRIDKDTT 141
Query: 150 GVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYA 209
G+++I K+ + L K V++ Y AL + G + FG
Sbjct: 142 GLLIIAKNDLAHASLSKQLQSKTVNRLYYAL-------------VHGVIQHDFGTIDA-- 186
Query: 210 ASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKK 269
P G V+D + ++V S + Q V+E+ +
Sbjct: 187 --------PIGRDVKDR----QKMAVTATNSKDARTHFQ-------VIERF--------E 219
Query: 270 NEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHP 329
N LV +GRTHQIR+H QY+G + GD KY + +G LHA L+F HP
Sbjct: 220 NYTLVECRLETGRTHQIRVHMQYIGHPVVGDEKYS---YRKTMQTNGQLLHAHQLTFQHP 276
Query: 330 VTGCPVMVQAPLPLWGTEALQ 350
TG + V+A LP + L+
Sbjct: 277 RTGEVMTVEAELPKQFADILE 297
>gi|85703848|ref|ZP_01034951.1| ribosomal large subunit pseudouridine synthase C [Roseovarius sp.
217]
gi|85671168|gb|EAQ26026.1| ribosomal large subunit pseudouridine synthase C [Roseovarius sp.
217]
Length = 347
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 82/303 (27%), Positives = 124/303 (40%), Gaps = 61/303 (20%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLP D T A++ S + K+ +S V+Y D+ ++A+NKP G+ +
Sbjct: 65 PPLP--DTDERPTGALARISPAD-AKMIQSCVIYRDDHVIALNKPPGLPVQ--------- 112
Query: 115 LAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKV 173
G L+E + E L +RLD+DTSGV+++ ++ + A L AF
Sbjct: 113 -GGSKQTRHVDGLAEALRFGAEEKPRLVHRLDKDTSGVLLLARTREAAKGLTAAFRHRNT 171
Query: 174 SKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEV 232
K Y A G P P+ G ++G + PG
Sbjct: 172 RKIYWAAVAGVPTPRM---------GTVRYGLVKA----------PG------------- 199
Query: 233 LSVNGEGS---FKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLH 289
GEG P E++ AV++A + + P +GRTHQ+R H
Sbjct: 200 HGAKGEGEKMICVHPREVESTPGAKPATTDYAVIEAAGARTSWMA-LIPVTGRTHQLRAH 258
Query: 290 CQYLGISIRGDVKYEGVYEWN-----GKRYDGH-----ELHAESLSFDHPVTGCPVMVQA 339
+G + GD KY G + N G + G LHA SL +HPV+ + + A
Sbjct: 259 MAEIGHPVVGDGKYGGSGQENLGDGWGAQLGGDVSRKLHLHARSLKIEHPVSRAILHITA 318
Query: 340 PLP 342
PLP
Sbjct: 319 PLP 321
>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 = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 75/268 (27%), Positives = 118/268 (44%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+V YED ++ VNKP+G+ V+ P G ++ + +N ++ + +R
Sbjct: 82 EVYYEDADVLVVNKPRGM----VVHPAPGHTKGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P EAL
Sbjct: 270 GILGFDHPRTGEYIEFEAPIPEVFEEAL 297
>gi|405355081|ref|ZP_11024307.1| Ribosomal large subunit pseudouridine synthase D [Chondromyces
apiculatus DSM 436]
gi|397091423|gb|EJJ22225.1| Ribosomal large subunit pseudouridine synthase D [Myxococcus sp.
(contaminant ex DSM 436)]
Length = 322
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 72/278 (25%), Positives = 113/278 (40%), Gaps = 75/278 (26%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL----- 140
V+++D+WL+ ++KP G+ S R +GT + LL
Sbjct: 90 VVFQDDWLLVLDKPAGLPIHP-----------------SARYQKGTLVTLLRERFGERFA 132
Query: 141 --ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
A+RLDR+TSG++V ++ + L + F V K Y+ALC G P+
Sbjct: 133 EPAHRLDRETSGLVVCGRTTESCRVLGRLFVSRDVHKEYLALCEGHPPE----------- 181
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
+ V A + G ++R V + V G+ S V
Sbjct: 182 ----DTFTVEAP-----IAEGTELIRIAV---RIDPVAGKES-----------RTRFQVL 218
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYE------- 308
++ D L+R FP +GR HQIR+H + G + GD Y G ++
Sbjct: 219 RRFTRDGAPFA---LLRCFPETGRQHQIRIHLHHAGFPLVGDKMYGPDPGYFDRFSKRCL 275
Query: 309 ----WNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
W R H LHA ++F HP +G V+ ++PLP
Sbjct: 276 EPEAWERLRLPRHALHAARIAFPHPGSGEEVVFESPLP 313
>gi|297182825|gb|ADI18977.1| pseudouridylate synthases, 23S RNA-specific [uncultured delta
proteobacterium HF0010_10I05]
Length = 316
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 74/277 (26%), Positives = 118/277 (42%), Gaps = 82/277 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL-------E 137
+VL+EDEWL+ +NK +GD S SGR + T ++L+ +
Sbjct: 83 EVLFEDEWLIGLNK-----------------SGDLPTSPSGRYFKNTLMHLVRERFGWQK 125
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
L+ +RLDR+TSGV++ K+H++A ++ F D ++ K Y A+ P PK + I +
Sbjct: 126 LYTIHRLDRETSGVVLFAKTHQMAQQMAALFRDKQIRKEYRAVVTTPLPK-EEILVSKPI 184
Query: 198 GRSKFGAWRV-YAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
G + + R+ + + G+ P + R + T +E + LQ H
Sbjct: 185 GPDRSSSIRIKQSVCEDGK--PSETRFRQLKT------------IRECAYLQIH------ 224
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY-- 314
P +GRTHQIR+H G I GD Y G+ E + R+
Sbjct: 225 ---------------------PMTGRTHQIRIHAAASGFPIVGDKLY-GLAEKDFLRWLE 262
Query: 315 ------------DGHELHAESLSFDHPVTGCPVMVQA 339
+ LHA + F HP T P+ + A
Sbjct: 263 EGEAFLKARNLPNRQLLHAYQIDFIHPQTNQPICLLA 299
>gi|261346051|ref|ZP_05973695.1| ribosomal large subunit pseudouridine synthase [Providencia
rustigianii DSM 4541]
gi|282565938|gb|EFB71473.1| ribosomal large subunit pseudouridine synthase [Providencia
rustigianii DSM 4541]
Length = 318
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 74/265 (27%), Positives = 107/265 (40%), Gaps = 66/265 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++ +NKP G ++ G A R L L +RLD
Sbjct: 94 ILYEDESILVINKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 143
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + ++ K Y+AL G W+
Sbjct: 144 RDTSGILLVAKKRSALRALHEQLRLKQMQKDYLALVRG---NWQ-------------SHM 187
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PSE + E
Sbjct: 188 KVVQAPLLKNILQSGE---------RIVRVNSEG---KPSETRFKVEERF---------- 225
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------- 318
N LV+A P +GRTHQIR+H + G I D +Y K++D
Sbjct: 226 ---DNATLVKASPVTGRTHQIRVHTLHAGHPIAFDDRY------GDKQFDSQLTGTGLKR 276
Query: 319 --LHAESLSFDHPVTGCPVMVQAPL 341
LHA +L+F HP TG + V APL
Sbjct: 277 LFLHANALTFTHPKTGEEMRVVAPL 301
>gi|237808945|ref|YP_002893385.1| RluA family pseudouridine synthase [Tolumonas auensis DSM 9187]
gi|237501206|gb|ACQ93799.1| pseudouridine synthase, RluA family [Tolumonas auensis DSM 9187]
Length = 314
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 74/260 (28%), Positives = 116/260 (44%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YEDE ++ +NKP G+ ++ G A R L L +RLD
Sbjct: 94 IIYEDEAIIVLNKPSGLAVHGGSGLSFGVIEGLRALRPESRF----------LELVHRLD 143
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + K Y+AL G W
Sbjct: 144 RDTSGLLLVAKKRSALKHLHEQLRVKTMRKQYLALV--------------------RGQW 183
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
+ + + ++++++ S E ++ VN EG +PSE + +++K A
Sbjct: 184 QPHVKA------VNAPLLKNILQSGERIVRVNSEG---KPSETRFQ-----IMQKFA--- 226
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHE--LHA 321
+ LV A P +GRTHQIR+H + G I D KY E ++ K+ H LHA
Sbjct: 227 -----HATLVMASPITGRTHQIRVHTLHAGHPIACDDKYGERDFDEQVKKAGLHRLFLHA 281
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
L+F HPVTG + V+APL
Sbjct: 282 YRLTFTHPVTGKEMSVEAPL 301
>gi|281411684|ref|YP_003345763.1| pseudouridine synthase, RluA family [Thermotoga naphthophila
RKU-10]
gi|281372787|gb|ADA66349.1| pseudouridine synthase, RluA family [Thermotoga naphthophila
RKU-10]
Length = 311
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 79/276 (28%), Positives = 117/276 (42%), Gaps = 65/276 (23%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAG----------DSAESKSGRLSEGTKLNL 135
VLYED +V ++KP+ + ++ VP L+G + G+L G
Sbjct: 82 VLYEDRDIVVIDKPR----DMIVHPVPSKLSGTLVNALLNHCKDLQGVGGKLRPG----- 132
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ +RLD++TSGV+V+ K+ L K F D KV KTYI L G K + + +
Sbjct: 133 ----IVHRLDKETSGVIVVAKNDFAHQSLSKQFKDRKVKKTYILLVKGRVKKDEGVVDLP 188
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNI 255
++ R+ A V+ G ++ +T + VL F + +
Sbjct: 189 ---LARHPVLRIKMA-----VVETG---KEAITEYRVLK-----RFDDVA---------- 222
Query: 256 VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD 315
LV AFP++GRTHQIR+H + LG I GD Y E
Sbjct: 223 ----------------TLVLAFPKTGRTHQIRVHMKSLGHPIMGDKIYGKPKEDEIFGIK 266
Query: 316 GHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHA L F HP TG + +PLP EA++
Sbjct: 267 RQMLHALKLGFFHPRTGEWMEFVSPLPEDFKEAIRK 302
>gi|423524809|ref|ZP_17501282.1| RluA family pseudouridine synthase [Bacillus cereus HuA4-10]
gi|401169035|gb|EJQ76282.1| RluA family pseudouridine synthase [Bacillus cereus HuA4-10]
Length = 307
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 78/270 (28%), Positives = 116/270 (42%), Gaps = 75/270 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA--- 141
+V++ED+ ++ VNKP+ + D+ S+ GT NL+ H
Sbjct: 86 NVVFEDDHVLIVNKPEQM---------------DTHPSEKN--GTGTLANLVAFHFQMQG 128
Query: 142 --------NRLDRDTSGVMVITKSHKVASKLV-KAFTDHKVSKTYIALCIGPAPKWKRIT 192
+RLD+DT+G +V K H++A ++ + + K+ +TY AL G K K+ T
Sbjct: 129 LETKVRHIHRLDKDTTGGVVFAK-HRIAGAIMDRLLMERKIKRTYTALVEGRVKK-KQGT 186
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
I + GR + A R RV P G +T ++V E FK
Sbjct: 187 IDAAIGRDRHHATR-------RRVSPKGD---QAITYYKV-----EKYFK---------- 221
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
K+N LV SGRTHQIR+H Y G + GDV Y G +
Sbjct: 222 ---------------KQNATLVTLQLESGRTHQIRVHMSYNGNPLVGDVLYGGQTTY--- 263
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA ++F HP+T ++V P P
Sbjct: 264 -MSGQALHAMKINFLHPITKEEIVVDVPFP 292
>gi|406949237|gb|EKD79773.1| Pseudouridine synthase [uncultured bacterium]
Length = 253
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 76/256 (29%), Positives = 118/256 (46%), Gaps = 38/256 (14%)
Query: 86 VLYEDEWLVAVNKPQGVY--------CESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
+LYEDE +V ++KP GV E+V + L D +S+ SE K
Sbjct: 5 ILYEDESIVVIDKPSGVVSNKAETVRTETVQDWITPKLNFD-FQSREQVESEDEKYFRQR 63
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
L +RLD++TSGVMV+ K+ +L++ F + +V KTY AL G W+ + SG
Sbjct: 64 EGLVHRLDKETSGVMVLAKTVGAFVELLRQFKEREVKKTYFALTHGI---WQ---VNSGE 117
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
G R +G V G R+ VT + L+ + F P EL+
Sbjct: 118 ISLPIGR-RRDDRKRMGVVEDG----RESVTGYRALASYHQWQF--PKELK--------- 161
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYE-WNGKRYDG 316
+D ++ P++GR HQIR+H +++G + GD +Y G +++
Sbjct: 162 -----VDTRGYTGFSMIEFVPQTGRMHQIRVHARHIGHPVVGDEQYAGRKRSREDRKWAS 216
Query: 317 H-ELHAESLSFDHPVT 331
H L A++L HPVT
Sbjct: 217 HVMLQAQTLELTHPVT 232
>gi|343084378|ref|YP_004773673.1| RluA family pseudouridine synthase [Cyclobacterium marinum DSM 745]
gi|342352912|gb|AEL25442.1| pseudouridine synthase, RluA family [Cyclobacterium marinum DSM
745]
Length = 344
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 71/280 (25%), Positives = 111/280 (39%), Gaps = 72/280 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL------ 138
D+ YED+ L+ V KP G+ + L A NL EL
Sbjct: 97 DIRYEDDHLMVVYKPAGMVVHPAHGNWTGTLVNALAYYFK---------NLPELPGNSGR 147
Query: 139 -HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISG 196
L +R+D+DTSG++VI KS + + L K F DH +S++Y+AL G P+ + I + G
Sbjct: 148 PGLVHRIDKDTSGLLVIAKSERAMTHLAKQFFDHSISRSYVALVWGEPSDEEGTINVPIG 207
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
G + Y D G + +T ++V+
Sbjct: 208 RGVKDRKVMQAYLEGDAG---------KSAITHWKVIK---------------------- 236
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
+ L+ +GRTHQIR H +Y+G + D Y G G +Y
Sbjct: 237 ----------RLRYVTLLSCELETGRTHQIRAHMKYIGHPLFNDAMYGGDQIRKGTQYSK 286
Query: 317 HE--------------LHAESLSFDHPVTGCPVMVQAPLP 342
++ LHA+SL F HP++G + + +P
Sbjct: 287 YKSYIQNCFQILPRQALHAKSLGFIHPISGEELYFEGEIP 326
>gi|119384947|ref|YP_916003.1| RluA family pseudouridine synthase [Paracoccus denitrificans
PD1222]
gi|119374714|gb|ABL70307.1| ribosomal large subunit pseudouridine synthase D [Paracoccus
denitrificans PD1222]
Length = 341
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 72/281 (25%), Positives = 114/281 (40%), Gaps = 62/281 (22%)
Query: 86 VLYEDEWLVAVNKPQGV------------YCESVLASVPCLLAGDSAESKSGRLSEGTKL 133
V YED L+ V+KP G+ ++LA L+G ++ G
Sbjct: 84 VAYEDAELIVVDKPAGMVVHPAPGAPSGTLVNALLAHCAGSLSGIGGAARPG-------- 135
Query: 134 NLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPA-PKWKRIT 192
+ +R+D++TSG++V+ K+ + L + F DH + Y+A+ G P R+
Sbjct: 136 ------IVHRIDKETSGLLVVAKTDRAHQGLARQFADHTARRRYLAIAHGMIDPADARLR 189
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
+ G G G R+ A+ +GR PG + SF+ NG
Sbjct: 190 GLPGVGFEPGGVLRI--ATLIGR-HPGDR--QRQAVSFQ----NG--------------- 225
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG------- 305
+ V + V +LV +GRTHQIR+H + G+ + GD Y G
Sbjct: 226 RHAVTRARVVETFGTPPAAMLVECRLETGRTHQIRVHMAHAGLGLVGDPVYGGNRRASAR 285
Query: 306 ----VYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA L F+HPV+G + +PLP
Sbjct: 286 ALGADAAAAVAAFPRQALHAAELGFEHPVSGQTLTFASPLP 326
>gi|237721623|ref|ZP_04552104.1| ribosomal large subunit pseudouridine synthase A [Bacteroides sp.
2_2_4]
gi|229449419|gb|EEO55210.1| ribosomal large subunit pseudouridine synthase A [Bacteroides sp.
2_2_4]
Length = 613
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 73/284 (25%), Positives = 127/284 (44%), Gaps = 58/284 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDEWL+ VNKP G + SVP + +S RL + + + +RLD
Sbjct: 347 IVFEDEWLLVVNKPAG------MLSVPG--KAEDRDSVYHRLKKKYPEATGPM-IVHRLD 397
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRIT--------IISGH 197
TSG++++ K+ +V L F + + K Y+A+ G K ++ T +I+
Sbjct: 398 MATSGLLLVAKTKEVHQDLQAQFANRSIKKRYVAVLDGAIIKTEKETKPITEKAILIAKE 457
Query: 198 GRSKFGAWRVYAASDVGRV-LP-------------GGSVVRDMVTSFEVLSVN------G 237
S + + GR+ LP ++ +T ++++S +
Sbjct: 458 TVSTKKTAKAERTGNTGRIELPLCLNPLDRPRQMVSSEHGKEAITEYQIISESERITSES 517
Query: 238 EGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY---LG 294
E +F E + + E E++ ++ K I+ +P +GRTHQ+R+H + LG
Sbjct: 518 ENTFNESNRIDESEKS---------INESRKYTRIIF--YPLTGRTHQLRVHAAHPEGLG 566
Query: 295 ISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQ 338
I GD Y GK+ D LHAE + F HP+ G + +Q
Sbjct: 567 CPILGDELY-------GKKADRLYLHAEYIEFRHPIYGDILCIQ 603
>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 = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 69/259 (26%), Positives = 116/259 (44%), Gaps = 48/259 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
DV+YED ++ VNKP+G+ V+ P +G + + + +N ++ + +R
Sbjct: 105 DVIYEDSDVIVVNKPRGM----VVHPAPGHYSGTLVNALLYHCKDLSGINGIMRPGIVHR 160
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG+++ K+ + L + H ++ YIAL G P + T+ + GR
Sbjct: 161 IDKDTSGLLMAAKNDLAHAGLTEQLKAHSATRKYIALVHGNVPH-ENGTVDAPIGRDPKD 219
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++Y ++ + VT F VL G+ +
Sbjct: 220 R-KLYTVTEKNS--------KHAVTHFIVLERFGDYT----------------------- 247
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
L+ +GRTHQIR+H +++G + GD +Y G + G DG LHA
Sbjct: 248 ---------LLELKLETGRTHQIRVHMKFIGHPLVGDPQY-GPSKSKGIPMDGQALHAAV 297
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L F HP TG ++ +APLP
Sbjct: 298 LGFKHPRTGEELLFEAPLP 316
>gi|297624276|ref|YP_003705710.1| pseudouridine synthase [Truepera radiovictrix DSM 17093]
gi|297165456|gb|ADI15167.1| pseudouridine synthase, RluA family [Truepera radiovictrix DSM
17093]
Length = 312
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 75/270 (27%), Positives = 107/270 (39%), Gaps = 67/270 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YED+ L A++KP G+ + G + GR++ K L +
Sbjct: 78 DIIYEDDDLAAIDKPPGMTAHPTA----TVREGTVVNALLGRMALA-KEKLFDPEDEDYR 132
Query: 140 --LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG- 196
+ +RLD++TSGVMV+ K+ +L AF K YIA+ +G + G
Sbjct: 133 PGIVHRLDKETSGVMVVAKNDAAHRELASAFKKRLTEKEYIAIAVGTLEDDLYMDGPIGR 192
Query: 197 ---HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
HGR ++ GG+ R T F VL+ E
Sbjct: 193 HPHHGR---------------KMTVGGNNPRSASTYFRVLARTREA-------------- 223
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
+LVRA P +GRTHQIR+H +LG I GD VY
Sbjct: 224 ------------------VLVRAKPHTGRTHQIRVHLAHLGAPILGD----SVYGKPSPL 261
Query: 314 YDGHELHAESLSFDHPVTGCPVMVQAPLPL 343
H LHA+ LS HP + A +PL
Sbjct: 262 IARHALHAQRLSLPHPRDHHAITFSAQVPL 291
>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 = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 75/268 (27%), Positives = 118/268 (44%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+V YED ++ VNKP+G+ V+ P G ++ + +N ++ + +R
Sbjct: 82 EVYYEDADVLVVNKPRGM----VVHPAPGHTKGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K I I + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGI-IDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P EAL
Sbjct: 270 GILGFDHPRTGEYIEFEAPIPEVFEEAL 297
>gi|156934429|ref|YP_001438345.1| 23S rRNA pseudouridylate synthase C [Cronobacter sakazakii ATCC
BAA-894]
gi|156532683|gb|ABU77509.1| hypothetical protein ESA_02260 [Cronobacter sakazakii ATCC BAA-894]
Length = 317
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 74/266 (27%), Positives = 112/266 (42%), Gaps = 68/266 (25%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRYLHEQLREKGMQKDYLALVRG---QWQ---------------- 185
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
S V V ++++++ S E ++ VN EG +PSE + E +
Sbjct: 186 -----SHVKNV--QAPLLKNILQSGERIVRVNQEG---KPSETRFKVEERFAIA------ 229
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------ 318
LVR P +GRTHQIR+H QY G I D +Y + +D
Sbjct: 230 -------TLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRY------GDRAFDAQLASTGLN 276
Query: 319 ---LHAESLSFDHPVTGCPVMVQAPL 341
LHA +L F+HP TG + ++APL
Sbjct: 277 RLFLHAAALRFEHPGTGETMRIEAPL 302
>gi|257875741|ref|ZP_05655394.1| pseudouridylate synthase [Enterococcus casseliflavus EC20]
gi|257809907|gb|EEV38727.1| pseudouridylate synthase [Enterococcus casseliflavus EC20]
Length = 302
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 78/278 (28%), Positives = 115/278 (41%), Gaps = 67/278 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN--- 142
++Y+D + +NKPQG+ SA +G L ++ +L N
Sbjct: 81 IVYQDADVAVINKPQGMVVHP------------SAGHPNGTLVNALLYHMDDLSTINDVV 128
Query: 143 ------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
R+D+DTSG+++I K+ + L K D + Y+AL G K TI +
Sbjct: 129 RPGIVHRIDKDTSGLLMIAKNDQAHESLAKQLKDKTSLRKYVALVHGTISHEKG-TINAP 187
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
GRSK ++ A + G+ P VT F VL E E +
Sbjct: 188 IGRSKVN-RKMQAVIENGK--PA-------VTHFTVL---------------ERFEQFTL 222
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
VE + +GRTHQIR+H QY+G + GD Y G +G
Sbjct: 223 VELQL-----------------ETGRTHQIRVHMQYIGFPLAGDPLYGPKRTLKG---NG 262
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
LHA+ L F HP TG ++ +APLP + L+ K
Sbjct: 263 QFLHAKLLGFTHPTTGESLVFEAPLPELFADTLKKLRK 300
>gi|149187050|ref|ZP_01865357.1| pseudouridine synthase D large subunit [Erythrobacter sp. SD-21]
gi|148829339|gb|EDL47783.1| pseudouridine synthase D large subunit [Erythrobacter sp. SD-21]
Length = 318
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 80/305 (26%), Positives = 121/305 (39%), Gaps = 70/305 (22%)
Query: 47 QNYPTPLSPPLP--AISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYC 104
+ Y L PP P +++DI L DV++ED +L+ VNKP G+
Sbjct: 59 ERYFIALPPPEPLETVAQDIPL------------------DVVFEDAYLLVVNKPAGMVV 100
Query: 105 ESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKL 164
+ L +GRLS G + + +R+D+DTSG++V+ KS L
Sbjct: 101 HPAAGNPDGTLVNALLHHCAGRLS-GIN-GVARPGIVHRIDKDTSGLLVVAKSDAAHEGL 158
Query: 165 VKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVV- 223
K F DH +++ Y+A C G P T+ GRS ++ VLP S
Sbjct: 159 AKQFADHSITRRYLAACAG-HPNPPSGTVSGRIGRSDRDRKKMA-------VLPDDSTRG 210
Query: 224 RDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGR 282
+ VT +E V +N + L+ +GR
Sbjct: 211 KHAVTHYETVRRLN---------------------------------HAALIECRLETGR 237
Query: 283 THQIRLHCQYLGISIRGDVKYEGV-----YEWNGKRYDGHELHAESLSFDHPVTGCPVMV 337
THQ+R+HC +G ++ GD Y + LHA L F HP++G +
Sbjct: 238 THQVRVHCASIGHALLGDPVYGRTPKPLRATLESLDFQRQALHAARLGFIHPISGESLDF 297
Query: 338 QAPLP 342
A LP
Sbjct: 298 CAELP 302
>gi|428184490|gb|EKX53345.1| hypothetical protein GUITHDRAFT_101047 [Guillardia theta CCMP2712]
Length = 307
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 83/290 (28%), Positives = 124/290 (42%), Gaps = 81/290 (27%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA---- 141
VLYED+ L+ V+KP G+ + R GT LN + HL
Sbjct: 63 VLYEDDDLIFVSKPPGMQM-----------------NPPHRFLSGTLLNRVIGHLGKTPF 105
Query: 142 --NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
+RLD TSGV+V K ++ + + F + KV K Y L G +P+
Sbjct: 106 VIHRLDMWTSGVVVYAKEQRMVPLMHEIFRERKVVKEYFCLVDGSSPE------------ 153
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
A+ V AA D P ++R V+ +G +PSE +
Sbjct: 154 --VDAFVVNAAIDFH---PHRKLLR---------CVSPDG---KPSE-----------TR 185
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-----------EGVYE 308
VL ++ L+RA P++GRTHQIR+H + G+ I GD Y E + E
Sbjct: 186 FEVLGRSRTQSMTLLRALPKTGRTHQIRIHAMHAGLPIVGDNVYGKEAELYTASDEELKE 245
Query: 309 WNG-KRYDGH------ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
+ K +D +LHA SL F HP++ + V AP+P +AL++
Sbjct: 246 SSSLKHFDAEKFRTPLKLHARSLQFTHPLSQHDLKVVAPIPDHFRDALEA 295
>gi|197303693|ref|ZP_03168730.1| hypothetical protein RUMLAC_02422 [Ruminococcus lactaris ATCC
29176]
gi|197297213|gb|EDY31776.1| pseudouridine synthase, RluA family [Ruminococcus lactaris ATCC
29176]
Length = 295
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 79/262 (30%), Positives = 116/262 (44%), Gaps = 60/262 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D++YED+ L+ VNKP G+ L + LA + E K + NRL
Sbjct: 82 DIIYEDDDLLVVNKPAGMPIHPSLNNYKNSLAN----ALMYYYKEQGKPFIFRC--TNRL 135
Query: 145 DRDTSGVMVITKSHKVASKLVKAF-TDHKVSKTYIALCIG---PAPKWKRITIISGHGRS 200
DRDTSG+ VI K H V+S ++ H++ + Y+A+ G PA TI + R+
Sbjct: 136 DRDTSGLTVIAK-HLVSSSILSFMAVRHEIHREYLAIVRGAVSPASG----TINAPLART 190
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
G S++ V FE +GE + L+E +++
Sbjct: 191 ------------------GSSIIERKV-DFE----HGEHAVTHYKVLKEQNQHS------ 221
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELH 320
LV +GRTHQIR+H QYLG + GD Y E+ ++ LH
Sbjct: 222 ------------LVSLILETGRTHQIRVHLQYLGHPLVGDYLYNPDMEYINRQ----ALH 265
Query: 321 AESLSFDHPVTGCPVMVQAPLP 342
+ LSF HP+TG + +APLP
Sbjct: 266 SWKLSFIHPITGEAMHFEAPLP 287
>gi|422024070|ref|ZP_16370571.1| pseudouridine synthase [Providencia sneebia DSM 19967]
gi|414091470|gb|EKT53155.1| pseudouridine synthase [Providencia sneebia DSM 19967]
Length = 232
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 72/258 (27%), Positives = 111/258 (43%), Gaps = 46/258 (17%)
Query: 87 LYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDR 146
+Y+DE L+ +NKP G+ S+ P L DS + ++ L +RLD
Sbjct: 20 IYQDEHLILINKPSGLL--SLSGKNPQNL--DSVHHRLIKIFPNCTL-------VHRLDF 68
Query: 147 DTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWR 206
TSG+MVI ++ + + L + F+ V+K Y AL G
Sbjct: 69 GTSGLMVIARNKIINAALCQQFSQRAVTKVYHALLCG----------------------- 105
Query: 207 VYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDAD 266
+ +D G + + +D F ++S+N +P+ H V+E+ D
Sbjct: 106 -HLHNDEGII--DAPITKDPAL-FPLMSINAITG--KPARSHYH-----VLERFYQRLED 154
Query: 267 AKKNEIL-VRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
+ VR P +GRTHQ+R+HCQYLG I G Y G ++ LHA L
Sbjct: 155 GSSLPLTRVRLTPETGRTHQLRIHCQYLGHPILGCDLYGGRLLSGTEKIPRLMLHASELH 214
Query: 326 FDHPVTGCPVMVQAPLPL 343
F HP++G P+ Q P
Sbjct: 215 FIHPISGTPINAQCESPF 232
>gi|395232068|ref|ZP_10410320.1| 23S rRNA pseudouridylate synthase C [Enterobacter sp. Ag1]
gi|394733572|gb|EJF33189.1| 23S rRNA pseudouridylate synthase C [Enterobacter sp. Ag1]
Length = 317
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 75/260 (28%), Positives = 110/260 (42%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + D + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLRDKGMQKDYLALVRG---QWQ-------------SHV 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PS E VE++
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVNSEG---KPS------ETRFKVEERYEFAT 230
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
LVR P +GRTHQIR+H + G I D +Y G E++ G + LHA
Sbjct: 231 -------LVRCSPVTGRTHQIRVHTLHAGHPIAFDDRY-GDREFDKQLAGTGLNRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP TG + ++APL
Sbjct: 283 AALKFTHPNTGEVIRIEAPL 302
>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 = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 73/268 (27%), Positives = 119/268 (44%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P +AL
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPEVFEDAL 297
>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 = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 76/273 (27%), Positives = 119/273 (43%), Gaps = 55/273 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+V YED ++ VNKP+G+ V+ P G ++ + +N ++ + +R
Sbjct: 82 EVYYEDADVLVVNKPRGM----VVHPAPGHTKGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K I I + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGI-IDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
L FDHP TG + +AP+P EAL K
Sbjct: 270 GILGFDHPRTGEYIEFEAPIPEVFEEALNVLRK 302
>gi|340027626|ref|ZP_08663689.1| ribosomal large subunit pseudouridine synthase D [Paracoccus sp.
TRP]
Length = 341
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 65/281 (23%), Positives = 114/281 (40%), Gaps = 62/281 (22%)
Query: 86 VLYEDEWLVAVNKPQGV------------YCESVLASVPCLLAGDSAESKSGRLSEGTKL 133
V +EDE L+ ++KP G+ ++LA L+G ++ G
Sbjct: 84 VAHEDEDLIVIDKPAGMVVHPAPGAPSGTLVNALLAHCAGSLSGIGGTARPG-------- 135
Query: 134 NLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPA-PKWKRIT 192
+ +R+D++TSG++V+ K+ + L + F DH + YIA+ G P R+
Sbjct: 136 ------IVHRIDKETSGLLVVAKTDRAHQGLARQFADHTARRRYIAIAHGMIDPADPRLR 189
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
+ G G R+ A+ +GR + ++ + H
Sbjct: 190 GLPGVSFEAGGVLRI--ATMIGR----------------------HPTDRQRQAVSFHSG 225
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
+ V + + +LV + +GRTHQIR+H + G+ + GD Y G + +
Sbjct: 226 RHAVTRARVLETFGTPPTAMLVECWLETGRTHQIRVHMAHAGLGLVGDPVYGGNRRASAR 285
Query: 313 -----------RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA L F+HPV+G + +PLP
Sbjct: 286 ALGTDAAAAVAAFSRQALHAAELGFEHPVSGETLTFTSPLP 326
>gi|296535679|ref|ZP_06897854.1| ribosomal large subunit pseudouridine synthase C [Roseomonas
cervicalis ATCC 49957]
gi|296264003|gb|EFH10453.1| ribosomal large subunit pseudouridine synthase C [Roseomonas
cervicalis ATCC 49957]
Length = 331
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 80/297 (26%), Positives = 120/297 (40%), Gaps = 63/297 (21%)
Query: 50 PTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLA 109
P P P +++D R +SA +L + +LY D++++A+NKP G+
Sbjct: 70 PLPEGPAPEPVARD----RQVSAEDAKALEAM----ILYRDDYIIALNKPHGL------- 114
Query: 110 SVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFT 169
P + + G L T L +RLDRDTSGV+++ + A L KAF
Sbjct: 115 --PVQGGPNIKKHLDGMLDALTFEKEERPRLVHRLDRDTSGVILLARDASAAGFLAKAFR 172
Query: 170 DHKVSKTYIALCIG-PAPKWKRITI-ISGHGRSKFGAWRVYAASDVGRVLPG-GSVVRDM 226
KTY A+ +G P + RI + ++ G G RV+P G
Sbjct: 173 GRDAEKTYWAIVVGQPQYQGGRIDMRLAKQGGGPMGE----------RVVPAEGRDGAHA 222
Query: 227 VTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQI 286
+T F+ + V A+++ + P +GRTHQ+
Sbjct: 223 ITEFDTVDV-------------------------------ARRHATWLELRPLTGRTHQL 251
Query: 287 RLHC-QYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
R+HC L I GD KY G + LHA + HP G + V APLP
Sbjct: 252 RVHCAAALSCPILGDGKYGGQAAHLEGMSNALHLHARRIVVPHPEGGT-LEVTAPLP 307
>gi|295087068|emb|CBK68591.1| Pseudouridylate synthases, 23S RNA-specific [Bacteroides
xylanisolvens XB1A]
Length = 564
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 69/256 (26%), Positives = 113/256 (44%), Gaps = 46/256 (17%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDEWL+ VNKP G + SVP + +S RL + + + +RLD
Sbjct: 347 IVFEDEWLLIVNKPAG------MLSVPG--KAEDRDSVYHRLKKKYPEATGPM-IVHRLD 397
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
TSG++++ K+ KV L F + + K Y+A+ G I + GR +
Sbjct: 398 MATSGLLLVAKTKKVHQDLQAQFANRSIKKRYVAVLDG-------IVLSERTGRIELPL- 449
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
D R + ++ +T ++++S E I+ E + ++
Sbjct: 450 -CLNPLDRPRQIVSKEYGKEAITEYKIIS----------------ESEKIIDESERSINE 492
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
K I+ +P +GRTHQ+R+H + LG I GD Y GK+ D LHAE
Sbjct: 493 PRKYTRIVF--YPLTGRTHQLRVHAAHPEGLGCPILGDELY-------GKKADRLYLHAE 543
Query: 323 SLSFDHPVTGCPVMVQ 338
+ F HP+ G +Q
Sbjct: 544 YIEFRHPIYGDIFRIQ 559
>gi|329114604|ref|ZP_08243363.1| Ribosomal large subunit pseudouridine synthase C [Acetobacter
pomorum DM001]
gi|326696084|gb|EGE47766.1| Ribosomal large subunit pseudouridine synthase C [Acetobacter
pomorum DM001]
Length = 328
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 77/292 (26%), Positives = 119/292 (40%), Gaps = 58/292 (19%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLASV 111
PP+P +K R + L + R V+Y+D+ ++ +NKP G+ + + +
Sbjct: 64 PPIPMAAKP---ARDVPRPLDEKLAREIRKMVVYQDKHVIVLNKPAGLAVQGGPGITKHI 120
Query: 112 PCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH 171
+L G E L +R+D+DTSG++++ ++ VA+KL +F
Sbjct: 121 DMMLDGLREEDDP------------RPRLVHRIDKDTSGLLLLARTPGVAAKLAASFRGR 168
Query: 172 KVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSF 230
V K Y A+ +G P P I ++ GA
Sbjct: 169 DVKKIYWAVVVGRPDPLSGEID----QPLARLGA-------------------------- 198
Query: 231 EVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHC 290
G GS ++ ++ + VLD+ A+K L P +GRTHQ+R+HC
Sbjct: 199 ------GPGSITVAADRKD-ADAQFARSVYEVLDSAARKFSWL-ELSPLTGRTHQLRVHC 250
Query: 291 QYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LG I GD KY G D LHA L HP G + V A LP
Sbjct: 251 ESLGTPILGDPKYGGAAAHPSGFTDRLHLHARMLDMPHPAGGR-LTVSAELP 301
>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 = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 77/286 (26%), Positives = 114/286 (39%), Gaps = 81/286 (28%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
DV+YED+ ++ VNKPQGV + + L + D A+S G
Sbjct: 80 DVVYEDQDVIVVNKPQGVVVHPSAGHPDHTLVNGLLYHTQDLAKSPEG----------FR 129
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG+++I K+ K L + Y+A I+ G+
Sbjct: 130 PGIVHRIDKDTSGLLMIAKNDKARESLEDQLAHKTNKREYLA-------------IVHGN 176
Query: 198 GRSKFGAWRVYAASDVGR---------VLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQ 248
+K G + +GR V P G + +T FEVL
Sbjct: 177 FEAKIGVIN----APIGRNPNNRKQMAVNPKG---KKAITHFEVL--------------- 214
Query: 249 EHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYE 308
+ KN LV+ +GRTHQIR+H +Y+G I GD Y
Sbjct: 215 -----------------EQFKNYALVKCVLETGRTHQIRVHMRYIGHPIAGDPLYGPKKT 257
Query: 309 WNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
G +G LHA +L F+HP T + AP+P E L + K
Sbjct: 258 LKG---NGQFLHAATLGFEHPATHKWLEFSAPVPAIFQEQLDNLRK 300
>gi|260912693|ref|ZP_05919179.1| ribosomal large subunit pseudouridine synthase C [Pasteurella
dagmatis ATCC 43325]
gi|260633071|gb|EEX51236.1| ribosomal large subunit pseudouridine synthase C [Pasteurella
dagmatis ATCC 43325]
Length = 381
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 71/264 (26%), Positives = 114/264 (43%), Gaps = 60/264 (22%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
+ +L+ED+ L+ +NKP G+ ++ A R L L +R
Sbjct: 159 NQILFEDDCLLVLNKPSGIAVHGGSGLNFGVIEALRALRPEARF----------LELVHR 208
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LDRDTSG++++ K L + + V K Y+AL G
Sbjct: 209 LDRDTSGILLVAKKRSALRNLHEQLREKTVQKDYLALV--------------------RG 248
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
W+ + +V+ + ++ + ++ V+ +G +PS E +E++
Sbjct: 249 QWQSHC-----KVVKAPLLKNELSSGERIVRVSEQG---KPS------ETRFSIEERY-- 292
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY------EGVYEWNGKRYDGH 317
+N LV+A P +GRTHQIR+H QY G I D KY E + E KR
Sbjct: 293 -----ENATLVKASPVTGRTHQIRVHTQYAGHPIAFDDKYGDKQFDEQMSEIGLKRLF-- 345
Query: 318 ELHAESLSFDHPVTGCPVMVQAPL 341
LHA S+ F+HP +G + + APL
Sbjct: 346 -LHAFSIRFEHPKSGETLRINAPL 368
>gi|421543602|ref|ZP_15989693.1| pseudouridine synthase [Neisseria meningitidis NM140]
gi|421545661|ref|ZP_15991721.1| pseudouridine synthase [Neisseria meningitidis NM183]
gi|421547730|ref|ZP_15993762.1| pseudouridine synthase [Neisseria meningitidis NM2781]
gi|421551941|ref|ZP_15997922.1| pseudouridine synthase [Neisseria meningitidis NM576]
gi|421560352|ref|ZP_16006211.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM2657]
gi|433468431|ref|ZP_20425868.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
98080]
gi|254670429|emb|CBA06026.1| ribosomal large subunit pseudouridine synthase C [Neisseria
meningitidis alpha153]
gi|402325889|gb|EJU61296.1| pseudouridine synthase [Neisseria meningitidis NM183]
gi|402326444|gb|EJU61846.1| pseudouridine synthase [Neisseria meningitidis NM140]
gi|402327750|gb|EJU63137.1| pseudouridine synthase [Neisseria meningitidis NM2781]
gi|402332857|gb|EJU68175.1| pseudouridine synthase [Neisseria meningitidis NM576]
gi|402340525|gb|EJU75725.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
NM2657]
gi|432206517|gb|ELK62524.1| pseudouridine synthase, RluA family protein [Neisseria meningitidis
98080]
Length = 330
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 75/265 (28%), Positives = 111/265 (41%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
+ +YED+ L+ ++KP GV V V L E++ L L
Sbjct: 95 EAVYEDDALLVIDKPSGVAVHGGSGVSFGVIEQLRRARPEARY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H R
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVRLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LSKYTGAQGEKMVRVSADGQSAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P++++ LP
Sbjct: 290 FLHASELHLNHPLTGEPLVLKVGLP 314
>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 = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 73/268 (27%), Positives = 119/268 (44%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P +AL
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPEVFEDAL 297
>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 = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 76/278 (27%), Positives = 112/278 (40%), Gaps = 67/278 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN--- 142
++Y+D + +NKPQG+ SA +G L ++ +L N
Sbjct: 81 IVYQDADVAVINKPQGMVVHP------------SAGHPNGTLVNALLYHMDDLSTINDVV 128
Query: 143 ------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
R+D+DTSG+++I K+ + L K D + Y+AL G K TI +
Sbjct: 129 RPGIVHRIDKDTSGLLMIAKNDQAHESLAKQLKDKTSLRKYVALVHGTISHEKG-TINAP 187
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
GRSK V R M E NG+ + + L+ E+
Sbjct: 188 IGRSK--------------------VNRKMQAVIE----NGKPAVTHFTVLERFEQFT-- 221
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
LV +GRTHQIR+H QY+G + GD Y G +G
Sbjct: 222 ----------------LVELQLETGRTHQIRVHMQYIGFPLAGDPLYGPKRTLKG---NG 262
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
LHA+ L F HP TG ++ +APLP + L+ K
Sbjct: 263 QFLHAKLLGFTHPTTGESLVFEAPLPELFADTLKKLRK 300
>gi|289422301|ref|ZP_06424151.1| ribosomal large subunit pseudouridine synthase D
[Peptostreptococcus anaerobius 653-L]
gi|289157246|gb|EFD05861.1| ribosomal large subunit pseudouridine synthase D
[Peptostreptococcus anaerobius 653-L]
Length = 320
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 68/273 (24%), Positives = 113/273 (41%), Gaps = 59/273 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYC-------ESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D++YED++L+ VNK QG+ + L + GD S +G + G
Sbjct: 97 DIVYEDDYLMVVNKQQGMVVHPAPGNPDRTLVNAVLFHCGDRLSSINGVIRPG------- 149
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D++TSG++VI K ++ L F H +++ Y +CIG +W+ TI
Sbjct: 150 --IVHRIDKNTSGLLVIAKDNQTHQGLSDQFKVHSITREYEMICIGNV-EWQEKTIDGPI 206
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+ ++ G + VT F ++ N +G + L+
Sbjct: 207 GRNPKDRMKMAIVKTNG---------KRAVTHFRLVE-NYDGYSHLSARLE--------- 247
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
+GRTHQIR+H + I GD Y G + +G
Sbjct: 248 ----------------------TGRTHQIRVHISSINRPILGDNLY-GYKVKTFAKLEGQ 284
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
LHA L F HP++G + + LP + + L
Sbjct: 285 CLHARKLGFIHPISGKYMEFDSDLPEYFEDVLN 317
>gi|406676342|ref|ZP_11083528.1| RluA family pseudouridine synthase [Aeromonas veronii AMC35]
gi|404626565|gb|EKB23375.1| RluA family pseudouridine synthase [Aeromonas veronii AMC35]
Length = 231
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 70/259 (27%), Positives = 109/259 (42%), Gaps = 45/259 (17%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++L+EDE L+ +NKP G+ S+ P + +S RL + + L +RL
Sbjct: 18 EILFEDEHLLLINKPSGLL--SLSGKNP-----QNLDSVHYRLVQ----DFPGCTLVHRL 66
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG+MV+ ++ + + L + F+ VSK Y AL + GH G
Sbjct: 67 DFGTSGIMVVARNKAINALLCQQFSQRAVSKAYSAL-------------LCGHLIDDEGV 113
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
A D + ++ +V+G+ + V+E+ A
Sbjct: 114 IDAPIAKD-----------PSIFPLMKICAVSGKPA----------RSRYQVIERLAQQI 152
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
VR P +GRTHQ+R+H Q LG I G Y G+ ++ LHA L
Sbjct: 153 QGQTVPLTRVRLVPETGRTHQLRIHSQLLGHPILGCDLYGGLLPPGCEQAPRLMLHASEL 212
Query: 325 SFDHPVTGCPVMVQAPLPL 343
HPV+G P+ V+ P P
Sbjct: 213 DLTHPVSGEPMQVRCPAPF 231
>gi|417840864|ref|ZP_12486972.1| putative pseudouridine synthase, RluA-like protein [Haemophilus
haemolyticus M19501]
gi|341950675|gb|EGT77262.1| putative pseudouridine synthase, RluA-like protein [Haemophilus
haemolyticus M19501]
Length = 224
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 65/249 (26%), Positives = 113/249 (45%), Gaps = 66/249 (26%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN 142
+ +V+Y+ + +NKP+G+ D AE L +LN+ ++ L +
Sbjct: 2 KIEVVYQHSDFIIINKPEGISVHK-----------DQAEQGLTELV-AKQLNVPQVWLVH 49
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD+ TSG++++ + + A++ + F++HK+ KTY+AL PK K+ II +++
Sbjct: 50 RLDKVTSGLLILALNAESAAEFSRLFSEHKIHKTYLALS-SQKPKKKQGVIIGDMKKARD 108
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
GAW++ + +T FE +S EP+
Sbjct: 109 GAWKLCQTKE-----------NPAITRFESVSC-------EPN----------------- 133
Query: 263 LDADAKKNEILVRAF---PRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
+R F P++G+THQ+R+ + LG I GD G+Y N ++ D L
Sbjct: 134 -----------LRLFILKPQTGKTHQLRVAMKSLGSPILGD----GLYGKNIEKIDRTYL 178
Query: 320 HAESLSFDH 328
HA L FD+
Sbjct: 179 HAAQLEFDY 187
>gi|429104090|ref|ZP_19166064.1| Ribosomal large subunit pseudouridine synthase C ## LSU Psi955,
Psi2504 and Psi2580 [Cronobacter turicensis 564]
gi|426290739|emb|CCJ92177.1| Ribosomal large subunit pseudouridine synthase C ## LSU Psi955,
Psi2504 and Psi2580 [Cronobacter turicensis 564]
Length = 331
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 72/265 (27%), Positives = 107/265 (40%), Gaps = 66/265 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 109 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 158
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + D + K Y+AL G +W+
Sbjct: 159 RDTSGVLLVAKKRSALRSLHEQLRDKGMQKDYLALVRG---QWQ-------------SHV 202
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ A + +L G ++ VN EG +PSE + E
Sbjct: 203 KTVQAPLLKNILQSGE---------RIVRVNQEG---KPSETRFKVEERFA--------- 241
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------- 318
+ LVR P +GRTHQIR+H Q+ G I D+ Y + +D
Sbjct: 242 ----SATLVRCSPVTGRTHQIRVHTQFAGHPIAFDLAY------GDRTFDAQLASTGLNR 291
Query: 319 --LHAESLSFDHPVTGCPVMVQAPL 341
LHA +L F+HP TG + V+AP+
Sbjct: 292 LFLHAAALRFEHPGTGETMRVEAPM 316
>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 = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 69/259 (26%), Positives = 116/259 (44%), Gaps = 48/259 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
DV+YED ++ VNKP+G+ V+ P +G + + + +N ++ + +R
Sbjct: 105 DVVYEDSDVIVVNKPRGM----VVHPAPGHYSGTLVNALLYHCKDLSGINGIMRPGIVHR 160
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG+++ K+ + L + H ++ YIAL G P + T+ + GR
Sbjct: 161 IDKDTSGLLMAAKNDLAHAGLTEQLKAHSATRKYIALVHGNVPH-ENGTVDAPIGRDP-K 218
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++Y ++ + VT F VL G+ +
Sbjct: 219 DRKLYTVTEKNS--------KHAVTHFIVLERFGDYT----------------------- 247
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
L+ +GRTHQIR+H +++G + GD +Y G + G DG LHA
Sbjct: 248 ---------LLELKLETGRTHQIRVHMKFIGHPLVGDPQY-GPSKSKGIPMDGQALHAAV 297
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L F HP TG ++ +APLP
Sbjct: 298 LGFKHPRTGEELLFEAPLP 316
>gi|268589209|ref|ZP_06123430.1| ribosomal large subunit pseudouridine synthase [Providencia
rettgeri DSM 1131]
gi|291315465|gb|EFE55918.1| ribosomal large subunit pseudouridine synthase [Providencia
rettgeri DSM 1131]
Length = 319
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 73/260 (28%), Positives = 109/260 (41%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+L+ED+ L+ +NKP G ++ G A R L L +RLD
Sbjct: 94 ILFEDDVLLVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 143
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + ++ K Y+AL G W+
Sbjct: 144 RDTSGILLVAKKRSALRALHEQLRLKQMQKDYLALVRG---NWQ-------------SHM 187
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G V+ V+ EG +PSE + E
Sbjct: 188 KVVQAPLLKNILQSGE---------RVVKVSSEG---KPSETRFKVEERF---------- 225
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
N L++A P +GRTHQIR+H Y G I D +Y G +++ G + LHA
Sbjct: 226 ---DNATLIKASPVTGRTHQIRVHTLYAGHPIAFDDRY-GDKQFDSQLAGTGLNRLFLHA 281
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP TG + +QAPL
Sbjct: 282 SALKFTHPKTGDEMRLQAPL 301
>gi|399910323|ref|ZP_10778637.1| ribosomal large subunit pseudouridine synthase C [Halomonas sp.
KM-1]
Length = 315
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 69/227 (30%), Positives = 96/227 (42%), Gaps = 55/227 (24%)
Query: 130 GTKLNLLE-----------LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYI 178
G K+ L+E L L +RLDRDTSG +++ KS L +A HK+ K Y+
Sbjct: 116 GVKIGLIEALRQVREDLDFLELVHRLDRDTSGCLLLAKSRPALLALNEALKGHKMDKRYL 175
Query: 179 ALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGE 238
AL G P A R + ++ + R G NGE
Sbjct: 176 ALVAGRWP-----------------ARREFVSARLDRYDAG----------------NGE 202
Query: 239 GSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIR 298
++ + + AV + K L+ A P +GRTHQIR+H + G +
Sbjct: 203 ------RRVRVDAAGKVARTRFAVRETFPKAT--LIEAEPVTGRTHQIRVHAAHAGFPLL 254
Query: 299 GDVKY---EGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
GD KY EG LHAESL+F P +G PV ++APLP
Sbjct: 255 GDDKYGSREGAVLARQLGLSRLFLHAESLTFPEPSSGRPVQIRAPLP 301
>gi|338530001|ref|YP_004663335.1| RluA family pseudouridine synthase [Myxococcus fulvus HW-1]
gi|337256097|gb|AEI62257.1| RluA family pseudouridine synthase [Myxococcus fulvus HW-1]
Length = 314
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 75/256 (29%), Positives = 106/256 (41%), Gaps = 55/256 (21%)
Query: 88 YEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRD 147
YED ++AV+KP GV + V L D +K GR + L +RLDR+
Sbjct: 86 YEDADVIAVDKPAGVSAQPTEGRVGDSLV-DLVGAKLGRAA----------GLVHRLDRE 134
Query: 148 TSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPA-PKWKRITIISGHGRSKFGAWR 206
TSGV V K+ + S L AF + + K Y+A GP P + + S+ G WR
Sbjct: 135 TSGVTVFGKTAEATSALAAAFREGRARKRYVA-ATGPGLPPSGTVDLPLSKDPSRPGRWR 193
Query: 207 VYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDAD 266
A++ +P +T F L F P+
Sbjct: 194 ATRAANG---VP-------ALTDFHTL-------FAGPAF-------------------- 216
Query: 267 AKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSF 326
+V P +GRTHQ+R H LG I GD +Y G G LHA++L
Sbjct: 217 -----CVVELLPHTGRTHQLRAHLTALGAPILGDARYGGAARAQGVEAARCLLHAQALEL 271
Query: 327 DHPVTGCPVMVQAPLP 342
HP TG + ++AP+P
Sbjct: 272 GHPRTGKALRIEAPVP 287
>gi|168182405|ref|ZP_02617069.1| pseudouridine synthase, RluA family [Clostridium botulinum Bf]
gi|237794814|ref|YP_002862366.1| RluA family pseudouridine synthase [Clostridium botulinum Ba4 str.
657]
gi|182674415|gb|EDT86376.1| pseudouridine synthase, RluA family [Clostridium botulinum Bf]
gi|229261378|gb|ACQ52411.1| pseudouridine synthase, RluA family [Clostridium botulinum Ba4 str.
657]
Length = 305
Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 69/265 (26%), Positives = 118/265 (44%), Gaps = 54/265 (20%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLA 141
+ D++YED+ ++ VNKPQ E V+ P + +G + + + +N + +
Sbjct: 79 KLDIIYEDKDVIVVNKPQ----EMVVHPAPGVYSGTLVNALLNHCKDLSGINGVARPGIV 134
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+R+D+DTSG++V+ K+ + L F +H +S+ Y+AL G K ++ TI + GR
Sbjct: 135 HRIDKDTSGILVVAKNDISHNNLAAQFKEHSISRVYMALVEG-IIKDEQGTIEAPIGRHP 193
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
++ D R VT ++V+
Sbjct: 194 VDRIKMAVVKD----------GRHAVTHYKVI---------------------------- 215
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD--GHEL 319
+ KN LV +GRTHQIR+H ++ + GD VY + +R++ G L
Sbjct: 216 ----ERFKNHTLVECRLETGRTHQIRVHMSHIMHPLVGD----PVYGYKKQRFNLKGQML 267
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLW 344
HA+ L F HP T V ++ LP +
Sbjct: 268 HAKLLGFIHPTTRQYVEFESELPEY 292
>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 = 79.0 bits (193), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 73/268 (27%), Positives = 119/268 (44%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P +AL
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPEVFEDAL 297
>gi|334341201|ref|YP_004546181.1| RluA family pseudouridine synthase [Desulfotomaculum ruminis DSM
2154]
gi|334092555|gb|AEG60895.1| pseudouridine synthase, RluA family [Desulfotomaculum ruminis DSM
2154]
Length = 303
Score = 79.0 bits (193), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 69/260 (26%), Positives = 109/260 (41%), Gaps = 57/260 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE-LHLANR 143
+++YED ++AVNKP G+ + V LA +G L + +++ +R
Sbjct: 84 EIIYEDRDILAVNKPPGMLVHPLTTQVEGTLA-------NGVLYHWRQQGIVDRFRPVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWK-RITIISGHGRSKF 202
LDRDTSG++++ +S +L + +++ Y+A+ G + + I + S F
Sbjct: 137 LDRDTSGLVLVARSSYAHQQLARQMAQGLLTRRYLAVVQGKLDRQRGSICLPIAREESSF 196
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
R+ A +T FEVL GS
Sbjct: 197 TRRRISPAGKTA------------ITHFEVLHSFAGGS---------------------- 222
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
LVR +GRTHQIR+H YLG + GD G+Y + LH
Sbjct: 223 ----------LVRLELETGRTHQIRVHLAYLGHPLWGD----GLYGGDTSVIKRQALHCT 268
Query: 323 SLSFDHPVTGCPVMVQAPLP 342
L+F HPVTG P+ +++ LP
Sbjct: 269 YLAFRHPVTGKPLQLKSSLP 288
>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 = 79.0 bits (193), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 71/280 (25%), Positives = 111/280 (39%), Gaps = 82/280 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YED+ ++ +NKP+ D +GT LN L H
Sbjct: 85 DIVYEDDDILVINKPR-----------------DFVVHPGAGTPDGTVLNALLHHCPSLA 127
Query: 140 ------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+ +RLD+DT+G+MV+ K+ + ++LV+A K+++ Y AL IG I
Sbjct: 128 EVPRAGIVHRLDKDTTGLMVVAKTIQAQTRLVRALQKRKITREYEALAIGQMTGGGTIEK 187
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
G +K V+ +D +T + V +EH
Sbjct: 188 PIGRHSTKRICMAVHEMG------------KDAITHYRV-----------AERFREH--- 221
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGV------- 306
I++R +GRTHQIR+H Y+ + GDV Y G
Sbjct: 222 ----------------TRIVLRL--ETGRTHQIRVHMSYMSHPLIGDVIYGGRPRPPRDA 263
Query: 307 ---YEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPL 343
+ + +D LHA L DHP+TG + APLP+
Sbjct: 264 SPEFIQALRAFDRQALHARMLRLDHPITGEKMEWHAPLPI 303
>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 = 79.0 bits (193), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 75/269 (27%), Positives = 118/269 (43%), Gaps = 55/269 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+V YED ++ VNKP+G+ V+ P G ++ + +N ++ + +R
Sbjct: 82 EVYYEDADVLVVNKPRGM----VVHPAPGHTKGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDVAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L FDHP TG + +AP+P EAL
Sbjct: 270 GILGFDHPRTGEYIEFEAPIPEVFEEALN 298
>gi|300173082|ref|YP_003772248.1| ribosomal large subunit pseudouridine synthase D [Leuconostoc
gasicomitatum LMG 18811]
gi|299887461|emb|CBL91429.1| ribosomal large subunit pseudouridine synthase D [Leuconostoc
gasicomitatum LMG 18811]
Length = 308
Score = 79.0 bits (193), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 72/280 (25%), Positives = 110/280 (39%), Gaps = 73/280 (26%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YED+ ++ VNKPQG+ P AG S+ GT +N L H
Sbjct: 80 DIIYEDDDILVVNKPQGMVVH------PA--AGHSS---------GTLVNALLFHAPLST 122
Query: 140 --------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
+ +R+DRDTSG++++ K+ + L HK + Y AL G
Sbjct: 123 INGEFRPGIVHRIDRDTSGLLMVAKNDQAHQGLSAQLKAHKNDRIYYALVRGE------- 175
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
+ G R V GG R+ +T FEV+
Sbjct: 176 -FVENSGTINAPINRHKVDRKKQAVQEGG---REAITHFEVI------------------ 213
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
+ L++ +GRTHQIR+H Y+G + GD Y G
Sbjct: 214 --------------ERYVGYTLLKVRLETGRTHQIRVHMTYIGHPVVGDPVYGSAQNLAG 259
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
+ +G LHA++LS P TG + + LP + +AL +
Sbjct: 260 VKLNGQMLHAKTLSLTQPKTGEELRFDSALPAYFKDALAT 299
>gi|149280326|ref|ZP_01886447.1| pseudouridylate synthase, 23S RNA-specific [Pedobacter sp. BAL39]
gi|149228875|gb|EDM34273.1| pseudouridylate synthase, 23S RNA-specific [Pedobacter sp. BAL39]
Length = 343
Score = 79.0 bits (193), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 72/287 (25%), Positives = 109/287 (37%), Gaps = 87/287 (30%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YED L+ VNKP G+ + GT +N L H
Sbjct: 97 DIVYEDNDLLVVNKPAGMVVHPGYNNYT-----------------GTLVNALAFHFEQLP 139
Query: 140 ----------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWK 189
L +R+D+DTSG+++I+K+ +KL K F DH +++ YIAL G +
Sbjct: 140 QLPGNEGRPGLVHRIDKDTSGLLLISKNEITMTKLAKQFFDHSITRKYIALAWGDIAENG 199
Query: 190 RITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQE 249
+T G VY + G+ VT + VL G +
Sbjct: 200 TVTGFIGRSLKNRIVMDVYDDEEKGKW---------SVTHYTVLERLGYVT--------- 241
Query: 250 HEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEW 309
L+ +GRTHQIR H Q++G + D Y G
Sbjct: 242 -----------------------LISCQLETGRTHQIRAHMQHIGHPLFNDANYGGDKIV 278
Query: 310 NGKRYDGHE--------------LHAESLSFDHPVTGCPVMVQAPLP 342
G ++ ++ LHA++L F HP T + +APLP
Sbjct: 279 KGTTFNKYKQFVQNCFEIMPRQSLHAQTLGFIHPTTKKYMEFEAPLP 325
>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 = 79.0 bits (193), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 74/268 (27%), Positives = 119/268 (44%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+V YED ++ VNKP+G+ V+ P G ++ + +N ++ + +R
Sbjct: 82 EVYYEDADVLVVNKPRGM----VVHPAPGHTKGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G P K I I + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVEKTVTRRYKAIVHGVIPHDKGI-IDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L F+HP TG + +AP+P EAL
Sbjct: 270 GILGFNHPRTGEYIEFEAPIPEVFEEAL 297
>gi|407800531|ref|ZP_11147391.1| hypothetical protein OCGS_2464 [Oceaniovalibus guishaninsula
JLT2003]
gi|407057450|gb|EKE43426.1| hypothetical protein OCGS_2464 [Oceaniovalibus guishaninsula
JLT2003]
Length = 350
Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 77/272 (28%), Positives = 109/272 (40%), Gaps = 58/272 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL-HLANRL 144
V+Y D+ L+A+NKP G+ + G L+E + L + L +RL
Sbjct: 94 VIYRDDHLIALNKPPGLASQ----------GGSKQTRHVDNLAEALRFGLEDKPRLVHRL 143
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHGRSKFG 203
DRDTSG++++ ++ A L + K Y A G P+P+ G K+G
Sbjct: 144 DRDTSGILLLARTRIAAKGLTETLRHRATRKIYWAALAGVPSPR---------MGSVKYG 194
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFK---EPSELQEHEENNIVVEKK 260
+ PG GEG P + +
Sbjct: 195 LVKA----------PG-------------RGAGGEGEKMLCIHPDAVTATDGAKRAHTDY 231
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN-----GKRYD 315
AVL A + V P +GRTHQ+R H LG + GD KY G + N G +
Sbjct: 232 AVLSALGGRMS-WVALVPVTGRTHQLRAHMAELGHPVIGDGKYGGSGQENAGDGWGAQLG 290
Query: 316 GH-----ELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA SL+F HPVTG + + APLP
Sbjct: 291 GELSRKLHLHARSLAFRHPVTGADLTLTAPLP 322
>gi|293610198|ref|ZP_06692499.1| conserved hypothetical protein [Acinetobacter sp. SH024]
gi|427423054|ref|ZP_18913220.1| rRNA pseudouridylate synthase C [Acinetobacter baumannii WC-136]
gi|292827430|gb|EFF85794.1| conserved hypothetical protein [Acinetobacter sp. SH024]
gi|425700154|gb|EKU69745.1| rRNA pseudouridylate synthase C [Acinetobacter baumannii WC-136]
Length = 310
Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 76/270 (28%), Positives = 115/270 (42%), Gaps = 61/270 (22%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S V+YEDE L+ +NKP G+ L+ ++ R + G K L L +R
Sbjct: 95 SRVVYEDEGLLVINKPSGIAVHGGSGVAYGLI-------EALRAATGKKY----LELIHR 143
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DRDTSG+++I+K L +HK+ KTY A+ G
Sbjct: 144 IDRDTSGLVMISKKRSTLKLLQDMLREHKIRKTYAAIVKGQV------------------ 185
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTS--FEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
S+ + ++ + F NGE + E + + +V E+
Sbjct: 186 -----------------SLDKQLIDAPLFRYELANGERRVRVSKEGKPSKTEWVVAER-- 226
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
KN LV A P SGRTHQIR+H +G + GD KY E++G + LHA
Sbjct: 227 ------FKNATLVHASPLSGRTHQIRVHGLSIGHPLLGDDKYGHTTEYSGPQARRLCLHA 280
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
L + G P ++APLP T+ L++
Sbjct: 281 MRLD----IPGYPP-IEAPLPEDMTQLLKA 305
>gi|254805759|ref|YP_003083980.1| ribosomal large subunit pseudouridine synthase [Neisseria
meningitidis alpha14]
gi|254669301|emb|CBA08284.1| ribosomal large subunit pseudouridine synthase [Neisseria
meningitidis alpha14]
Length = 330
Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 75/265 (28%), Positives = 112/265 (42%), Gaps = 52/265 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
+ +YED+ L+ ++KP GV V V L E++ L L
Sbjct: 95 EAVYEDDALLVIDKPSGVAVHGGSGVSFGVIEQLRRARPEARY-------------LELV 141
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG++++ K KL +A + K Y+AL +G P + H +
Sbjct: 142 HRLDKDTSGLLMVAKKRSALVKLHEAIRNDHPKKIYLALGVGKLPDD------NFHVKLP 195
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
+ + RV G T F VLS +G
Sbjct: 196 LFKYTGAQGEKMVRVSADGQSAH---TVFRVLSRFSDG---------------------- 230
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+L + LVRA ++GRTHQIR+H Q G I GD +Y G Y+ N +
Sbjct: 231 ILHGVGLSHLTLVRATLKTGRTHQIRVHLQSQGCPIAGDERY-GDYQANRRLQKLGLKRM 289
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L +HP+TG P++++A LP
Sbjct: 290 FLHASELHLNHPLTGEPLVLKAELP 314
>gi|410583548|ref|ZP_11320654.1| ribosomal large subunit pseudouridine synthase D [Thermaerobacter
subterraneus DSM 13965]
gi|410506368|gb|EKP95877.1| ribosomal large subunit pseudouridine synthase D [Thermaerobacter
subterraneus DSM 13965]
Length = 321
Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 70/270 (25%), Positives = 109/270 (40%), Gaps = 69/270 (25%)
Query: 85 DVLYEDEWLVAVNKP------------QGVYCESVLASVPCLLAGDSAESKSGRLSEGTK 132
DV+YED +V +NKP QG ++LA P + G + G
Sbjct: 93 DVVYEDPDVVVLNKPRGWVVHPAPGHPQGTLANALLARYPEM-EGVGGPGRPG------- 144
Query: 133 LNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRIT 192
+ +RLDRDT+G++V+ +S +LV+ + +V + Y+AL G P+ + T
Sbjct: 145 -------IVHRLDRDTTGLLVVARSPLAYRELVRQIKERRVHREYLALVRG-WPEVREGT 196
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
+ + GR R+ + GR T F V+ G +
Sbjct: 197 VEAPIGRHPADRTRMTVLTTGGR---------PARTHFAVVEQVGRYT------------ 235
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
L+R + +GRTHQIR+H ++G+ + GD Y G
Sbjct: 236 --------------------LLRCWLDTGRTHQIRVHLAFIGLPVAGDPVYGGRRAQGEL 275
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G LHA L+F HP G P+ P P
Sbjct: 276 GLEGQALHATRLAFAHPRDGRPMDFTVPPP 305
>gi|260597456|ref|YP_003210027.1| 23S rRNA pseudouridylate synthase C [Cronobacter turicensis z3032]
gi|260216633|emb|CBA29938.1| Ribosomal large subunit pseudouridine synthase C [Cronobacter
turicensis z3032]
Length = 333
Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 72/265 (27%), Positives = 107/265 (40%), Gaps = 66/265 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 111 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 160
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + D + K Y+AL G +W+
Sbjct: 161 RDTSGVLLVAKKRSALRSLHEQLRDKGMQKDYLALVRG---QWQ-------------SHV 204
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ A + +L G ++ VN EG +PSE + E
Sbjct: 205 KTVQAPLLKNILQSGE---------RIVRVNQEG---KPSETRFKVEERFA--------- 243
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------- 318
+ LVR P +GRTHQIR+H Q+ G I D +Y + +D
Sbjct: 244 ----SATLVRCSPVTGRTHQIRVHTQFAGHPIAFDDRY------GDRTFDAQLASTGLNR 293
Query: 319 --LHAESLSFDHPVTGCPVMVQAPL 341
LHA +L F+HP TG + V+AP+
Sbjct: 294 LFLHAAALRFEHPGTGETMRVEAPM 318
>gi|354557383|ref|ZP_08976642.1| pseudouridine synthase, RluA family [Desulfitobacterium
metallireducens DSM 15288]
gi|353550968|gb|EHC20397.1| pseudouridine synthase, RluA family [Desulfitobacterium
metallireducens DSM 15288]
Length = 303
Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 78/260 (30%), Positives = 118/260 (45%), Gaps = 56/260 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE--LHLAN 142
++L+ED++L+ V K G L S+ A + ++ LS+ K + + + +
Sbjct: 90 EILFEDDYLIVVVKEAG------LLSIAT--AKEREQTAYSILSDHVKKKDAKNRIFIVH 141
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLDRDTSG+M+ KS KV L +++ D + YIA+ GP K + TI S SK
Sbjct: 142 RLDRDTSGIMLFAKSEKVKKLLQESWKDAVEERRYIAITEGPVTKPEE-TITSWLKESK- 199
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
A+ +Y++ P G + VT ++VL N
Sbjct: 200 -AYIMYSSPT-----PNGG--QKAVTHYKVLKKN-------------------------- 225
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
KN ++ +GR +QIR+H Q LG I GD KY + N R G LHA
Sbjct: 226 ------KNYSMLEVELETGRKNQIRVHMQDLGHPIIGDKKYGSLK--NPIRRLG--LHAR 275
Query: 323 SLSFDHPVTGCPVMVQAPLP 342
L+F HP+TG V + +P
Sbjct: 276 VLAFRHPITGEDVRFETEIP 295
>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 = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 81/321 (25%), Positives = 132/321 (41%), Gaps = 76/321 (23%)
Query: 39 SQNAPQTQQNYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNK 98
+QNA + NY + A+ D M ++ +L DV YEDE ++ +NK
Sbjct: 44 NQNA--VKANYKVKADDCITAVFND-----EMEMEARPEKMEL---DVRYEDEDVIVINK 93
Query: 99 PQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH---------LANRLDRDTS 149
P+ + +A ++SG L G + +L + +R+D+DT+
Sbjct: 94 PKNIVVHP------------AAGNQSGTLVNGLLYHCKDLSGINGTLRPGIVHRIDKDTT 141
Query: 150 GVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYA 209
G++++ K+ + L K V++ Y AL + G + FG
Sbjct: 142 GLLIVAKNDLAHASLSKQLQSKTVNRLYYAL-------------VHGVIQHDFGTIDA-- 186
Query: 210 ASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKK 269
P G V+D + ++V S + Q V+E+ +
Sbjct: 187 --------PIGRDVKDR----QKMAVTATNSKDARTHFQ-------VIERF--------E 219
Query: 270 NEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHP 329
N LV +GRTHQIR+H QY+G + GD KY + +G LHA L+F HP
Sbjct: 220 NYTLVECRLETGRTHQIRVHMQYIGHPVVGDEKYS---YRKTMQTNGQLLHAHQLTFQHP 276
Query: 330 VTGCPVMVQAPLPLWGTEALQ 350
TG + V+A LP + L+
Sbjct: 277 RTGEVMTVEAELPKQFADILE 297
>gi|392382334|ref|YP_005031531.1| Pseudouridine synthase [Azospirillum brasilense Sp245]
gi|356877299|emb|CCC98114.1| Pseudouridine synthase [Azospirillum brasilense Sp245]
Length = 229
Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 78/276 (28%), Positives = 114/276 (41%), Gaps = 65/276 (23%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL-HLA 141
++ VLY D ++ ++KP G+ AG R + + + LA
Sbjct: 7 QARVLYRDGLMLIIDKPAGLPVH----------AGPGGGPNLERHFDALRFGFPKPPGLA 56
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWK-RITIISGHGRS 200
+RLDRDTSG +++ + K KL K F D KV KTY A+ G P+ + RI + +
Sbjct: 57 HRLDRDTSGCLILGRHPKALRKLGKLFQDGKVDKTYWAVVAGTPPEEQGRIELPLKKVTN 116
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
K G WR+ A D + +T + VL G G+ EL+ H
Sbjct: 117 KSGGWRIVVADD----------GQSAITDYRVL---GRGNGTTWLELKPH---------- 153
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQ-YLGISIRGDVKYEGVYEWNGKRYDGHEL 319
+GRTHQIR+HC LG + GD +Y G +GH L
Sbjct: 154 -------------------TGRTHQIRVHCATALGCPLLGDPQYGGP--------EGHPL 186
Query: 320 HAESLSFDHPVTGC--PVMVQAPLPLWGTEALQSSS 353
H +S + P+ V AP+PL AL +
Sbjct: 187 HLQSRAISLPLYPSREAVGAVAPVPLHMRAALAACG 222
>gi|406878758|gb|EKD27579.1| hypothetical protein ACD_79C00669G0005 [uncultured bacterium]
Length = 317
Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 74/278 (26%), Positives = 106/278 (38%), Gaps = 83/278 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN-- 142
++L+ED+ L+ +NK G+ + G E T +N + H ++
Sbjct: 86 EILHEDDDLIIINKQPGLVVHA-----------------GGGTRENTLVNAIAYHFSDMD 128
Query: 143 ------------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
RLD+DTSGVM+I K + + F + K Y A+ +
Sbjct: 129 DFTDSIRPGIVHRLDKDTSGVMIIAKKNSTMEIIQNQFKQRIIEKEYHAIVFSNISE--D 186
Query: 191 ITIISG-HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQE 249
IT I GR + D ++ G R+ +T EV+
Sbjct: 187 ITNIDKPIGRDPY---------DRKKMKVDGIKSRNAITKIEVI---------------- 221
Query: 250 HEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG---- 305
+ KN VRAFP++GRTHQIR+H Y+ I GD Y G
Sbjct: 222 ----------------ERFKNYCYVRAFPKTGRTHQIRVHLSYIKHPITGDSIYGGKNFS 265
Query: 306 -VYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
V N R LHA +SF HP PV AP+P
Sbjct: 266 SVLNTNISRI---MLHAHKISFTHPTLNIPVSYTAPIP 300
>gi|319786173|ref|YP_004145648.1| pseudouridine synthase [Pseudoxanthomonas suwonensis 11-1]
gi|317464685|gb|ADV26417.1| pseudouridine synthase, RluA family [Pseudoxanthomonas suwonensis
11-1]
Length = 326
Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 81/283 (28%), Positives = 112/283 (39%), Gaps = 90/283 (31%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
DVLY+DE L ++KP G+ AG+ A GT +N L LH
Sbjct: 86 DVLYQDEHLFVLDKPAGLVVHPG--------AGNPA---------GTLVNAL-LHRDPGL 127
Query: 140 -------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRIT 192
+ +RLD+DTSGVMV+ ++ + + LV +V + Y+A+ +G
Sbjct: 128 AALPRAGIVHRLDKDTSGVMVVARTLQAHTGLVAQLAAREVRRQYVAVVVGALVSGGTAN 187
Query: 193 I-ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
I H R + R+ D RD VT + + F+ + L+
Sbjct: 188 APIDRHPRDRL---RMAVREDG----------RDAVTHYRLRE-----RFRAHTALECRL 229
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG------ 305
E +GRTHQIR+H Q+L I GD Y G
Sbjct: 230 E---------------------------TGRTHQIRVHMQHLRHPIVGDPLYGGPLKLPR 262
Query: 306 ------VYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
V G + LHAE L F HPVTG V V+APLP
Sbjct: 263 GATEDLVASLRG--FGRQALHAEVLEFQHPVTGAQVRVEAPLP 303
>gi|150006268|ref|YP_001301012.1| ribosomal large subunit pseudouridine synthase A [Bacteroides
vulgatus ATCC 8482]
gi|294776519|ref|ZP_06741993.1| pseudouridine synthase, RluA family [Bacteroides vulgatus PC510]
gi|149934692|gb|ABR41390.1| ribosomal large subunit pseudouridine synthase A [Bacteroides
vulgatus ATCC 8482]
gi|294449648|gb|EFG18174.1| pseudouridine synthase, RluA family [Bacteroides vulgatus PC510]
Length = 540
Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 74/257 (28%), Positives = 110/257 (42%), Gaps = 62/257 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+++YED +LV +NKP G + SVP DS L L+ +RL
Sbjct: 338 EIVYEDNYLVVINKPAG------MLSVPGKGEIDSVYQHIKILYPDATGPLI----VHRL 387
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSGV++I K+ +V L F + + K YIAL + G SK G
Sbjct: 388 DMATSGVLLIAKNKEVHQHLQAQFKNRMIKKRYIAL-------------LDGKISSKEGT 434
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
+LP L ++ P ++ +HE + + VL
Sbjct: 435 I----------ILP--------------LRMD---PLDRPRQVVDHEHGKTAITQYQVL- 466
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGHELHA 321
+ ++ L+ +P +GRTHQ+R+H + L IRGD E G++ D LHA
Sbjct: 467 -NEQEGNTLIAFYPLTGRTHQLRVHAAHPEGLHCPIRGD-------ELYGQKADRLYLHA 518
Query: 322 ESLSFDHPVTGCPVMVQ 338
ESL F HPVT + V+
Sbjct: 519 ESLEFVHPVTKEIIFVE 535
>gi|262408787|ref|ZP_06085333.1| conserved hypothetical protein [Bacteroides sp. 2_1_22]
gi|345507853|ref|ZP_08787498.1| ribosomal large subunit pseudouridine synthase A [Bacteroides sp.
D1]
gi|229444487|gb|EEO50278.1| ribosomal large subunit pseudouridine synthase A [Bacteroides sp.
D1]
gi|262353652|gb|EEZ02746.1| conserved hypothetical protein [Bacteroides sp. 2_1_22]
Length = 615
Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 73/284 (25%), Positives = 126/284 (44%), Gaps = 58/284 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDEWL+ VNKP G + SVP + +S RL + + + +RLD
Sbjct: 347 IVFEDEWLLVVNKPAG------MLSVPG--KAEDRDSVYHRLKKKYPEATGPM-IVHRLD 397
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRIT--------IISGH 197
TSG++++ K+ +V L F + + K Y+A+ G K ++ T +++
Sbjct: 398 MATSGLLLVAKTKEVHQDLQAQFANRSIKKRYVAVLDGAIIKTEKETKPIAEKAILLAKE 457
Query: 198 GRSKFGAWRVYAASDVGRV----------LPGGSVVR----DMVTSFEVLSVN------G 237
S + + GR+ P V R + +T ++++S +
Sbjct: 458 TVSTKKTAKAERTGNTGRIELPLCLNPLDRPRQMVSREHGKEAITEYQIISESERITSES 517
Query: 238 EGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY---LG 294
E +F E + + E E + ++ K I+ +P +GRTHQ+R+H + LG
Sbjct: 518 ENTFNESNRIDESERS---------INESRKYTRIIF--YPLTGRTHQLRVHAAHPEGLG 566
Query: 295 ISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQ 338
I GD Y GK+ D LHAE + F HP+ G + +Q
Sbjct: 567 CPILGDELY-------GKKADRLYLHAEYIEFRHPIYGDILCIQ 603
>gi|116618468|ref|YP_818839.1| ribosomal large subunit pseudouridine synthase D [Leuconostoc
mesenteroides subsp. mesenteroides ATCC 8293]
gi|116097315|gb|ABJ62466.1| ribosomal large subunit pseudouridine synthase D [Leuconostoc
mesenteroides subsp. mesenteroides ATCC 8293]
Length = 312
Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 70/262 (26%), Positives = 107/262 (40%), Gaps = 57/262 (21%)
Query: 95 AVNKPQGVYCESVLAS-----VPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTS 149
VNKPQG+ V LL + +G G + +R+DRDTS
Sbjct: 90 VVNKPQGMVVHPAAGHSSGTLVNALLHHSPLSTINGEFRPG---------IVHRIDRDTS 140
Query: 150 GVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYA 209
G++++ K+ K L + HK + Y AL G T SG + G ++
Sbjct: 141 GLLMVAKNDKAHRSLSEQLKSHKNQRVYYALVRG------EFTEDSGTIEAPIGRHKIDR 194
Query: 210 ASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKK 269
V+ GG R+ VT F VL K+ V
Sbjct: 195 KKQA--VIEGG---REAVTHFRVL-------------------------KRYV------- 217
Query: 270 NEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHP 329
L++ +GRTHQIR+H Y+G + GD Y + +G + +G LHA++L+ + P
Sbjct: 218 GYTLLKVSLETGRTHQIRVHMSYIGHPVVGDPVYGTAQKLDGTQLNGQLLHAKTLTLEQP 277
Query: 330 VTGCPVMVQAPLPLWGTEALQS 351
TG + +PLP + AL +
Sbjct: 278 TTGDELSFDSPLPDYFQFALST 299
>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 = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 73/268 (27%), Positives = 118/268 (44%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P E L
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPEVFEEVL 297
>gi|336405811|ref|ZP_08586480.1| hypothetical protein HMPREF0127_03793 [Bacteroides sp. 1_1_30]
gi|335936563|gb|EGM98488.1| hypothetical protein HMPREF0127_03793 [Bacteroides sp. 1_1_30]
Length = 615
Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 75/273 (27%), Positives = 119/273 (43%), Gaps = 36/273 (13%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDEWL+ VNKP G + SVP + +S RL + + + +RLD
Sbjct: 347 IVFEDEWLLVVNKPAG------MLSVPG--KAEDRDSVYHRLKKKYPEATGPM-IVHRLD 397
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRIT--------IISGH 197
TSG++++ K+ +V L F + + K Y+A+ G K ++ T +I+ +
Sbjct: 398 MATSGLLLVAKTKEVHQDLQAQFANRSIKKRYVAVLDGAIIKTEKETKPIAEKAILIAKN 457
Query: 198 GRSKFGAWRVYAASDVGRV-----LPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
S + GR+ L R MV+S E SE E
Sbjct: 458 TVSTKKTAKAERTGSTGRIELPLCLNPLDRPRQMVSSEHGKEAITEYQIISESERITSES 517
Query: 253 NNIVVEKKAVLDADAKKNE----ILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEG 305
N E + +++ NE + +P +GRTHQ+R+H + LG I GD Y
Sbjct: 518 ENTFNESNRIDESERSINESRKYTRIIFYPLTGRTHQLRVHAAHPEGLGCPILGDELY-- 575
Query: 306 VYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQ 338
GK+ D LHAE + F HP+ G + +Q
Sbjct: 576 -----GKKADRLYLHAEYIEFRHPIYGDILCIQ 603
>gi|227354995|ref|ZP_03839406.1| ribosomal large subunit pseudouridine synthase [Proteus mirabilis
ATCC 29906]
gi|227164782|gb|EEI49629.1| ribosomal large subunit pseudouridine synthase [Proteus mirabilis
ATCC 29906]
Length = 232
Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 73/262 (27%), Positives = 108/262 (41%), Gaps = 46/262 (17%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN 142
+ + LY+DE L+ +NKP G+ L+G + ++ L E L +
Sbjct: 16 KIEYLYQDEHLLVINKPSGLLS----------LSGKNPQNIDSVHYRLVPL-FPECTLVH 64
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD TSGVMVI + + L + F+ V+K Y AL + GH ++
Sbjct: 65 RLDFGTSGVMVIALNKAINRALCQQFSQRTVTKAYDAL-------------LCGHLQNDS 111
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
G A D F +S++ S Q V+E+
Sbjct: 112 GVIEAPIAKDP--------------QHFPRMSISTTQGKAARSYYQ-------VIERFYQ 150
Query: 263 LDADAKKNEIL-VRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
AD + + VR P +GRTHQ+R+HCQY+G I G Y G+ + LHA
Sbjct: 151 TLADGTRLPLTRVRLTPETGRTHQLRIHCQYIGHPILGCDLYGGLLLSGTEHTPRLMLHA 210
Query: 322 ESLSFDHPVTGCPVMVQAPLPL 343
L F HPV+ P+ + P P
Sbjct: 211 CELHFIHPVSEQPMDIYPPSPF 232
>gi|329889168|ref|ZP_08267511.1| pseudouridine synthase, RluA family protein [Brevundimonas diminuta
ATCC 11568]
gi|328844469|gb|EGF94033.1| pseudouridine synthase, RluA family protein [Brevundimonas diminuta
ATCC 11568]
Length = 331
Score = 78.6 bits (192), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 74/276 (26%), Positives = 116/276 (42%), Gaps = 61/276 (22%)
Query: 76 SSLYKLSRSD-------VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLS 128
L++LS D VLYED ++A+NKP G+ + G RL
Sbjct: 77 GDLHELSERDIAYAKSLVLYEDHMVIALNKPHGLAVQ----------GGTKTTKHIDRLL 126
Query: 129 EGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPK 187
+ L +RLDRDTSGV+++ K + A +L AF + KTY A+ IG P P
Sbjct: 127 SAWGEGMDRPRLVHRLDRDTSGVLLLGKGPEAAKRLAGAFARRQAKKTYWAIVIGNPKPS 186
Query: 188 WKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSEL 247
+I + ++ + + FE++ P+E
Sbjct: 187 AGQIDM---------------------------ALKKTGINDFEMM---------RPAEP 210
Query: 248 QEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EG 305
++ + + A + + +R F +GRTHQ+R H +G I GD KY +
Sbjct: 211 KDPKGEPAETAFATISRAAHRAAWMALRPF--TGRTHQLRAHMAAIGHPILGDPKYGDDK 268
Query: 306 VYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPL 341
E +G +LHA + DHP G ++V+APL
Sbjct: 269 SRELSGPLK--LQLHARRIELDHP-GGGKLIVEAPL 301
>gi|320161265|ref|YP_004174489.1| pseudouridine synthase [Anaerolinea thermophila UNI-1]
gi|319995118|dbj|BAJ63889.1| pseudouridine synthase [Anaerolinea thermophila UNI-1]
Length = 231
Score = 78.6 bits (192), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 68/271 (25%), Positives = 109/271 (40%), Gaps = 65/271 (23%)
Query: 82 SRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
++S +L++DEW++ ++KP G+ L D + + L +L +
Sbjct: 9 NKSMILFQDEWILVISKPAGL-----------LSIRDGYNPNLPTIQGVLEPKLGKLWMI 57
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DTSG+MV+ ++ + L + F + KV K Y A+C+G P+W I I S
Sbjct: 58 HRLDKDTSGIMVLARTSEAHKNLDRQFAERKVRKIYYAICVG-VPEWDEILIQSP----- 111
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE--ENNIVVEK 259
L VNG+ + + + + E ++ V
Sbjct: 112 -------------------------------LRVNGDRKHRTVVDFEHGKPAETHVRVIS 140
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYE--------GVYEWNG 311
+ V P SG THQIR H +G + GD Y N
Sbjct: 141 RYGFYT-------WVEVHPHSGYTHQIRAHLSSIGYPLLGDSLYRIPPNCAVIPPKAENL 193
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA +L+F HP +G + APLP
Sbjct: 194 PAFPRVALHAYALTFSHPNSGEEITFTAPLP 224
>gi|375012389|ref|YP_004989377.1| RluA family pseudouridine synthase [Owenweeksia hongkongensis DSM
17368]
gi|359348313|gb|AEV32732.1| pseudouridine synthase, RluA family [Owenweeksia hongkongensis DSM
17368]
Length = 349
Score = 78.6 bits (192), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 77/287 (26%), Positives = 110/287 (38%), Gaps = 88/287 (30%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN-- 142
D+LYEDE ++ +NK GV + +GT +N L H N
Sbjct: 99 DILYEDEQVIVLNKTAGVVVHPGYGNY-----------------DGTLVNGLIYHFKNLP 141
Query: 143 -----------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
RLD+DTSG+MVI K + L K F D S+ Y AL G +++
Sbjct: 142 GKDETRPGLVHRLDKDTSGIMVIAKDEMSLAHLAKQFFDRTTSRRYHALVWGDVKEYEG- 200
Query: 192 TIISGHGRSKFG--AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQE 249
TII GRSK + VY G + +T ++VL G +
Sbjct: 201 TIIGHIGRSKKNRKVFSVYEDESEG---------KHAITHYKVLQRFGYTT--------- 242
Query: 250 HEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEW 309
LV +GRTHQIR+H ++LG + D +Y G
Sbjct: 243 -----------------------LVECRLETGRTHQIRVHMKHLGHPLFNDKEYGGSSIL 279
Query: 310 NGKRYDGHE--------------LHAESLSFDHPVTGCPVMVQAPLP 342
G + ++ LHA++L F HP TG + + LP
Sbjct: 280 KGTTFTKYKQFVDNCLATCPRQALHAKTLGFTHPKTGEEMSFNSELP 326
>gi|317129279|ref|YP_004095561.1| pseudouridine synthase [Bacillus cellulosilyticus DSM 2522]
gi|315474227|gb|ADU30830.1| pseudouridine synthase, RluA family [Bacillus cellulosilyticus DSM
2522]
Length = 305
Score = 78.6 bits (192), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 70/259 (27%), Positives = 111/259 (42%), Gaps = 48/259 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D++YED ++ VNKP+G+ V+ P G + + +N ++ + +R
Sbjct: 79 DIIYEDGDVLVVNKPRGM----VVHPAPGHYTGTLVNGLMYHCHDLSGINGVMRPGIVHR 134
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ + LV + + + Y A+ G P K TI + GR+
Sbjct: 135 IDKDTSGLLMVAKNDRAHESLVNQLKNKETKRRYYAIVSGIIPHDKG-TIDAPIGRN--- 190
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
D ++ RD VT F+V+ E ++
Sbjct: 191 ------PEDRQSMMVTEKNSRDAVTHFQVV----ERFYRH-------------------- 220
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
LV +GRTHQIR+H +Y+G I GD KY G + +G LHAE
Sbjct: 221 --------TLVSCELETGRTHQIRVHLKYIGFPIVGDPKY-GPRKKQKFPIEGQALHAEL 271
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L F HP T Q P+P
Sbjct: 272 LGFQHPSTNELKTFQVPMP 290
>gi|89894036|ref|YP_517523.1| hypothetical protein DSY1290 [Desulfitobacterium hafniense Y51]
gi|219668420|ref|YP_002458855.1| pseudouridine synthase [Desulfitobacterium hafniense DCB-2]
gi|423075623|ref|ZP_17064340.1| pseudouridine synthase, RluA family [Desulfitobacterium hafniense
DP7]
gi|89333484|dbj|BAE83079.1| hypothetical protein [Desulfitobacterium hafniense Y51]
gi|219538680|gb|ACL20419.1| pseudouridine synthase, RluA family [Desulfitobacterium hafniense
DCB-2]
gi|361853397|gb|EHL05553.1| pseudouridine synthase, RluA family [Desulfitobacterium hafniense
DP7]
Length = 302
Score = 78.6 bits (192), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 72/259 (27%), Positives = 111/259 (42%), Gaps = 55/259 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGR-LSEGTKLNLLELHLANR 143
++LYED++ +A+NKP G V+ P G + G L++G +H R
Sbjct: 84 EILYEDDYFIAINKPAG----QVVHPTPRYPRGTIGNAVVGYWLAKGEARPFRPIH---R 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DR+TSGV+VI K+ ++ ++ K Y + G
Sbjct: 137 IDRNTSGVVVIGKNQFAHQQMAWQHAHGRIHKCYRGIVEGQV------------------ 178
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
D G + ++ D SF ++ EGS P+ + + K
Sbjct: 179 ------MEDQGTIKAPIALAPD---SFIQRQISPEGS---PA---------VTLYKVLER 217
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
DA E ++ +GRTHQIR+HCQ+LG + GD Y G N R + LH+
Sbjct: 218 YQDASLLEFILE----TGRTHQIRVHCQHLGHPLLGDDLYGG----NLARINRQALHSSI 269
Query: 324 LSFDHPVTGCPVMVQAPLP 342
F+HP+TG +QAPLP
Sbjct: 270 YEFNHPLTGELTTIQAPLP 288
>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 = 78.6 bits (192), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 67/272 (24%), Positives = 113/272 (41%), Gaps = 54/272 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++++ED+ ++ +NKP G+ + L A + S + NL L +R+
Sbjct: 107 NIVFEDDDILIINKPVGLVVHPASGNPRGTLINGVAWYLQQQNSNISADNLPRFGLVHRI 166
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D++TSG+MV+ K+ K + L K F DH + + Y+AL W + G R G
Sbjct: 167 DKNTSGLMVLAKTEKAVTSLAKEFFDHTIHRQYVALV------WGDVAEDEGTIRKHIGR 220
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
+ + + P G V +D VT ++VL G +
Sbjct: 221 HQRFRK--IFDAYPDGEVGKDAVTHYKVLERLGYVT------------------------ 254
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG-------VYEWNGKRYDG- 316
+V+ +GRTHQIR+H + +G + D Y G V+ + D
Sbjct: 255 --------IVQCELETGRTHQIRVHMKSIGHPLFNDELYGGDRIVKGTVFTKYKQFVDNC 306
Query: 317 ------HELHAESLSFDHPVTGCPVMVQAPLP 342
H LHA+++ F HP T V+ + +P
Sbjct: 307 FAICPRHALHAKTIGFIHPRTRKEVVFNSEMP 338
>gi|423314415|ref|ZP_17292349.1| RluA family pseudouridine synthase [Bacteroides vulgatus
CL09T03C04]
gi|392682660|gb|EIY76003.1| RluA family pseudouridine synthase [Bacteroides vulgatus
CL09T03C04]
Length = 540
Score = 78.6 bits (192), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 74/257 (28%), Positives = 110/257 (42%), Gaps = 62/257 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+++YED +LV +NKP G + SVP DS L L+ +RL
Sbjct: 338 EIVYEDNYLVVINKPAG------MLSVPGKGEIDSVYQHIKILYPDATGPLI----VHRL 387
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSGV++I K+ +V L F + + K YIAL + G SK G
Sbjct: 388 DMATSGVLLIAKNKEVHQHLQAQFKNRMIKKRYIAL-------------LDGKISSKEGT 434
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
+LP L ++ P ++ +HE + + VL
Sbjct: 435 I----------ILP--------------LRMD---PLDRPRQVVDHEHGKTAITQYQVL- 466
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGHELHA 321
+ ++ L+ +P +GRTHQ+R+H + L IRGD E G++ D LHA
Sbjct: 467 -NEQEGNTLIAFYPLTGRTHQLRVHAAHPEGLHCPIRGD-------ELYGQKADRLYLHA 518
Query: 322 ESLSFDHPVTGCPVMVQ 338
ESL F HPVT + V+
Sbjct: 519 ESLEFVHPVTKEIIFVE 535
>gi|299144084|ref|ZP_07037164.1| ribosomal large subunit pseudouridine synthase D [Peptoniphilus sp.
oral taxon 386 str. F0131]
gi|298518569|gb|EFI42308.1| ribosomal large subunit pseudouridine synthase D [Peptoniphilus sp.
oral taxon 386 str. F0131]
Length = 304
Score = 78.6 bits (192), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 70/265 (26%), Positives = 115/265 (43%), Gaps = 65/265 (24%)
Query: 86 VLYEDEWLVAVNKPQ--------GVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
++YEDE + ++KPQ G Y +++ + L + + +L G
Sbjct: 85 IIYEDEHIAVISKPQNLVVHPGSGNYNHTLVNGL--LFKFKNLSNCGDKLRPG------- 135
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +RLD+DTSG+M+I K++ KLVK F + K+ KTYIA+ G ++ I
Sbjct: 136 --IVHRLDKDTSGLMIIAKTNLAYLKLVKDFKESKIRKTYIAVVEGKTDEFGIIN----- 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
+GR P + M +E N + + E +++E NN +
Sbjct: 189 -------------EPIGRD-PKNR--KKMAVIYE----NSKNAITEYKKIREF--NNFSL 226
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
+L +GRTHQIR+H Y+ + GD+ Y N + D
Sbjct: 227 ISINIL----------------TGRTHQIRVHLSYIKHPVLGDLTYGN---KNKYKIDKQ 267
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L F+HP+TG + + +P
Sbjct: 268 MLHAYRLKFNHPITGEELSFEDDIP 292
>gi|303228397|ref|ZP_07315230.1| pseudouridine synthase, RluA family [Veillonella atypica
ACS-134-V-Col7a]
gi|302516899|gb|EFL58808.1| pseudouridine synthase, RluA family [Veillonella atypica
ACS-134-V-Col7a]
Length = 306
Score = 78.6 bits (192), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 73/266 (27%), Positives = 121/266 (45%), Gaps = 56/266 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE------L 138
+++YED++++AVNK GV L ++ + G L+ G E
Sbjct: 80 EIVYEDDYILAVNKAAGV------------LMHPTSTVRDGTLANGVLYYYDETEQAHDF 127
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
H +RLD+DTSG+++I K+ V K T K K Y A+ G P + +TI
Sbjct: 128 HPVHRLDKDTSGIVIIAKTSIVQHAFDKQRT--KFKKVYDAIVEGTMPS-QSLTI----- 179
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
W +GR GS++ TS G+ + + + L H +V
Sbjct: 180 -----KW------PIGR--KAGSIIERCCTSI------GKPARTDVTVLARH-----IVS 215
Query: 259 KKAVLDADAKKNEIL--VRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
+ ++ + ++L V+ +GRTHQIR+H +LG + GD Y G + ++
Sbjct: 216 QPVQMNKNLSTQQVLTHVQCVLHTGRTHQIRVHLSHLGYPLAGDDLYGGHLDHIRRQ--- 272
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L+F HP+T + ++AP+P
Sbjct: 273 -ALHAGYLAFTHPMTQEYIELRAPMP 297
>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 = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 73/268 (27%), Positives = 119/268 (44%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDVAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P +AL
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPEVFEDAL 297
>gi|114797120|ref|YP_759725.1| RluA family pseudouridine synthase [Hyphomonas neptunium ATCC
15444]
gi|114737294|gb|ABI75419.1| pseudouridine synthase, RluA family [Hyphomonas neptunium ATCC
15444]
Length = 349
Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 77/271 (28%), Positives = 121/271 (44%), Gaps = 50/271 (18%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKS-GRLSEGTKLNLLELHLA 141
RS +++ED+ ++A+NKP G+ + G S + + L G ++ L
Sbjct: 92 RSIIIHEDDDMLAINKPAGLAVQ-----------GGSGQGRHVDGLIAGMDVDGHRPVLV 140
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHGRS 200
+RLD+DTSGV+++ K A++L + F ++ K Y A+ +G P+P+ +I
Sbjct: 141 HRLDKDTSGVLLLAKHPAAAARLTELFRSREMDKVYWAVTVGVPSPQAGQIR-------- 192
Query: 201 KFGAWRVYAASDVGR------VLPGGSVVRDMVTSFEVLSVNG-EGSFKEPSELQEHEEN 253
W V D+ V P + RD + S G EG+ H
Sbjct: 193 ---CWMVKGVPDINEPSGYRPVDPYATKRRDGDRERMIRSAQGVEGA--------RHSIT 241
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
+ VV V A K + +R P +GR HQ+R H + SI GD KY+ E
Sbjct: 242 DYVV----VSTAGPKAAWVAMR--PETGRMHQLRFHMLEMNTSILGDYKYKSRREVPQGL 295
Query: 314 YDGHELHAESLSF--DHPVTGCPVMVQAPLP 342
+G LHA +L +H G P+ + APLP
Sbjct: 296 AEGLHLHARALIIPREH---GKPIKIVAPLP 323
>gi|293394695|ref|ZP_06638987.1| tRNA pseudouridine synthase C [Serratia odorifera DSM 4582]
gi|291422821|gb|EFE96058.1| tRNA pseudouridine synthase C [Serratia odorifera DSM 4582]
Length = 257
Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 74/260 (28%), Positives = 109/260 (41%), Gaps = 46/260 (17%)
Query: 85 DVLYEDEWLVAVNKPQG-VYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
++LY+D++LVAVNKP G + S L S + + + G+ ++ +H R
Sbjct: 3 EILYQDQYLVAVNKPAGWLVHRSWLDSRETVFVMQTVRDQIGQ-------HVFTVH---R 52
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LDR TSGV+++ S +VA L + F H+V KTY A+ G + R+ R K
Sbjct: 53 LDRPTSGVLLMALSSEVAHLLSQQFEQHQVQKTYHAVVRGFVTQGARLDYPLTQERDKIA 112
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+A D KEP H VE +
Sbjct: 113 D--KFAEQD-----------------------------KEPQPAVTHYRPLAQVEMPVAI 141
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG-KRYDGHE---L 319
L+ P +GR HQ+R H +L I GD K+ + + G ++ G L
Sbjct: 142 GRYDSARYSLMELQPETGRKHQLRRHMTHLRHPIIGDSKHGDLRQNRGMAQHFGSSRLML 201
Query: 320 HAESLSFDHPVTGCPVMVQA 339
HA L F HPVTG P+ + A
Sbjct: 202 HASHLQFTHPVTGQPLCISA 221
>gi|423212504|ref|ZP_17199033.1| hypothetical protein HMPREF1074_00565 [Bacteroides xylanisolvens
CL03T12C04]
gi|392694950|gb|EIY88176.1| hypothetical protein HMPREF1074_00565 [Bacteroides xylanisolvens
CL03T12C04]
Length = 585
Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 70/276 (25%), Positives = 117/276 (42%), Gaps = 70/276 (25%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDEWL+ VNKP G + SVP + +S RL + + + +RLD
Sbjct: 347 IVFEDEWLLVVNKPAG------MLSVPG--KAEDRDSVYHRLKKKYPEATGPM-IVHRLD 397
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIA--------------------LCIGPA 185
TSG++++ K+ +V L F + + K Y+A LC+ P
Sbjct: 398 MATSGLLLVAKTKEVHRDLQAQFANRSIKKRYVAVLDGIVLSERTGSTGRIELPLCLNPL 457
Query: 186 PKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPS 245
+ R + HG+ +++ + S E ++ E +F E +
Sbjct: 458 DR-PRQMVSREHGKEAITEYQIISES-------------------ERITSKSENTFNESN 497
Query: 246 ELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVK 302
+ E E + ++ K I+ +P +GRTHQ+R+H + LG I GD
Sbjct: 498 RIDELERS---------INESRKYTRIIF--YPLTGRTHQLRVHAAHPEGLGCPILGDEL 546
Query: 303 YEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQ 338
Y GK+ D LHAE + F HP+ G + +Q
Sbjct: 547 Y-------GKKADRLYLHAEYIEFRHPIYGDILCIQ 575
>gi|315917437|ref|ZP_07913677.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium
gonidiaformans ATCC 25563]
gi|313691312|gb|EFS28147.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium
gonidiaformans ATCC 25563]
Length = 318
Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 70/264 (26%), Positives = 115/264 (43%), Gaps = 46/264 (17%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D++YED++L+ VNK + L + L LS+ ++ + +RL
Sbjct: 86 DIVYEDKYLLVVNKQANMVVHPALGNYSGTLVNALLYYCKENLSDMN--GVIRPGIVHRL 143
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DT+G++++ K+++V SKL F + + KTY+A+ G + K+ GR +
Sbjct: 144 DKDTTGLIIVAKNNQVHSKLALMFQEKTIRKTYVAIVKGRFSEEKK------EGRLETLI 197
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
R + D ++ + ++++ VL LD
Sbjct: 198 TR--DSKDRKKMTVSQIQGKKAISNYRVL-----------------------------LD 226
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
D LV +GRTHQIR+H +YL I GD+ Y G + KR LHA L
Sbjct: 227 GDKHS---LVEVKIETGRTHQIRVHMKYLNHPILGDIVY-GQEDTKCKR---QMLHAYRL 279
Query: 325 SFDHPVTGCPVMVQAPLPLWGTEA 348
F HP+T + ++ LP EA
Sbjct: 280 EFIHPITEEAICLEGKLPEDFIEA 303
>gi|383453341|ref|YP_005367330.1| RluA family pseudouridine synthase [Corallococcus coralloides DSM
2259]
gi|380734165|gb|AFE10167.1| RluA family pseudouridine synthase [Corallococcus coralloides DSM
2259]
Length = 312
Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 76/264 (28%), Positives = 112/264 (42%), Gaps = 67/264 (25%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA---- 141
VL+ED ++AV+KP G+ +A+ GR+ G+ ++L+ HL
Sbjct: 84 VLFEDADVIAVDKPAGL----------------NAQPTEGRVG-GSLVDLVSEHLGRQAG 126
Query: 142 --NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPA-PKWKRITIISGHG 198
+RLDR+TSGV V K+ S L +AF + K Y+A GP P + +
Sbjct: 127 LVHRLDRETSGVTVFGKTPAATSALAEAFREGTARKRYLA-ATGPGLPAGGTVDLPLSKD 185
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
S+ G WR A+ NG ++ + L E ++V
Sbjct: 186 PSRPGRWRATRAA------------------------NGVPAWTDYRTLFAGEAFSLV-- 219
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE 318
E+L PR+GRTHQ+R H L I GD +Y G G
Sbjct: 220 ------------ELL----PRTGRTHQLRAHLTALEHPILGDSRYGGAGSAGGLLAPRCL 263
Query: 319 LHAESLSFDHPVTGCPVMVQAPLP 342
LHA +L HP TG P+ ++AP+P
Sbjct: 264 LHAHALELGHPRTGRPLRLEAPVP 287
>gi|124006632|ref|ZP_01691464.1| pseudouridine synthase, RluD [Microscilla marina ATCC 23134]
gi|123987787|gb|EAY27478.1| pseudouridine synthase, RluD [Microscilla marina ATCC 23134]
Length = 360
Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 78/279 (27%), Positives = 111/279 (39%), Gaps = 72/279 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSA-------ESKSGRLSEGTKLNLLE 137
+++YED+ L+ V+K G+ + L A E++ GR
Sbjct: 116 NIVYEDDDLLVVHKEAGMVVHPAYNNWTGTLVNALAYHFKNLPENRDGRPG--------- 166
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
L +R+D+DTSG++V+ KS L K F DH + +TY AL G PK + TI
Sbjct: 167 --LVHRIDKDTSGLLVVAKSEHALQHLAKQFFDHTIERTYYALVWG-EPKQEAGTIDVNL 223
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GRS RV AA P G R VT ++VL + + S
Sbjct: 224 GRS-LKDRRVTAA------FPEGDFGRHAVTHYKVLK-----NLRYVS------------ 259
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
LV+ +GRTHQIR H ++LG + D Y G G + +
Sbjct: 260 ---------------LVQCNLETGRTHQIRAHMKHLGHPLFNDATYGGDKILKGTVFSKY 304
Query: 318 E--------------LHAESLSFDHPVTGCPVMVQAPLP 342
LHA+SL F HP T + + LP
Sbjct: 305 RAFVENCFKVMPRQALHAKSLGFVHPTTQKFIQFDSELP 343
>gi|113460859|ref|YP_718926.1| 23S rRNA pseudouridylate synthase C [Haemophilus somnus 129PT]
gi|112822902|gb|ABI24991.1| ribosomal large subunit pseudouridine synthase C [Haemophilus
somnus 129PT]
Length = 326
Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 75/277 (27%), Positives = 117/277 (42%), Gaps = 68/277 (24%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
+++ED +L+ +NKP G+ G + + L L +R
Sbjct: 98 QQIIFEDNYLLVLNKPSGLAVH----------GGSGLNFGAIEALRTLRPEARFLELVHR 147
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LDRDTSG+++I K L + + + K Y+AL + GH
Sbjct: 148 LDRDTSGILLIAKKRSALRSLHEQLREKTIQKEYLAL-------------VRGH------ 188
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
W+ + + ++++ +TS E ++ VN +G +PSE + VE++
Sbjct: 189 -WQSHCK------MIQAPLLKNELTSGERIVKVNEQG---KPSETK------FSVEERY- 231
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE---- 318
N LV+A P +GRTHQIR+H QY G I D KY K +D
Sbjct: 232 ------NNATLVKASPITGRTHQIRVHTQYAGHPIALDDKY------GDKNFDQQMTALG 279
Query: 319 -----LHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
LHA ++ F+HP TG + + APL L LQ
Sbjct: 280 LNRLFLHAFAICFEHPKTGERLRLVAPLDLAMKNILQ 316
>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 = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 73/260 (28%), Positives = 116/260 (44%), Gaps = 51/260 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED ++ +NKP+G+ V+ P L+G + + + +N L + +R
Sbjct: 100 DIYYEDADVIVINKPRGM----VVHPAPGHLSGTVVNALMHHCRDLSGINGELRPGIVHR 155
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG+++ K+ + ++L H V + Y AL G + TI + GR
Sbjct: 156 IDKDTSGLLMAAKNDRAHTELAAQLKAHTVLRKYKALVHGNLAH-DQGTIDAPIGRDPHD 214
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+++A +D + VT F+V G+ + ELQ
Sbjct: 215 R-KMFAVTDRNS--------KRAVTHFQVAERFGDVTL---VELQ--------------- 247
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHELHAE 322
+GRTHQIR+H +Y+G + GD Y GV G DG LHA
Sbjct: 248 --------------LETGRTHQIRVHMKYIGHPLVGDPMYTRGV---RGVTMDGQALHAA 290
Query: 323 SLSFDHPVTGCPVMVQAPLP 342
+L F HPV+G + +APLP
Sbjct: 291 TLGFVHPVSGELLQFEAPLP 310
>gi|298483420|ref|ZP_07001597.1| ribosomal large subunit pseudouridine synthase A [Bacteroides sp.
D22]
gi|298270368|gb|EFI11952.1| ribosomal large subunit pseudouridine synthase A [Bacteroides sp.
D22]
Length = 612
Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 73/284 (25%), Positives = 126/284 (44%), Gaps = 58/284 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDEWL+ VNKP G + SVP + +S RL + + + +RLD
Sbjct: 347 IVFEDEWLLVVNKPAG------MLSVPG--KAEDRDSVYHRLKKKYPEATGPM-IVHRLD 397
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRIT--------IISGH 197
TSG++++ K+ +V L F + + K Y+A+ G K ++ T +I+ +
Sbjct: 398 MATSGLLLVAKTKEVHQDLQAQFANRSIKKRYVAVLDGAIIKTEKETKPIAEKAILIAKN 457
Query: 198 GRSKFGAWRVYAASDVGRV-LP-------------GGSVVRDMVTSFEVLSVN------G 237
S + GR+ LP ++ +T ++++S +
Sbjct: 458 TVSTKKTAKAERTGSTGRIELPLCLNPLDRPRQMVSSEHGKEAITEYQIISESERITSES 517
Query: 238 EGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY---LG 294
E +F E + + E E + ++ K I+ +P +GRTHQ+R+H + LG
Sbjct: 518 ENTFNESNRIDESERS---------INESRKYTRIIF--YPLTGRTHQLRVHAAHPEGLG 566
Query: 295 ISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQ 338
I GD Y GK+ D LHAE + F HP+ G + +Q
Sbjct: 567 CPILGDELY-------GKKADRLYLHAEYIEFRHPIYGDILCIQ 603
>gi|37526730|ref|NP_930074.1| 23S rRNA pseudouridylate synthase C [Photorhabdus luminescens
subsp. laumondii TTO1]
gi|36786162|emb|CAE15214.1| ribosomal large subunit pseudouridine synthase C (pseudouridylate
synthase) (uracil hydrolyase) [Photorhabdus luminescens
subsp. laumondii TTO1]
Length = 319
Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 77/266 (28%), Positives = 113/266 (42%), Gaps = 68/266 (25%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGT--KLNLLE-----L 138
+LYED+ ++ +NKP AG + SG LS G L +L L
Sbjct: 95 ILYEDDHILVLNKP----------------AGTAVHGGSG-LSFGVIEGLRVLRPEAKFL 137
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
L +RLDRDTSG+++I K L + ++ K Y+AL G P
Sbjct: 138 ELVHRLDRDTSGILLIAKKRSALRALHEQLRLKQMQKDYLALVRGQWPSH---------- 187
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
+V A + +L G ++ VN EG +PSE + E
Sbjct: 188 ------CKVVQAPLLKNILQSGE---------RIVKVNSEG---KPSETRFKVEERFA-- 227
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVY--EWNGKRYD 315
N LV+A P +GRTHQIR+H QY G I D +Y + V+ + + +
Sbjct: 228 -----------NATLVKASPVTGRTHQIRVHTQYAGHPIAFDNRYGDKVFDSQLSATGLN 276
Query: 316 GHELHAESLSFDHPVTGCPVMVQAPL 341
LHA + F HP TG + ++AP+
Sbjct: 277 RLFLHASVIKFTHPSTGETLRLEAPM 302
>gi|197286814|ref|YP_002152686.1| ribosomal large subunit pseudouridine synthase [Proteus mirabilis
HI4320]
gi|194684301|emb|CAR45870.1| putative ribosomal large subunit pseudouridine synthase [Proteus
mirabilis HI4320]
Length = 232
Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 73/262 (27%), Positives = 108/262 (41%), Gaps = 46/262 (17%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN 142
+ + LY+DE L+ +NKP G+ L+G + ++ L E L +
Sbjct: 16 KIEYLYQDEHLLVINKPSGLLS----------LSGKNPQNIDSVHYRLVPL-FPECTLVH 64
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD TSGVMVI + + L + F+ V+K Y AL + GH ++
Sbjct: 65 RLDFGTSGVMVIALNKAINRALCQQFSQRTVTKAYDAL-------------LCGHLQNDS 111
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
G A D F +S++ S Q V+E+
Sbjct: 112 GVIEAPIAKDP--------------QHFPRMSISTTQGKAARSYYQ-------VIERFYQ 150
Query: 263 LDADAKKNEIL-VRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
AD + + VR P +GRTHQ+R+HCQY+G I G Y G+ + LHA
Sbjct: 151 TLADGTRLPLTRVRLTPETGRTHQLRIHCQYIGHPILGCDLYGGLLLSGTEHTPRLMLHA 210
Query: 322 ESLSFDHPVTGCPVMVQAPLPL 343
L F HPV+ P+ + P P
Sbjct: 211 CELHFIHPVSEQPMDIYLPSPF 232
>gi|373854379|ref|ZP_09597177.1| pseudouridine synthase, RluA family [Opitutaceae bacterium TAV5]
gi|372472246|gb|EHP32258.1| pseudouridine synthase, RluA family [Opitutaceae bacterium TAV5]
Length = 341
Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 80/270 (29%), Positives = 119/270 (44%), Gaps = 54/270 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLLAGDSAESKSGRLSEGTKLNLLEL- 138
D+LYEDE L+AVNKP G+ + V LL + ++ G + + +E
Sbjct: 101 DILYEDEHLLAVNKPSGMVVHPGSGTGEDTLVHALLGHCARQATEGGGGGLSGVGGVERP 160
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
+ +RLDR+T+GV+V+ K+ L + F + K Y+AL G P+
Sbjct: 161 GIVHRLDRETTGVIVVAKTDAAHRGLAEQFAGRHLHKEYLALVSG-VPR----------- 208
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
A+ V R + V R +T+ GEG ++ + V E
Sbjct: 209 ---------LASGTVDRAIARHPVHRHRMTT-------GEGGRPSRTDWK-------VEE 245
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-----EGVYEWNGKR 313
L A LVR +GRTHQIR+H + LG + GD Y G+ G
Sbjct: 246 AFPPLAA-------LVRCHIHTGRTHQIRVHMKSLGHVLLGDPTYGWKPDPGLEAVAGAA 298
Query: 314 YDGH-ELHAESLSFDHPVTGCPVMVQAPLP 342
+ LHAE + F HPVTG ++++APLP
Sbjct: 299 HPQRVMLHAEHIRFRHPVTGAELLLRAPLP 328
>gi|387120454|ref|YP_006286337.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans D7S-1]
gi|415757025|ref|ZP_11481229.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans D17P-3]
gi|416034816|ref|ZP_11573380.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans serotype a str. H5P1]
gi|416067185|ref|ZP_11582191.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans serotype f str. D18P1]
gi|429734641|ref|ZP_19268649.1| rRNA pseudouridylate synthase [Aggregatibacter
actinomycetemcomitans Y4]
gi|347997694|gb|EGY38668.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans serotype a str. H5P1]
gi|348002230|gb|EGY42935.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans serotype f str. D18P1]
gi|348655585|gb|EGY71031.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans D17P-3]
gi|385874946|gb|AFI86505.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans D7S-1]
gi|429151581|gb|EKX94444.1| rRNA pseudouridylate synthase [Aggregatibacter
actinomycetemcomitans Y4]
Length = 319
Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 71/265 (26%), Positives = 111/265 (41%), Gaps = 66/265 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++ED +L+ +NKP G+ + G + + L L +RLD
Sbjct: 97 IIFEDNYLLVLNKPSGI----------AVHGGSGLDFGVIEALRALRPAACFLELVHRLD 146
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + V K Y+AL G +W+
Sbjct: 147 RDTSGILLVAKKRSALRNLHEQLREKTVQKDYLALVRG---QWQ-------------SHC 190
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + L GG ++ V+ +G +PSE VE++
Sbjct: 191 KVVQAPLLKNELAGGE---------RIVKVSEQG---KPSE------TRFSVEERYT--- 229
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------- 318
N L++A P +GRTHQIR+H QY G I D KY K +D H
Sbjct: 230 ----NATLIKASPVTGRTHQIRVHTQYAGHPIAFDSKY------GDKEFDQHMVELGLNR 279
Query: 319 --LHAESLSFDHPVTGCPVMVQAPL 341
LHA ++ F+HP +G + + APL
Sbjct: 280 LFLHAYAIRFEHPHSGETLRLTAPL 304
>gi|76810444|ref|YP_334298.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 1710b]
gi|76579897|gb|ABA49372.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 1710b]
Length = 477
Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 74/269 (27%), Positives = 115/269 (42%), Gaps = 63/269 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++L+ED+ ++ +NKP GV + G + + L LA+RL
Sbjct: 244 EILFEDDAIIVLNKPAGV----------AVHGGSGVAFGVIEQMRHARPHAKFLELAHRL 293
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
DR+TSG++++ K L + ++++ K Y A C+ G
Sbjct: 294 DRETSGILMLAKKRSALVGLHEQIRENRMDKRYFA-CV-------------------HGD 333
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTS--FEVLSVNGEGSFK-EPSELQEHEENNIVVEKKA 261
W A+D GR R +V + F+ + +GE + + L H N+V
Sbjct: 334 W----AADWGR--------RRVVKAPLFKYATPDGERRVRVQEDGLPSHTVFNLV----- 376
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE--- 318
D + LV A ++GRTHQIR+H +LG+ I GD KY G + N +
Sbjct: 377 ----DRWPDYALVEAELKTGRTHQIRVHLAHLGLPIVGDAKY-GDFALNKALARANAVPS 431
Query: 319 -----LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP+TG P+ APLP
Sbjct: 432 IKRMFLHAHRLRLAHPLTGEPLQFDAPLP 460
>gi|320168809|gb|EFW45708.1| pseudouridine synthase [Capsaspora owczarzaki ATCC 30864]
Length = 748
Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 80/286 (27%), Positives = 127/286 (44%), Gaps = 49/286 (17%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKS-GRLSEGTKLNLLEL-HL 140
R VL++D+ ++ +NKP G+ SV+A D E+ RL + L H+
Sbjct: 362 RQCVLHKDQHIIVINKPAGL---SVMA--------DGFEALDLSRLLPALQFEAPCLPHI 410
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
+RLD++T+G +++ ++ +VA L +AF ++ KTY A+ G P SG
Sbjct: 411 VHRLDKNTTGALLLARNPRVARILSRAFQKQRIGKTYTAIVAGAPP------FDSGIINC 464
Query: 201 KFGAWRVYAASDVGRVLPGGSVVR-DMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
A VG V PG + R D+V + E S L+ + +
Sbjct: 465 PLEVISATTARKVG-VTPGTVLCRHDLVYANET------------SYLRTRRDALSAITH 511
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLH-CQYLGISIRGDVKYE-----------GVY 307
+V+ ++ L+ P SGR HQ+R+H +YLG I GD +Y G+
Sbjct: 512 FSVVGRSSRGPAALIEFVPMSGRKHQLRVHSSKYLGHPILGDNRYGNGCPVELHEPLGIA 571
Query: 308 EWNGKR-YDGHELHAESL---SFDHPVTGCPVMVQAPLPLWGTEAL 349
W+ K +LHA S+ S D P++V APLP E +
Sbjct: 572 GWDAKNDVVKLQLHARSIVVPSLDQQRNNKPLVVLAPLPAHMKEVM 617
>gi|410659033|ref|YP_006911404.1| Ribosomal large subunit pseudouridine synthase D [Dehalobacter sp.
DCA]
gi|410662020|ref|YP_006914391.1| RNA pseudouridylate synthase [Dehalobacter sp. CF]
gi|409021388|gb|AFV03419.1| Ribosomal large subunit pseudouridine synthase D [Dehalobacter sp.
DCA]
gi|409024376|gb|AFV06406.1| RNA pseudouridylate synthase [Dehalobacter sp. CF]
Length = 306
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 73/268 (27%), Positives = 115/268 (42%), Gaps = 74/268 (27%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL----- 140
+ +EDE+L+ + KP G+ +A D R E T N+L H+
Sbjct: 90 IFFEDEYLIIIEKPAGMLS----------IATD-------REKELTAYNVLSTHIKKRDN 132
Query: 141 ------ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITII 194
+RLD++TSGVM+ KS ++ KL A+ + + ++Y + GP + I I
Sbjct: 133 QSRVFIVHRLDKETSGVMMFAKSEEIKEKLQNAWKEVVLERSYAVVVHGPLTDDQGI-IT 191
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
S +K A R+Y++ P G + VT ++VL N S
Sbjct: 192 SWLTENK--ALRMYSSKT-----PNGG--QKAVTHYKVLEKNNSYS-------------- 228
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY 314
L+ +GR +QIR+H Q +G S+ GD+KY GV
Sbjct: 229 ------------------LLEVKLETGRKNQIRIHMQDIGHSVIGDIKYGGV----KSSI 266
Query: 315 DGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA L+F HPVT + ++P+P
Sbjct: 267 NRLGLHAHILAFKHPVTNEIMHFESPIP 294
>gi|291614218|ref|YP_003524375.1| pseudouridine synthase, RluA family [Sideroxydans lithotrophicus
ES-1]
gi|291584330|gb|ADE11988.1| pseudouridine synthase, RluA family [Sideroxydans lithotrophicus
ES-1]
Length = 312
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 75/273 (27%), Positives = 115/273 (42%), Gaps = 80/273 (29%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE L+A+NKP G + + + G + +S R + LLEL +RLD
Sbjct: 89 ILYEDEALLAINKPSG----TAVHGGSGVSFGVIEQLRSAR----PQAKLLEL--VHRLD 138
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSGV+++ K + L + + K Y AL G W
Sbjct: 139 RETSGVLLVAKKRSALTGLHEIMREGNSDKRYFALV--------------------LGQW 178
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ + K+ +L H+ + EK+ ++
Sbjct: 179 K---------------------------------NAKQHVKLPLHKFDTPQGEKRVMVRE 205
Query: 266 DAKKNEI------------LVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN--- 310
D + + L+ A ++GRTHQIR+H +LG I GD KY G + N
Sbjct: 206 DGQASHTIFTLQQSWPEFTLLEAQLKTGRTHQIRVHLSHLGFPIAGDDKY-GDFARNKEL 264
Query: 311 GKR-YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
KR LHA S++F+HP+TG P+ + APLP
Sbjct: 265 AKRGLKRMFLHAHSIAFNHPLTGEPLSITAPLP 297
>gi|168180134|ref|ZP_02614798.1| pseudouridine synthase, RluA family [Clostridium botulinum NCTC
2916]
gi|226948812|ref|YP_002803903.1| RluA family pseudouridine synthase [Clostridium botulinum A2 str.
Kyoto]
gi|182669142|gb|EDT81118.1| pseudouridine synthase, RluA family [Clostridium botulinum NCTC
2916]
gi|226841647|gb|ACO84313.1| pseudouridine synthase, RluA family [Clostridium botulinum A2 str.
Kyoto]
Length = 305
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 69/263 (26%), Positives = 117/263 (44%), Gaps = 54/263 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D++YED+ ++ VNKPQ E V+ P + +G + + + +N + + +R
Sbjct: 81 DIIYEDKDVIVVNKPQ----EMVVHPAPGVYSGTLVNALLHHCKDLSGINGVARPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++V+ K+ + L F +H +S+ Y+AL G K ++ TI + GR
Sbjct: 137 IDKDTSGILVVAKNDISHNNLAAQFKEHSISRVYMALVEG-IIKDEQGTIEAPIGRHPVD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ D R VT ++V+
Sbjct: 196 RIKMAVVKD----------GRHAVTHYKVI------------------------------ 215
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD--GHELHA 321
+ KN LV +GRTHQIR+H ++ + GD VY + +R++ G LHA
Sbjct: 216 --ERFKNHTLVECRLETGRTHQIRVHMSHIMHPLVGD----PVYGYKKQRFNLKGQMLHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLW 344
+ L F HP T V ++ LP +
Sbjct: 270 KLLGFIHPTTRQYVEFESELPEY 292
>gi|148379448|ref|YP_001253989.1| pseudouridine synthase [Clostridium botulinum A str. ATCC 3502]
gi|153934249|ref|YP_001383827.1| RluA family pseudouridine synthase [Clostridium botulinum A str.
ATCC 19397]
gi|153935171|ref|YP_001387377.1| RluA family pseudouridine synthase [Clostridium botulinum A str.
Hall]
gi|387817752|ref|YP_005678097.1| ribosomal large subunit pseudouridine synthase D [Clostridium
botulinum H04402 065]
gi|148288932|emb|CAL83019.1| putative ribosomal large subunit pseudouridine synthase
[Clostridium botulinum A str. ATCC 3502]
gi|152930293|gb|ABS35793.1| pseudouridine synthase, RluA family [Clostridium botulinum A str.
ATCC 19397]
gi|152931085|gb|ABS36584.1| pseudouridine synthase, RluA family [Clostridium botulinum A str.
Hall]
gi|322805794|emb|CBZ03359.1| ribosomal large subunit pseudouridine synthase D [Clostridium
botulinum H04402 065]
Length = 305
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 69/263 (26%), Positives = 117/263 (44%), Gaps = 54/263 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D++YED+ ++ VNKPQ E V+ P + +G + + + +N + + +R
Sbjct: 81 DIIYEDKDVIVVNKPQ----EMVVHPAPGVYSGTLVNALLHHCKDLSGINGVARPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++V+ K+ + L F +H +S+ Y+AL G K ++ TI + GR
Sbjct: 137 IDKDTSGILVVAKNDISHNNLAAQFKEHSISRVYMALVEG-IIKDEQGTIEAPIGRHPVD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ D R VT ++V+
Sbjct: 196 RIKMAVVKD----------GRHAVTHYKVI------------------------------ 215
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD--GHELHA 321
+ KN LV +GRTHQIR+H ++ + GD VY + +R++ G LHA
Sbjct: 216 --ERFKNHTLVECRLETGRTHQIRVHMSHIMHPLVGD----PVYGYKKQRFNLKGQMLHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLW 344
+ L F HP T V ++ LP +
Sbjct: 270 KLLGFIHPTTRQYVEFESELPEY 292
>gi|428774391|ref|YP_007166179.1| pseudouridine synthase [Cyanobacterium stanieri PCC 7202]
gi|428688670|gb|AFZ48530.1| pseudouridine synthase [Cyanobacterium stanieri PCC 7202]
Length = 551
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 76/263 (28%), Positives = 104/263 (39%), Gaps = 61/263 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D++YED + +NKP G L SVP GD+ +S RL+ K + + +RL
Sbjct: 346 DIIYEDNCFLVINKPSG------LLSVPGR-GGDNFDSVESRLNVMRKKDDF-VKAVHRL 397
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG++VI K+ + L F +V K Y AL G + G
Sbjct: 398 DQDTSGILVIAKNADIHRNLSSQFAHRRVKKVYEALLAG--------VVTIDEGEIDLPL 449
Query: 205 W---RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
W +V L G++ R F V+ +
Sbjct: 450 WANPDNRPCQEVNYSLGKGALTR-----FRVMGCD------------------------- 479
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQY-LGISIRGDVKYEGVYEWNGKRYDGHELH 320
E V FP +GRTHQ+R+H LG I+GD Y + RY H LH
Sbjct: 480 -------NFETRVEFFPVTGRTHQLRVHSLMGLGFPIKGDRLYGFM---GDNRYRLH-LH 528
Query: 321 AESLSFDHPVTGCPVMVQAPLPL 343
A +SFDHP G V P P
Sbjct: 529 AREISFDHPHGGERVSFTIPCPF 551
>gi|421873308|ref|ZP_16304922.1| pseudouridine synthase, RluA family protein [Brevibacillus
laterosporus GI-9]
gi|372457634|emb|CCF14471.1| pseudouridine synthase, RluA family protein [Brevibacillus
laterosporus GI-9]
Length = 312
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 75/272 (27%), Positives = 112/272 (41%), Gaps = 81/272 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL------ 138
+VLYEDE+ + VNKP G+ + T LN L L
Sbjct: 90 EVLYEDEYFIVVNKPTGMTTHPIRED-----------------QHDTLLNQLVLYWHKQG 132
Query: 139 -----HLANRLDRDTSGVMVITKS---HKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
H +RLDR+TSG ++I KS H++A KL++ + + + Y+A G R
Sbjct: 133 KSIMPHTVHRLDRETSGTILIAKSSYAHQLADKLIR---EGSIERNYVAFVTG------R 183
Query: 191 ITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
+ SG ++ +V P G + VT ++VL+ N E S +
Sbjct: 184 MQPESGTIAEPIKRDPMHKVKR--QVHPKGE---EAVTHYKVLASNDEVSLVD------- 231
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
LD +GRTHQIR+H +Y+G + GD Y G +
Sbjct: 232 ----------ITLD---------------TGRTHQIRVHFEYMGHPLVGDTLYRG----S 262
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA L F HPVT + ++AP+P
Sbjct: 263 RMGFSNQALHAYQLCFKHPVTEELLEIKAPMP 294
>gi|365117873|ref|ZP_09336706.1| RluA family pseudouridine synthase [Tannerella sp. 6_1_58FAA_CT1]
gi|363651176|gb|EHL90255.1| RluA family pseudouridine synthase [Tannerella sp. 6_1_58FAA_CT1]
Length = 309
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 71/276 (25%), Positives = 116/276 (42%), Gaps = 74/276 (26%)
Query: 78 LYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL- 136
++K SR ++YEDE+L+ ++K G+ S + R+ E T ++L
Sbjct: 87 VFKHSRLRIVYEDEFLIVIDKGYGLLSMS-----------------TDRIKEKTAYHILS 129
Query: 137 ----------ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAP 186
+ + +RLDRDTSG+M+ KS ++ + +++ D + + Y+A+ G
Sbjct: 130 DYVKADDPAGRIFIIHRLDRDTSGLMMFAKSQQIQETMQRSWNDMVLDRRYVAVVEGAFD 189
Query: 187 KWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSE 246
K K G Y A + ++EV S
Sbjct: 190 KDK-------------GEVSSYLAEN---------------AAYEVYST----------- 210
Query: 247 LQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGV 306
Q +E + + VL ++ K + LV +GR +QIR+H + LG SI GD KY
Sbjct: 211 -QNKDEGQYALTRYEVLKSNGKYS--LVELQLATGRKNQIRVHMKDLGHSIIGDKKYGAT 267
Query: 307 YEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G+ LHA L F HPVT + + P+P
Sbjct: 268 CNPLGRL----ALHASRLRFVHPVTRRDMFFETPVP 299
>gi|170756442|ref|YP_001781114.1| RluA family pseudouridine synthase [Clostridium botulinum B1 str.
Okra]
gi|429247523|ref|ZP_19210766.1| RluA family pseudouridine synthase [Clostridium botulinum
CFSAN001628]
gi|169121654|gb|ACA45490.1| pseudouridine synthase, RluA family [Clostridium botulinum B1 str.
Okra]
gi|428755477|gb|EKX78105.1| RluA family pseudouridine synthase [Clostridium botulinum
CFSAN001628]
Length = 305
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 69/265 (26%), Positives = 118/265 (44%), Gaps = 54/265 (20%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLA 141
+ D++YED+ ++ VNKPQ E V+ P + +G + + + +N + +
Sbjct: 79 KLDIIYEDKDVIVVNKPQ----EMVVHPAPGVYSGTLVNALLHHCKDLSGINGVARPGIV 134
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+R+D+DTSG++V+ K+ + L F +H +S+ Y+AL G K ++ TI + GR
Sbjct: 135 HRIDKDTSGILVVAKNDISHNNLAAQFKEHSISRVYMALVEG-IIKDEQGTIEAPIGRHP 193
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
++ D R VT ++V+
Sbjct: 194 VDRIKMAVVKD----------GRHAVTHYKVI---------------------------- 215
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD--GHEL 319
+ KN LV +GRTHQIR+H ++ + GD VY + +R++ G L
Sbjct: 216 ----ERFKNHTLVECRLETGRTHQIRVHMSHIMHPLVGD----PVYGYKKQRFNLKGQML 267
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLW 344
HA+ L F HP T V ++ LP +
Sbjct: 268 HAKLLGFIHPTTEQYVEFESELPEY 292
>gi|346308976|ref|ZP_08851080.1| hypothetical protein HMPREF9457_02789 [Dorea formicigenerans
4_6_53AFAA]
gi|345901525|gb|EGX71324.1| hypothetical protein HMPREF9457_02789 [Dorea formicigenerans
4_6_53AFAA]
Length = 296
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 73/259 (28%), Positives = 112/259 (43%), Gaps = 54/259 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D++YEDE L+ +NKP G+ L + +A A S+G NRL
Sbjct: 82 DIIYEDEDLLVLNKPAGMPIHPSLNNYTNSIANALAYYFQ---SQGKPFIF---RCCNRL 135
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHK-VSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
DRDTSG+ +++K H V+ ++ T ++ V + Y+A+ G +T G ++ G
Sbjct: 136 DRDTSGLTIVSK-HLVSGSILSDMTKYREVHREYLAIARGS------VTPSEGTIQAPLG 188
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
EG+ E + EH E+ V K V
Sbjct: 189 --------------------------------RKEGTIIERTVDWEHGED-AVTHYKVVK 215
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+A+ LV +GRTHQIR+H +YLG + GD Y E+ ++ LH+
Sbjct: 216 EANGHS---LVSLRLETGRTHQIRIHMKYLGYPLIGDYLYNPDMEYMTRQ----ALHSHH 268
Query: 324 LSFDHPVTGCPVMVQAPLP 342
+ F HP+TG + APLP
Sbjct: 269 MEFTHPITGAHMSFTAPLP 287
>gi|339006902|ref|ZP_08639477.1| uncharacterized RNA pseudouridine synthase YhcT [Brevibacillus
laterosporus LMG 15441]
gi|338776111|gb|EGP35639.1| uncharacterized RNA pseudouridine synthase YhcT [Brevibacillus
laterosporus LMG 15441]
Length = 312
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 75/272 (27%), Positives = 111/272 (40%), Gaps = 81/272 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL------ 138
+VLYEDE+ + VNKP G+ + T LN L L
Sbjct: 90 EVLYEDEYFIVVNKPTGMTTHPIRED-----------------QHDTLLNQLVLYWHKQG 132
Query: 139 -----HLANRLDRDTSGVMVITKS---HKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
H +RLDR+TSG ++I KS H++A KL++ + + + Y+A G R
Sbjct: 133 KSIMPHTVHRLDRETSGTILIAKSSYAHQLADKLIR---EGSIERNYVAFVTG------R 183
Query: 191 ITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
+ SG ++ +V P G + VT ++VL+ N E S
Sbjct: 184 MQPESGTIAEPIKRDPMHKVK--RQVHPKGE---EAVTHYKVLASNDEVS---------- 228
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
LV +GRTHQIR+H +Y+G + GD Y G +
Sbjct: 229 ----------------------LVDITLDTGRTHQIRVHFEYMGHPLVGDTLYRG----S 262
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA L F HPVT + ++AP+P
Sbjct: 263 RMGFSNQALHAYQLCFKHPVTEELLEIKAPMP 294
>gi|304319748|ref|YP_003853391.1| Ribosomal large subunit pseudouridine synthase C [Parvularcula
bermudensis HTCC2503]
gi|303298651|gb|ADM08250.1| Ribosomal large subunit pseudouridine synthase C [Parvularcula
bermudensis HTCC2503]
Length = 324
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 69/227 (30%), Positives = 101/227 (44%), Gaps = 53/227 (23%)
Query: 80 KLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH 139
++ R V+YED+ ++A+NKP G+ +V L+ D G EG
Sbjct: 91 EMMRGLVIYEDDDILALNKPAGL---AVQGGAKTLIHIDGMLDVFG---EGEA----RPR 140
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHG 198
L +RLDRDT GV+++ KS VA+ L AF H++ KTY A+ G P P + RI +
Sbjct: 141 LVHRLDRDTGGVLLLAKSRAVAATLSLAFQQHRIGKTYWAITKGVPHPLFGRIDM----- 195
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
R+ A + GR E + G+ + S L +++ +
Sbjct: 196 -------RIEKAGEPGR---------------EKM----RGTEQGQSALTDYQTVETAGQ 229
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG 305
K A L P +GRTHQIR+H +G I GD KY G
Sbjct: 230 KAAFLALR-----------PHTGRTHQIRVHLSAIGTPIVGDRKYGG 265
>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 = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 73/257 (28%), Positives = 114/257 (44%), Gaps = 49/257 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED ++ VNKPQG+ A P ++ + LS +++ + +R+D
Sbjct: 80 IVYEDNDVIVVNKPQGMVVHPS-AGHPNGTLVNALLHHADHLSAIN--DVVRPGIVHRID 136
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG++++ KS + L K + + Y+AL G P K I + GRSK
Sbjct: 137 KDTSGLLMVAKSDQAHESLAKQLKEKTSLRKYVALVHGVIPHDKG-EINAPIGRSKVD-- 193
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ V+ GG ++ VT F VL E + +VE +
Sbjct: 194 -----RKMQAVIEGG---KEAVTHFTVL---------------ERFDTFTLVELQL---- 226
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
+GRTHQIR+H +Y+G + GD Y G +G LHA+ L
Sbjct: 227 -------------ETGRTHQIRVHMKYIGYPLAGDTLYGPKKTLPG---NGQFLHAKLLG 270
Query: 326 FDHPVTGCPVMVQAPLP 342
F HP TG ++ +APLP
Sbjct: 271 FTHPTTGEQLVFEAPLP 287
>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 = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 77/278 (27%), Positives = 115/278 (41%), Gaps = 66/278 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLLAGDSAESKSGRLSEGTKLNLLELH 139
D++YED+ ++ VNKPQG+ V LL + +G G
Sbjct: 81 DIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHSPLSTINGEFRPG--------- 131
Query: 140 LANRLDRDTSGVMVITK---SHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
+ +R+D+DTSG++++ K +H+ + +KA T+ + Y+AL G K + TI +
Sbjct: 132 IVHRIDKDTSGLLMVAKNDMAHRSLTAQLKAKTN---KREYVALVHG-VIKEDKGTIDAP 187
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
GRS + D R VT F VL
Sbjct: 188 LGRSLKDRKKQAVVVDG----------RHAVTHFNVL----------------------- 214
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
+ KN LV +GRTHQIR+H +Y+G + GD Y G +G
Sbjct: 215 ---------ERFKNYTLVACQLETGRTHQIRVHMKYIGHPLAGDPLYGPRKTLAG---NG 262
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
LHA L F HP TG ++ APLP + + L+ K
Sbjct: 263 QYLHARLLGFKHPRTGKEMVFTAPLPAYFVKMLEHLRK 300
>gi|408373317|ref|ZP_11171014.1| ribosomal large subunit pseudouridine synthase C [Alcanivorax
hongdengensis A-11-3]
gi|407766774|gb|EKF75214.1| ribosomal large subunit pseudouridine synthase C [Alcanivorax
hongdengensis A-11-3]
Length = 317
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 78/275 (28%), Positives = 108/275 (39%), Gaps = 82/275 (29%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE----- 137
R +YED+ L+ NKP G+ G L L+E
Sbjct: 94 RRACVYEDDQLMIFNKPAGLAVHG---------------------GSGVSLGLIEALRVM 132
Query: 138 ------LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRI 191
L L +RLDRDTSG++++ + + KL + +V K Y LC G K K
Sbjct: 133 YPKEQNLELVHRLDRDTSGLIMVARHRGMLRKLQRLMQSGQVEKRYWLLCQGF--KGKER 190
Query: 192 TIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
T+ + + G R+ S G+ P VT F +L G+
Sbjct: 191 TLEAPLLKMMNGNERIVRVSREGK--PS-------VTHFRLLERLGDAQ----------- 230
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-----EGV 306
LV A +GRTHQIR+H Q+ G ++ GD KY +
Sbjct: 231 ---------------------LVEALLETGRTHQIRVHGQFGGFALLGDDKYGSDRGAAL 269
Query: 307 YEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPL 341
E G+R LHA SL+F HP TG + V APL
Sbjct: 270 LESLGRRRLC--LHARSLTFVHPTTGKRLTVSAPL 302
>gi|338530293|ref|YP_004663627.1| RNA pseudouridine synthase family protein [Myxococcus fulvus HW-1]
gi|337256389|gb|AEI62549.1| RNA pseudouridine synthase family protein [Myxococcus fulvus HW-1]
Length = 330
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 71/278 (25%), Positives = 112/278 (40%), Gaps = 75/278 (26%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL----- 140
V+++D+WL+ ++KP G+ + R +GT + LL
Sbjct: 90 VVFQDDWLLVLDKPAGLPIHP-----------------TARYHKGTLVTLLRERFGERFA 132
Query: 141 --ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
A+RLDR+TSG++V ++ + L + F +V K Y+ALC G P+
Sbjct: 133 EPAHRLDRETSGLVVCGRTTESCRVLGRLFVSREVHKEYLALCEGHPPE----------- 181
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
+ V A + G ++R V + V G+ S LQ +
Sbjct: 182 ----DTFTVEAP-----IAEGTELIRIAV---RIDPVEGKESRTRFQVLQRFTRDGAPF- 228
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYE------- 308
L+R FP +GR HQIR+H + G + GD Y G ++
Sbjct: 229 -------------ALLRCFPETGRQHQIRIHLHHAGFPLVGDKMYGPDPGYFDRFSKRCL 275
Query: 309 ----WNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
W R LHA ++F HP +G V+ +APLP
Sbjct: 276 EPEAWPRLRLPRQALHAARIAFPHPGSGEAVVFEAPLP 313
>gi|425742053|ref|ZP_18860175.1| rRNA pseudouridylate synthase C [Acinetobacter baumannii WC-487]
gi|425488954|gb|EKU55277.1| rRNA pseudouridylate synthase C [Acinetobacter baumannii WC-487]
Length = 310
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 78/270 (28%), Positives = 114/270 (42%), Gaps = 61/270 (22%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S V+YEDE L+ VNKP G+ L+ ++ R + G K L L +R
Sbjct: 95 SRVVYEDEGLLVVNKPSGIAVHGGSGVAYGLI-------EALRAATGKKY----LELIHR 143
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DRDTSG+++I+K L +HK+ KTY A+ G
Sbjct: 144 IDRDTSGLVMISKKRSTLKLLQDMLREHKIRKTYAAIVKGQV------------------ 185
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTS--FEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
S+ + ++ + F NGE + E + + +V E+
Sbjct: 186 -----------------SLDKQLIDAPLFRYELANGERRVRVSKEGKPSKTEWVVAER-- 226
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
KN LV A P SGRTHQIR+H +G + GD KY + G LHA
Sbjct: 227 ------FKNATLVHASPLSGRTHQIRVHGLSIGHPLLGDDKYGHNTAYAGPEARRLCLHA 280
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
+ D P G P M++APLP T+ L++
Sbjct: 281 --MRLDIP--GYP-MIEAPLPEDMTQLLEA 305
>gi|350265190|ref|YP_004876497.1| pseudouridine synthase [Bacillus subtilis subsp. spizizenii
TU-B-10]
gi|349598077|gb|AEP85865.1| pseudouridine synthase YjbO [Bacillus subtilis subsp. spizizenii
TU-B-10]
Length = 302
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 78/270 (28%), Positives = 118/270 (43%), Gaps = 75/270 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL---- 140
D+L+ED ++ VNKP G+ A+ P + + ++G L+ NL+ H
Sbjct: 84 DILFEDNHMLIVNKPAGI------ATHP------NEDGQTGTLA-----NLIAYHYQVNG 126
Query: 141 -------ANRLDRDTSGVMVITKSHKVASKLVKAFTDHK-VSKTYIALCIGPAPKWKRIT 192
+RLD+DTSG +V K H++A ++ + K + +TY A+ G K K+ T
Sbjct: 127 EICKVRHVHRLDQDTSGAIVFAK-HRLAHAILDQQLEKKTLKRTYTAIAEGQL-KSKKGT 184
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
I S GR + R RV PGG VT F+V++ N
Sbjct: 185 IDSPIGRDRSHPTR-------RRVSPGGQTA---VTHFKVIASN---------------- 218
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
AK+ LV +GRTHQIR+H +G + GD Y G K
Sbjct: 219 --------------AKERLTLVELELETGRTHQIRVHMASIGHPLTGDSLYGG----GSK 260
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA+ + HP+TG ++ +AP P
Sbjct: 261 LLNRQALHAKKVQAVHPITGEQIVAEAPFP 290
>gi|302382665|ref|YP_003818488.1| pseudouridine synthase [Brevundimonas subvibrioides ATCC 15264]
gi|302193293|gb|ADL00865.1| pseudouridine synthase, RluA family [Brevundimonas subvibrioides
ATCC 15264]
Length = 350
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 65/264 (24%), Positives = 115/264 (43%), Gaps = 54/264 (20%)
Query: 81 LSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL 140
++S V+YED+ ++A+NKP G+ + G RL + L
Sbjct: 108 FAKSMVIYEDDLVIALNKPWGLAVQG----------GTKTTRHVDRLLSAWGEGMERPRL 157
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHGR 199
+RLDRDTSGV+++ K + A +L AF + KTY A+ +G P P +I++
Sbjct: 158 VHRLDRDTSGVLLLGKGPEAAKRLAGAFARRQAKKTYWAIVMGLPKPADGQISV------ 211
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
+ + + +E++ P++ ++
Sbjct: 212 ---------------------HLKKSGINDYEIM---------RPADPKDPGAEPAETAY 241
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGH 317
+ A + + + +R F +GRTHQ+R H + +G I GD KY + + +G
Sbjct: 242 AVISHAAQRASWMALRPF--TGRTHQLRAHMKAIGHPILGDPKYGDDASTQLSGPLK--L 297
Query: 318 ELHAESLSFDHPVTGCPVMVQAPL 341
+LHA + DHP G ++V+AP+
Sbjct: 298 QLHARRIELDHPAGGT-LVVEAPI 320
>gi|149911608|ref|ZP_01900220.1| ribosomal large subunit pseudouridine synthase C [Moritella sp.
PE36]
gi|149805329|gb|EDM65342.1| ribosomal large subunit pseudouridine synthase C [Moritella sp.
PE36]
Length = 317
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 77/291 (26%), Positives = 118/291 (40%), Gaps = 54/291 (18%)
Query: 67 TRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGR 126
T A+S S+ + S ++YED++L+ +NKP G+ L+ G A R
Sbjct: 77 TEAISPSANLDSVRALESQIIYEDDYLIVINKPSGMAVHGGSGLSFGLIEGLRAIRPDSR 136
Query: 127 LSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAP 186
L L +RLDRDTSG +++ K L + + K Y AL G P
Sbjct: 137 F----------LELVHRLDRDTSGCLLVAKKRSTLKALHEQLRLKTMRKDYQALVAGAWP 186
Query: 187 KWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSE 246
+ RI ++++ V+S GE + SE
Sbjct: 187 RSSRIV--------------------------NAPLLKNTVSS-------GERLVRVDSE 213
Query: 247 LQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--- 303
+E + ++++ ++ LV+A P +GRTHQIR+H + G I D KY
Sbjct: 214 GKESQTRFSIIQR--------YEHGTLVQASPITGRTHQIRVHALHAGHPIACDDKYGDK 265
Query: 304 EGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
+ NG LHA L F +P T V+APL + AL+ K
Sbjct: 266 DFTKHMNGLGLKRLFLHAARLQFFNPGTQETQEVEAPLDMALVRALEKLKK 316
>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 = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 79/280 (28%), Positives = 116/280 (41%), Gaps = 52/280 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSE-GTKLNLLELHLANR 143
D++YEDEWL+ V+KP G+ + L GRLS G +H R
Sbjct: 161 DIVYEDEWLIVVDKPAGLVVHPGAGNDRGTLVSGLLAHGDGRLSSIGAPTRPGVVH---R 217
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHGRSKF 202
+D+DTSG++V K+ L + F DH + + Y A+ G PA RI GR
Sbjct: 218 IDKDTSGLIVFAKTDAAHLALARQFADHTIRRAYTAIVWGVPAVDPGRIE--GNIGRHAT 275
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
R+ + G + VT + + ++ G + E E + +V
Sbjct: 276 DRQRMAVVTRGG---------KPAVTHYRIANMVG---------VVEVSEKPLA----SV 313
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG------ 316
LD + +GRTHQIR+H ++G + GD Y G +R +
Sbjct: 314 LDCRLE-----------TGRTHQIRVHLSHVGHPLVGDPVY-GRSPARLQRMEDPRIKAM 361
Query: 317 -----HELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHA L F HPVTG + ++PLP E L S
Sbjct: 362 CSFPRQALHARRLGFVHPVTGRRLKFESPLPQDMRELLAS 401
>gi|376260970|ref|YP_005147690.1| RluA family pseudouridine synthase [Clostridium sp. BNL1100]
gi|373944964|gb|AEY65885.1| pseudouridine synthase, RluA family [Clostridium sp. BNL1100]
Length = 304
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 71/269 (26%), Positives = 115/269 (42%), Gaps = 64/269 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLA-------GDSAESKSGRLSEGTKLNLLE 137
D++YED+ ++ +NKP+G+ + + L GDS +G + G
Sbjct: 79 DIVYEDKHIIVINKPKGMVVHPAVGNYTGTLVNALMKHCGDSLSDINGVIRPG------- 131
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++V+ KS+ +L + H + + YIAL G + I +
Sbjct: 132 --IVHRIDKDTSGLLVVAKSNIAHERLSEKLKTHDIKREYIALVDGIIYE-NSGKIDAPI 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR ++ ++ G R+ +T F+VL E N +
Sbjct: 189 GRHPVERKKMCVNTENG---------RNAITHFKVL---------------ERFPNTTYL 224
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--D 315
E K +GRTHQIR+H Y+ I GD+ VY ++Y
Sbjct: 225 ELKL-----------------ETGRTHQIRVHMAYINHPIIGDM----VYGRRKQKYKTK 263
Query: 316 GHELHAESLSFDHPVTGCPVMVQAPLPLW 344
G LHA LSF HPVTG + + +P +
Sbjct: 264 GQVLHAWKLSFQHPVTGEEMKFETAVPEY 292
>gi|90415859|ref|ZP_01223792.1| Predicted pseudouridylate synthase, Rlu family protein [gamma
proteobacterium HTCC2207]
gi|90332233|gb|EAS47430.1| Predicted pseudouridylate synthase, Rlu family protein [gamma
proteobacterium HTCC2207]
Length = 324
Score = 78.2 bits (191), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 76/264 (28%), Positives = 111/264 (42%), Gaps = 60/264 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++L+ED+ L+ +NKP G+ +G S + +E +L LEL +RL
Sbjct: 105 NILFEDDGLLIINKPSGLAVHGG--------SGVSLGAIEALRAEHPELRFLEL--VHRL 154
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
DRDTSG +++ K V L + + + K Y AL G PK K
Sbjct: 155 DRDTSGCLMLAKKRAVLLALQQDMQRNYIEKRYTALSKGRWPKGKNT------------- 201
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
+ A + G +VR + +G+ S LQ++ ++
Sbjct: 202 --INAPLRKNTLQSGERMVR--------VDASGKASVTHFKSLQQYPSATLL-------- 243
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY------EGVYEWNGKRYDGHE 318
D K +GRTHQIR+HCQ+ I GD KY E + KR
Sbjct: 244 -DIKLE---------TGRTHQIRVHCQFAEQPIAGDPKYGDEHFNESLKPLGLKRLF--- 290
Query: 319 LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L F HP++G V V+APLP
Sbjct: 291 LHARYLRFKHPLSGDWVEVEAPLP 314
>gi|218439930|ref|YP_002378259.1| pseudouridine synthase [Cyanothece sp. PCC 7424]
gi|218172658|gb|ACK71391.1| pseudouridine synthase [Cyanothece sp. PCC 7424]
Length = 548
Score = 77.8 bits (190), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 76/264 (28%), Positives = 114/264 (43%), Gaps = 64/264 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL---AN 142
++YED++L+ +NKP+G L SVP G S++ +S L L + HL +
Sbjct: 343 IVYEDDYLIIINKPEG------LLSVP----GRSSDRYDSVISRLNHL-LPDGHLLRSVH 391
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD DTSG++++ ++ ++ + L + F D K+ K Y AL G + + + G +F
Sbjct: 392 RLDLDTSGLLLLARNDQIYNHLAQQFRDRKIEKIYQALVQGRVSQPQGTIKLPLWGDPRF 451
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
R D R ++ +T F V++ E+N VE
Sbjct: 452 ---RPLQTVDFIR-------GKESITQFRVIAF---------------EDNFTRVE---- 482
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGHEL 319
P +GRTHQIR+HC LG I GD Y G L
Sbjct: 483 -------------FMPITGRTHQIRVHCADQLGLGTPIIGDRLY-----GKGDDLTRLHL 524
Query: 320 HAESLSFDHPVTGCPVMVQAPLPL 343
HA+ L F HP+T + V AP P
Sbjct: 525 HAQKLRFLHPITKQFLSVNAPPPF 548
>gi|419839851|ref|ZP_14363252.1| pseudouridine synthase Rlu family protein, TIGR01621 [Haemophilus
haemolyticus HK386]
gi|386908953|gb|EIJ73637.1| pseudouridine synthase Rlu family protein, TIGR01621 [Haemophilus
haemolyticus HK386]
Length = 224
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 63/249 (25%), Positives = 112/249 (44%), Gaps = 66/249 (26%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN 142
+ +V+Y+ + +NKP+G+ E + + +LN+ ++ L +
Sbjct: 2 KIEVVYQHSDFIIINKPEGISVHK------------DQEEQGLTVLVAKQLNVPKVWLVH 49
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD+ TSG++++ + + A++ + F++HK+ KTY+AL PK K+ II +++
Sbjct: 50 RLDKVTSGLLILALNAESAAEFSRLFSEHKIHKTYLALS-NQKPKKKQGLIIGDMKKARD 108
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
GAW++ D +T FE +S EP+
Sbjct: 109 GAWKLCQTKD-----------NPAITRFESVS-------SEPN----------------- 133
Query: 263 LDADAKKNEILVRAF---PRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
+R F P++G+THQ+R+ + LG I GD G+Y N ++ D L
Sbjct: 134 -----------LRLFILKPQTGKTHQLRVAMKSLGSPILGD----GLYGKNTEKIDRTYL 178
Query: 320 HAESLSFDH 328
HA L FD+
Sbjct: 179 HAAQLEFDY 187
>gi|424870801|ref|ZP_18294463.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
viciae WSM1455]
gi|393166502|gb|EJC66549.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
viciae WSM1455]
Length = 330
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 79/274 (28%), Positives = 109/274 (39%), Gaps = 58/274 (21%)
Query: 76 SSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNL 135
SS ++L VL+ED+ ++ +NKP G+ + A L T
Sbjct: 86 SSDFELLSRMVLHEDDKVIVLNKPPGIAVQG---------GSGVARHIDQMLEAWTSPKG 136
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ L +RLDRDTSGV+VI ++ A KL AF + KTY AL G K +
Sbjct: 137 EKPRLVHRLDRDTSGVLVIARTRGAAQKLTAAFRERDTKKTYWALVKGVPRKHE------ 190
Query: 196 GHGRSKFGAWRV---YAASDVGRVLPGGSVVRDMVTSF-EVLSVNGEGSFKEPSELQEHE 251
K W V A D R+ G D SF VL
Sbjct: 191 ----DKISTWLVKEPTADGDRMRIAKHGEDGADHAISFYRVLET---------------- 230
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYE 308
A +N + P +GRTHQ+R+H ++G I GD KY + ++
Sbjct: 231 ---------------AAQNLAWLEMEPYTGRTHQLRVHALHIGHPIIGDPKYFDDDPNWD 275
Query: 309 WNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ G LHA + HP TG + V APLP
Sbjct: 276 FPGGVQKKLHLHARHIDIPHP-TGGRLRVSAPLP 308
>gi|424745373|ref|ZP_18173636.1| rRNA pseudouridylate synthase C [Acinetobacter baumannii WC-141]
gi|422942066|gb|EKU37127.1| rRNA pseudouridylate synthase C [Acinetobacter baumannii WC-141]
Length = 310
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 78/268 (29%), Positives = 118/268 (44%), Gaps = 57/268 (21%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S V+YEDE L+ VNKP G+ L+ ++ R + G K L L +R
Sbjct: 95 SRVVYEDEGLLVVNKPSGIAVHGGSGMAYGLI-------EALRAATGKKY----LELIHR 143
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DRDTSG+++I+K +L +HK+ KTY A+ G
Sbjct: 144 IDRDTSGLVMISKKRSTLKQLQDMLREHKIRKTYAAIVKGQV------------------ 185
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + L ++R +E+ NGE + + + + +V E+
Sbjct: 186 --------SLDKQLIDAPLLR-----YEL--ANGERRVRVTKDGKPSKTEWVVAER---- 226
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
KN LV A P SGRTHQIR+H +G + GD KY E++G LHA
Sbjct: 227 ----FKNATLVHASPLSGRTHQIRVHGLSIGHPLIGDDKYGHTTEYSGPEARRLCLHA-- 280
Query: 324 LSFDHPVTGCPVMVQAPLPLWGTEALQS 351
+ D P G P ++APLP T+ L++
Sbjct: 281 MRLDIP--GYPP-IEAPLPEDMTQLLKA 305
>gi|423295224|ref|ZP_17273351.1| hypothetical protein HMPREF1070_02016 [Bacteroides ovatus
CL03T12C18]
gi|392673740|gb|EIY67196.1| hypothetical protein HMPREF1070_02016 [Bacteroides ovatus
CL03T12C18]
Length = 615
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 74/273 (27%), Positives = 119/273 (43%), Gaps = 36/273 (13%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDEWL+ VNKP G + SVP + +S RL + + + +RLD
Sbjct: 347 IVFEDEWLLVVNKPAG------MLSVPG--KAEDRDSVYHRLKKKYPEATGPM-IVHRLD 397
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRIT--------IISGH 197
TSG++++ K+ +V L F + + K Y+A+ G K ++ T +++
Sbjct: 398 MATSGLLLVAKTKEVHQDLQAQFANRSIKKRYVAVLDGAIIKTEKETKPIAEKAILLAKE 457
Query: 198 GRSKFGAWRVYAASDVGRV-----LPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
S + + GR+ L R MV+S E SE E
Sbjct: 458 TVSTKKTAKAERTGNTGRIELPLCLNPLDRPRQMVSSEHGKEAITEYQIISESERITSES 517
Query: 253 NNIVVEKKAVLDADAKKNE----ILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEG 305
N E + +++ NE + +P +GRTHQ+R+H + LG I GD Y
Sbjct: 518 ENTFNESNRIDESERSINESRKYTRIVFYPLTGRTHQLRVHAAHPEGLGCPILGDELY-- 575
Query: 306 VYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQ 338
GK+ D LHAE + F HP+ G + +Q
Sbjct: 576 -----GKKADRLYLHAEYIEFRHPIYGDILCIQ 603
>gi|293369136|ref|ZP_06615730.1| pseudouridine synthase, RluA family [Bacteroides ovatus SD CMC 3f]
gi|423288553|ref|ZP_17267404.1| hypothetical protein HMPREF1069_02447 [Bacteroides ovatus
CL02T12C04]
gi|292635719|gb|EFF54217.1| pseudouridine synthase, RluA family [Bacteroides ovatus SD CMC 3f]
gi|392669751|gb|EIY63237.1| hypothetical protein HMPREF1069_02447 [Bacteroides ovatus
CL02T12C04]
Length = 612
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 72/284 (25%), Positives = 124/284 (43%), Gaps = 58/284 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDEWL+ VNKP G + SVP + +S RL + + + +RLD
Sbjct: 347 IVFEDEWLLVVNKPAG------MLSVPG--KAEDRDSVYHRLKKKYPEATGPM-IVHRLD 397
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGP--------APKWKRITIISGH 197
TSG++++ K+ +V L F + + K Y+A+ G P ++ +I+
Sbjct: 398 MATSGLLLVAKTKEVHQDLQAQFANRSIKKRYVAVLDGAIIKTEKEIKPIAEKAILIAKE 457
Query: 198 GRSKFGAWRVYAASDVGRV-LP-------------GGSVVRDMVTSFEVLSVN------G 237
+ + GR+ LP ++ +T ++++S +
Sbjct: 458 TVLTKKTAKAERTGNTGRIELPLCLNPLDRPRQMVSSEHGKEAITEYQIISESERITSES 517
Query: 238 EGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY---LG 294
E +F E + + E E N ++ K I+ +P +GRTHQ+R+H + LG
Sbjct: 518 ENTFNESNRIDESERN---------INESRKYTRIVF--YPLTGRTHQLRVHAAHPEGLG 566
Query: 295 ISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQ 338
I GD Y GK+ D LHAE + F HP+ G + +Q
Sbjct: 567 CPILGDELY-------GKKADRLYLHAEYIEFRHPIYGDILCIQ 603
>gi|183599498|ref|ZP_02960991.1| hypothetical protein PROSTU_02977 [Providencia stuartii ATCC 25827]
gi|386741748|ref|YP_006214927.1| 23S rRNA pseudouridylate synthase C [Providencia stuartii MRSN
2154]
gi|188021745|gb|EDU59785.1| pseudouridine synthase, RluA family [Providencia stuartii ATCC
25827]
gi|384478441|gb|AFH92236.1| 23S rRNA pseudouridylate synthase C [Providencia stuartii MRSN
2154]
Length = 317
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 75/260 (28%), Positives = 112/260 (43%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 94 ILYEDDAILVINKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 143
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + ++ K Y+AL G W+ T
Sbjct: 144 RDTSGILLVAKKRSALRALHEQLRLKQMQKDYLALVRG---HWQSHT------------- 187
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G V+ V+ EG +PSE + E
Sbjct: 188 KVIQAPLLKNILQSGE---------RVVRVSPEG---KPSETRFKVEERF---------- 225
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD-GHE---LHA 321
N LV+A P +GRTHQIR+H + G I D +Y G +++ + D G + LHA
Sbjct: 226 ---DNATLVKASPVTGRTHQIRVHTLHAGHPIAFDNRY-GDKQFDSQLADTGLKRLFLHA 281
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP TG + +QAPL
Sbjct: 282 SALKFTHPKTGEEMRLQAPL 301
>gi|425070909|ref|ZP_18474015.1| RluA family pseudouridine synthase [Proteus mirabilis WGLW4]
gi|404599734|gb|EKB00187.1| RluA family pseudouridine synthase [Proteus mirabilis WGLW4]
Length = 232
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 73/262 (27%), Positives = 107/262 (40%), Gaps = 46/262 (17%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN 142
+ + LY+DE L+ +NKP G+ L+G + ++ L E L +
Sbjct: 16 KIEYLYQDEHLLVINKPSGLLS----------LSGKNPQNIDSVHYRLVPL-FPECTLVH 64
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD TSGVMVI + + L + F+ V+K Y AL + GH +
Sbjct: 65 RLDFGTSGVMVIALNKAINRALCQQFSQRTVTKAYDAL-------------LCGHLQHDS 111
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
G A D F +S++ S Q V+E+
Sbjct: 112 GVIEAPIAKDP--------------QHFPRMSISTTQGKAARSYYQ-------VIERFYQ 150
Query: 263 LDADAKKNEIL-VRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
AD + + VR P +GRTHQ+R+HCQYLG I G Y G+ + LHA
Sbjct: 151 TLADGTRLPLTRVRLTPETGRTHQLRIHCQYLGHPILGCDLYGGLLLSGTEHTPRLMLHA 210
Query: 322 ESLSFDHPVTGCPVMVQAPLPL 343
L F HP++ P+ + P P
Sbjct: 211 CELHFIHPISEQPMDIYLPSPF 232
>gi|420372447|ref|ZP_14872719.1| RNA pseudouridylate synthase family protein [Shigella flexneri
1235-66]
gi|391318262|gb|EIQ75438.1| RNA pseudouridylate synthase family protein [Shigella flexneri
1235-66]
Length = 232
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 71/249 (28%), Positives = 110/249 (44%), Gaps = 48/249 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++LY+DE L+ +NKP G+ S+ P L DS + + G L A+RL
Sbjct: 18 EILYQDEHLLLINKPSGLL--SLSGKNPQNL--DSVHYRLVQTYPGCTL-------AHRL 66
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG+MV+ ++ + + L + F+ V+K Y AL + GH + G
Sbjct: 67 DFGTSGLMVVARNKAINAALCQQFSQRSVTKVYSAL-------------LCGHLKQDDGV 113
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
++V+D F ++S++ S + V+E+ L
Sbjct: 114 I-------------DAAIVKDPAL-FPLMSISANSGKPARSRFR-------VIERFNQLL 152
Query: 265 ADAKKNEIL-VRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH-ELHAE 322
D + + V+ P +GRTHQ+RLHCQ+LG I G Y G EW G LHA
Sbjct: 153 KDGRSLPLTRVQLMPETGRTHQLRLHCQHLGHPIWGCDLYGG-REWPGTEQTSRLMLHAS 211
Query: 323 SLSFDHPVT 331
L HP++
Sbjct: 212 ELRLVHPIS 220
>gi|291617372|ref|YP_003520114.1| RluA [Pantoea ananatis LMG 20103]
gi|291152402|gb|ADD76986.1| RluA [Pantoea ananatis LMG 20103]
Length = 232
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 74/259 (28%), Positives = 111/259 (42%), Gaps = 46/259 (17%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LY+D+ LV ++KP G+ S+ P L DS + + G L +RLD
Sbjct: 19 ILYQDDHLVLIDKPSGLL--SLSGKNPQNL--DSVHYRLVTIFPGCTL-------VHRLD 67
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
TSG++V+ ++ + + L + F+ V+K Y AL + GH + G
Sbjct: 68 FGTSGLIVVARNKTINAALSQQFSARTVAKHYSAL-------------LCGHLPDEEGII 114
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A D R F +S+ E S + VVE+ +
Sbjct: 115 DAPIAKDPAR--------------FPRMSICAEWGKPARSRYR-------VVERFNLKRD 153
Query: 266 DAKKNEIL-VRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
DA+ + V P +GRTHQ+R+HCQ LG I G Y G+ ++ LHA L
Sbjct: 154 DARVIPLTRVTLIPETGRTHQLRIHCQLLGHPILGCDLYGGLLLPGMEQTPRLMLHASEL 213
Query: 325 SFDHPVTGCPVMVQAPLPL 343
F HPVTG P + +P P
Sbjct: 214 QFIHPVTGEPFHIVSPSPF 232
>gi|94497522|ref|ZP_01304091.1| Pseudouridine synthase, RluD [Sphingomonas sp. SKA58]
gi|94422939|gb|EAT07971.1| Pseudouridine synthase, RluD [Sphingomonas sp. SKA58]
Length = 317
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 80/306 (26%), Positives = 129/306 (42%), Gaps = 74/306 (24%)
Query: 47 QNYPTPLSPPLP--AISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYC 104
Q + L PP+P +++DI LT +++ED L+ V+KP G+
Sbjct: 64 QRFTITLPPPVPLDTVAQDIPLT------------------IVHEDADLLVVDKPAGLVV 105
Query: 105 ESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKL 164
++ L +G+LS G + + +R+D+DTSG++V+ K+ + L
Sbjct: 106 HPAAGNLDGTLVNALLHHCAGQLS-GIG-GVARPGIVHRIDKDTSGLLVVAKTDRAHEGL 163
Query: 165 VKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVV 223
+ F DH + + Y A+ G P P T+ S GRS D R
Sbjct: 164 ARQFKDHSIERAYAAITYGIPVPPAG--TVDSWIGRS-----------DADR-------- 202
Query: 224 RDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRT 283
+ ++V+ EG K + V + + D + LV +GRT
Sbjct: 203 -------KKMAVHREGRGK-----------HAVTHYRTL---DRLRGAALVECRLETGRT 241
Query: 284 HQIRLHCQYLGISIRGDVKY-------EGVYEWNGKRYDGHELHAESLSFDHPVTGCPVM 336
HQ+R+H ++G + GD Y + + E G R LHA L F HPVT P+M
Sbjct: 242 HQVRVHMAHIGHPLIGDPVYGRERKGFKSILETLGFRRQA--LHARMLGFIHPVTDEPLM 299
Query: 337 VQAPLP 342
++ LP
Sbjct: 300 FESALP 305
>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 = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 74/271 (27%), Positives = 110/271 (40%), Gaps = 60/271 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLLAGDSAESKSGRLSEGTKLNLLELH 139
+++YED+ ++ VNKPQG+ V LL +G G
Sbjct: 82 EIVYEDDDVLVVNKPQGMVVHPSAGHPNHTLVNALLYHCPLSHINGEYRPG--------- 132
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
+ +R+D+DTSG++++ K+ + L + Y+AL G K + TI + GR
Sbjct: 133 IVHRIDKDTSGLLMVAKNDRAHRSLAAQLKAKTNQREYVALVHG-VIKEDQGTIDAPLGR 191
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
S + +D R VT F VL
Sbjct: 192 SPKDRKKQAVVADG----------RPAVTHFRVL-------------------------- 215
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
K L + LV +GRTHQIR+H +Y+G + GD Y G +G L
Sbjct: 216 KRYL------HYTLVACKLETGRTHQIRVHMKYIGHPLAGDPLYGPRKTLKG---NGQYL 266
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
HA L F HPVTG ++ +APLP W + L+
Sbjct: 267 HARLLGFKHPVTGKEMVFEAPLPTWFAQMLK 297
>gi|406831769|ref|ZP_11091363.1| RluA family pseudouridine synthase [Schlesneria paludicola DSM
18645]
Length = 325
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 77/290 (26%), Positives = 121/290 (41%), Gaps = 76/290 (26%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNL---------L 136
+++ED+WL+ VNKP G L+ + ++ SG L+ + L
Sbjct: 82 IVFEDQWLLIVNKPAG------------LIIHPTGQNPSGTLTNAVQFYLDQKSSFPGEF 129
Query: 137 ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
+ + +RLDRDTSGV+ + K H L F ++SK+Y AL + G
Sbjct: 130 KPGIVHRLDRDTSGVVALAKDHLSHRLLSMQFQRERISKSYFAL-------------VDG 176
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
+S G + +GR G S + + + +V+ + S + N V
Sbjct: 177 VVKSDSGTIDL----PIGRACSGASA----LMTCQADAVDAKAS----------KTNYEV 218
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR--- 313
VE+ LV+A PR+GR HQIR+H +G + GD Y + E R
Sbjct: 219 VER--------FPRHTLVKAKPRTGRLHQIRVHFSTIGHPVVGDDFYGLLGELKPDRDRS 270
Query: 314 ------------YDGHE-LHAESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
+ G + LHA +SF HP+T APLP +A++
Sbjct: 271 LVGTEAAPPISPFIGRQALHAAEISFAHPMTSEWHTFSAPLPADMEQAIE 320
>gi|227431875|ref|ZP_03913898.1| ribosomal large subunit pseudouridine synthase D [Leuconostoc
mesenteroides subsp. cremoris ATCC 19254]
gi|227352342|gb|EEJ42545.1| ribosomal large subunit pseudouridine synthase D [Leuconostoc
mesenteroides subsp. cremoris ATCC 19254]
Length = 312
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 70/262 (26%), Positives = 107/262 (40%), Gaps = 57/262 (21%)
Query: 95 AVNKPQGVYCESVLAS-----VPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTS 149
VNKPQG+ V LL + +G G + +R+DRDTS
Sbjct: 90 VVNKPQGMVVHPAAGHSSGTLVNALLHHSPLSTINGEFRPG---------IVHRIDRDTS 140
Query: 150 GVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYA 209
G++++ K+ K L + HK + Y AL G T SG + G ++
Sbjct: 141 GLLMVAKNDKAHHSLSEQLKSHKNQRVYYALVRG------EFTEDSGTIEAPIGRHKIDR 194
Query: 210 ASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKK 269
V+ GG R+ VT F VL K+ V
Sbjct: 195 KKQA--VIEGG---REAVTHFRVL-------------------------KRYV------- 217
Query: 270 NEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHP 329
L++ +GRTHQIR+H Y+G + GD Y + +G + +G LHA++L+ + P
Sbjct: 218 GYTLLKVNLETGRTHQIRVHMSYIGHPVVGDPVYGTAQKLDGIQLNGQLLHAKTLTLEQP 277
Query: 330 VTGCPVMVQAPLPLWGTEALQS 351
TG + +PLP + AL +
Sbjct: 278 TTGDELSFDSPLPDYFQFALST 299
>gi|427703989|ref|YP_007047211.1| RluA family pseudouridine synthase [Cyanobium gracile PCC 6307]
gi|427347157|gb|AFY29870.1| pseudouridine synthase, RluA family [Cyanobium gracile PCC 6307]
Length = 316
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 71/267 (26%), Positives = 109/267 (40%), Gaps = 63/267 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL------ 138
DVL+EDE L+ +NKP G L + +K G L G + +L
Sbjct: 89 DVLFEDEHLIVINKPAG------------LTVHPAPGNKDGTLVNGLLHHCPDLPGIGGE 136
Query: 139 ---HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ +RLD+DT+G +V+ KS + KL S+ Y+A+ G P + TI++
Sbjct: 137 MRPGIVHRLDKDTTGCIVVAKSQEALVKLQVQIQQRIASREYLAVVHG-RPAAESGTIVA 195
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNI 255
GR + +D + R T + ++ G+ +
Sbjct: 196 AIGRHPVDRKKYAVVTD--------ATGRHACTHWRLIEPLGDYA--------------- 232
Query: 256 VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD 315
L+R +GRTHQIR+HC + G I GD Y G
Sbjct: 233 -----------------LLRFKLDTGRTHQIRVHCAHTGHPIVGDATY-GRCRKLPVALS 274
Query: 316 GHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA L+ DHP++G ++ +APLP
Sbjct: 275 GQALHAVRLALDHPISGERLVCEAPLP 301
>gi|91789509|ref|YP_550461.1| pseudouridine synthase RluD [Polaromonas sp. JS666]
gi|91698734|gb|ABE45563.1| Pseudouridine synthase, RluD [Polaromonas sp. JS666]
Length = 378
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 87/292 (29%), Positives = 128/292 (43%), Gaps = 66/292 (22%)
Query: 71 SASSKSSLYKLSRS-DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAES----KSG 125
ASS Y SR VL+ED++L+A++KP GV G S S +
Sbjct: 112 GASSTVGGYAPSREFPVLFEDDFLLAIDKPAGVAVH-----------GGSGVSFGVIEQL 160
Query: 126 RLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPA 185
R++ + + LEL +RLDR+TSG+++I K L + F + + K Y+AL G
Sbjct: 161 RMAR-PQADFLEL--VHRLDRETSGILLIAKRRMALKLLQEQFRERETDKVYLALVSGNW 217
Query: 186 PKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFK--- 242
P R+ + H K+ +LPGG+ GEG +
Sbjct: 218 PANHRVIDKALH---KY-------------LLPGGA---------------GEGERRVKV 246
Query: 243 EPSELQEHEENNIVVEKK---AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRG 299
P++ + + +V+ K A L A L+ ++GRTHQIR+H G I G
Sbjct: 247 VPNDHPDGMRSVTLVKVKSAFAALPAAPGTPFTLLEVTIKTGRTHQIRVHLANEGHPIAG 306
Query: 300 DVKYEGVYEWN---------GKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
D KY G +E N G LHA SL F+HP T + ++ PLP
Sbjct: 307 DDKY-GDFELNKSLQKSVAGGAPLKRMFLHAWSLKFNHPKTRKTIHLETPLP 357
>gi|299771717|ref|YP_003733743.1| 23S rRNA pseudouridylate synthase [Acinetobacter oleivorans DR1]
gi|298701805|gb|ADI92370.1| 23S rRNA pseudouridylate synthase [Acinetobacter oleivorans DR1]
Length = 310
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 78/268 (29%), Positives = 117/268 (43%), Gaps = 57/268 (21%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S V+YEDE L+ VNKP G+ L+ ++ R + G K L L +R
Sbjct: 95 SRVVYEDEGLLVVNKPSGIAVHGGSGMAYGLI-------EALRAATGKKY----LELIHR 143
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DRDTSG+++I+K +L +HK+ KTY A+ G
Sbjct: 144 IDRDTSGLVMISKKRSTLKQLQDMLREHKIRKTYAAIVKGQV------------------ 185
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + L ++R +E+ NGE + + + + +V E+
Sbjct: 186 --------SLDKQLIDAPLLR-----YEL--ANGERRVRVTKDGKPSKTEWVVAER---- 226
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
KN LV A P SGRTHQIR+H +G + GD KY E+ G LHA
Sbjct: 227 ----FKNATLVHASPLSGRTHQIRVHGLSIGHPLIGDDKYGHTTEYTGPEARRLCLHA-- 280
Query: 324 LSFDHPVTGCPVMVQAPLPLWGTEALQS 351
+ D P G P ++APLP T+ L++
Sbjct: 281 MRLDIP--GYPP-IEAPLPEDMTQLLKA 305
>gi|197284738|ref|YP_002150610.1| 23S rRNA pseudouridylate synthase C [Proteus mirabilis HI4320]
gi|227357743|ref|ZP_03842092.1| ribosomal large subunit pseudouridine synthase C [Proteus mirabilis
ATCC 29906]
gi|425067715|ref|ZP_18470831.1| ribosomal large subunit pseudouridine synthase C [Proteus mirabilis
WGLW6]
gi|425072935|ref|ZP_18476041.1| ribosomal large subunit pseudouridine synthase C [Proteus mirabilis
WGLW4]
gi|194682225|emb|CAR41940.1| ribosomal large subunit pseudouridine synthase C [Proteus mirabilis
HI4320]
gi|227162072|gb|EEI47086.1| ribosomal large subunit pseudouridine synthase C [Proteus mirabilis
ATCC 29906]
gi|404596709|gb|EKA97229.1| ribosomal large subunit pseudouridine synthase C [Proteus mirabilis
WGLW4]
gi|404600915|gb|EKB01340.1| ribosomal large subunit pseudouridine synthase C [Proteus mirabilis
WGLW6]
Length = 317
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 74/260 (28%), Positives = 113/260 (43%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++ +NKP G ++ G A R L L +RLD
Sbjct: 94 ILYEDEHVMLINKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 143
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV++I K L + ++ K Y+AL G +W+ T
Sbjct: 144 RDTSGVLLIAKKRSALRSLHEQLRLKQMQKDYLALVRG---QWQSHT------------- 187
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G V+ V+ EG +PSE + E
Sbjct: 188 KVVQAPLLKNILQSGE---------RVVKVSSEG---KPSETRFKVEERF---------- 225
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK----RYDGHELHA 321
+ LV+A P +GRTHQIR+H + G I D +Y G +++ + + + LHA
Sbjct: 226 ---EFATLVKASPVTGRTHQIRVHTLHAGHPIAFDDRY-GDRDFDTQLASTKLNRLFLHA 281
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
SL+F HP TG + ++AP+
Sbjct: 282 SSLTFIHPSTGEKMRIEAPM 301
>gi|146278539|ref|YP_001168698.1| RluA family pseudouridine synthase [Rhodobacter sphaeroides ATCC
17025]
gi|145556780|gb|ABP71393.1| ribosomal large subunit pseudouridine synthase C [Rhodobacter
sphaeroides ATCC 17025]
Length = 346
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 84/300 (28%), Positives = 129/300 (43%), Gaps = 55/300 (18%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLP D + R ++ S ++ + V+Y+D ++ +NKP G+ P
Sbjct: 65 PPLP----DPDAPRPQASRVTKSDEQMIQDCVIYKDNDIIVLNKPAGL---------PSQ 111
Query: 115 LAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKV 173
E L+E K E L +RLD+DTSGV+V+ ++ +VA L ++F
Sbjct: 112 GGSGQGERHVDGLTEALKFGYKERPKLVHRLDKDTSGVLVLARTDRVARALSESFRHRNT 171
Query: 174 SKTYIALCIG-PAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEV 232
K Y AL G P+PK G K+ + A+ GR GG ++
Sbjct: 172 RKIYWALVAGVPSPK---------QGSIKYA---LMKAAGHGR---GGE-------GEKM 209
Query: 233 LSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY 292
L ++ P+++ ++ E L + + + P +GRTHQ+R H
Sbjct: 210 LCIH-------PAKVGDYPEAKRAQTDFFTLWFLGTRCAWMALS-PITGRTHQLRAHMAE 261
Query: 293 LGISIRGDVKYEGVYEWN-----GKRYDGH-----ELHAESLSFDHPVTGCPVMVQAPLP 342
LG I GD KY G + N G + G LHA SL+ +HP+ V APLP
Sbjct: 262 LGHPIVGDGKYGGSSQENAGDGWGAQIGGEVSRKLHLHARSLTIEHPIRKELVTFTAPLP 321
>gi|257885366|ref|ZP_05665019.1| ribosomal large subunit pseudouridine synthase [Enterococcus
faecium 1,231,501]
gi|257821222|gb|EEV48352.1| ribosomal large subunit pseudouridine synthase [Enterococcus
faecium 1,231,501]
Length = 299
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 82/290 (28%), Positives = 125/290 (43%), Gaps = 57/290 (19%)
Query: 57 LPAISKDIELTRAMSASSKSSLYKLSRS--DVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
L +++KD ++T + A + L + D++YEDE ++ VNKP GV +S+P
Sbjct: 49 LFSLAKDDKVTIVIPAEGEHETVLLDETPIDIVYEDEHVLVVNKPAGV------SSIPAQ 102
Query: 115 LAGDSAESKSGRLSEGTKLNLLE---LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH 171
+ + + R+ K E +H+ RLDRDTSG+M+ K +KL +
Sbjct: 103 YHPNG--TMANRVKAYYKKQGYENQVIHVVTRLDRDTSGLMLFAKHGFAHAKLDMQLREK 160
Query: 172 KVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFE 231
K K Y AL G R++ +S HGR R Y+ S+++ MV+
Sbjct: 161 KFVKKYQALVSG------RLSDLSAHGRIDLPIARDYS-----------SLLKRMVSD-- 201
Query: 232 VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQ 291
EG + +EK+ A LV +GRTHQIR+H
Sbjct: 202 ------EG---------RSAQTEYWIEKRLTEIA-------LVDIQLHTGRTHQIRVHFS 239
Query: 292 YLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPL 341
+G ++ GD Y G + KR LH L F HP T + + PL
Sbjct: 240 TIGCALLGDDMYGGRMDLGIKR---QALHCYDLRFYHPFTEELLEFKQPL 286
>gi|339504824|ref|YP_004692244.1| ribosomal large subunit pseudouridine synthase C [Roseobacter
litoralis Och 149]
gi|338758817|gb|AEI95281.1| ribosomal large subunit pseudouridine synthase C [Roseobacter
litoralis Och 149]
Length = 346
Score = 77.8 bits (190), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 81/305 (26%), Positives = 122/305 (40%), Gaps = 65/305 (21%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLP + + R+ +++ + KL +S V+Y D+ ++A+NKP G+ +
Sbjct: 65 PPLPDTAAPAPVARSAVSAADA---KLIQSCVIYRDDHIIAINKPAGLPTQ--------- 112
Query: 115 LAGDSAESKS-GRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHK 172
G S +++ LSE K + L +RLD+DTSGV+++ ++ A L A +
Sbjct: 113 --GGSGQTRHVDGLSEALKFGFEDKPRLVHRLDKDTSGVLLLARTRMAAKALTTAMRHKE 170
Query: 173 VSKTYIALCIG-PAPKWKRITI----ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMV 227
K Y AL G P P I GHGR G + PG +
Sbjct: 171 TRKIYWALVAGVPTPYLGEIRYALVKAPGHGRRGEGEKMIALPPREVDETPGAKRAHTLY 230
Query: 228 TSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIR 287
+ V S+ V P +GRTHQ+R
Sbjct: 231 ATL--YRVGSRASW--------------------------------VAMEPITGRTHQLR 256
Query: 288 LHCQYLGISIRGDVKYEGVYEWN-----GKRYDG-----HELHAESLSFDHPVTGCPVMV 337
+H +G I GD KY G + N G + G LHA + F+HP T PV +
Sbjct: 257 VHMAEIGHPIVGDGKYGGSGQENMGDGWGAQLGGVISKKLHLHARMMRFEHPETRKPVTI 316
Query: 338 QAPLP 342
A +P
Sbjct: 317 TADMP 321
>gi|377577587|ref|ZP_09806569.1| 23S rRNA pseudouridine synthase RluC [Escherichia hermannii NBRC
105704]
gi|377541325|dbj|GAB51734.1| 23S rRNA pseudouridine synthase RluC [Escherichia hermannii NBRC
105704]
Length = 325
Score = 77.8 bits (190), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 74/260 (28%), Positives = 110/260 (42%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 103 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 152
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + ++ K Y+AL G +W+
Sbjct: 153 RDTSGVLLVAKKRSALRSLHEQLRGKEMQKDYLALVRG---QWQ-------------SHV 196
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PS E VE++
Sbjct: 197 KVVQAPLLKNILQSGE---------RIVRVNSEG---KPS------ETRFKVEERYAFAT 238
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE----LHA 321
LVR P +GRTHQIR+H Q+ G I D +Y G +++ + LHA
Sbjct: 239 -------LVRCSPVTGRTHQIRVHTQHAGHPIAFDDRY-GDRDFDRQLAKTGLSRLFLHA 290
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP TG + V+APL
Sbjct: 291 AALKFQHPHTGETLRVEAPL 310
>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 = 77.8 bits (190), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 72/281 (25%), Positives = 112/281 (39%), Gaps = 84/281 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YED+ ++ +NKP+ D +GT LN L LH
Sbjct: 85 DIVYEDDDILVINKPR-----------------DFVVHPGAGTPDGTILNAL-LHYCPSL 126
Query: 140 -------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRIT 192
+ +RLD+DT+G+MV+ K+ + ++LV+A K+++ Y AL IG I
Sbjct: 127 AEVPRAGIVHRLDKDTTGLMVVAKTIQAQTRLVRALQKRKITREYEALAIGQMTGGGTIE 186
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
G +K V+ +D +T + V +EH
Sbjct: 187 KPIGRHSTKRICMAVHEMG------------KDAITHYRV-----------AERFREH-- 221
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGV------ 306
I++R +GRTHQIR+H Y+ + GDV Y G
Sbjct: 222 -----------------TRIVLRL--ETGRTHQIRVHMSYMSHPLIGDVIYGGRPRPPRD 262
Query: 307 ----YEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPL 343
+ + +D LHA L DHP+TG + APLP+
Sbjct: 263 ASPEFIQALRAFDRQALHARMLRLDHPITGEKMEWHAPLPI 303
>gi|417843751|ref|ZP_12489819.1| putative pseudouridine synthase, RsuA and RluB/C/D/E/F [Haemophilus
haemolyticus M21127]
gi|341948664|gb|EGT75284.1| putative pseudouridine synthase, RsuA and RluB/C/D/E/F [Haemophilus
haemolyticus M21127]
Length = 224
Score = 77.8 bits (190), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 65/249 (26%), Positives = 111/249 (44%), Gaps = 66/249 (26%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN 142
+ +V+Y+ + +NKP+G+ D E L +LN+ ++ L +
Sbjct: 2 KIEVVYQHSDFIIINKPEGISVHK-----------DQEEQGLTELV-AKQLNVPQVWLVH 49
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD+ TSG++++ + + A++ + F++HK+ KTY+AL PK K+ II +++
Sbjct: 50 RLDKVTSGLLILALNAESAAEFSRLFSEHKIHKTYLALS-NQKPKKKQGLIIGDMKKARD 108
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
GAW++ D +T FE +S EP+
Sbjct: 109 GAWKLCQTKD-----------NPAITRFESVSC-------EPN----------------- 133
Query: 263 LDADAKKNEILVRAF---PRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
+R F P++G+THQ+R+ + LG I GD G+Y N + D L
Sbjct: 134 -----------LRLFILKPQTGKTHQLRVAMKSLGSPILGD----GLYGKNTEEIDRTYL 178
Query: 320 HAESLSFDH 328
HA L FD+
Sbjct: 179 HAAQLEFDY 187
>gi|209517244|ref|ZP_03266089.1| pseudouridine synthase, RluA family [Burkholderia sp. H160]
gi|209502380|gb|EEA02391.1| pseudouridine synthase, RluA family [Burkholderia sp. H160]
Length = 349
Score = 77.8 bits (190), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 74/266 (27%), Positives = 119/266 (44%), Gaps = 59/266 (22%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+L+EDE L+ ++KP GV + + G + + R + LEL +RLD
Sbjct: 109 ILFEDEHLLVIDKPAGV----AVHGGSGVAFGVIEQMREAR----PQAKFLEL--VHRLD 158
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSG++++ K L + ++++ K Y A C+ G W
Sbjct: 159 RETSGILMLAKKRAALVNLHEQIRENRMDKRYYA-CV-------------------HGEW 198
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSE-LQEHEENNIVVEKKAVLD 264
A+D GR V++ + + L+ +GE + ++ L H N+V
Sbjct: 199 ----ATDWGRR----RAVKEPLHKY--LTADGERRVRVQADGLASHTIFNLV-------- 240
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------ 318
D + L+ A ++GRTHQIR+H Q+L + I GD KY G + N +
Sbjct: 241 -DRWPDYALLEAELKTGRTHQIRVHLQHLALPIVGDAKY-GDFALNKALARANAKPGIKR 298
Query: 319 --LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP TG P+ ++APLP
Sbjct: 299 MFLHAYRLKLTHPATGAPLQLEAPLP 324
>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 = 77.8 bits (190), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 73/263 (27%), Positives = 114/263 (43%), Gaps = 59/263 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED ++ VNKP+G+ V+ P + G + + + +N +L + +R
Sbjct: 81 DIYYEDADVLVVNKPRGM----VVHPAPGHMHGTLVNALLAHCQDLSGINGVLRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG+++I K+ LV + V++ Y+A+ G P TI + GR
Sbjct: 137 IDKDTSGLLMIAKNDLAHESLVNQLVNKTVTRKYVAIVHGVIPH-DYGTIDAPIGRDPRD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ A + G+ + VT F VL +F E +L+
Sbjct: 196 RQSM-AVVENGK---------EAVTHFRVLERFEHYTFLE-CQLE--------------- 229
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
+GRTHQIR+H +Y+G + GD KY G R DG L
Sbjct: 230 ----------------TGRTHQIRVHMKYIGYPLAGDPKY-------GPRKTLPIDGQAL 266
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA L F HP TG + +AP+P
Sbjct: 267 HAGVLGFHHPRTGEYLQFEAPIP 289
>gi|406025690|ref|YP_006705991.1| RNA pseudouridine synthase [Cardinium endosymbiont cEper1 of
Encarsia pergandiella]
gi|404433289|emb|CCM10571.1| Uncharacterized RNA pseudouridine synthase Cpar_0723 [Cardinium
endosymbiont cEper1 of Encarsia pergandiella]
Length = 352
Score = 77.8 bits (190), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 75/284 (26%), Positives = 114/284 (40%), Gaps = 84/284 (29%)
Query: 85 DVLYEDEWLVAVNKP------------QGVYCESVLASVPCLLAGDSAESKSGRLSEGTK 132
D++YED+ L+ V+KP G +L L D ++ G
Sbjct: 91 DIVYEDDHLLVVHKPAQMVVHPDTAHQTGTLAHGLLHRYKNLPLKDDMPTRPG------- 143
Query: 133 LNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRIT 192
L +R+D+DTSG++V+ K+ + + L + F +H V + Y AL G P+ T
Sbjct: 144 -------LVHRIDKDTSGLLVVAKTAESLAHLSRQFYNHTVKRIYHALVWG-NPENGCGT 195
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
I G+S+ P G + VT ++V+ LQ+
Sbjct: 196 IDLNIGKSR--------RHQKSLAFPDG---KKAVTHYQVIK-----------PLQQ--- 230
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
LV +GRTHQIR+H Q +G + GD +Y G G+
Sbjct: 231 ------------------VALVACRLETGRTHQIRVHMQQIGHPVFGDPQYGGDAIVKGQ 272
Query: 313 RYDGHE--------------LHAESLSFDHPVTGCPVMVQAPLP 342
RY ++ LHA L F+HPVTG P+ +A LP
Sbjct: 273 RYASYKAFIRNCFKLMPYQALHAAVLGFNHPVTGAPLSFEAALP 316
>gi|410098064|ref|ZP_11293045.1| RluA family pseudouridine synthase [Parabacteroides goldsteinii
CL02T12C30]
gi|409224154|gb|EKN17089.1| RluA family pseudouridine synthase [Parabacteroides goldsteinii
CL02T12C30]
Length = 541
Score = 77.8 bits (190), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 74/267 (27%), Positives = 112/267 (41%), Gaps = 64/267 (23%)
Query: 76 SSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESK-SGRLSEGTKLN 134
+ L++ + ++L+ED WLVA+NKP G + SVP DS + R E T
Sbjct: 330 NDLHRGTELEILFEDNWLVAINKPAG------MLSVPGKADIDSVYHRLKARYPEATGPM 383
Query: 135 LLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITII 194
++ +RLD TSG++++ K+ +V L F V K Y AL G T+I
Sbjct: 384 IV-----HRLDMATSGILLVAKTKEVHQNLQAQFKSRMVKKRYAALLDG--------TVI 430
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
G D R + + +T ++VL+ NG
Sbjct: 431 PKEGIIDLPL--CLDPMDRPRQIVSTEHGKPAITQYKVLAHNG----------------- 471
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY-LGIS--IRGDVKYEGVYEWNG 311
N + +P +GRTHQ+R+H + LG++ I GD Y G
Sbjct: 472 ---------------NRTRITFYPLTGRTHQLRVHASHPLGLNAPIIGDELY-------G 509
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQ 338
K D LHAE L F HPV+G + ++
Sbjct: 510 KGADRLYLHAEFLEFRHPVSGQIIRIE 536
>gi|359406913|ref|ZP_09199557.1| pseudouridine synthase, RluA family [Prevotella stercorea DSM
18206]
gi|357554655|gb|EHJ36369.1| pseudouridine synthase, RluA family [Prevotella stercorea DSM
18206]
Length = 610
Score = 77.8 bits (190), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 81/292 (27%), Positives = 127/292 (43%), Gaps = 60/292 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKL---NLLELHLAN 142
VLY DE+++ V+KP G + SVP ++ S + +K N L A+
Sbjct: 337 VLYADEYILVVDKPAG------MLSVPGKADDSASVSVEEYFANNSKFKTQNSKFLKAAH 390
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD DTSG++V+ ++ + +L + F + K Y A+ G PK I+ G +
Sbjct: 391 RLDMDTSGLLVLARTEQAYVELQRQFASRETVKRYEAVLSG-VPK----HIVGG-----Y 440
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSF---EVLSVN----GEGSFKEP--SELQEHEEN 253
G V A+ + G +R S E ++ G P +++ +
Sbjct: 441 GIPAVAIANSCSHLYFYGQGLRQECRSLLRLEPFAIQFAKYSSGCISLPLIADINDRPRQ 500
Query: 254 NI-------------VVEKKAVLDAD---------AKKNEILVRAFPRSGRTHQIRLHC- 290
+ +VE +A DA+ A K+ LV +P++GRTHQ+R+HC
Sbjct: 501 RVDMEHGKPALTLYNIVEVRAA-DANTAVAYTTKKADKSLTLVHLYPKTGRTHQLRVHCA 559
Query: 291 --QYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAP 340
Q L I GD Y +R D LHA L+F HP+TG P+ +P
Sbjct: 560 HPQGLACPILGDPLY------GTERADRMYLHAAELTFRHPITGEPMHFLSP 605
>gi|312795518|ref|YP_004028440.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
rhizoxinica HKI 454]
gi|312167293|emb|CBW74296.1| Ribosomal large subunit pseudouridine synthase C (EC 4.2.1.70)
[Burkholderia rhizoxinica HKI 454]
Length = 336
Score = 77.8 bits (190), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 76/268 (28%), Positives = 115/268 (42%), Gaps = 63/268 (23%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
VLYED+ L+A++KP G+ ++ A R+ L L +RLD
Sbjct: 99 VLYEDDCLIALDKPAGIAVHGGSGVSFGVIEQMRAARPGARM----------LELVHRLD 148
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSGV+++ K L + + ++ K Y+A GAW
Sbjct: 149 RETSGVLLLAKKRAALVGLHEQIREGRLDKRYLACA--------------------RGAW 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTS--FEVLSVNGEGSFK-EPSELQEHEENNIVVEKKAV 262
P VR V + + L+ +GE + +P L H N+ ++ +
Sbjct: 189 ------------PADWGVRRAVKAPLHKYLTADGERRVRVQPDGLGSHTVFNL---RQRL 233
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN------GKRYDG 316
D +L+ A ++GRTHQIR+H +LG+ I GD KY G + N G R
Sbjct: 234 GD------YLLLEAELKTGRTHQIRVHLAHLGLPIVGDDKY-GDFSLNKNLARPGVRPGL 286
Query: 317 HE--LHAESLSFDHPVTGCPVMVQAPLP 342
LHA LS HP +G P+ +APLP
Sbjct: 287 RRMFLHAWRLSIQHPASGAPLSFEAPLP 314
>gi|412993651|emb|CCO14162.1| RNA pseudouridine synthase [Bathycoccus prasinos]
Length = 458
Score = 77.4 bits (189), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 78/306 (25%), Positives = 121/306 (39%), Gaps = 66/306 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+V++E+E ++ VNKP + + L G+ E ++ +RL
Sbjct: 157 EVIFENEDILVVNKPPYLRTHPIHRHTGTSLINRCISHLGGK----------ECYIVHRL 206
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI-------ISGH 197
D DTSGV++ K+ + + F + KTY+ALC+G P K IS
Sbjct: 207 DMDTSGVILFVKNPLLTRGFAEQFMTREAKKTYLALCVGVLPLGKEEVQAFEVNAPISSC 266
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSF---KEPSE-------L 247
+ K G +A D+ ++ T+F+ S + P+E L
Sbjct: 267 NKCKEGRAVSFATDDLE--------AKESRTTFDFFSWKKDDELAIDSLPTERARGVSIL 318
Query: 248 QEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---- 303
E EN V +K + LV A P++GRTHQIR+H + G+ I GD+ Y
Sbjct: 319 LEGTENTNVEKKNESGSWNPISVAALVLASPKTGRTHQIRVHLAHAGLPILGDMLYGPHA 378
Query: 304 ----------------EGVYEW-----------NGKRYDGHELHAESLSFDHPVTGCPVM 336
+ Y+W +G D LHA L HP+T +
Sbjct: 379 RWVVPRCDAWSDDSTSKPRYKWSADKPKGKWAKDGLDLDRQALHAYRLEVTHPLTNERLS 438
Query: 337 VQAPLP 342
+APLP
Sbjct: 439 FEAPLP 444
>gi|190891935|ref|YP_001978477.1| RNA-pseudouridine synthase, ribosomal large subunit C [Rhizobium
etli CIAT 652]
gi|190697214|gb|ACE91299.1| RNA-pseudouridine synthase protein, ribosomal large subunit C
[Rhizobium etli CIAT 652]
Length = 330
Score = 77.4 bits (189), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 79/274 (28%), Positives = 109/274 (39%), Gaps = 58/274 (21%)
Query: 76 SSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNL 135
SS + L VL+EDE ++ +NKP G+ + A L T
Sbjct: 86 SSDFDLLSRMVLHEDEKVIVLNKPPGIAVQG---------GSGVARHIDQMLEAWTSPKG 136
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ L +RLDRDTSGV+VI ++ A KL AF + KTY AL G K +
Sbjct: 137 EKPRLVHRLDRDTSGVLVIARTRGAAQKLTAAFRERDTKKTYWALVKGVPRKHE------ 190
Query: 196 GHGRSKFGAWRVYAASDVG---RVLPGGSVVRDMVTSF-EVLSVNGEGSFKEPSELQEHE 251
K W V A+ G R+ G D SF VL
Sbjct: 191 ----DKISTWLVKEATADGDRMRIAKHGEDGADHAISFYRVLET---------------- 230
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYE 308
A +N + P +GRTHQ+R+H ++G I GD KY + ++
Sbjct: 231 ---------------AAQNLAWLEMEPYTGRTHQLRVHALHIGHPIIGDPKYFDDDPNWD 275
Query: 309 WNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ G LHA + HP +G + V APLP
Sbjct: 276 FPGGIQKKLHLHARHIDIPHP-SGGRLRVSAPLP 308
>gi|163751081|ref|ZP_02158312.1| RluC [Shewanella benthica KT99]
gi|161329242|gb|EDQ00241.1| RluC [Shewanella benthica KT99]
Length = 319
Score = 77.4 bits (189), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 78/272 (28%), Positives = 110/272 (40%), Gaps = 54/272 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++ED++++ +NKP G+ G + + L L +RLD
Sbjct: 98 IVFEDKFIIVLNKPSGIAVH----------GGSGVDFGVIEAMRALRPTQKFLELVHRLD 147
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSGV++I K L K+ K Y AL G W+ R K
Sbjct: 148 KDTSGVLLIAKKRSALRHLHDQLRFKKMQKDYQALVKGT---WQ--------ARDK---- 192
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
V A + L G ++ VN EG +E E ++++
Sbjct: 193 -VIKAPLLKLTLKSGE---------RIVRVNQEG--------KECETRFKILQRY----- 229
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE---LHAE 322
+ LV+A P +GRTHQIR+HCQY G I D KY + R G LHA
Sbjct: 230 ---QGATLVQASPVTGRTHQIRVHCQYAGHPIACDDKYSEQRFDDTMRVHGLNRLFLHAA 286
Query: 323 SLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
L F HP T ++VQAPL TE L K
Sbjct: 287 QLRFTHPGTEEIMIVQAPLDPVLTETLDKLVK 318
>gi|119383542|ref|YP_914598.1| RluA family pseudouridine synthase [Paracoccus denitrificans
PD1222]
gi|119373309|gb|ABL68902.1| ribosomal large subunit pseudouridine synthase C [Paracoccus
denitrificans PD1222]
Length = 348
Score = 77.4 bits (189), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 80/286 (27%), Positives = 118/286 (41%), Gaps = 59/286 (20%)
Query: 73 SSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTK 132
S K S ++ +S VL+ DE ++A+NKP G L + R +G
Sbjct: 80 SVKQSDAEMIQSCVLWRDEHIIALNKPPG-------------LPSQGGSGQGDRHVDGLT 126
Query: 133 LNLL-----ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAP 186
L+ L +RLD+DTSGV+++ ++ ++A L +AF K Y A G P P
Sbjct: 127 TALMFGYKDRPKLVHRLDKDTSGVLLLARTDRIARALSEAFRHRLTRKIYWAAVAGVPHP 186
Query: 187 KWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSE 246
+ G K+G L ++++V+ PS
Sbjct: 187 R---------MGSIKYG-------------LVKAPGRGRGGEGEKMMAVH-------PSA 217
Query: 247 LQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGV 306
+ E AVLDA + V P +GRTHQ+R H +G I GD KY G
Sbjct: 218 VAATEGAKRAHTDYAVLDALGGRVS-WVAMVPVTGRTHQLRAHMAEIGHPIVGDGKYGGS 276
Query: 307 YEWN-----GKRYDGH-----ELHAESLSFDHPVTGCPVMVQAPLP 342
+ N G + G LHA + F+HP+T + V APLP
Sbjct: 277 GQENLGDGWGAQLGGEISRKLHLHARMIRFEHPITKKLITVTAPLP 322
>gi|417104037|ref|ZP_11961267.1| RNA-pseudouridine synthase protein, ribosomal large subunit C
[Rhizobium etli CNPAF512]
gi|327191042|gb|EGE58095.1| RNA-pseudouridine synthase protein, ribosomal large subunit C
[Rhizobium etli CNPAF512]
Length = 330
Score = 77.4 bits (189), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 78/274 (28%), Positives = 110/274 (40%), Gaps = 58/274 (21%)
Query: 76 SSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNL 135
SS ++L VL+ED+ ++ +NKP G+ + A L T
Sbjct: 86 SSDFELLSRMVLHEDDKVIVLNKPPGIAVQG---------GSGVARHIDQMLEAWTSPKG 136
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ L +RLDRDTSGV+VI ++ A KL AF + KTY AL G K +
Sbjct: 137 EKPRLVHRLDRDTSGVLVIARTRGAAQKLTAAFRERDTKKTYWALVKGVPRKHE------ 190
Query: 196 GHGRSKFGAWRVYAASDVG---RVLPGGSVVRDMVTSF-EVLSVNGEGSFKEPSELQEHE 251
K W V A+ G R+ G D SF VL
Sbjct: 191 ----DKISTWLVKEATADGDRMRIAKHGEDGADHAISFYRVLET---------------- 230
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYE 308
A +N + P +GRTHQ+R+H ++G I GD KY + ++
Sbjct: 231 ---------------AAQNLAWIEMEPYTGRTHQLRVHALHIGHPIIGDPKYFDDDPNWD 275
Query: 309 WNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ G LHA + HP +G + V APLP
Sbjct: 276 FPGGIQKKLHLHARHIDIPHP-SGGRLRVSAPLP 308
>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 = 77.4 bits (189), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 73/268 (27%), Positives = 119/268 (44%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L F+HP TG + +AP+P EAL
Sbjct: 270 GILGFEHPRTGEYIEFEAPIPKVFEEAL 297
>gi|157827593|ref|YP_001496657.1| ribosomal large subunit pseudouridine synthase [Rickettsia bellii
OSU 85-389]
gi|157802897|gb|ABV79620.1| Ribosomal large subunit pseudouridine synthase [Rickettsia bellii
OSU 85-389]
Length = 310
Score = 77.4 bits (189), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 78/296 (26%), Positives = 126/296 (42%), Gaps = 61/296 (20%)
Query: 49 YPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVL 108
+ P++ P + D E+T A K++ ++YED+ ++A+NKP G+ +
Sbjct: 72 FNLPIAQPTKLVFTDAEITLAK---------KITTEYLIYEDDNIIAINKPAGLATQ--- 119
Query: 109 ASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAF 168
L+ DSA S+G + L +RLD++TSG+++I K++ + KL AF
Sbjct: 120 GGSKINLSVDSALKYLN--SQGA-----DFKLVHRLDKETSGLLLIAKNYVSSVKLHDAF 172
Query: 169 TDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVT 228
+ V KTY+A+ G K D G V T
Sbjct: 173 KEKLVEKTYLAVTYGKPIK------------------------DQGEV----------KT 198
Query: 229 SFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRL 288
+ E +GS + +++ ++ + K L N LV P +GR HQ+RL
Sbjct: 199 NIE----KSKGSIPKITDINDNNGKLAITYYK--LLKSLTNNLFLVEFIPITGRMHQLRL 252
Query: 289 HCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLW 344
H + LG I GD KY +Y LHA ++ V G V ++A LP +
Sbjct: 253 HAKLLGCPIFGDNKYGNDKLMPYSKY--MFLHANNIVLSKKVFGKEVNLEAKLPSY 306
>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 = 77.4 bits (189), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 69/268 (25%), Positives = 115/268 (42%), Gaps = 66/268 (24%)
Query: 85 DVLYEDEWLVAVNKPQGV--------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL 136
D++YEDE L+ +NKP G+ Y ++++ + S E+ G L G
Sbjct: 76 DIVYEDEHLIVINKPSGLVVHPAPGHYSQTLVNGLIYHFKNLSNEN--GLLRPG------ 127
Query: 137 ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
+ +R+D+DTSG+++I K+++V L K +H++ ++YIA I+ G
Sbjct: 128 ---IVHRIDKDTSGLLIIAKTNQVHQLLAKMLKNHEIKRSYIA-------------IVEG 171
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
+K V LP G +D E+ + N + + +++
Sbjct: 172 FFENKI----------VHLNLPIGRSQKDR-KKMEITNNNSKNAITHVYLIKQ-----FY 215
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD- 315
EK+ + LV +GRTHQIR+H Y + D Y GK +
Sbjct: 216 YEKQPLS---------LVECQLETGRTHQIRVHLNYFKHPVWNDPLY-------GKSFSD 259
Query: 316 -GHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA L F HP+T + + P+P
Sbjct: 260 YGQYLHAYKLFFVHPITNQELTFEIPMP 287
>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 = 77.4 bits (189), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 77/278 (27%), Positives = 114/278 (41%), Gaps = 67/278 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN--- 142
++Y+D + +NKPQG+ SA +G L ++ +L N
Sbjct: 81 IVYQDADVAVINKPQGMVVHP------------SAGHPNGTLVNALLYHMDDLSTINDVV 128
Query: 143 ------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
R+D+DTSG+++I K+ + L K D + Y+AL G K TI +
Sbjct: 129 RPGIVHRIDKDTSGLLMIAKNDQAHESLAKQLKDKTSLRKYVALVHGNISHEKG-TINAP 187
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
GRSK ++ A + G+ P VT F VL F + +
Sbjct: 188 IGRSKVN-RKMQAVIENGK--PA-------VTHFTVLE-----RFDQFT----------- 221
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
LV +GRTHQIR+H QY+G + GD Y G +G
Sbjct: 222 ----------------LVELQLETGRTHQIRVHMQYIGFPLAGDPIYGPKRTLKG---NG 262
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
LHA+ L F HP TG ++ +APLP + L+ K
Sbjct: 263 QFLHAKLLGFAHPATGESMVFEAPLPELFADTLKKLRK 300
>gi|291519437|emb|CBK74658.1| ribosomal large subunit pseudouridine synthase D [Butyrivibrio
fibrisolvens 16/4]
Length = 305
Score = 77.4 bits (189), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 72/277 (25%), Positives = 115/277 (41%), Gaps = 63/277 (22%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+LYED ++ VNKP+G+ + L + DS +G + G
Sbjct: 82 DILYEDSDVIVVNKPKGMVVHPAPGHYSGTLVNALMYHCKDSLSGINGEIRPG------- 134
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D +T+G +++ K+ K + + H V++ Y + +G K + TI +
Sbjct: 135 --IVHRIDMNTTGSLLVCKNDKAHNDIAAQIKVHSVNRIYKGIVVGNF-KEEEGTINANI 191
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR+ ++ SD R+ +T + VL +K S +Q E
Sbjct: 192 GRNPKDRKKMAVVSDG----------REAITHYTVLE-----QYKGFSYVQFKLE----- 231
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
+GRTHQIR+H ++G + GD VY K +G
Sbjct: 232 ----------------------TGRTHQIRVHMAHIGHPLLGD----DVYGKPVKGLEGQ 265
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
LHA++L F P TG V V APLP + E L K
Sbjct: 266 TLHAQTLGFVQPTTGEYVEVNAPLPAYFEELLTKYRK 302
>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 = 77.4 bits (189), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 81/321 (25%), Positives = 131/321 (40%), Gaps = 76/321 (23%)
Query: 39 SQNAPQTQQNYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNK 98
+QNA + NY + A+ D M ++ +L DV YEDE ++ +NK
Sbjct: 44 NQNA--VKANYKVKADDCITAVFND-----EMEMEARPEKMEL---DVRYEDEDVIVINK 93
Query: 99 PQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH---------LANRLDRDTS 149
P+ + +A ++SG L G + +L + +R+D+DT+
Sbjct: 94 PKNIVVHP------------AAGNQSGTLVNGLLYHCKDLSGINGTLRPGIVHRIDKDTT 141
Query: 150 GVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYA 209
G+++I K+ + L K V++ Y AL + G + FG
Sbjct: 142 GLLIIAKNDLAHASLSKQLQSKTVNRLYYAL-------------VHGVIQHDFGTIDA-- 186
Query: 210 ASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKK 269
P G V+D + ++V S + Q V+E+ +
Sbjct: 187 --------PIGRDVKDR----QKMAVTATNSKDARTHFQ-------VIERF--------E 219
Query: 270 NEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHP 329
N LV +GRTHQIR+H QY+G + GD KY + +G LH L+F HP
Sbjct: 220 NYTLVECRLETGRTHQIRVHMQYIGHPVVGDEKYS---YRKTMQTNGQLLHVHQLTFQHP 276
Query: 330 VTGCPVMVQAPLPLWGTEALQ 350
TG + V+A LP + L+
Sbjct: 277 RTGEVMTVEAELPKQFADILE 297
>gi|416053283|ref|ZP_11578781.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans serotype e str. SC1083]
gi|347991208|gb|EGY32701.1| ribosomal large subunit pseudouridine synthase C [Aggregatibacter
actinomycetemcomitans serotype e str. SC1083]
Length = 319
Score = 77.4 bits (189), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 72/265 (27%), Positives = 110/265 (41%), Gaps = 66/265 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++ED +L+ +NKP + ++ A R L L +RLD
Sbjct: 97 IIFEDNYLLVLNKPSSIAVHGGSGLDFGVIEALRALRPEARF----------LELIHRLD 146
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + V K Y+AL G +W+
Sbjct: 147 RDTSGILLVAKKRSALRNLHEQLREKTVQKDYLALVRG---QWQ-------------SHC 190
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + L GG ++ V+ +G +PSE VE++
Sbjct: 191 KVVQAPLLKNELAGGE---------RIVKVSEQG---KPSE------TRFSVEERYT--- 229
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------- 318
N LV+A P +GRTHQIR+H QY G I D KY K +D H
Sbjct: 230 ----NATLVKASPVTGRTHQIRVHTQYAGHPIAFDSKY------GDKEFDQHMAKLGLNR 279
Query: 319 --LHAESLSFDHPVTGCPVMVQAPL 341
LHA ++ F+HP +G + + APL
Sbjct: 280 LFLHAYAIRFEHPHSGEMLRLTAPL 304
>gi|260584109|ref|ZP_05851857.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Granulicatella elegans ATCC 700633]
gi|260158735|gb|EEW93803.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Granulicatella elegans ATCC 700633]
Length = 296
Score = 77.4 bits (189), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 75/263 (28%), Positives = 114/263 (43%), Gaps = 60/263 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLS---EGTKLNLLELHLA 141
D+L+ED++L+ VNKPQG AS+P L D +S + R+ + T+ H+
Sbjct: 78 DILFEDDYLLIVNKPQGT------ASIPSQLHPD--QSMANRVKGYLQTTRTQDCVTHVV 129
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
RLDRDT+GVM+ K V + + +A + + KTY A+ + ++ H
Sbjct: 130 TRLDRDTTGVMMFAKHRVVHAWMDQALRNKTIQKTYHAIV-------TKQDVLKEHD--- 179
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKE--PSELQEHEENNIVVEK 259
+ +GR S++ V +G+ S E E +H +
Sbjct: 180 ------LIDAPIGRT--DDSIINRCVRP------DGKPSLTEYWLEETYQHSQ------- 218
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
LV+ +GRTHQIR+H +LG + GD Y G R L
Sbjct: 219 -------------LVKIRLHTGRTHQIRVHFSWLGCPLLGDDLYGGEKIEPLMR---QAL 262
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
H L F HP+TG + V+A LP
Sbjct: 263 HCSQLDFVHPMTGEKMCVKALLP 285
>gi|229576378|gb|ACQ82579.1| At1g56345-like protein [Solanum hirtum]
Length = 55
Score = 77.4 bits (189), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 34/48 (70%), Positives = 44/48 (91%)
Query: 68 RAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLL 115
RA++ASSKS+L+ LSR V++EDEWL+AVNKPQG+YCESVL+S+P LL
Sbjct: 5 RALTASSKSALFSLSRCHVIFEDEWLIAVNKPQGIYCESVLSSLPDLL 52
>gi|423711105|ref|ZP_17685425.1| RluA family pseudouridine synthase [Bartonella washoensis Sb944nv]
gi|395415019|gb|EJF81454.1| RluA family pseudouridine synthase [Bartonella washoensis Sb944nv]
Length = 334
Score = 77.4 bits (189), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 79/301 (26%), Positives = 123/301 (40%), Gaps = 64/301 (21%)
Query: 64 IELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLA 116
IELT + + +K S ++ D+L+ED+ ++ +NKP G+ L +
Sbjct: 62 IELTIPVLSDAKPSGEAIAL-DILFEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIYHC 120
Query: 117 GDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH----K 172
DS G G + +RLD++TSGVMV+ K+ L F+DH
Sbjct: 121 HDSLSGIGGIKRPG---------IVHRLDKNTSGVMVVAKNDLAHQSLSAQFSDHGRTSA 171
Query: 173 VSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEV 232
+ + Y AL G +P +TI + GRS + + V S R +T +
Sbjct: 172 LDRRYHALIWG-SPSRNVLTIDASLGRSP------HNRTKQAVVHSQSSHARHAITHISL 224
Query: 233 LSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY 292
L EK L AD L+ +GRTHQIR+H +
Sbjct: 225 L------------------------EKYGTL-ADTTSFASLLECRLETGRTHQIRVHMAH 259
Query: 293 LGISIRGDVKYEGVYEWNGK-----------RYDGHELHAESLSFDHPVTGCPVMVQAPL 341
+G + GD Y ++ +++ LHA SL+F+HP TG + +PL
Sbjct: 260 IGHPLVGDTVYGNAFKTKSNVLNPIIRNAIDQFNRQALHAVSLTFEHPATGKIMSFSSPL 319
Query: 342 P 342
P
Sbjct: 320 P 320
>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 = 77.4 bits (189), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 72/263 (27%), Positives = 114/263 (43%), Gaps = 59/263 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED ++ VNKP+G+ V+ P + G + + + +N +L + +R
Sbjct: 81 DIYYEDADVLVVNKPRGM----VVHPAPGHMHGTLVNALLAHCQDLSGINGVLRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y+A+ G P TI + GR
Sbjct: 137 IDKDTSGLLMVAKNDLAHESLVNQLVNKTVTRKYVAIVHGVIPH-DYGTIDAPIGRDPRD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ A + G+ + VT F VL +F E +L+
Sbjct: 196 RQSM-AVVENGK---------EAVTHFRVLERFEHYTFVE-CQLE--------------- 229
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
+GRTHQIR+H +Y+G + GD KY G R DG L
Sbjct: 230 ----------------TGRTHQIRVHMKYIGYPLAGDPKY-------GPRKTLPIDGQAL 266
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA L F HP TG + +AP+P
Sbjct: 267 HAGVLGFQHPRTGEYLQFEAPIP 289
>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 = 77.4 bits (189), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 74/269 (27%), Positives = 117/269 (43%), Gaps = 55/269 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+V YED ++ VNKP+G+ V+ P G ++ + +N ++ + +R
Sbjct: 82 EVYYEDADVLVVNKPRGM----VVHPAPGHTKGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDVAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
V +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------FVECRLETGRTHQIRVHMRYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L FDHP TG + +AP+P EAL
Sbjct: 270 GILGFDHPRTGEYIEFEAPIPEVFEEALN 298
>gi|427418636|ref|ZP_18908819.1| ribosomal large subunit pseudouridine synthase D [Leptolyngbya sp.
PCC 7375]
gi|425761349|gb|EKV02202.1| ribosomal large subunit pseudouridine synthase D [Leptolyngbya sp.
PCC 7375]
Length = 318
Score = 77.4 bits (189), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 73/266 (27%), Positives = 103/266 (38%), Gaps = 55/266 (20%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+LYED++L+ VNKP G+ + + L + GD G G
Sbjct: 87 DILYEDQYLLVVNKPPGMVVHPAPGHPKGTLVNAVLAHCGDQLTGVGGVQRPG------- 139
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +RLD+DT+G MV+ K+ V L + Y+ +
Sbjct: 140 --IVHRLDKDTTGAMVVAKTEPVLHHLQGQIQAKTAQREYLGVV---------------- 181
Query: 198 GRSKFGAWRVYAASDVGRV-LPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
FG ++ DVG V P G +D V G +QE N +
Sbjct: 182 ----FGVPKLPENQDVGIVDAPIGRHPKDRKKMAVVPIEKGGRRAVTHWRIQERLGNYTL 237
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
V + +GRTHQIR+H LG I GD+ Y G G + G
Sbjct: 238 VHYRL-----------------ETGRTHQIRVHSALLGNPIVGDMTY-GSGRSIGVKLPG 279
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L+ HP+TG V+ APLP
Sbjct: 280 QALHARQLTLTHPITGKDVVAIAPLP 305
>gi|295687954|ref|YP_003591647.1| pseudouridine synthase [Caulobacter segnis ATCC 21756]
gi|295429857|gb|ADG09029.1| pseudouridine synthase, RluA family [Caulobacter segnis ATCC 21756]
Length = 340
Score = 77.4 bits (189), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 86/284 (30%), Positives = 110/284 (38%), Gaps = 67/284 (23%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLA-------GDSAESKSGRLSEGTKLNLLEL 138
VLYED L+ V+KP G+ S+ L GDS G G
Sbjct: 103 VLYEDAHLIVVDKPAGMAAHPAPGSLTGTLVNALLHHCGDSLSGVGGVARPG-------- 154
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
+ +RLD+DTSGVMV KS L F H + + YIAL G AP TI + G
Sbjct: 155 -IVHRLDKDTSGVMVAAKSDAAHKGLSALFATHDIDRLYIALTRG-APSPPAGTITTQLG 212
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
RS ++ VL G R+ VT + V E +F +E +
Sbjct: 213 RSPGDRKKMA-------VLRSGG--REAVTHYRV-----EAAFGP-------QEKPLAAR 251
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY----------EGVYE 308
L+ +GRTHQIR+H G GD Y E +
Sbjct: 252 VACRLE---------------TGRTHQIRVHMASKGSPCLGDPVYGTGQPAAAVREAIQA 296
Query: 309 WNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSS 352
KR LHA L F HP+TG + + PLP ALQ S
Sbjct: 297 AGLKR---QALHAAVLGFVHPITGEALRFETPLP-EDMAALQKS 336
>gi|418033735|ref|ZP_12672212.1| pseudouridylate synthase [Bacillus subtilis subsp. subtilis str.
SC-8]
gi|351469883|gb|EHA30059.1| pseudouridylate synthase [Bacillus subtilis subsp. subtilis str.
SC-8]
Length = 299
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 80/265 (30%), Positives = 115/265 (43%), Gaps = 67/265 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEG------TKLNLLEL 138
D+LYEDE ++ +NK + ++S+P S E SG ++ G T +
Sbjct: 83 DILYEDEHVLVINK------QPYVSSIP------SREHPSGSIANGIIDHYQTTGVRATV 130
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
HL RLDRDTSGVM++ K S L A + V + Y A+ G R+ + G
Sbjct: 131 HLVTRLDRDTSGVMLVAKHRFAHSILSSAQKNGLVKRRYAAVVHG------RMAQMEGTV 184
Query: 199 RSKFGAWRVYAASDVGR-VLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
+ G + S + R V P G + VT F V N +
Sbjct: 185 DAPIGR---HPDSIIERTVTPDG---QKAVTHFYVTCANDD------------------- 219
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
+ + A + E +GRTHQIR+H YLG + GD Y G + G++
Sbjct: 220 -----MTSVALQLE--------TGRTHQIRVHMSYLGHPLCGDTLYGGTRQEIGRQ---- 262
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LH+E LSF HP+T + APLP
Sbjct: 263 ALHSEHLSFIHPLTQKNMTFHAPLP 287
>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 = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 78/263 (29%), Positives = 111/263 (42%), Gaps = 58/263 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D+ Y D+ L+AV KP G+ P + G E+ L LH RL
Sbjct: 101 DIAYLDDALLAVIKPSGL---------PTMHGGGFLENTLLSLVRAQHPEATPLH---RL 148
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
R TSG+++ ++H AS+L +A+ H V K Y AL G + R+TI +
Sbjct: 149 GRATSGLVLFARTHAAASRLSEAWRMHHVEKRYRALASGVLAQ-DRVTIEA--------- 198
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
P G V + + +S G+ S L+ E D
Sbjct: 199 -------------PIGPVPHPRLGTVHGVSATGKASRSVACVLERRE------------D 233
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY----EGVYEWNGKRYDG-HEL 319
A + +I +GR HQIR+H +LG + GD Y + + G DG + L
Sbjct: 234 ATLLQVDIF------TGRPHQIRIHTAFLGHPLVGDPLYGPGGQPKADNPGLPGDGGYLL 287
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HAE L+F HPVTG P+ V AP P
Sbjct: 288 HAERLAFTHPVTGAPLDVYAPAP 310
>gi|212557318|gb|ACJ29772.1| Pseudouridine synthase, RluD [Shewanella piezotolerans WP3]
Length = 308
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 74/259 (28%), Positives = 112/259 (43%), Gaps = 54/259 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED++++ +NKP G+ +G S T+ LEL +RLD
Sbjct: 87 IIYEDKFIIVLNKPSGIAVHGG--------SGVDFGVIEAMRSLRTQQKFLEL--VHRLD 136
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG+++I K L K+ K Y+AL G +W++ H ++
Sbjct: 137 KDTSGLLLIAKKRSALKHLHDQLRYKKMQKDYLALVRG---EWQK------HDKA----- 182
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A + L G ++ VN EG +E E ++++ +
Sbjct: 183 --VKAPLLKLTLKSGE---------RIVRVNKEG--------KESETRFKIMQRYS---- 219
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE---LHAE 322
+ LV+A P +GRTHQIR+HCQY G I D KY + R G LHA
Sbjct: 220 ----DATLVQASPITGRTHQIRVHCQYAGHPIACDEKYSEQKFDDSMRAHGLNRLFLHAA 275
Query: 323 SLSFDHPVTGCPVMVQAPL 341
L F HP T + V+APL
Sbjct: 276 QLRFIHPDTDEVMQVKAPL 294
>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 = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 74/269 (27%), Positives = 118/269 (43%), Gaps = 55/269 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
+V YED ++ VNKP+G+ V+ P G ++ + +N ++ + +R
Sbjct: 82 EVYYEDADVLVVNKPRGM----VVHPAPGHTKGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K I I + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGI-IDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L F+HP TG + +AP+P EAL
Sbjct: 270 GILGFNHPRTGEYIEFEAPIPEVFEEALN 298
>gi|395786921|ref|ZP_10466648.1| RluA family pseudouridine synthase [Bartonella tamiae Th239]
gi|423718160|ref|ZP_17692350.1| RluA family pseudouridine synthase [Bartonella tamiae Th307]
gi|395423219|gb|EJF89415.1| RluA family pseudouridine synthase [Bartonella tamiae Th239]
gi|395426593|gb|EJF92720.1| RluA family pseudouridine synthase [Bartonella tamiae Th307]
Length = 341
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 77/280 (27%), Positives = 107/280 (38%), Gaps = 63/280 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+LYED ++ VNKP G+ + + G S G G
Sbjct: 89 DILYEDNDIIVVNKPAGLVVHPGNGNTTGTMVNALIFHCGHSLSGIGGVKRPG------- 141
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVS----KTYIALCIGPAPKWKRITI 193
+ +RLD+DTSGVMV+ K+ L + F DH S + Y AL G + R I
Sbjct: 142 --IVHRLDKDTSGVMVVAKNDNAHKNLSEQFADHGRSGALKRQYHALIWGTLERG-RGRI 198
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+ GRS+ R S S R VT F +L G +
Sbjct: 199 ETHLGRSQSDRTRQAVVSST------RSDARYAVTHFHILEKFGTKN------------- 239
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
DA LV +GRTHQIR+H ++G + GD+ Y Y+ +
Sbjct: 240 ------------DATAVASLVECQLETGRTHQIRVHMAHIGHPLIGDMDYGRAYKTKTNK 287
Query: 314 YDG-----------HELHAESLSFDHPVTGCPVMVQAPLP 342
D LHA SL+F HP G + Q+ +P
Sbjct: 288 LDEAIRNRVECFSRQALHAASLTFTHPSNGDIMHFQSDIP 327
>gi|384246825|gb|EIE20314.1| pseudouridine synthase [Coccomyxa subellipsoidea C-169]
Length = 225
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 73/259 (28%), Positives = 107/259 (41%), Gaps = 61/259 (23%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL--ELHLANR 143
V+YED+ L+AV+KP P L+ + G L LN L H +R
Sbjct: 3 VIYEDDDLLAVSKP------------PFLVTAPKHRWQGGSLVNRV-LNYLGKPPHPLHR 49
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD +TSGV++ KS + + + F + + K Y+AL +G I S + G
Sbjct: 50 LDMNTSGVVLFAKSPDIVATMHDQFRNQQAQKQYLALSLG---------IPSQSSFVEDG 100
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++ + + R L + R S + S+N + S
Sbjct: 101 PIGMHPSLNSNRHL-DATHARHCARSLKAFSLNRQAS----------------------- 136
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
L+ PR+GRTHQIR+H + G I GD Y W ++ LHA
Sbjct: 137 ---------LLCCAPRTGRTHQIRVHLAHAGHPIAGDEIYGLKVTWTPRQL----LHAVR 183
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L HP TG P+ +QAPLP
Sbjct: 184 LRVTHPRTGLPLDLQAPLP 202
>gi|91205071|ref|YP_537426.1| ribosomal large subunit pseudouridine synthase [Rickettsia bellii
RML369-C]
gi|122425980|sp|Q1RJX7.1|RLUC_RICBR RecName: Full=Ribosomal large subunit pseudouridine synthase C;
AltName: Full=23S rRNA pseudouridine(955/2504/2580)
synthase; AltName: Full=rRNA pseudouridylate synthase C;
AltName: Full=rRNA-uridine isomerase C
gi|91068615|gb|ABE04337.1| Ribosomal large subunit pseudouridine synthase [Rickettsia bellii
RML369-C]
Length = 301
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 78/296 (26%), Positives = 126/296 (42%), Gaps = 61/296 (20%)
Query: 49 YPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVL 108
+ P++ P + D E+T A K++ ++YED+ ++A+NKP G+ +
Sbjct: 63 FNLPIAQPTKLVFTDAEITLAK---------KITTEYLIYEDDNIIAINKPAGLATQ--- 110
Query: 109 ASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAF 168
L+ DSA S+G + L +RLD++TSG+++I K++ + KL AF
Sbjct: 111 GGSKINLSVDSALKYLN--SQGA-----DFKLVHRLDKETSGLLLIAKNYVSSVKLHDAF 163
Query: 169 TDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVT 228
+ V KTY+A+ G K D G V T
Sbjct: 164 KEKLVEKTYLAVTYGKPIK------------------------DQGEV----------KT 189
Query: 229 SFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRL 288
+ E +GS + +++ ++ + K L N LV P +GR HQ+RL
Sbjct: 190 NIE----KSKGSIPKITDINDNNGKLAITYYK--LLKSLTNNLFLVEFIPITGRMHQLRL 243
Query: 289 HCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLW 344
H + LG I GD KY +Y LHA ++ V G V ++A LP +
Sbjct: 244 HAKLLGCPIFGDNKYGNDKLMPYSKY--MFLHANNIVLSKKVFGKEVNLEAKLPSY 297
>gi|395216437|ref|ZP_10401341.1| tRNA pseudouridine synthase c [Pontibacter sp. BAB1700]
gi|394455367|gb|EJF09845.1| tRNA pseudouridine synthase c [Pontibacter sp. BAB1700]
Length = 245
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 71/266 (26%), Positives = 111/266 (41%), Gaps = 59/266 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNL-LELHLANR 143
++LYEDE VAVNKP G+ AE K + + L +++ A+R
Sbjct: 3 EILYEDESYVAVNKPNGLLVHRTRI----------AEEKKEFALQMLRDQLGFQVYAAHR 52
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LDR TSGV++ K+ K + +V AF D +V+K Y A+ G P+
Sbjct: 53 LDRGTSGVLLFAKNPKSVAPIVSAFEDKQVNKVYYAIVRGYTPE---------------- 96
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
D + S + + + K P + H E VE +
Sbjct: 97 --------------------EDTIDS--PIRPDKDHKHKAPQDAVTHYERLATVELPIPV 134
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE----- 318
+ LV+ P +GR HQIR H ++ I GD ++ +W + +
Sbjct: 135 GRYSTSRYSLVKVEPETGRMHQIRKHFAHIRHYIVGDKRHG---DWRHNQMFREQLGSPH 191
Query: 319 --LHAESLSFDHPVTGCPVMVQAPLP 342
LH+ +L+F HPV G + ++APLP
Sbjct: 192 MLLHSATLAFVHPVHGDMIELKAPLP 217
>gi|390435082|ref|ZP_10223620.1| ribosomal large subunit pseudouridine synthase A [Pantoea
agglomerans IG1]
Length = 232
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 70/258 (27%), Positives = 107/258 (41%), Gaps = 44/258 (17%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+L++D+ L+ +NKP G+ S+ P L DS + +L G L +RLD
Sbjct: 19 LLFQDDHLLVINKPSGLL--SLSGKNPQNL--DSVHHRLVKLFPGCTL-------VHRLD 67
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
TSG+MV+ +S + + L + F+ V K Y AL + GH G
Sbjct: 68 FGTSGLMVVARSKTINAALCQQFSQRSVRKAYQAL-------------LCGHLADDEGVI 114
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A D + P R ++ + E QE + + V +
Sbjct: 115 DAAIAKDPAQ-FP-----RMVICPIQGKPARSRYRVIERGYYQEKKGKGLPVTR------ 162
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
V P +GRTHQ+R+HCQ LG I G Y G+ + + LHA +L+
Sbjct: 163 --------VELMPETGRTHQLRIHCQQLGHPILGCDLYGGLLLPGADQAERLMLHASALT 214
Query: 326 FDHPVTGCPVMVQAPLPL 343
F HPV+G + + A P
Sbjct: 215 FVHPVSGSTLQLSADSPF 232
>gi|395780276|ref|ZP_10460743.1| RluA family pseudouridine synthase [Bartonella washoensis 085-0475]
gi|395419543|gb|EJF85843.1| RluA family pseudouridine synthase [Bartonella washoensis 085-0475]
Length = 337
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 79/301 (26%), Positives = 123/301 (40%), Gaps = 64/301 (21%)
Query: 64 IELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLA 116
IELT + + +K S ++ D+L+ED+ ++ +NKP G+ L +
Sbjct: 62 IELTIPVLSDAKPSGEAIAL-DILFEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIYHC 120
Query: 117 GDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH----K 172
DS G G + +RLD++TSGVMV+ K+ L F+DH
Sbjct: 121 HDSLSGIGGIKRPG---------IVHRLDKNTSGVMVVAKNDLAHQSLSAQFSDHGRTSA 171
Query: 173 VSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEV 232
+ + Y AL G +P +TI + GRS + + V S R +T +
Sbjct: 172 LDRRYHALIWG-SPSRNVLTIDASLGRSP------HNRTKQAVVHSQSSHARHAITHISL 224
Query: 233 LSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY 292
L EK L AD L+ +GRTHQIR+H +
Sbjct: 225 L------------------------EKYGTL-ADTTSFASLLECRLETGRTHQIRVHMAH 259
Query: 293 LGISIRGDVKYEGVYEWNGK-----------RYDGHELHAESLSFDHPVTGCPVMVQAPL 341
+G + GD Y ++ +++ LHA SL+F+HP TG + +PL
Sbjct: 260 IGHPLVGDTVYGNAFKTKSNVLNPIIRNAIDQFNRQALHAVSLTFEHPATGKIMSFSSPL 319
Query: 342 P 342
P
Sbjct: 320 P 320
>gi|391231624|ref|ZP_10267830.1| pseudouridine synthase, RluA family [Opitutaceae bacterium TAV1]
gi|391221285|gb|EIP99705.1| pseudouridine synthase, RluA family [Opitutaceae bacterium TAV1]
Length = 341
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 80/270 (29%), Positives = 117/270 (43%), Gaps = 54/270 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLLAGDSAESKSGRLSEGTKLNLLEL- 138
D+LYEDE L+AVNKP G+ + V LL + + G + + +E
Sbjct: 101 DILYEDEHLLAVNKPSGMVVHPGSGTGEDTLVHALLGHCARRATEGGGGGLSGVGGVERP 160
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
+ +RLDR+T+GV+V+ K+ L + F + K Y+AL G P+
Sbjct: 161 GIVHRLDRETTGVIVVAKTDAAHRGLAEQFAGRHLHKEYLALVSG-VPR----------- 208
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
A V R + V R +T+ GEG ++ + V E
Sbjct: 209 ---------LAGGTVDRAIARHPVHRHRMTT-------GEGGRPSRTDWK-------VEE 245
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-----EGVYEWNGKR 313
L A LVR +GRTHQIR+H + LG + GD Y G+ G
Sbjct: 246 AFPPLAA-------LVRCHIHTGRTHQIRVHMKSLGHVLLGDPTYGWKPDPGLEAVAGAA 298
Query: 314 YDGH-ELHAESLSFDHPVTGCPVMVQAPLP 342
+ LHAE + F HPVTG ++++APLP
Sbjct: 299 HPQRVMLHAEHIRFRHPVTGAELLLRAPLP 328
>gi|342888941|gb|EGU88152.1| hypothetical protein FOXB_01290 [Fusarium oxysporum Fo5176]
Length = 514
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 62/224 (27%), Positives = 91/224 (40%), Gaps = 23/224 (10%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDE ++ +NKP GV P AG + + + + +L NRLD
Sbjct: 184 IIHEDEDMIVINKPAGV---------PVHPAGRYNFNSVVEIMKSDRGPAFLPYLCNRLD 234
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R TSG+M I K+ A L D V K YIA +G P G
Sbjct: 235 RLTSGIMFIAKNPTAAEALGIKIKDRTVRKEYIARVMGEFP--------DGEVVCDQPIL 286
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
++ + RV G R + GE E + E V+++ +
Sbjct: 287 QISPKLGLNRVRANGKTARTVFKKLAYYPAEGENDVNERPKTPEQ------VQEEKLRPW 340
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEW 309
KK +VR P +GRTHQ+R+H Q+LG I+ D Y W
Sbjct: 341 VNKKGYSIVRCLPVTGRTHQLRVHLQHLGHPIQNDPIYANRRVW 384
>gi|255531126|ref|YP_003091498.1| RluA family pseudouridine synthase [Pedobacter heparinus DSM 2366]
gi|255344110|gb|ACU03436.1| pseudouridine synthase, RluA family [Pedobacter heparinus DSM 2366]
Length = 342
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 71/287 (24%), Positives = 109/287 (37%), Gaps = 87/287 (30%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YED L+ VNKP G+ + GT +N L H
Sbjct: 97 DIVYEDNDLLVVNKPAGMVVHPGYNNYT-----------------GTLVNALAFHFEQLP 139
Query: 140 ----------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWK 189
L +R+D+DTSG+++I+K+ ++L K F DH +++ Y+AL G K
Sbjct: 140 QLPGNEGRPGLVHRIDKDTSGLLLISKNEITMTRLAKQFFDHTITRKYVALAWGDIEKDG 199
Query: 190 RITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQE 249
+T G VY + G+ VT + VL G +
Sbjct: 200 TVTGYIGRSAKNRIVMDVYDDEEKGKW---------SVTHYAVLERLGYVT--------- 241
Query: 250 HEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEW 309
L+ +GRTHQIR H Q++G + D Y G
Sbjct: 242 -----------------------LISCQLETGRTHQIRAHMQHIGHPLFNDANYGGDKIL 278
Query: 310 NGKRYDGHE--------------LHAESLSFDHPVTGCPVMVQAPLP 342
G ++ ++ LHA++L F HP T + +APLP
Sbjct: 279 KGTTFNKYKQFVQNCFELLPRQALHAQTLGFIHPGTKKYMEFEAPLP 325
>gi|407070076|ref|ZP_11100914.1| 23S rRNA pseudouridine synthase D [Vibrio cyclitrophicus ZF14]
Length = 324
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 70/287 (24%), Positives = 112/287 (39%), Gaps = 98/287 (34%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YED+ L+ +NKP+ + A P +GT LN L H
Sbjct: 85 DIVYEDDDLLVINKPRDLVVHPG-AGTP----------------DGTILNALLFHYPQIA 127
Query: 140 ------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+ +RLD+DT+G+MV+ K+ ++LV+A ++++ Y A+ IG
Sbjct: 128 EVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALAKRRITREYEAIAIG---------- 177
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDM---VTSFEVLSVNGEGS-----FKEPS 245
++ GG V + + T ++ VN G ++
Sbjct: 178 ---------------------KMTAGGVVEKGISRHATKRTLMDVNELGKPAVTHYRVAE 216
Query: 246 ELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG 305
+EH + +E +GRTHQIR+H YL + GD+ Y G
Sbjct: 217 HFREHTRIRLRLE---------------------TGRTHQIRVHMSYLQHPLLGDIAYGG 255
Query: 306 VYEWNG----------KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ +D LHA L F HP+TG V AP+P
Sbjct: 256 RARIPKGASEELTTMIRSFDRQALHAVMLKFVHPITGEEVEFHAPVP 302
>gi|434381335|ref|YP_006703118.1| pseudouridylate synthase, 23S RNA-specific [Brachyspira pilosicoli
WesB]
gi|404429984|emb|CCG56030.1| pseudouridylate synthase, 23S RNA-specific [Brachyspira pilosicoli
WesB]
Length = 298
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 77/284 (27%), Positives = 111/284 (39%), Gaps = 82/284 (28%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN-- 142
D+LYEDE+L+ VNKP C SV C S S R GT +N L H+ +
Sbjct: 79 DILYEDEYLLVVNKP----CN---MSVHC--------SPSER--HGTLVNALLYHIKDFN 121
Query: 143 ------------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
RLD+DTSG+M++ K+ + S + + F + + K Y A+ IG
Sbjct: 122 FVGDKSRAGIIHRLDKDTSGIMIVGKNADIVSAIQEQFKNRTIKKIYHAIVIGVL----- 176
Query: 191 ITIISGHGRSKFGAWRVYAASDVGRVLPGG--SVVRDMVTSFEVLSVNGEGSFKEPSELQ 248
R F LP G SV R +T E +G+ + L
Sbjct: 177 --------RENFYEIN----------LPIGRHSVYRKKMTVRE----DGKKALSYIKVLN 214
Query: 249 EHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYE 308
K L+ ++GRTHQIR+HC Y G + GD Y Y
Sbjct: 215 RF------------------KKHTLIEVNIKTGRTHQIRVHCSYKGFPVAGDKIYSKSYS 256
Query: 309 WNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSS 352
Y L A+ + F HP++G + + + + L S
Sbjct: 257 ----NYSNLMLIAKQIEFTHPISGEIIKFEVDYTDYFRDFLISD 296
>gi|373450069|ref|ZP_09542141.1| 23S rRNA pseudouridylate synthase [Wolbachia pipientis wAlbB]
gi|371932731|emb|CCE77129.1| 23S rRNA pseudouridylate synthase [Wolbachia pipientis wAlbB]
Length = 307
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 71/268 (26%), Positives = 111/268 (41%), Gaps = 58/268 (21%)
Query: 78 LYKLSRSDVLYEDEWLVAVNKPQGVYCE---SVLASVPCLLAGDSAESKSGRLSEGTKLN 134
L L R ++LYEDE+++A+NK GV + V S+ LL D +
Sbjct: 82 LVNLLRENILYEDEYILAINKSAGVIVQGGVKVKISISDLL--DQIREREI--------- 130
Query: 135 LLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITII 194
+ +RLDRDTSGV++ ++ VA L++ F ++ KTY+AL G K
Sbjct: 131 ---FKIVHRLDRDTSGVIIFARNASVAKYLMEEFKGRRIKKTYLALTFGIPSK------- 180
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
+G + + Y + V+ S ++ T F ++
Sbjct: 181 -DNGTIDYPLVKKYISGQEKVVVDEDS-PQNATTHFSII--------------------- 217
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY 314
A K N ++ P +GRTHQ+R H ++ I GD KY G +
Sbjct: 218 ----------ARLKHNVAYLKLQPITGRTHQLRAHLAHINCPILGDGKYGGKKAFIDGVA 267
Query: 315 DGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LH+ SLS P V + AP+P
Sbjct: 268 NQIHLHSYSLSLKLP-NNKEVTITAPIP 294
>gi|332535329|ref|ZP_08411128.1| ribosomal large subunit pseudouridine synthase A [Pseudoalteromonas
haloplanktis ANT/505]
gi|332035242|gb|EGI71749.1| ribosomal large subunit pseudouridine synthase A [Pseudoalteromonas
haloplanktis ANT/505]
Length = 245
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 65/257 (25%), Positives = 110/257 (42%), Gaps = 48/257 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++LY+D+ ++ +NKP G+ S+ P L DS + +G E L +RL
Sbjct: 33 EILYQDDDILLINKPSGLL--SLSGKNP--LNWDSVHYRLVHGQKGLTAAFAEAKLPHRL 88
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG+M++ + K + L K F + K Y+A+ G
Sbjct: 89 DLGTSGIMIVGLNAKASKHLNKQFQARTIQKRYVAMLEG--------------------- 127
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
A DVG + + + + ++ G+ + V + +VL+
Sbjct: 128 ---CLAVDVGSITAPIAKDKLLFPRVKICQTMGK----------------VAVSEYSVLE 168
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRG-DVKYEGVYEWNGKRYDGHELHAES 323
+ LV+ P +GRTHQ+R+H Q++G I G D+ E+ R +LHA
Sbjct: 169 RLKQPCRTLVQFTPVTGRTHQLRIHSQFIGHPILGCDLYKSAQSEYMAGRL---QLHASD 225
Query: 324 LSFDHPVTGCPVMVQAP 340
L F+HP TG + + +P
Sbjct: 226 LYFEHPATGAQIHINSP 242
>gi|237746016|ref|ZP_04576496.1| ribosomal large subunit pseudouridine synthase C [Oxalobacter
formigenes HOxBLS]
gi|229377367|gb|EEO27458.1| ribosomal large subunit pseudouridine synthase C [Oxalobacter
formigenes HOxBLS]
Length = 340
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 79/273 (28%), Positives = 114/273 (41%), Gaps = 73/273 (26%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D+LYED+ ++ +NKP GV ++ A + G K L L +RL
Sbjct: 107 DILYEDDSVLVINKPAGVAVHGGSGVSYGVIEQLRA------MRPGAKF----LELVHRL 156
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWK------RITIISGHG 198
D++TSG++V+ K ++L + D V K Y AL G WK R+ ++ H
Sbjct: 157 DKETSGILVLAKKRSALTRLHEQIRDGSVDKRYQALVHG---DWKNPRQHVRLPLLKYH- 212
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
+ G RV RV G T F VL +H + ++E
Sbjct: 213 -TAEGERRV-------RVDESGQASH---TIFNVL---------------KHYPDFTLLE 246
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE 318
A ++GRTHQIR+H G I GD KY G +E N + G +
Sbjct: 247 -----------------AELKTGRTHQIRVHLASSGFVIAGDDKY-GDFELNRQLQKGKK 288
Query: 319 ---------LHAESLSFDHPVTGCPVMVQAPLP 342
LHA ++F HP TG P+ + APLP
Sbjct: 289 GEDALKRMFLHAYKITFIHPETGKPLTISAPLP 321
>gi|196248006|ref|ZP_03146708.1| pseudouridine synthase, RluA family [Geobacillus sp. G11MC16]
gi|196212790|gb|EDY07547.1| pseudouridine synthase, RluA family [Geobacillus sp. G11MC16]
Length = 299
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 74/264 (28%), Positives = 111/264 (42%), Gaps = 65/264 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE------L 138
D++YEDE+++ VNKP G LA++P S G L+ G + + +
Sbjct: 83 DIVYEDEYVLVVNKPAG------LATIP------SRHHPGGTLANGLLHHYRQQQLDSTV 130
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
H+ RLDRDTSG++++ K V L +V++TY A+C G + + TI + G
Sbjct: 131 HIITRLDRDTSGLVLVAKHRHVHHLLSTLQQKGQVTRTYEAVCHGVIDEEEG-TIDAPIG 189
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
R D + + EV E+ +
Sbjct: 190 RQN-----------------------DSIIAREV-----------------REDGKRAIT 209
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE 318
VL+ + + +R +GRTHQIR+H YLG + GD Y G E G++
Sbjct: 210 HFRVLERLSGYTYVSLRL--ETGRTHQIRVHLAYLGHPLAGDELYGGSREIIGRQ----A 263
Query: 319 LHAESLSFDHPVTGCPVMVQAPLP 342
LH+ LSF HP APLP
Sbjct: 264 LHSRQLSFFHPFARQLYTFTAPLP 287
>gi|166030562|ref|ZP_02233391.1| hypothetical protein DORFOR_00225 [Dorea formicigenerans ATCC
27755]
gi|166029564|gb|EDR48321.1| pseudouridine synthase, RluA family [Dorea formicigenerans ATCC
27755]
Length = 296
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 73/259 (28%), Positives = 113/259 (43%), Gaps = 54/259 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D++YEDE L+ +NKP G+ L + +A A S+G NRL
Sbjct: 82 DIIYEDEDLLVLNKPAGMPIHPSLNNYTNSIANALAYYFQ---SQGKPFIF---RCCNRL 135
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHK-VSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
DRDTSG+ +++K H V+ ++ T ++ V + Y+A+ G +T G ++ G
Sbjct: 136 DRDTSGLTIVSK-HLVSGSILSDMTKYREVHREYLAIARGS------VTPSEGTIQAPLG 188
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
GG+++ V EH E+ V K V
Sbjct: 189 R-------------KGGTIIERTVD-------------------WEHGED-AVTHYKVVK 215
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+A+ LV +GRTHQIR+H +YLG + GD Y E+ ++ LH+
Sbjct: 216 EANGHS---LVSLRLETGRTHQIRIHMKYLGYPLIGDYLYNPDMEYMTRQ----ALHSHH 268
Query: 324 LSFDHPVTGCPVMVQAPLP 342
+ F HP+TG + APLP
Sbjct: 269 MEFTHPITGEHMSFTAPLP 287
>gi|145589104|ref|YP_001155701.1| RluA family pseudouridine synthase [Polynucleobacter necessarius
subsp. asymbioticus QLW-P1DMWA-1]
gi|145047510|gb|ABP34137.1| ribosomal large subunit pseudouridine synthase D [Polynucleobacter
necessarius subsp. asymbioticus QLW-P1DMWA-1]
Length = 318
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 68/257 (26%), Positives = 112/257 (43%), Gaps = 63/257 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
+V+YED+ ++ +NKP P L+ +A + SG L G EL
Sbjct: 71 EVVYEDDSIIVINKP------------PGLVVHPAAGNWSGTLLNGLLHRFPELKSLPRA 118
Query: 140 -LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
+ +RLD+DTSG+MV+ ++ + LV+ + V + Y+A G AP + +++ G
Sbjct: 119 GIVHRLDKDTSGLMVVARTAHAQTALVRQLQERTVGRRYLAWVWGDAPSQGK--VLASVG 176
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
R + ++ A S G+ P ++ R + + N+
Sbjct: 177 RDQRDRLKMAAGSPQGK--PAATLFRRIA------------------------KGNVENA 210
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYE----GVYEWNGKRY 314
A+L+ + +GRTHQIR+H + LG + GD Y GV + +
Sbjct: 211 PVALLECRLE-----------TGRTHQIRVHLESLGFPLVGDPVYRKKAPGVAK--ALSF 257
Query: 315 DGHELHAESLSFDHPVT 331
D LHA +LS HPVT
Sbjct: 258 DRQALHAFALSLQHPVT 274
>gi|423205987|ref|ZP_17192543.1| RluA family pseudouridine synthase [Aeromonas veronii AMC34]
gi|404623378|gb|EKB20230.1| RluA family pseudouridine synthase [Aeromonas veronii AMC34]
Length = 242
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 67/262 (25%), Positives = 110/262 (41%), Gaps = 51/262 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++L+EDE L+ +NKP G+ S+ P + +S RL + + L +RL
Sbjct: 29 EILFEDEHLLLINKPSGLL--SLSGKNP-----QNLDSVHYRLVQ----DFPGCTLVHRL 77
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG+MV+ ++ + + L + F+ VSK Y AL + GH G
Sbjct: 78 DFGTSGIMVVARNKAINALLCQQFSQRAVSKAYSAL-------------LCGHLIDDEGV 124
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGS---FKEPSELQEHEENNIVVEKKA 261
A D + + + +G+ + ++ L + + V +
Sbjct: 125 IDAPIAKDPA-----------LFPLMNICAASGKPARSRYRVIDRLAQQMQGQTVPLTR- 172
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
VR P +GRTHQ+R+H Q LG I G Y G+ + ++ LHA
Sbjct: 173 ------------VRLVPETGRTHQLRIHSQLLGHPILGCDLYGGLLQPGCEQAPRLMLHA 220
Query: 322 ESLSFDHPVTGCPVMVQAPLPL 343
L F HPV+G P+ ++ P
Sbjct: 221 SELDFAHPVSGEPMQIRCAAPF 242
>gi|333907556|ref|YP_004481142.1| pseudouridine synthase [Marinomonas posidonica IVIA-Po-181]
gi|333477562|gb|AEF54223.1| pseudouridine synthase [Marinomonas posidonica IVIA-Po-181]
Length = 212
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 71/259 (27%), Positives = 105/259 (40%), Gaps = 55/259 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++LYED+W +NKP C SV P D +S R + + E +RL
Sbjct: 9 EILYEDDWFAVINKPAN--CLSVPGRGP-----DKQDSVLYRAEQ----HFGEAFAIHRL 57
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG++++ K+H+ ++ F + +V+K Y AL G R+ G R
Sbjct: 58 DEATSGLILVAKTHECQKRMYAHFREREVTKEYRALVRG------RLIGERGVVRKPL-- 109
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
R + +++ +D +T +E + G
Sbjct: 110 -RCDWPNRPRQIVCTDEWSKDSITLWEPICYEG--------------------------- 141
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
N VR P +GR+HQ+R+H Q LG SI GD Y+ Y R LHA L
Sbjct: 142 -----NTTRVRLTPHTGRSHQLRVHMQSLGHSIIGDEFYDPEYSTADARL---LLHAYRL 193
Query: 325 SFDHPVTGCPVMVQAPLPL 343
F HP TG V A +P
Sbjct: 194 EFQHPFTGAWVAFVAAMPF 212
>gi|260775124|ref|ZP_05884022.1| ribosomal large subunit pseudouridine synthase D [Vibrio
coralliilyticus ATCC BAA-450]
gi|260608825|gb|EEX34987.1| ribosomal large subunit pseudouridine synthase D [Vibrio
coralliilyticus ATCC BAA-450]
Length = 325
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 73/279 (26%), Positives = 112/279 (40%), Gaps = 82/279 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YED+ ++ +NKP+ A P +GT LN L H
Sbjct: 85 DIVYEDDDIMVINKPRDFVVHPG-AGTP----------------DGTVLNALLHHYPDIA 127
Query: 140 ------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+ +RLD+DT+G+MV+ K+ ++LV+A +++ Y A+ IG R+
Sbjct: 128 EVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRNITREYEAIAIGRMTAGGRVEQ 187
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
G +K + A S +G+ P VT + V F+E +
Sbjct: 188 PIGRHSTK---RTLMAVSPMGK--PA-------VTHYRVAE-----HFREHTR------- 223
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG-- 311
+R +GRTHQIR+H YL + GD Y G
Sbjct: 224 --------------------IRLRLETGRTHQIRVHMSYLQHPLLGDSAYGGRARIPSGA 263
Query: 312 --------KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+++D LHA L FDHPVTG + AP+P
Sbjct: 264 SEELAEMIRKFDRQALHAVMLKFDHPVTGEELEFHAPVP 302
>gi|429504643|ref|YP_007185827.1| hypothetical protein B938_05655 [Bacillus amyloliquefaciens subsp.
plantarum AS43.3]
gi|429486233|gb|AFZ90157.1| hypothetical protein B938_05655 [Bacillus amyloliquefaciens subsp.
plantarum AS43.3]
Length = 297
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 77/265 (29%), Positives = 118/265 (44%), Gaps = 67/265 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE------L 138
D+LYED+ ++ VNK + ++S+P S E S ++ G + + +
Sbjct: 83 DILYEDDHVLVVNK------QPYVSSIP------SREHPSESIANGVISHYRKSGVQSTV 130
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHK-VSKTYIALCIGPAPKWKRITIISGH 197
HL RLDRDTSG M+I K H+++ L+ A VS+ Y+A+ G P+ K T+ +
Sbjct: 131 HLVTRLDRDTSGAMLIAK-HRLSHSLLSAAQKKGLVSRRYLAVVHGIMPQ-KEGTVDAPI 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR S++ MVT EG + + Q + +
Sbjct: 189 GRKH------------------DSIIERMVTP--------EGQ-RAVTHFQTEKAGHAFT 221
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
L+ +GRTHQIR+H YLG + GD Y G E ++
Sbjct: 222 LAALRLE---------------TGRTHQIRVHMSYLGHPLVGDTLYGGKNEGIARQ---- 262
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LH+E LSF HP+TG ++ AP+P
Sbjct: 263 ALHSERLSFVHPMTGKTLVFHAPVP 287
>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 = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 70/287 (24%), Positives = 112/287 (39%), Gaps = 98/287 (34%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YED+ L+ +NKP+ + A P +GT LN L H
Sbjct: 85 DIVYEDDDLLVINKPRDLVVHPG-AGTP----------------DGTILNALLFHYPQIA 127
Query: 140 ------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+ +RLD+DT+G+MV+ K+ ++LV+A ++++ Y A+ IG
Sbjct: 128 EVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALAKRRITREYEAIAIG---------- 177
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDM---VTSFEVLSVNGEGS-----FKEPS 245
++ GG V + + T ++ VN G ++
Sbjct: 178 ---------------------KMTAGGVVEKGISRHATKRTLMDVNELGKPAVTHYRVAE 216
Query: 246 ELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG 305
+EH + +E +GRTHQIR+H YL + GD+ Y G
Sbjct: 217 HFREHTRIRLRLE---------------------TGRTHQIRVHMSYLQHPLLGDIAYGG 255
Query: 306 VYEWNG----------KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ +D LHA L F HP+TG V AP+P
Sbjct: 256 RARIPKGASEELTTMIRSFDRQALHAVMLKFVHPITGEEVEFHAPVP 302
>gi|85707640|ref|ZP_01038706.1| pseudouridine synthase D large subunit [Erythrobacter sp. NAP1]
gi|85689174|gb|EAQ29177.1| pseudouridine synthase D large subunit [Erythrobacter sp. NAP1]
Length = 317
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 72/265 (27%), Positives = 110/265 (41%), Gaps = 50/265 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
DV +EDE L+ VNKP G+ + L G+LS G + + +R+
Sbjct: 81 DVAFEDEDLIVVNKPAGMVVHPAAGNPDGTLVNALLHHCRGQLS-GIG-GVARPGIVHRI 138
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHGRSKFG 203
D+DTSG++V+ KS L F +H V + Y+A+C G P+P TI GRS
Sbjct: 139 DKDTSGLLVVAKSDAAHEGLAAQFAEHSVHRRYLAVCGGHPSPAEG--TINERLGRSDAN 196
Query: 204 AWRVYAASDVGRVLP-GGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
++ VLP S + +T ++VL G +
Sbjct: 197 RKKMA-------VLPKNSSRGKHAITHYKVLKPIGAAA---------------------- 227
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYE-----WNGKRYDGH 317
L+ +GRTHQ+R+HC +G ++ GD Y + + ++
Sbjct: 228 ----------LIECRLETGRTHQVRVHCASIGHALLGDPIYGRTPKVLKPLLSQLKFARQ 277
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LHA L F HP+ G + A LP
Sbjct: 278 ALHAAELGFIHPILGSELRFSADLP 302
>gi|407938373|ref|YP_006854014.1| RluA family pseudouridine synthase [Acidovorax sp. KKS102]
gi|407896167|gb|AFU45376.1| RluA family pseudouridine synthase [Acidovorax sp. KKS102]
Length = 346
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 76/259 (29%), Positives = 110/259 (42%), Gaps = 49/259 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTK-LNLLELHLANR 143
DV+YEDE L+ VNKP G+ V+ P +G +G L+ K L + + +R
Sbjct: 119 DVVYEDEHLLVVNKPAGL----VVHPAPGNWSGTLL---NGLLARDEKALRVPRAGIVHR 171
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD+DTSG+MV+ + LV + KV + Y+A+ G ++ + GR
Sbjct: 172 LDKDTSGLMVVARDRACMDALVALIAERKVKRQYVAMAHGAWTGAPTRSVDAPIGRDPRN 231
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
R+ A D+ V PG + T F L G +
Sbjct: 232 RLRM-AVVDLA-VHPGKTA----RTDFLCLEGGERGCW---------------------- 263
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
V+ +GRTHQIR+H L + GD Y G +R LHA
Sbjct: 264 ----------VQCTLHTGRTHQIRVHMASLRHPLVGDALYGGAPVGALQR---QALHAYR 310
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L+F HPVTG P+ +AP+P
Sbjct: 311 LAFAHPVTGEPLEFRAPVP 329
>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 = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 72/279 (25%), Positives = 109/279 (39%), Gaps = 63/279 (22%)
Query: 86 VLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL 138
+L+ED+ ++ VNKP G+ L + GDS G G
Sbjct: 82 ILFEDDHIIVVNKPAGLVVHPGHGNWTGTLVNALIYHCGDSLSGIGGVRRPG-------- 133
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHK----VSKTYIALCIGPAPKWKRITII 194
+ +RLD++TSGV+V+ K+ L F+DH + + Y AL G +P I
Sbjct: 134 -IVHRLDKNTSGVIVVAKNDLAHKGLSAQFSDHGRTGVLDRRYHALIWG-SPNRNIGVIT 191
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
+ GR++ Y + + R VT F V+
Sbjct: 192 ASLGRAR------YDRTKQAVIHSHNIYARHAVTHFSVI--------------------- 224
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY 314
+K AD L+ +GRTHQIR+H ++G + GD Y ++ R+
Sbjct: 225 ----EKYQTCADKIPFASLLECRLETGRTHQIRVHMAHIGHPLVGDTVYGNAFKTKSNRF 280
Query: 315 DG-----------HELHAESLSFDHPVTGCPVMVQAPLP 342
D LHA SL+F+HP G + APLP
Sbjct: 281 DSTIKEAIDLFNRQALHAASLTFEHPAKGNIMSFSAPLP 319
>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 = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 72/278 (25%), Positives = 117/278 (42%), Gaps = 70/278 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
DV YEDE ++ +NKP+ + +A +++G L G + +L
Sbjct: 80 DVRYEDEDVIVINKPKNIVVHP------------AAGNQTGTLVNGLLYHCKDLSGINGT 127
Query: 140 ----LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ +R+D+DT+G++++ K+ + L K V++ Y AL +
Sbjct: 128 LRPGIIHRIDKDTTGLLIVAKNDLAHASLSKQLQSKTVNRLYYAL-------------VH 174
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNI 255
G + FG P G V+D + ++V S + Q
Sbjct: 175 GVIQHDFGTIDA----------PIGRDVKDR----QKMAVTSTNSKDARTHFQ------- 213
Query: 256 VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVK--YEGVYEWNGKR 313
V+E+ +N LV +GRTHQIR+H QY+G + GD K Y + NG+
Sbjct: 214 VIERF--------ENYTLVECRLETGRTHQIRVHMQYIGHPVVGDEKYSYRKTMQTNGQL 265
Query: 314 YDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHA L+F HP TG + V+A LP + L+
Sbjct: 266 -----LHAHQLTFQHPRTGEMITVEAELPKQFADILEE 298
>gi|288927126|ref|ZP_06421012.1| ribosomal large subunit pseudouridine synthase A [Prevotella buccae
D17]
gi|288336112|gb|EFC74507.1| ribosomal large subunit pseudouridine synthase A [Prevotella buccae
D17]
Length = 575
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 78/280 (27%), Positives = 115/280 (41%), Gaps = 60/280 (21%)
Query: 71 SASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL--LAGDSAESKSGRLS 128
S++ + SL +LYED +V VNKP G+ P + L + G +
Sbjct: 349 SSAHQLSLKTAPELPILYEDASIVVVNKPAGMLSVPGKTDTPSVYSLLRECCPQAEGPI- 407
Query: 129 EGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIAL--CIGPAP 186
+ +RLD TSG++V K+ K L + FTD V+K Y+A+ GP P
Sbjct: 408 -----------IVHRLDMATSGLLVAAKTSKAYFGLQQQFTDRMVTKRYVAVLEANGPRP 456
Query: 187 KWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSE 246
S H K + +LP G++ + F P +
Sbjct: 457 --------SSHPAPKTDS----------SLLPKGAISLPLSPDF----------MDRPRQ 488
Query: 247 LQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKY 303
+ E V + +D +L+ +P +GRTHQ+R+HC + LG I+GD Y
Sbjct: 489 KVDREHGRPAVTDYQFVSSD----RLLL--YPHTGRTHQLRVHCAHREGLGRPIKGDNLY 542
Query: 304 EGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPL 343
G + D LHAE LSF HP TG V + P
Sbjct: 543 -------GTKADRLYLHAEYLSFVHPQTGERVEFECSAPF 575
>gi|405382859|ref|ZP_11036635.1| pseudouridine synthase, RluA family [Rhizobium sp. CF142]
gi|397320620|gb|EJJ25052.1| pseudouridine synthase, RluA family [Rhizobium sp. CF142]
Length = 330
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 83/295 (28%), Positives = 115/295 (38%), Gaps = 58/295 (19%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPL +K A SS ++L VL+EDE ++ +NKP G+ +
Sbjct: 65 PPLDVDAKAKSGPIAGKDLKHSSDFELLSRMVLHEDEKVIVLNKPPGLAVQG-------- 116
Query: 115 LAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVS 174
A L T + L +RLDRDTSGV+VI ++ A KL AF +
Sbjct: 117 -GSGVARHIDQMLEAWTSPKGEKPRLVHRLDRDTSGVLVIARTRGAAQKLTAAFRERDTK 175
Query: 175 KTYIALCIGPAPKWKRITIISGHGRSKFGAWRV---YAASDVGRVLPGGSVVRDMVTSF- 230
KTY AL G K + K W V A D R+ G D SF
Sbjct: 176 KTYWALVKGVPRKHE----------DKISTWLVKEPTADGDRMRIAKHGEDGADHAVSFY 225
Query: 231 EVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHC 290
VL A +N + P +GRTHQ+R+H
Sbjct: 226 RVLET-------------------------------AAQNLAWLEMEPYTGRTHQLRVHA 254
Query: 291 QYLGISIRGDVKY---EGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
++G I GD KY + +++ G LHA + HP +G + + APLP
Sbjct: 255 LHIGHPIIGDPKYYDDDPNWDFPGGIQKKLHLHARHIDIPHP-SGGRLRISAPLP 308
>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 = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 70/287 (24%), Positives = 112/287 (39%), Gaps = 98/287 (34%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YED+ L+ +NKP+ + A P +GT LN L H
Sbjct: 85 DIVYEDDDLLVINKPRDLVVHPG-AGTP----------------DGTILNALLFHYPQIA 127
Query: 140 ------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+ +RLD+DT+G+MV+ K+ ++LV+A ++++ Y A+ IG
Sbjct: 128 EVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALAKRRITREYEAIAIG---------- 177
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDM---VTSFEVLSVNGEGS-----FKEPS 245
++ GG V + + T ++ VN G ++
Sbjct: 178 ---------------------KMTAGGVVEKGISRHATKRTLMDVNELGKPAVTHYRVAE 216
Query: 246 ELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG 305
+EH + +E +GRTHQIR+H YL + GD+ Y G
Sbjct: 217 HFREHTRIRLRLE---------------------TGRTHQIRVHMSYLQHPLLGDIAYGG 255
Query: 306 VYEWNG----------KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ +D LHA L F HP+TG V AP+P
Sbjct: 256 RARIPKGASEELTTMIRSFDRQALHAVMLKFVHPITGEEVEFHAPVP 302
>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 = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 73/269 (27%), Positives = 119/269 (44%), Gaps = 55/269 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMYHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVEKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ A + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMAVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDINGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L FDHP T + +AP+P E L
Sbjct: 270 GILGFDHPRTDEYIEFEAPIPEVFEEVLN 298
>gi|431807909|ref|YP_007234807.1| 23S RNA-specific pseudouridylate synthase [Brachyspira pilosicoli
P43/6/78]
gi|430781268|gb|AGA66552.1| pseudouridylate synthase, 23S RNA-specific [Brachyspira pilosicoli
P43/6/78]
Length = 298
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 74/264 (28%), Positives = 106/264 (40%), Gaps = 82/264 (31%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN-- 142
D+LYEDE+L+ VNKP C SV C S S R GT +N L H+ +
Sbjct: 79 DILYEDEYLLVVNKP----CN---MSVHC--------SPSER--HGTLVNALLYHIKDFN 121
Query: 143 ------------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
RLD+DTSG+M++ K+ + S + + F + + K Y A+ IG
Sbjct: 122 FVGDKSRAGIIHRLDKDTSGIMIVGKNADIVSAIQEQFKNRTIKKIYHAIVIGVL----- 176
Query: 191 ITIISGHGRSKFGAWRVYAASDVGRVLPGG--SVVRDMVTSFEVLSVNGEGSFKEPSELQ 248
R F LP G SV R +T E +G+ + L
Sbjct: 177 --------RENFYEIN----------LPIGRHSVYRKKMTVRE----DGKKALSYIKVLN 214
Query: 249 EHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYE 308
K L+ ++GRTHQIR+HC Y G + GD +Y
Sbjct: 215 RF------------------KKHTLIEVNIKTGRTHQIRVHCSYKGFPVAGD----KIYS 252
Query: 309 WNGKRYDGHELHAESLSFDHPVTG 332
+ Y L A+ + F HP++G
Sbjct: 253 KSYSNYSNLMLIAKQIEFTHPISG 276
>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 = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 72/287 (25%), Positives = 114/287 (39%), Gaps = 98/287 (34%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D+++EDE L+ +NKP+ A P +GT LN L H
Sbjct: 85 DIVFEDEHLLVINKPRDFVVHPG-AGTP----------------DGTVLNALLHHYPQIA 127
Query: 140 ------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+ +RLD+DT+G+MV+ K+ ++LV+A ++++ Y A+ IG
Sbjct: 128 EVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALAKRRITREYEAIAIG---------- 177
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDM---VTSFEVLSVNGEGS-----FKEPS 245
++ GG V + + T +++VN G ++
Sbjct: 178 ---------------------KMTAGGMVEKGISRHATKRTLMAVNETGKPAVTHYRVAE 216
Query: 246 ELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-- 303
+EH + +E +GRTHQIR+H YL + GD+ Y
Sbjct: 217 HFREHTRIRLRLE---------------------TGRTHQIRVHMSYLQHPLLGDIAYGG 255
Query: 304 -----EGVYEWNGKR---YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+G E K +D LHA L F HP+TG V AP+P
Sbjct: 256 RARIPKGASEELTKMIRAFDRQALHAVMLKFVHPITGEEVEFHAPVP 302
>gi|404476940|ref|YP_006708371.1| 23S RNA-specific pseudouridylate synthase [Brachyspira pilosicoli
B2904]
gi|404438429|gb|AFR71623.1| pseudouridylate synthase, 23S RNA-specific [Brachyspira pilosicoli
B2904]
Length = 298
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 75/264 (28%), Positives = 105/264 (39%), Gaps = 82/264 (31%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN-- 142
D+LYEDE+L+ VNKP C SV C S S R GT +N L H+ +
Sbjct: 79 DILYEDEYLLVVNKP----CN---MSVHC--------SPSER--HGTLVNALLYHIKDFN 121
Query: 143 ------------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
RLD+DTSG+M++ K+ + S + + F + + K Y A+ IG
Sbjct: 122 FVGDKSRAGIIHRLDKDTSGIMIVGKNADIVSAIQEQFKNRTIKKIYHAIVIGVL----- 176
Query: 191 ITIISGHGRSKFGAWRVYAASDVGRVLPGG--SVVRDMVTSFEVLSVNGEGSFKEPSELQ 248
R F LP G SV R +T E +G+ + L
Sbjct: 177 --------RENFYEIN----------LPIGRHSVYRKKMTVRE----DGKKALSYIKVLN 214
Query: 249 EHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYE 308
K L+ ++GRTHQIR+HC Y G + GD Y Y
Sbjct: 215 RF------------------KKHTLIEVNIKTGRTHQIRVHCSYKGFPVAGDKIYSKSYS 256
Query: 309 WNGKRYDGHELHAESLSFDHPVTG 332
Y L A+ + F HP++G
Sbjct: 257 ----NYSNLMLIAKQIEFTHPISG 276
>gi|321314893|ref|YP_004207180.1| pseudouridylate synthase [Bacillus subtilis BSn5]
gi|320021167|gb|ADV96153.1| pseudouridylate synthase [Bacillus subtilis BSn5]
Length = 299
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 78/265 (29%), Positives = 116/265 (43%), Gaps = 67/265 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEG------TKLNLLEL 138
D+LYEDE ++ +NK + ++S+P S E SG ++ G T +
Sbjct: 83 DILYEDEHVLVINK------QPYVSSIP------SREHPSGSIANGIIDHYQTTGVRATV 130
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
HL RLDRDTSGVM++ K S L A + V + Y A+ G R+ + G
Sbjct: 131 HLVTRLDRDTSGVMLVAKHRFAHSILSSAQKNGLVKRRYAAVVHG------RMAQMEGTV 184
Query: 199 RSKFGAWRVYAASDVGR-VLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
+ G + S + R V P G + VT F V N + + ++ +
Sbjct: 185 DAPIGR---HPDSIIERTVTPDG---QKAVTHFYVTCANDDMT-------------SVTL 225
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
+ + +GRTHQIR+H YLG + GD Y G + G++
Sbjct: 226 QLE-------------------TGRTHQIRVHMSYLGHPLCGDTLYGGTRQEIGRQ---- 262
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LH+E LSF HP+T + APLP
Sbjct: 263 ALHSEHLSFIHPLTQKNMTFHAPLP 287
>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 = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 72/263 (27%), Positives = 115/263 (43%), Gaps = 58/263 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YEDE ++ VNKP+G+ V+ P + G ++ + +N ++ + +R
Sbjct: 81 DIYYEDEDVLVVNKPRGM----VVHPAPGHVTGTLVNGLMAHCNDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G + TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRKYTAVVHGII-QHDTGTIDAPIGRDK-- 193
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
D + + VT F+V+ FK+ + VVE +
Sbjct: 194 -------KDRQSMTVTKENAKQAVTHFDVME-----RFKDFT----------VVECRL-- 229
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
+GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 230 ---------------ETGRTHQIRVHMKYIGYPLAGDPKY-------GPRKTVDFNGQLL 267
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA L FDHP TG + AP+P
Sbjct: 268 HAGVLGFDHPRTGEYMEFTAPIP 290
>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 = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 72/257 (28%), Positives = 112/257 (43%), Gaps = 49/257 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED ++ VNKPQG+ + P ++ + LS +++ + +R+D
Sbjct: 89 IVYEDNDVIVVNKPQGMVVHPSVGH-PNGTLVNALLHHADHLSAIN--DVVRPGIVHRID 145
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG++++ K+ + L K + + Y+AL G P K I + GRSK
Sbjct: 146 KDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPHDKG-EINAPIGRSKVD-- 202
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ V+ GG ++ VT F VL DA
Sbjct: 203 -----RKMQAVIEGG---KEAVTHFTVLER---------------------------FDA 227
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
LV +GRTHQIR+H +Y+G + GD Y G +G LHA+ L
Sbjct: 228 FT-----LVELQLETGRTHQIRVHMKYIGYPLAGDPLYGPKKTLPG---NGQFLHAKLLG 279
Query: 326 FDHPVTGCPVMVQAPLP 342
F HP TG ++ +APLP
Sbjct: 280 FTHPTTGEQLVFEAPLP 296
>gi|299148873|ref|ZP_07041935.1| ribosomal large subunit pseudouridine synthase A [Bacteroides sp.
3_1_23]
gi|298513634|gb|EFI37521.1| ribosomal large subunit pseudouridine synthase A [Bacteroides sp.
3_1_23]
Length = 612
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 72/284 (25%), Positives = 124/284 (43%), Gaps = 58/284 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDEWL+ VNKP G + SVP + +S RL + + + +RLD
Sbjct: 347 IVFEDEWLLVVNKPAG------MLSVPG--KAEDRDSVYHRLKKKYPEATGPM-IVHRLD 397
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGP--------APKWKRITIISGH 197
TSG++++ K+ +V L F + + K Y+A+ G P ++ +I+
Sbjct: 398 MATSGLLLVAKTKEVHRDLQAQFANRSIKKRYVAVLDGVIIKTEKEIKPIAEKAILIAKE 457
Query: 198 GRSKFGAWRVYAASDVGRV-LP-------------GGSVVRDMVTSFEVLSVN------G 237
+ + GR+ LP ++ +T ++++S +
Sbjct: 458 TVLTKKTAKAERTGNTGRIELPLCLNPLDRPRQMVSSEHGKEAITEYQIISESERITSES 517
Query: 238 EGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY---LG 294
E +F E + + E E N ++ K I+ +P +GRTHQ+R+H + LG
Sbjct: 518 ENTFNESNRIDESERN---------INESRKYTRIVF--YPLTGRTHQLRVHAAHPEGLG 566
Query: 295 ISIRGDVKYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQ 338
I GD Y GK+ D LHAE + F HP+ G + +Q
Sbjct: 567 CPILGDELY-------GKKADRLYLHAEYIEFRHPIYGDILCIQ 603
>gi|428278685|ref|YP_005560420.1| hypothetical protein BSNT_01943 [Bacillus subtilis subsp. natto
BEST195]
gi|291483642|dbj|BAI84717.1| hypothetical protein BSNT_01943 [Bacillus subtilis subsp. natto
BEST195]
Length = 299
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 79/265 (29%), Positives = 116/265 (43%), Gaps = 67/265 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE------L 138
D+LYEDE ++ +NK + ++S+P S E SG ++ G + + +
Sbjct: 83 DILYEDEHVLVINK------QPYVSSIP------SREHPSGSIANGIIDHYQKNGVRATV 130
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
HL RLDRDTSGVM++ K S L A + V + Y A+ G R+ + G
Sbjct: 131 HLVTRLDRDTSGVMLVAKHRFAHSILSSAQKNGLVKRRYAAVVHG------RMAQMEGTV 184
Query: 199 RSKFGAWRVYAASDVGR-VLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
+ G + S + R V P G + VT F V N +
Sbjct: 185 DAPIGR---HPDSIIERTVTPDG---QKAVTHFYVTCANDD------------------- 219
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
+ + A + E +GRTHQIR+H YLG + GD Y G + G++
Sbjct: 220 -----MTSVALQLE--------TGRTHQIRVHMSYLGHPLCGDTLYGGTRQEIGRQ---- 262
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LH+E LSF HP+T + APLP
Sbjct: 263 ALHSEHLSFIHPLTQKNMTFHAPLP 287
>gi|347818160|ref|ZP_08871594.1| RluA family pseudouridine synthase [Verminephrobacter aporrectodeae
subsp. tuberculatae At4]
Length = 368
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 78/271 (28%), Positives = 108/271 (39%), Gaps = 55/271 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLS-EGTKLNLLELHLANR 143
DVLYED L+ VNKP G+ + SA +G L+ + L L + +R
Sbjct: 133 DVLYEDAQLLVVNKPAGLVVHPAPGNW-------SATLLNGLLARDAGALLLPRAGIVHR 185
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD+DTSG+MV+ + LV A +V + Y+AL G
Sbjct: 186 LDKDTSGLMVVARDRATMDALVAAIAQRRVQRQYLALA--------------------HG 225
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
AW + V + RD + V+ I K A
Sbjct: 226 AWTGPGSRSV-----DAPIGRDPRNRLRMAVVD----------------LAIHAGKSART 264
Query: 264 DA---DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELH 320
DA D ++ +GRTHQIR+H +L + GD Y G +R LH
Sbjct: 265 DALWLDGTDRGCWLQCTLHTGRTHQIRVHMAFLKHPLVGDSLYGGAPLGPLQR---QALH 321
Query: 321 AESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
A L+F HPVTG + +APLP +AL S
Sbjct: 322 AWRLAFVHPVTGQALEFRAPLPEDMQQALAS 352
>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 = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 75/279 (26%), Positives = 109/279 (39%), Gaps = 64/279 (22%)
Query: 86 VLYEDEWLVAVNKPQGVYCE-------SVLASVPCLLAGDSAESKSGRLSEGTKLNLLEL 138
VLYED+ L+ ++KP G+ L + GDS G G
Sbjct: 92 VLYEDKDLIVLSKPAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGGVKRPG-------- 143
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVS----KTYIALCIGPAPKWKRITII 194
+ +RLD++TSGVMV+ K+ L F DH S + Y AL G P+ R TI
Sbjct: 144 -IVHRLDKETSGVMVVAKNDIAHRHLADQFADHGRSGPLERAYQALVWG-RPRGLRGTID 201
Query: 195 SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
+ GR+ R D R+ +T ++V+ GE
Sbjct: 202 AALGRAGDRTKRTVKREDT-------DDAREAITHYQVMERYGE---------------- 238
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK-- 312
DA LV +GRTHQIR+H ++G + GD +Y ++
Sbjct: 239 ---------KPDATCLASLVECRLETGRTHQIRVHMAHIGHPLIGDPEYGAAFKTKANLL 289
Query: 313 ---------RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA L+F+HP TG + AP+P
Sbjct: 290 PDAAKAIVTNFHRQALHAYLLAFEHPTTGDVMHFAAPIP 328
>gi|325579066|ref|ZP_08149022.1| ribosomal large subunit pseudouridine synthase C [Haemophilus
parainfluenzae ATCC 33392]
gi|325159301|gb|EGC71435.1| ribosomal large subunit pseudouridine synthase C [Haemophilus
parainfluenzae ATCC 33392]
Length = 326
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 72/262 (27%), Positives = 113/262 (43%), Gaps = 56/262 (21%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S +L+ED+ L+ +NKP G+ ++ A R L L +R
Sbjct: 98 SHILFEDDCLLVLNKPSGIAVHGGSGLNFGVIEALRALRPEARF----------LELVHR 147
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LDRDTSG++++ K L + V K Y+AL G
Sbjct: 148 LDRDTSGILLVAKKRSTLRNLHEQLRVKTVQKDYLALV--------------------RG 187
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
W+ + +V+ + ++ + ++ V+ +G +PS E +E++
Sbjct: 188 QWQSHV-----KVVQAPLLKNELASGERIVKVSEQG---KPS------ETRFAIEERY-- 231
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD-GHE---L 319
+N LV+A P +GRTHQIR+H QY G I D KY G E++ D G L
Sbjct: 232 -----QNATLVKASPVTGRTHQIRVHTQYAGHPIALDDKY-GDKEFDKYMQDLGLNRLFL 285
Query: 320 HAESLSFDHPVTGCPVMVQAPL 341
HA S+ F+HP TG + + A L
Sbjct: 286 HAFSIRFEHPKTGETLRLNAQL 307
>gi|269139453|ref|YP_003296154.1| 23S rRNA pseudouridylate synthase [Edwardsiella tarda EIB202]
gi|387868035|ref|YP_005699504.1| Ribosomal large subunit pseudouridine synthase C [Edwardsiella
tarda FL6-60]
gi|267985114|gb|ACY84943.1| 23S rRNA pseudouridylate synthase [Edwardsiella tarda EIB202]
gi|304559348|gb|ADM42012.1| Ribosomal large subunit pseudouridine synthase C [Edwardsiella
tarda FL6-60]
Length = 320
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 74/260 (28%), Positives = 110/260 (42%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED++L+ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDYLLVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSGV+++ K L + + + K Y+AL G +W+
Sbjct: 145 RETSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRG---QWQ-------------SHC 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + L G V+ VN EG +PSE + E
Sbjct: 189 KVVQAPLLKNTLQSGE---------RVVRVNAEG---KPSETRFKVEERFA--------- 227
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE----LHA 321
N LV+A P +GRTHQIR+H + G I D +Y G +++ + D LHA
Sbjct: 228 ----NATLVKASPVTGRTHQIRVHTLHAGHPIAFDDRY-GDRDFDRELADTGLNRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP +G + V+APL
Sbjct: 283 AALRFVHPHSGETLRVEAPL 302
>gi|295695962|ref|YP_003589200.1| RluA family pseudouridine synthase [Kyrpidia tusciae DSM 2912]
gi|295411564|gb|ADG06056.1| pseudouridine synthase, RluA family [Kyrpidia tusciae DSM 2912]
Length = 308
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 65/203 (32%), Positives = 85/203 (41%), Gaps = 46/203 (22%)
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
+ +R+DRDTSG++V K+ L K F DH V + Y+AL G P HG
Sbjct: 140 IVHRIDRDTSGLLVAAKTDLAYMGLAKQFHDHTVDREYLALVHGVVP--------HDHGT 191
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
R V+ GG R VT F IV+E+
Sbjct: 192 VDAPVGRHPHLRQQMAVVRGG---RPAVTHF------------------------IVIER 224
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
A L+R +GRTHQIR+H +++G + GD KY K G L
Sbjct: 225 FA--------RATLLRLRLETGRTHQIRVHMEFIGFPVIGDPKYGPRRSLGMK---GQAL 273
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA L FDHP TG V ++PLP
Sbjct: 274 HAAVLGFDHPRTGERVRFESPLP 296
>gi|238920268|ref|YP_002933783.1| pseudouridine synthase, RluA family [Edwardsiella ictaluri 93-146]
gi|238869837|gb|ACR69548.1| pseudouridine synthase, RluA family [Edwardsiella ictaluri 93-146]
Length = 320
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 74/260 (28%), Positives = 110/260 (42%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED++L+ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDYLLVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSGV+++ K L + + + K Y+AL G +W+
Sbjct: 145 RETSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRG---QWQ-------------SHC 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + L G V+ VN EG +PSE + E
Sbjct: 189 KVVQAPLLKNTLQSGE---------RVVRVNAEG---KPSETRFKVEERFA--------- 227
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE----LHA 321
N LV+A P +GRTHQIR+H + G I D +Y G +++ + D LHA
Sbjct: 228 ----NATLVKASPVTGRTHQIRVHTLHAGHPIAFDDRY-GDRDFDRELADTGLNRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP +G + V+APL
Sbjct: 283 AALRFVHPHSGETLRVEAPL 302
>gi|93006645|ref|YP_581082.1| pseudouridylate synthase [Psychrobacter cryohalolentis K5]
gi|92394323|gb|ABE75598.1| tRNA pseudouridine synthase C [Psychrobacter cryohalolentis K5]
Length = 256
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 79/284 (27%), Positives = 136/284 (47%), Gaps = 59/284 (20%)
Query: 70 MSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSE 129
M+ S ++ ++ +++YEDE+LVA+NK G+ L L G++ R +
Sbjct: 1 MNIESDTANQIANQIEIIYEDEFLVAINKEAGL-----LVHRSWLDKGET------RFAM 49
Query: 130 GTKLNLLELHL--ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPK 187
+ + H+ +RLD+ TSGV++ KS VA L +AFT+HKV+K Y+A+ G
Sbjct: 50 QLTRDAVGCHVFPVHRLDKPTSGVLLFAKSSAVARSLTEAFTEHKVTKQYLAVVRG---- 105
Query: 188 WKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGE-GSFKEPS- 245
S+ G V D SF+ ++ + + +P+
Sbjct: 106 ---------------------YMSEQGTV--------DYALSFQPDAIADKFANLDKPAQ 136
Query: 246 ELQEHEENNIVVEKKAVLDADAKKNEI----LVRAFPRSGRTHQIRLHCQYLGISIRGDV 301
E H ++ +E + A +KK++ L+R P +GR HQ+R H ++L I GD
Sbjct: 137 EAVTHWQSLAQIE---LPFAVSKKHDTSRYSLMRLTPETGRKHQLRRHMRHLFHHIVGDT 193
Query: 302 KY-EGVYEWNGKRYDGHE---LHAESLSFDHPVTGCPVMVQAPL 341
+ +G + + G LHA++L+ HPVTG P++++A L
Sbjct: 194 SHGDGRHNRFFRTQYGCARMLLHAQTLALSHPVTGEPLLLKAGL 237
>gi|440684013|ref|YP_007158808.1| pseudouridine synthase [Anabaena cylindrica PCC 7122]
gi|428681132|gb|AFZ59898.1| pseudouridine synthase [Anabaena cylindrica PCC 7122]
Length = 581
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 74/268 (27%), Positives = 110/268 (41%), Gaps = 74/268 (27%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED+WL+AVNKP G L SVP G + ++ LS L +EL +RLD
Sbjct: 371 IIYEDKWLIAVNKPPG------LLSVP----GRYSYNQDSVLSRLRNLYDMELMTVHRLD 420
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG++++ K+ S+L + F ++ K Y A+ G ++ G W
Sbjct: 421 QDTSGILLLAKNLFTYSQLSQQFEKRQIHKVYEAILAG--------SLAIAEGVIDLPLW 472
Query: 206 R-----VYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
+ +Y D+ R P +T F V+ G+ +
Sbjct: 473 KNPEQSLYQKVDLERGKPS-------LTRFRVMGKVGDYT-------------------- 505
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHC---QYLGISIRGDVKYEGVYEWNGKRYDGH 317
V P +GRTHQ+R+H + LGI+I GD Y G D
Sbjct: 506 ------------RVEFIPLTGRTHQLRVHAADVRGLGIAILGDRLY-------GCNIDAC 546
Query: 318 E--LHAESLSFDHPVTGCPVMVQAPLPL 343
LHA LSF HP + +Q P
Sbjct: 547 RLYLHARELSFYHPHLEETIHLQTATPF 574
>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 = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 73/257 (28%), Positives = 112/257 (43%), Gaps = 49/257 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED ++ VNKPQG+ A P ++ + LS +++ + +R+D
Sbjct: 89 IVYEDNDVIVVNKPQGMVVHPS-AGHPNGTLVNALLHHADHLSAIN--DVVRPGIVHRID 145
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG++++ K+ + L K + + Y+AL G P K I + GRSK
Sbjct: 146 KDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPHDKG-EINAPIGRSKVD-- 202
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ V+ GG ++ VT F VL DA
Sbjct: 203 -----RKMQAVIEGG---KEAVTHFTVLER---------------------------FDA 227
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
LV +GRTHQIR+H +Y+G + GD Y G +G LHA+ L
Sbjct: 228 FT-----LVELQLETGRTHQIRVHMKYIGYPLAGDPLYGPKKTLPG---NGQFLHAKLLG 279
Query: 326 FDHPVTGCPVMVQAPLP 342
F HP TG ++ +APLP
Sbjct: 280 FTHPTTGEQLVFEAPLP 296
>gi|430756471|ref|YP_007210142.1| RNA pseudouridine synthase YjbO [Bacillus subtilis subsp. subtilis
str. BSP1]
gi|430020991|gb|AGA21597.1| putative RNA pseudouridine synthase YjbO [Bacillus subtilis subsp.
subtilis str. BSP1]
Length = 283
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 78/265 (29%), Positives = 116/265 (43%), Gaps = 67/265 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEG------TKLNLLEL 138
D+LYEDE ++ +NK + ++S+P S E SG ++ G T +
Sbjct: 67 DILYEDEHVLVINK------QPYVSSIP------SREHPSGSIANGIIDHYQTTGVRATV 114
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
HL RLDRDTSGVM++ K S L A + V + Y A+ G R+ + G
Sbjct: 115 HLVTRLDRDTSGVMLVAKHRFAHSILSSAQKNGLVKRRYAAVVHG------RMAQMEGTV 168
Query: 199 RSKFGAWRVYAASDVGR-VLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
+ G + S + R V P G + VT F V N + + ++ +
Sbjct: 169 DAPIGR---HPDSIIERTVTPDG---QKAVTHFYVTCANDDMT-------------SVTL 209
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
+ + +GRTHQIR+H YLG + GD Y G + G++
Sbjct: 210 QLE-------------------TGRTHQIRVHMSYLGHPLCGDTLYGGTRQEIGRQ---- 246
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LH+E LSF HP+T + APLP
Sbjct: 247 ALHSEHLSFIHPLTQENMTFHAPLP 271
>gi|423667070|ref|ZP_17642099.1| RluA family pseudouridine synthase [Bacillus cereus VDM034]
gi|423676896|ref|ZP_17651835.1| RluA family pseudouridine synthase [Bacillus cereus VDM062]
gi|401304514|gb|EJS10066.1| RluA family pseudouridine synthase [Bacillus cereus VDM034]
gi|401307157|gb|EJS12614.1| RluA family pseudouridine synthase [Bacillus cereus VDM062]
Length = 307
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 76/270 (28%), Positives = 113/270 (41%), Gaps = 75/270 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA--- 141
+V++ED+ ++ VNK G S + GT NL+ H
Sbjct: 86 NVVFEDDHVLIVNK-----------------QGQMDTHPSEKNGTGTLANLVAFHFQMQG 128
Query: 142 --------NRLDRDTSGVMVITKSHKVASKLV-KAFTDHKVSKTYIALCIGPAPKWKRIT 192
+RLD+DT+G +V K H++A ++ + + K+ +TY+AL G K K+ T
Sbjct: 129 LETKVRHIHRLDKDTTGGVVFAK-HRIAGAIMDRLLMERKIKRTYMALVEGKVKK-KQGT 186
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
I + GR + A R RV P G +T ++V E FK
Sbjct: 187 IDAAIGRDRHHATR-------RRVSPKGD---QAITYYKV-----EKYFK---------- 221
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
K+N LV +GRTHQIR+H Y G + GDV Y G +
Sbjct: 222 ---------------KQNATLVTLQLETGRTHQIRVHMSYNGNPLVGDVLYGGQTTY--- 263
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA ++F HP+T ++V P P
Sbjct: 264 -MSGQALHAMKINFLHPITKEEIVVDVPFP 292
>gi|384174855|ref|YP_005556240.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Bacillus subtilis subsp. subtilis str. RO-NN-1]
gi|349594079|gb|AEP90266.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Bacillus subtilis subsp. subtilis str. RO-NN-1]
Length = 299
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 78/265 (29%), Positives = 116/265 (43%), Gaps = 67/265 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEG------TKLNLLEL 138
D+LYEDE ++ +NK + ++S+P S E SG ++ G T +
Sbjct: 83 DILYEDEHVLVINK------QPYVSSIP------SREHPSGSIANGIIDHYQTTGVRATV 130
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
HL RLDRDTSGVM++ K S L A + V + Y A+ G R+ + G
Sbjct: 131 HLVTRLDRDTSGVMLVAKHRFAHSILSSAQKNGLVKRRYAAVVHG------RMAQMEGTV 184
Query: 199 RSKFGAWRVYAASDVGR-VLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
+ G + S + R V P G + VT F V N + + ++ +
Sbjct: 185 DAPIGR---HPDSIIERTVTPDG---QKAVTHFYVTCANDDMT-------------SVTL 225
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
+ + +GRTHQIR+H YLG + GD Y G + G++
Sbjct: 226 QLE-------------------TGRTHQIRVHMSYLGHPLCGDTLYGGTRQEIGRQ---- 262
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LH+E LSF HP+T + APLP
Sbjct: 263 ALHSEHLSFIHPLTQENMTFHAPLP 287
>gi|307730549|ref|YP_003907773.1| RluA family pseudouridine synthase [Burkholderia sp. CCGE1003]
gi|307585084|gb|ADN58482.1| pseudouridine synthase, RluA family [Burkholderia sp. CCGE1003]
Length = 345
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 74/266 (27%), Positives = 118/266 (44%), Gaps = 59/266 (22%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDE L+ ++KP GV + + G + + R + LEL +RLD
Sbjct: 105 IIFEDEHLLVIDKPAGV----AVHGGSGVAFGVIEQMREAR----PQAKFLEL--VHRLD 154
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSG++++ K L ++K+ K Y A C+ G W
Sbjct: 155 RETSGILMLAKKRSALVNLHDQIRENKMDKRYYA-CV-------------------HGDW 194
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSE-LQEHEENNIVVEKKAVLD 264
ASD GR V++ + + L+ +GE + ++ L H N++
Sbjct: 195 ----ASDWGR----RRAVKEPLHKY--LTADGERRVRVQADGLASHTVFNLI-------- 236
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------ 318
D + L+ A ++GRTHQIR+H Q+L + I GD KY G + N +
Sbjct: 237 -DRWPDYALLEAELKTGRTHQIRVHLQHLELPIVGDAKY-GDFALNKALARANAKPGLKR 294
Query: 319 --LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP TG P+ ++APLP
Sbjct: 295 MFLHAYRLKLTHPATGAPLQLEAPLP 320
>gi|167720581|ref|ZP_02403817.1| pseudouridine synthase, RluA family protein [Burkholderia
pseudomallei DM98]
Length = 247
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 74/269 (27%), Positives = 114/269 (42%), Gaps = 63/269 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++L+ED+ ++ +NKP GV G + + L LA+RL
Sbjct: 14 EILFEDDAIIVLNKPAGVAVHG----------GSGVAFGVIEQMRHARPHAKFLELAHRL 63
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
DR+TSG++++ K L + ++++ K Y A C+ G
Sbjct: 64 DRETSGILMLAKKRSALVGLHEQIRENRMDKRYFA-CV-------------------HGD 103
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTS--FEVLSVNGEGSFK-EPSELQEHEENNIVVEKKA 261
W A+D GR R +V + F+ + +GE + + L H N+V
Sbjct: 104 W----AADWGR--------RRVVKAPLFKYATPDGERRVRVQEDGLPSHTVFNLV----- 146
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE--- 318
D + LV A ++GRTHQIR+H +LG+ I GD KY G + N +
Sbjct: 147 ----DRWPDYALVEAELKTGRTHQIRVHLAHLGLPIVGDAKY-GDFALNKALARANAVPS 201
Query: 319 -----LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP+TG P+ APLP
Sbjct: 202 IKRMFLHAHRLRLAHPLTGEPLQFDAPLP 230
>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 = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 72/268 (26%), Positives = 118/268 (44%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGIMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + R K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIARDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P +AL
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPEVFEDAL 297
>gi|407000106|gb|EKE17520.1| hypothetical protein ACD_10C00413G0001 [uncultured bacterium]
Length = 338
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 77/264 (29%), Positives = 110/264 (41%), Gaps = 60/264 (22%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YEDE ++ +NKP+GV ++ + + L LA+RLD
Sbjct: 94 IIYEDEAMLVINKPEGVAVHGGSGVSFGVIEALRRQRPQAKF----------LELAHRLD 143
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVS--KTYIALCIGPAPKWKRITIISGHGRSKFG 203
R+TSGV+++ K + L F +H K Y+ L G +W T K
Sbjct: 144 RETSGVLLVGKKRLALTALHDMFREHGAGADKRYLVLVKG---RWMNAT-----QHVKLP 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ S RV SVN EG +
Sbjct: 196 LHKYLTESGERRV-----------------SVNPEGK-----------------ASHTIF 221
Query: 264 DADAKKNEI-LVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWNGKRYDGHE--- 318
A+ E+ L+ A ++GRTHQIR+H YLG I GD KY E N KR DG +
Sbjct: 222 RLLARWPEMSLLEAQLKTGRTHQIRVHLAYLGFPILGDEKYGEFALNKNLKR-DGLKRMA 280
Query: 319 LHAESLSFDHPVTGCPVMVQAPLP 342
LHA ++F HP+TG P+ AP+P
Sbjct: 281 LHAWRMAFQHPLTGAPLECIAPVP 304
>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 = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 72/257 (28%), Positives = 112/257 (43%), Gaps = 49/257 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED ++ VNKPQG+ + L ++ + LS +++ + +R+D
Sbjct: 89 IVYEDNDVIVVNKPQGMVVHPSVGHPNGTLV-NALLHHADHLSAIN--DVVRPGIVHRID 145
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG++++ K+ + L K + + Y+AL G P K I + GRSK
Sbjct: 146 KDTSGLLMVAKNDQAYESLAKQLKEKTSLRKYVALVHGVIPHDKG-EINAPIGRSKVD-- 202
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ V+ GG ++ VT F VL DA
Sbjct: 203 -----RKMQAVIEGG---KEAVTHFTVLER---------------------------FDA 227
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
LV +GRTHQIR+H +Y+G + GD Y G +G LHA+ L
Sbjct: 228 FT-----LVELQLETGRTHQIRVHMKYIGYPLAGDPLYGPKKTLPG---NGQFLHAKLLG 279
Query: 326 FDHPVTGCPVMVQAPLP 342
F HP TG ++ +APLP
Sbjct: 280 FTHPTTGEQLVFEAPLP 296
>gi|381166027|ref|ZP_09875245.1| Pseudouridine synthase [Phaeospirillum molischianum DSM 120]
gi|380684759|emb|CCG40057.1| Pseudouridine synthase [Phaeospirillum molischianum DSM 120]
Length = 331
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 82/297 (27%), Positives = 120/297 (40%), Gaps = 66/297 (22%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPLP + +A + + R VLY D+ ++ +NKP G+ +
Sbjct: 65 PPLPVGPAPV--VQAPRPTVDERTARALRDAVLYIDDDVIVLNKPPGLAVQGGTG----- 117
Query: 115 LAGDSAESKSGRLSEGTKLNLLEL------HLANRLDRDTSGVMVITKSHKVASKLVKAF 168
+A + ++ L++L L +RLD+DTSGV+++ +S +KL F
Sbjct: 118 MADNHLDAM---------LDVLRFDAPDRPRLVHRLDKDTSGVLLLGRSVGATAKLAALF 168
Query: 169 TDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVT 228
K Y AL G PK ++ I + G+ GG V M
Sbjct: 169 KSRSAQKCYWALVAG-VPKLRQGRIDAPLGKL------------------GGKGVEKMGV 209
Query: 229 SFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRL 288
+ E+ V ++D+ A K + PR+GRTHQ+R
Sbjct: 210 --------------------DEEDGRHAVTYYRIVDS-ALKRAAWLEMEPRTGRTHQLRA 248
Query: 289 HCQYLGISIRGDVKYEG---VYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
HC LG I GD KY G + E G H LHA +L HP TG + V APLP
Sbjct: 249 HCLLLGTPILGDGKYGGKDAMIEGFGLSRKLH-LHARALRLPHPRTGKRLEVVAPLP 304
>gi|300871333|ref|YP_003786206.1| pseudouridylate synthase, 23S RNA-specific [Brachyspira pilosicoli
95/1000]
gi|300689034|gb|ADK31705.1| pseudouridylate synthase, 23S RNA-specific [Brachyspira pilosicoli
95/1000]
Length = 298
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 75/264 (28%), Positives = 105/264 (39%), Gaps = 82/264 (31%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN-- 142
D+LYEDE+L+ VNKP C SV C S S R GT +N L H+ +
Sbjct: 79 DILYEDEYLLVVNKP----CN---MSVHC--------SPSER--HGTLVNALLYHIKDFN 121
Query: 143 ------------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKR 190
RLD+DTSG+M++ K+ + S + + F + + K Y A+ IG
Sbjct: 122 FVGDKSRAGIIHRLDKDTSGIMIVGKNADIVSAIQEQFKNRTIKKIYHAIVIGVL----- 176
Query: 191 ITIISGHGRSKFGAWRVYAASDVGRVLPGG--SVVRDMVTSFEVLSVNGEGSFKEPSELQ 248
R F LP G SV R +T E +G+ + L
Sbjct: 177 --------RENFYEIN----------LPIGRHSVYRKKMTVRE----DGKKALSYIKVLN 214
Query: 249 EHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYE 308
K L+ ++GRTHQIR+HC Y G + GD Y Y
Sbjct: 215 RF------------------KKHTLIEVNIKTGRTHQIRVHCSYKGFPVAGDKIYSKSYS 256
Query: 309 WNGKRYDGHELHAESLSFDHPVTG 332
Y L A+ + F HP++G
Sbjct: 257 ----NYSNLMLIAKQIEFTHPISG 276
>gi|269962553|ref|ZP_06176901.1| Pseudouridylate synthase, 23S RNA-specific [Vibrio harveyi 1DA3]
gi|424047834|ref|ZP_17785390.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HENC-03]
gi|269832748|gb|EEZ86859.1| Pseudouridylate synthase, 23S RNA-specific [Vibrio harveyi 1DA3]
gi|408883144|gb|EKM21931.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae
HENC-03]
Length = 325
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 78/294 (26%), Positives = 119/294 (40%), Gaps = 85/294 (28%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YEDE ++ +NKP+ A P +GT LN L H
Sbjct: 85 DIVYEDEDIIVINKPRDFVVHPG-AGTP----------------DGTVLNALLHHYPDIA 127
Query: 140 ------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+ +RLD+DT+G+MV+ K+ ++LV+A +++ Y A+ IG ++
Sbjct: 128 EVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRNITREYEAIAIGRMTAGGKVDK 187
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
G +K R A V P G + VT + V +EH
Sbjct: 188 PIGRHSTK----RTLMA-----VAPMG---KHAVTHYRV-----------AEHFREHTRI 224
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEW-NG- 311
+ +E +GRTHQIR+H YL + GD Y G G
Sbjct: 225 RLRLE---------------------TGRTHQIRVHMSYLQHPLLGDTAYGGRARIPTGA 263
Query: 312 --------KRYDGHELHAESLSFDHPVTGCPVMVQAPLP---LWGTEALQSSSK 354
+ +D LHA L F+HPVTG + AP+P + TEAL+ ++
Sbjct: 264 SQELTEMIRGFDRQALHAVMLRFEHPVTGEELEFHAPVPDDMVEMTEALRKDTE 317
>gi|449093861|ref|YP_007426352.1| hypothetical protein C663_1190 [Bacillus subtilis XF-1]
gi|449027776|gb|AGE63015.1| hypothetical protein C663_1190 [Bacillus subtilis XF-1]
Length = 299
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 79/265 (29%), Positives = 116/265 (43%), Gaps = 67/265 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE------L 138
D+LYEDE ++ +NK + ++S+P S E SG ++ G + + +
Sbjct: 83 DILYEDEHVLVINK------QPYVSSIP------SREHPSGSIANGIIDHYQKNGVRATV 130
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
HL RLDRDTSGVM++ K S L A + V + Y A+ G R+ + G
Sbjct: 131 HLVTRLDRDTSGVMLVAKHRFAHSILSSAQKNGLVKRRYAAVVHG------RMAQMEGTV 184
Query: 199 RSKFGAWRVYAASDVGR-VLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
+ G + S + R V P G + VT F V N +
Sbjct: 185 DAPIGR---HPDSIIERTVTPDG---QKAVTHFYVTCANDD------------------- 219
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
+ + A + E +GRTHQIR+H YLG + GD Y G + G++
Sbjct: 220 -----MTSVALQLE--------TGRTHQIRVHMSYLGHPLCGDTLYGGTRQEIGRQ---- 262
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LH+E LSF HP+T + APLP
Sbjct: 263 ALHSEHLSFIHPLTQENMTFHAPLP 287
>gi|261367348|ref|ZP_05980231.1| ribosomal large subunit pseudouridine synthase D [Subdoligranulum
variabile DSM 15176]
gi|282570108|gb|EFB75643.1| pseudouridine synthase, RluA family [Subdoligranulum variabile DSM
15176]
Length = 299
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 75/262 (28%), Positives = 110/262 (41%), Gaps = 68/262 (25%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGD-----SAESKSGRLSEGTKLNLLELHL 140
++YEDE+ ++KP G+ L LA ++ K+G
Sbjct: 80 IVYEDEFAAVLDKPAGLAVHPTLNYPDHTLANGWIYYLQSQGKNGVFRP----------- 128
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
NR+D++TSG +V+ + A+ L+ + K Y+A+ G P
Sbjct: 129 VNRIDKNTSG-LVLCAQNAFAAPLLAG----QAKKCYLAIVQGSLP-------------- 169
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
G RV A +GR G S++ VT EG + + +
Sbjct: 170 -LGPGRVEA--PIGRR--GDSIIGRCVTP--------EGKYS--------------LTEY 202
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELH 320
VL A A+ + LV PR+GRTHQIR+H Y+G + GD Y G N +R H LH
Sbjct: 203 TVLAASAEHS--LVACIPRTGRTHQIRVHMAYIGHPLAGDTLYGG----NIRRIGRHALH 256
Query: 321 AESLSFDHPVTGCPVMVQAPLP 342
L F HPVT P+ V P+P
Sbjct: 257 CAVLHFVHPVTRKPIRVSCPMP 278
>gi|83719283|ref|YP_442243.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
thailandensis E264]
gi|83653108|gb|ABC37171.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
thailandensis E264]
Length = 477
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 74/269 (27%), Positives = 113/269 (42%), Gaps = 63/269 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++L+ED+ ++A+NKP GV + G + + L L +RL
Sbjct: 244 EILFEDDAIIALNKPAGV----------AVHGGSGVAFGVIEQMRHARPHAKFLELVHRL 293
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
DR+TSG++++ K L + ++++ K Y A C+ G
Sbjct: 294 DRETSGILMLAKKRSALVGLHEQIRENRMDKRYFA-CV-------------------HGD 333
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTS--FEVLSVNGEGSFK-EPSELQEHEENNIVVEKKA 261
W A+D GR R V + F+ + +GE + + L H N+V
Sbjct: 334 W----AADWGR--------RRAVKAPLFKYATPDGERRVRVQEDGLPSHTVFNLV----- 376
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE--- 318
D + LV A ++GRTHQIR+H +LG+ I GD KY G + N
Sbjct: 377 ----DRWPDYALVEAELKTGRTHQIRVHLAHLGLPIVGDAKY-GDFALNKALARASAVPS 431
Query: 319 -----LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP+TG P+ APLP
Sbjct: 432 IKRMFLHAHRLRLAHPLTGEPLQFDAPLP 460
>gi|425069447|ref|ZP_18472562.1| RluA family pseudouridine synthase [Proteus mirabilis WGLW6]
gi|404596873|gb|EKA97380.1| RluA family pseudouridine synthase [Proteus mirabilis WGLW6]
Length = 232
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 72/262 (27%), Positives = 107/262 (40%), Gaps = 46/262 (17%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN 142
+ + LY+DE L+ +NKP G+ L+G + ++ L E L +
Sbjct: 16 KIEYLYQDEHLLVINKPSGLLS----------LSGKNPQNIDSVHYRLVPL-FPECTLVH 64
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD TSGVMVI + + L + F+ V+K Y AL + GH +
Sbjct: 65 RLDFGTSGVMVIALNKAINRALCQQFSQRTVTKAYDAL-------------LCGHLQHDS 111
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
G A D F +S++ S Q V+E+
Sbjct: 112 GVIEAPIAKDP--------------QHFPRMSISTTQGKAARSYYQ-------VIERFYQ 150
Query: 263 LDADAKKNEIL-VRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
AD + + VR P +GRTHQ+R+HCQY+G I G Y G+ + LHA
Sbjct: 151 TLADGTRLPLTRVRLTPETGRTHQLRIHCQYIGHPILGCDLYGGLLLSGTEHTPRLMLHA 210
Query: 322 ESLSFDHPVTGCPVMVQAPLPL 343
L F HP++ P+ + P P
Sbjct: 211 CELHFIHPISEQPMDIYLPSPF 232
>gi|389694600|ref|ZP_10182694.1| pseudouridine synthase, RluA family [Microvirga sp. WSM3557]
gi|388587986|gb|EIM28279.1| pseudouridine synthase, RluA family [Microvirga sp. WSM3557]
Length = 435
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 77/265 (29%), Positives = 111/265 (41%), Gaps = 54/265 (20%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLAS---VPCLLAGDSAESKSGRLSEGTKLNLLELH 139
+S LYED+ ++ +NKP G+ + + V LL +S + EG K L+
Sbjct: 194 KSITLYEDKDVLIINKPMGLAVQGGSGTKRHVDGLL-------ESLKDDEGQKPRLV--- 243
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
+RLD+DT+G +VI K+ AS + K+F K Y AL ++G R
Sbjct: 244 --HRLDKDTAGCLVIAKTRFAASTMAKSFRARTTRKIYWAL-------------VAGVPR 288
Query: 200 SKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK 259
K G Y A + EG + E + +
Sbjct: 289 VKQGRVSTYLAKE-----------------------GDEGDSRMRVARHGDEGASHALTY 325
Query: 260 KAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN--GKRYDGH 317
AV+D A+K L P +GRTHQ+R H ++G I GD KY + W G +
Sbjct: 326 YAVVDTSAQKLAWLS-LKPVTGRTHQLRAHTAHIGHPIVGDPKYFDIENWELPGGIQNKL 384
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
L A + HP TG P+ V APLP
Sbjct: 385 HLLARRIVIAHPRTGKPIDVTAPLP 409
>gi|255021322|ref|ZP_05293370.1| Ribosomal large subunit pseudouridine synthase C [Acidithiobacillus
caldus ATCC 51756]
gi|340782174|ref|YP_004748781.1| ribosomal large subunit pseudouridine synthase C [Acidithiobacillus
caldus SM-1]
gi|254969185|gb|EET26699.1| Ribosomal large subunit pseudouridine synthase C [Acidithiobacillus
caldus ATCC 51756]
gi|340556327|gb|AEK58081.1| Ribosomal large subunit pseudouridine synthase C [Acidithiobacillus
caldus SM-1]
Length = 316
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 79/266 (29%), Positives = 120/266 (45%), Gaps = 59/266 (22%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKL--NLLELHL 140
R VL+ED+ ++ ++KP G+ + + G + +L +L EL L
Sbjct: 89 RERVLFEDDRVLVLDKPAGMAVHG------------GSGIRYGVIEALRQLRPDLRELEL 136
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
+RLDRDTSG ++++K L +A + + K Y+AL G +WK
Sbjct: 137 VHRLDRDTSGCLLLSKRRSALRSLHQALREEAMDKRYLALVGG---RWK----------- 182
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
GA RV LP + ++++ S E + E K P+ + + E ++ +
Sbjct: 183 --GAERVVK-------LP---LRKNILQSGERIVRVDEDQGK-PARTRFYREEDLGI--- 226
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK-RYDGHE- 318
L+RA +GRTHQIR+H Q +G GD KY G +NG R G
Sbjct: 227 ----------ATLLRAELDTGRTHQIRVHLQAIGHPTAGDSKY-GDETFNGAMRALGLRR 275
Query: 319 --LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L+F HP V V+APLP
Sbjct: 276 LFLHAAFLAFPHPRDERIVRVEAPLP 301
>gi|229010681|ref|ZP_04167879.1| Pseudouridine synthase [Bacillus mycoides DSM 2048]
gi|423486505|ref|ZP_17463187.1| RluA family pseudouridine synthase [Bacillus cereus BtB2-4]
gi|423492229|ref|ZP_17468873.1| RluA family pseudouridine synthase [Bacillus cereus CER057]
gi|423500980|ref|ZP_17477597.1| RluA family pseudouridine synthase [Bacillus cereus CER074]
gi|423601272|ref|ZP_17577272.1| RluA family pseudouridine synthase [Bacillus cereus VD078]
gi|423663732|ref|ZP_17638901.1| RluA family pseudouridine synthase [Bacillus cereus VDM022]
gi|228750575|gb|EEM00403.1| Pseudouridine synthase [Bacillus mycoides DSM 2048]
gi|401154304|gb|EJQ61722.1| RluA family pseudouridine synthase [Bacillus cereus CER074]
gi|401156513|gb|EJQ63917.1| RluA family pseudouridine synthase [Bacillus cereus CER057]
gi|401230699|gb|EJR37205.1| RluA family pseudouridine synthase [Bacillus cereus VD078]
gi|401295632|gb|EJS01256.1| RluA family pseudouridine synthase [Bacillus cereus VDM022]
gi|402439286|gb|EJV71293.1| RluA family pseudouridine synthase [Bacillus cereus BtB2-4]
Length = 307
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 76/270 (28%), Positives = 113/270 (41%), Gaps = 75/270 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA--- 141
+V++ED+ ++ VNK G S + GT NL+ H
Sbjct: 86 NVVFEDDHVLIVNK-----------------QGQMDTHPSEKNGTGTLANLVAFHFQMQG 128
Query: 142 --------NRLDRDTSGVMVITKSHKVASKLV-KAFTDHKVSKTYIALCIGPAPKWKRIT 192
+RLD+DT+G +V K H++A ++ + + K+ +TY+AL G K K+ T
Sbjct: 129 LETKVRHIHRLDKDTTGGVVFAK-HRIAGAIMDRLLMERKIKRTYMALVEGKVKK-KQGT 186
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
I + GR + A R RV P G +T ++V E FK
Sbjct: 187 IDAAIGRDRHHATR-------RRVSPKGD---QAITYYKV-----EKYFK---------- 221
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
K+N LV +GRTHQIR+H Y G + GDV Y G +
Sbjct: 222 ---------------KQNATLVTLQLETGRTHQIRVHMSYNGNPLVGDVLYGGQTTY--- 263
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA ++F HP+T ++V P P
Sbjct: 264 -MSGQALHAMKINFLHPITKEEIVVDVPFP 292
>gi|288553139|ref|YP_003425074.1| large ribosomal pseudouridine synthesis protein [Bacillus
pseudofirmus OF4]
gi|288544299|gb|ADC48182.1| large ribosomal pseudouridine synthesis protein [Bacillus
pseudofirmus OF4]
Length = 304
Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 71/259 (27%), Positives = 110/259 (42%), Gaps = 49/259 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
DV+YED ++ VNKP+G+ V+ P G + + + +N ++ + +R
Sbjct: 81 DVVYEDADVIVVNKPRGM----VVHPAPGHYTGTLVNALLYHCKDLSGINGVIRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV + Y A+ G P + TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDHAHESLVSQLKAKTTKRHYKAIVHGVIPH-QHGTIEAPIGRDKKD 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ D R D VT F VL FK+ + +Q E
Sbjct: 196 RQSMTVTEDNSR---------DAVTHFTVLE-----CFKDFTYVQCELE----------- 230
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+GRTHQIR+H +Y+G + GD KY + +G LHA +
Sbjct: 231 ----------------TGRTHQIRVHMKYIGYPLAGDPKYGP--KKKTLEIEGQALHAAT 272
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L F HP TG + AP+P
Sbjct: 273 LGFTHPRTGEELEFSAPIP 291
>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 = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 73/257 (28%), Positives = 112/257 (43%), Gaps = 49/257 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED ++ VNKPQG+ A P ++ + LS +++ + +R+D
Sbjct: 89 IVYEDNDVIVVNKPQGMVVHPS-AGHPKGTLVNALLHHADHLSAIN--DVVRPGIVHRID 145
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG++++ K+ + L K + + Y+AL G P K I + GRSK
Sbjct: 146 KDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPHDKG-EINAPIGRSKVD-- 202
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ V+ GG ++ VT F VL DA
Sbjct: 203 -----RKMQAVIEGG---KEAVTHFTVLER---------------------------FDA 227
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
LV +GRTHQIR+H +Y+G + GD Y G +G LHA+ L
Sbjct: 228 FT-----LVELQLETGRTHQIRVHMKYIGYPLAGDPLYGPKKTLPG---NGQFLHAKLLG 279
Query: 326 FDHPVTGCPVMVQAPLP 342
F HP TG ++ +APLP
Sbjct: 280 FTHPTTGEQLVFEAPLP 296
>gi|374581913|ref|ZP_09655007.1| pseudouridine synthase, RluA family [Desulfosporosinus youngiae DSM
17734]
gi|374417995|gb|EHQ90430.1| pseudouridine synthase, RluA family [Desulfosporosinus youngiae DSM
17734]
Length = 307
Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 73/266 (27%), Positives = 107/266 (40%), Gaps = 69/266 (25%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+LYED++L+AVNKP G Y E LA+ + G RL
Sbjct: 84 DILYEDDYLLAVNKPVGQVVHPNRRYPEHTLANA---VTGHWERKGENRLYRPI------ 134
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWK-RITIISG 196
+R+DR+TSGV+VI K+ +L + K Y+ G P+ + I G
Sbjct: 135 ----HRIDRNTSGVVVIAKNQFAHQQLAWQLERGHIHKRYLGFVEGVVPEDEGTIDDPIG 190
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
+ F +++ P G R T F VL +F E +
Sbjct: 191 FAPNSFIKRQIH---------PDGMTAR---THFRVLRRYSCATFLE-----------FI 227
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDG 316
+E +GRTHQIR+HC+ G + GD Y G D
Sbjct: 228 LE---------------------TGRTHQIRVHCEGFGHPLIGDDLYSGT----KTLLDR 262
Query: 317 HELHAESLSFDHPVTGCPVMVQAPLP 342
H LH+ +F HP +G P++++AP P
Sbjct: 263 HALHSSMYAFLHPSSGLPMVIRAPFP 288
>gi|404418427|ref|ZP_11000194.1| pseudouridylate synthase [Staphylococcus arlettae CVD059]
gi|403489020|gb|EJY94598.1| pseudouridylate synthase [Staphylococcus arlettae CVD059]
Length = 305
Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 80/324 (24%), Positives = 124/324 (38%), Gaps = 83/324 (25%)
Query: 39 SQNAPQTQQNYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNK 98
S N + + NY ++ + K++ + +Y YED+ + V K
Sbjct: 44 SVNGKEVKSNYKVKMNDTIEVTEKEVVEADIQPENLDLGIY--------YEDDDVAIVYK 95
Query: 99 PQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH---------LANRLDRDTS 149
P+G ++ SA +G L G + L + +R+D+DTS
Sbjct: 96 PKG------------MVVHPSAGHYTGTLVNGLMYQMKNLSGINGEVRPGIVHRIDKDTS 143
Query: 150 GVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYA 209
G++++ K+ LV D V++ Y AL G P T+ + GR+K +
Sbjct: 144 GLLMVAKNDIAHRGLVDQLVDKSVTRKYTALVHGNIPH-DYGTVDAPIGRNKNDRQAMDV 202
Query: 210 ASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKK 269
D ++ VT F V KK K
Sbjct: 203 VDDG----------KEAVTHFNV--------------------------KKHF------K 220
Query: 270 NEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHELHAESLS 325
N LV +GRTHQIR+H +Y+G + GD KY G R G LHA +
Sbjct: 221 NYTLVECQLETGRTHQIRVHMKYIGFPLVGDTKY-------GPRKTMDIGGQALHAGVIG 273
Query: 326 FDHPVTGCPVMVQAPLPLWGTEAL 349
F+HP+T + +APLP + E L
Sbjct: 274 FEHPITKEYIEQEAPLPQYFNEIL 297
>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 = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 73/268 (27%), Positives = 117/268 (43%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + R K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIARDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------HAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P EAL
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPEVFEEAL 297
>gi|420245078|ref|ZP_14748755.1| pseudouridine synthase, RluA family [Rhizobium sp. CF080]
gi|398049440|gb|EJL41860.1| pseudouridine synthase, RluA family [Rhizobium sp. CF080]
Length = 331
Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 85/294 (28%), Positives = 121/294 (41%), Gaps = 57/294 (19%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---VLASV 111
PP+ +K S LSR VL+EDE ++ +NKP G+ + V +
Sbjct: 65 PPMEVDAKKTGPIAGKDLKHSSDFELLSRM-VLHEDEKVIVLNKPAGLAVQGGSGVARHI 123
Query: 112 PCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH 171
+L DS S G L +RLDRDTSGV+VI ++ A KL AF +
Sbjct: 124 DQML--DSWVSPKGEKPR----------LVHRLDRDTSGVLVIARTRGAAQKLTAAFRER 171
Query: 172 KVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFE 231
KTY AL G K + K W V + P G +R
Sbjct: 172 DTKKTYWALVKGVPRKHE----------DKISTWLVKEQT------PDGDRMR------- 208
Query: 232 VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQ 291
++ +GE + + V VL+ A + + P +GRTHQ+R+H
Sbjct: 209 -IAKHGE------------DGADHAVSYYRVLEM-AAQTLCWMEMEPYTGRTHQLRVHAL 254
Query: 292 YLGISIRGDVKY-EGVYEWN--GKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
++G I GD KY + + W+ G LHA + HP G + V APLP
Sbjct: 255 HIGHPIIGDPKYFDDDHNWDFPGGIQKKLHLHARHIDIPHP-NGGRLKVTAPLP 307
>gi|335037208|ref|ZP_08530519.1| ribosomal large subunit pseudouridine synthase C [Agrobacterium sp.
ATCC 31749]
gi|333791364|gb|EGL62750.1| ribosomal large subunit pseudouridine synthase C [Agrobacterium sp.
ATCC 31749]
Length = 329
Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 75/262 (28%), Positives = 112/262 (42%), Gaps = 54/262 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESK--SGRLSEGTKLNLLELHLANR 143
+L+ED+ ++ NKP G+ + G S ++ G L T + L +R
Sbjct: 96 LLHEDDKVLVFNKPAGIAVQ-----------GGSGVNRHIDGLLEAWTSPKGEKPRLVHR 144
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LDRDTSGV+V+ ++ A KL AF + KTY AL G K + K
Sbjct: 145 LDRDTSGVLVVARTRGAAQKLTAAFRERDTKKTYWALVRGVPRKHQ----------DKIS 194
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
W V + P G +R ++ +GE E + + V+
Sbjct: 195 TWLVKEQT------PDGDRMR--------IAKHGE------------EGADHAISYYRVI 228
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYEWNGKRYDGHELH 320
D A +N + P +GRTHQ+R+H Y+G I GD KY + +++ G LH
Sbjct: 229 DT-AAQNLAWLEMEPYTGRTHQLRVHALYMGHPIIGDPKYYIDDPNWDFPGGVQKRLHLH 287
Query: 321 AESLSFDHPVTGCPVMVQAPLP 342
A + HP G + V APLP
Sbjct: 288 ARHIDIPHP-NGGRLRVSAPLP 308
>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 = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 73/257 (28%), Positives = 112/257 (43%), Gaps = 49/257 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED ++ VNKPQG+ A P ++ + LS +++ + +R+D
Sbjct: 89 IVYEDNDVIVVNKPQGMVVHPS-AGHPKGTLVNALLHHADHLSAIN--DVVRPGIVHRID 145
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG++++ K+ + L K + + Y+AL G P K I + GRSK
Sbjct: 146 KDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPHDKG-EINAPIGRSKVD-- 202
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ V+ GG ++ VT F VL DA
Sbjct: 203 -----RKMQAVIEGG---KEAVTHFTVLER---------------------------FDA 227
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
LV +GRTHQIR+H +Y+G + GD Y G +G LHA+ L
Sbjct: 228 FT-----LVELQLETGRTHQIRVHMKYIGYPLAGDPLYGPKKTLPG---NGQFLHAKLLG 279
Query: 326 FDHPVTGCPVMVQAPLP 342
F HP TG ++ +APLP
Sbjct: 280 FTHPTTGEQLVFEAPLP 296
>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 = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 73/273 (26%), Positives = 117/273 (42%), Gaps = 55/273 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDKKD 196
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + + VT F+VL FK+ +
Sbjct: 197 RQSMTVDENG----------KHAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDINGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
L FDHP TG + +AP+P E L K
Sbjct: 270 GILGFDHPRTGEYIEFEAPVPAVFEEVLNVLRK 302
>gi|167816774|ref|ZP_02448454.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 91]
Length = 248
Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 74/269 (27%), Positives = 114/269 (42%), Gaps = 63/269 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++L+ED+ ++ +NKP GV G + + L LA+RL
Sbjct: 15 EILFEDDAIIVLNKPAGVAVHG----------GSGVAFGVIEQMRHARPHAKFLELAHRL 64
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
DR+TSG++++ K L + ++++ K Y A C+ G
Sbjct: 65 DRETSGILMLAKKRSALVGLHEQIRENRMDKRYFA-CV-------------------HGD 104
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTS--FEVLSVNGEGSFK-EPSELQEHEENNIVVEKKA 261
W A+D GR R +V + F+ + +GE + + L H N+V
Sbjct: 105 W----AADWGR--------RRVVKAPLFKYATPDGERRVRVQEDGLPSHTVFNLV----- 147
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE--- 318
D + LV A ++GRTHQIR+H +LG+ I GD KY G + N +
Sbjct: 148 ----DRWPDYALVEAELKTGRTHQIRVHLAHLGLPIVGDAKY-GDFALNKALARANAVPS 202
Query: 319 -----LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP+TG P+ APLP
Sbjct: 203 IKRMFLHAHRLRLAHPLTGEPLQFDAPLP 231
>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 = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/268 (27%), Positives = 114/268 (42%), Gaps = 51/268 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D++YED+ + VNK QG+ + +G + + + + +N ++ + +R
Sbjct: 75 DIIYEDDDVAVVNKLQGMVVHPSVGHT----SGTLVNALMYHIKDLSSINGVIRPGIVHR 130
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG+++I K+ K + L D K + Y+A+ G P R I + GRS+
Sbjct: 131 IDKDTSGLLMIAKNDKAHNALAAELKDKKSLRKYVAIVHGNIPN-DRGVIEAPIGRSEKD 189
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ A + G+ P VT F+VL G
Sbjct: 190 RKK-QAVTAKGK--PA-------VTHFKVLERFG-------------------------- 213
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
N LV +GRTHQIR+H Y+G + GD Y G DG LHA++
Sbjct: 214 ------NYTLVELTLETGRTHQIRVHMAYIGHPVAGDPLYGPRKTLKG---DGQFLHAQT 264
Query: 324 LSFDHPVTGCPVMVQAPLPLWGTEALQS 351
L F HP TG + A P E L++
Sbjct: 265 LGFTHPTTGETLTFTAEAPAIFKETLEN 292
>gi|257087008|ref|ZP_05581369.1| pseudouridylate synthase [Enterococcus faecalis D6]
gi|256995038|gb|EEU82340.1| pseudouridylate synthase [Enterococcus faecalis D6]
Length = 301
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/257 (28%), Positives = 112/257 (43%), Gaps = 49/257 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED ++ VNKPQG+ + P ++ + LS +++ + +R+D
Sbjct: 80 IVYEDNDVIVVNKPQGMVVHPSVGH-PNGTLVNALLHHADHLSAIN--DVVRPGIVHRID 136
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG++++ K+ + L K + + Y+AL G P K I + GRSK
Sbjct: 137 KDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPHDKG-EINAPIGRSKVD-- 193
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ V+ GG ++ VT F VL DA
Sbjct: 194 -----RKMQAVIEGG---KEAVTHFTVLER---------------------------FDA 218
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
LV +GRTHQIR+H +Y+G + GD Y G +G LHA+ L
Sbjct: 219 FT-----LVELQLETGRTHQIRVHMKYIGYPLAGDPLYGPKKTLPG---NGQFLHAKLLG 270
Query: 326 FDHPVTGCPVMVQAPLP 342
F HP TG ++ +APLP
Sbjct: 271 FTHPTTGEQLVFEAPLP 287
>gi|167757684|ref|ZP_02429811.1| hypothetical protein CLOSCI_00014 [Clostridium scindens ATCC 35704]
gi|167664704|gb|EDS08834.1| pseudouridine synthase, RluA family [Clostridium scindens ATCC
35704]
Length = 305
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 74/269 (27%), Positives = 111/269 (41%), Gaps = 60/269 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSA--ESKSGRLSEGTKLNLLELHLAN 142
D++YEDE ++ +NKP G+ + LA A + G+ AN
Sbjct: 91 DIVYEDEDIIVINKPAGMPIHPSQNNYRNSLANALAWYYQEQGKA--------FVFRCAN 142
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLDRDTSG+ V++K + L D + + Y+A+C G IT +G +
Sbjct: 143 RLDRDTSGLTVVSKHMLSGNVLSSMAADRMLHREYLAICRG------HITPSAGTIHAPL 196
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
PG + R + + E+ + V
Sbjct: 197 SRK------------PGSIIERTV----------------------DWEQGETAITHYCV 222
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
+D K LV +GRTHQIR+H ++LG + GD Y E+ G++ LH+
Sbjct: 223 VDE--KNGHSLVSLRLETGRTHQIRIHMKHLGYPLIGDYLYNPDMEYIGRQ----ALHSH 276
Query: 323 SLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LSF HP+TG + APLP E +QS
Sbjct: 277 KLSFPHPITGEDMEFIAPLP----EDMQS 301
>gi|334704244|ref|ZP_08520110.1| ribosomal large subunit pseudouridine synthase A [Aeromonas caviae
Ae398]
Length = 243
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 70/263 (26%), Positives = 110/263 (41%), Gaps = 53/263 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----L 140
++L+ED L+ +NKP G+ S K+ + + L++ + L
Sbjct: 18 EILFEDAHLLLINKPSGLL---------------SLSGKNPQNLDSVHYRLVQDYPGCTL 62
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
+RLD TSGVMV+ ++ + + L F+ VSK Y AL G
Sbjct: 63 VHRLDFGTSGVMVVARNKSINALLCHQFSQRTVSKAYEALLCG----------------- 105
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
+ A+D G + S+ +D F ++S+ S + V+E+
Sbjct: 106 -------HLAADEGVI--DASIAKDPAL-FPLMSICAASGKPARSRYR-------VMERL 148
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELH 320
+ A VR P +GRTHQ+R+H Q+LG I G Y G+ +R LH
Sbjct: 149 TLEGAGQPVPLTRVRLVPETGRTHQLRIHSQWLGHPILGCDLYGGLLPPGCERAPRLMLH 208
Query: 321 AESLSFDHPVTGCPVMVQAPLPL 343
A L F HPV+G V ++ P
Sbjct: 209 ASELGFVHPVSGEAVQIRCEAPF 231
>gi|311279889|ref|YP_003942120.1| pseudouridine synthase [Enterobacter cloacae SCF1]
gi|308749084|gb|ADO48836.1| pseudouridine synthase [Enterobacter cloacae SCF1]
Length = 232
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 77/278 (27%), Positives = 112/278 (40%), Gaps = 82/278 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++L++D LV +NKP G+ S+ P L DS + +L G L +RL
Sbjct: 18 EILWQDAQLVIINKPAGLL--SLSGKNPQNL--DSVHYRLVKLFPGCAL-------VHRL 66
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-----------PAPK----WK 189
D TSG++V+ + V + L + F+ VSK Y AL G P K +
Sbjct: 67 DFGTSGLIVVARDKAVNAALCQQFSQRAVSKVYTALLCGHLEENEGTVDAPIAKDPALFP 126
Query: 190 RITIISGHG---RSKFGAW-RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPS 245
R++I + HG RS+F R + GR LP + R M+T
Sbjct: 127 RMSICATHGKPARSRFQVVERFTQRLEDGRELP---LTRVMLT----------------- 166
Query: 246 ELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG 305
P++GRTHQ+R+HCQ+LG I G Y G
Sbjct: 167 --------------------------------PQTGRTHQLRIHCQHLGHPILGCDLYGG 194
Query: 306 VYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPL 343
+ R LHA L F HP +G P +++ P
Sbjct: 195 LLPPGTGRAPRLMLHASELHFTHPASGEPFSLRSASPF 232
>gi|423509205|ref|ZP_17485736.1| RluA family pseudouridine synthase [Bacillus cereus HuA2-1]
gi|402456496|gb|EJV88269.1| RluA family pseudouridine synthase [Bacillus cereus HuA2-1]
Length = 307
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 76/270 (28%), Positives = 113/270 (41%), Gaps = 75/270 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA--- 141
+V++ED+ ++ VNK G S + GT NL+ H
Sbjct: 86 NVVFEDDHVLIVNK-----------------QGQMDTHPSEKNGTGTLANLVAFHFQMQG 128
Query: 142 --------NRLDRDTSGVMVITKSHKVASKLV-KAFTDHKVSKTYIALCIGPAPKWKRIT 192
+RLD+DT+G +V K H++A ++ + + K+ +TY+AL G K K+ T
Sbjct: 129 LETKVRHIHRLDKDTTGGVVFAK-HRIAGAIMDRLLMERKIKRTYMALVEGKVKK-KQGT 186
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
I + GR + A R RV P G +T ++V E FK
Sbjct: 187 IDAAIGRDRHHATRR-------RVSPKGD---QAITYYKV-----EKYFK---------- 221
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
K+N LV +GRTHQIR+H Y G + GDV Y G +
Sbjct: 222 ---------------KQNATLVTLQLETGRTHQIRVHMSYNGNPLVGDVLYGGQTTY--- 263
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA ++F HP+T ++V P P
Sbjct: 264 -MSGQALHAMEINFLHPITKEEIVVDVPFP 292
>gi|395235191|ref|ZP_10413406.1| pseudouridine synthase [Enterobacter sp. Ag1]
gi|394730087|gb|EJF29979.1| pseudouridine synthase [Enterobacter sp. Ag1]
Length = 232
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/260 (27%), Positives = 110/260 (42%), Gaps = 46/260 (17%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++LY+DE L ++KP G+ S+ P L DS + ++ G L +RL
Sbjct: 18 EILYQDEHLALIDKPSGLL--SLSGKNPQNL--DSVHHRLVQIFPGCTL-------VHRL 66
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG+MVI + + + L + F+ V+K Y AL + GH + G
Sbjct: 67 DFGTSGLMVIALNKAINALLCQQFSQRSVAKVYTAL-------------LCGHLEKEEGM 113
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEK-KAVL 263
A D + + +V+G+ + V+E+ L
Sbjct: 114 IDAAIAKDPA-----------LFPLMSICAVSGKPA----------RSRYTVIERIYREL 152
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+ A+ V+ P +GRTHQ+R+H QYLG I G Y G+ +R LHA
Sbjct: 153 ENGARLPLTRVQLAPETGRTHQLRIHAQYLGHPILGCDLYGGLALSGTERVPRLMLHASE 212
Query: 324 LSFDHPVTGCPVMVQAPLPL 343
L F HPV+G PV + P
Sbjct: 213 LHFVHPVSGEPVAARCDSPF 232
>gi|300865112|ref|ZP_07109937.1| Pseudouridine synthase [Oscillatoria sp. PCC 6506]
gi|300336883|emb|CBN55087.1| Pseudouridine synthase [Oscillatoria sp. PCC 6506]
Length = 562
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 77/271 (28%), Positives = 112/271 (41%), Gaps = 77/271 (28%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSE--GTKLNLLELHLANR 143
++YEDEWL+AVNKP G L SVP D +S RL + +N++ +H R
Sbjct: 356 IIYEDEWLIAVNKPSG------LLSVPGRYR-DRQDSVLSRLRQLLPDGMNIIPVH---R 405
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH-GRSKF 202
LD +TSG+M++ +S + +L F V K Y A+ G +++ + G
Sbjct: 406 LDLETSGIMLLARSLPIYRELSSQFQHKLVKKVYEAVLSG--------NVVNDYCGEISL 457
Query: 203 GAW-----RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
W R Y D+ R P +T F+V++ GE +
Sbjct: 458 PLWGNPEHRPYQQVDIERGKPS-------LTRFQVIAREGEYT----------------- 493
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHC---QYLGISIRGDVKYEGVYEWNGKRY 314
V P +GRTHQIR+H + LGI I GD Y G +
Sbjct: 494 ---------------RVEFMPLTGRTHQIRVHASDKRGLGIPILGDRLY-------GCQA 531
Query: 315 DGHE--LHAESLSFDHPVTGCPVMVQAPLPL 343
D LHA L F+HP G + ++ P
Sbjct: 532 DASRLHLHARELYFEHPQLGKNINLEVETPF 562
>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 = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/268 (26%), Positives = 118/268 (44%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + R K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIARDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P +AL
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPEVFEDAL 297
>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 = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/257 (28%), Positives = 112/257 (43%), Gaps = 49/257 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED ++ VNKPQG+ A P ++ + LS +++ + +R+D
Sbjct: 89 IVYEDNDVIVVNKPQGMVVHPS-AGHPKGTLVNALLHHADHLSAIN--DVVRPGIVHRID 145
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG++++ K+ + L K + + Y+AL G P K I + GRSK
Sbjct: 146 KDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPHDKG-EINAPIGRSKVD-- 202
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ V+ GG ++ VT F VL DA
Sbjct: 203 -----RKMQAVIEGG---KEAVTHFTVLER---------------------------FDA 227
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
LV +GRTHQIR+H +Y+G + GD Y G +G LHA+ L
Sbjct: 228 FT-----LVELQLETGRTHQIRVHMKYIGYPLAGDPLYGPKKTLPG---NGQFLHAKLLG 279
Query: 326 FDHPVTGCPVMVQAPLP 342
F HP TG ++ +APLP
Sbjct: 280 FTHPTTGEQLVFEAPLP 296
>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 = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 78/280 (27%), Positives = 113/280 (40%), Gaps = 63/280 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLL--AGDSAESKSGRLSEGTKLNLLE 137
D+LYEDE L+ ++KP G+ + V L+ GDS G G
Sbjct: 63 DILYEDEDLIVISKPAGLVVHPAAGNWTGTLVNALIHHCGDSLSGIGGVRRPG------- 115
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHK----VSKTYIALCIGPAPKWKRITI 193
+ +RLD+DT+GVMV+ K+ L F+DH + + Y A+ G P+ TI
Sbjct: 116 --IVHRLDKDTTGVMVVAKNDISHRHLSLQFSDHGRTMPLERAYQAIVWG-RPRSLTGTI 172
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+ GR+ FG A PG + +T +EVL F E
Sbjct: 173 NAPLGRA-FGDRTRRAVRR-----PGTQDADEAITHYEVLE-----RFHE---------- 211
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG-- 311
+ DA LV +GRTHQIR+H ++G + GD Y ++
Sbjct: 212 ----------NPDATSLASLVECHLETGRTHQIRVHMAHIGHPLLGDTVYGAGFKTKANL 261
Query: 312 ---------KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA L F+HP TG + + PLP
Sbjct: 262 LPDAAKKTVNAFARQALHAYMLQFEHPRTGEVMHFEVPLP 301
>gi|353328603|ref|ZP_08970930.1| ribosomal large subunit pseudouridine synthase C, putative
[Wolbachia endosymbiont wVitB of Nasonia vitripennis]
Length = 307
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 66/265 (24%), Positives = 112/265 (42%), Gaps = 52/265 (19%)
Query: 78 LYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
L L R ++LYEDE+++A+NK G+ + + V ++ + + G +
Sbjct: 82 LVNLLRDNILYEDEYILAINKSAGIIVQGGI-KVKISISXXLDQIRXGEV---------- 130
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +RLDRDTSGV++ ++ VA L++ F ++ KTY+AL G K +
Sbjct: 131 FKIVHRLDRDTSGVIIFARNASVARYLMEEFKGRRIKKTYLALTSGIPSK--------DN 182
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
G + + Y + V+ S ++ T F ++S
Sbjct: 183 GIIDYPLVKKYISGQEKVVIDEDS-PQNATTHFSIIS----------------------- 218
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
K N ++ P +GRTHQ+R H ++ I GD KY G + +
Sbjct: 219 --------RLKHNVAYLKLQPITGRTHQLRAHLAHINCPILGDGKYGGKKAFIDGVVNQI 270
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LH+ SLS P + + AP+P
Sbjct: 271 HLHSHSLSLKLP-NNKEITITAPIP 294
>gi|294636835|ref|ZP_06715170.1| ribosomal large subunit pseudouridine synthase [Edwardsiella tarda
ATCC 23685]
gi|451964963|ref|ZP_21918224.1| 23S rRNA pseudouridine synthase RluC [Edwardsiella tarda NBRC
105688]
gi|291089978|gb|EFE22539.1| ribosomal large subunit pseudouridine synthase [Edwardsiella tarda
ATCC 23685]
gi|451316081|dbj|GAC63586.1| 23S rRNA pseudouridine synthase RluC [Edwardsiella tarda NBRC
105688]
Length = 320
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 76/266 (28%), Positives = 109/266 (40%), Gaps = 68/266 (25%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
VLYED++L+ +NKP G ++ G A R L L +RLD
Sbjct: 95 VLYEDDYLMVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSGV+++ K L + + + K Y+AL + GH +S
Sbjct: 145 RETSGVLLVAKKRSALRSLHEQLREKGMQKDYLAL-------------VRGHWQSH---C 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PSE + E
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVNAEG---KPSETRFKVEERFA--------- 227
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------- 318
N LV+A P +GRTHQIR+H + G I D +Y G R E
Sbjct: 228 ----NATLVKASPVTGRTHQIRVHTLHAGHPIAFDDRY-------GDRDFDRELAETGLN 276
Query: 319 ---LHAESLSFDHPVTGCPVMVQAPL 341
LHA +L F HP +G + V+APL
Sbjct: 277 RLFLHAAALRFVHPHSGETMRVEAPL 302
>gi|99080132|ref|YP_612286.1| ribosomal large subunit pseudouridine synthase C [Ruegeria sp.
TM1040]
gi|99036412|gb|ABF63024.1| ribosomal large subunit pseudouridine synthase C [Ruegeria sp.
TM1040]
Length = 348
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 81/304 (26%), Positives = 114/304 (37%), Gaps = 62/304 (20%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPL D++ A + K+ R V+Y+D+ ++ +NKP G+ +
Sbjct: 65 PPLA--ESDMKPAEARPVKISDADAKMIRDCVIYKDDDVLVINKPAGLAVQ--------- 113
Query: 115 LAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKV 173
G LSE + + + L +RLD+DTSG++V+ ++ K A L AF
Sbjct: 114 -GGSGTTKHVDGLSEALRFDAEDKPRLVHRLDKDTSGLLVLARNRKAAQGLTAAFRHKNT 172
Query: 174 SKTYIALCIG-PAPKWKRITI----ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVT 228
K Y AL G P P I GHG+S G + PG
Sbjct: 173 RKIYWALVAGVPTPYLGEIKTGLVKAPGHGKSGEGEKMIPVDPRDVDATPGAKRAHTYYA 232
Query: 229 SFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRL 288
+ ++ EP +GRTHQ+R
Sbjct: 233 TLYRVASRASWVAMEPV----------------------------------TGRTHQLRA 258
Query: 289 HCQYLGISIRGDVKYEGVYEWN-----GKRYDG-----HELHAESLSFDHPVTGCPVMVQ 338
H +G I GD KY G + N G + G LHA L F+HPVTG V V
Sbjct: 259 HMAGMGHPIIGDGKYGGSGQENLGDGWGAQIGGLISKKLHLHARRLQFEHPVTGKVVTVT 318
Query: 339 APLP 342
A LP
Sbjct: 319 AALP 322
>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 = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/268 (26%), Positives = 118/268 (44%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + R K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIARDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P +AL
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPEVFEDAL 297
>gi|381404953|ref|ZP_09929637.1| 23S rRNA pseudouridylate synthase C [Pantoea sp. Sc1]
gi|380738152|gb|EIB99215.1| 23S rRNA pseudouridylate synthase C [Pantoea sp. Sc1]
Length = 318
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/260 (28%), Positives = 109/260 (41%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE L+ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDEALLVMNKPSGTAVHGGSGLTFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + + + K Y+AL G P
Sbjct: 145 RDTSGILLVAKKRSALRSLHEQLREKGMQKDYLALVRGNWPSH----------------L 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G V+ V+ EG +PSE + E
Sbjct: 189 KVVQAPLLKNILQSGE---------RVVRVSSEG---KPSETRFKVEERF---------- 226
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHELHA 321
+ LV+A P +GRTHQIR+H + G I D +Y G +++ + + LHA
Sbjct: 227 ---EFATLVKASPVTGRTHQIRVHTLHAGHPIAFDDRY-GERDFDSQLAATGLNRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L+F HP TG + V+APL
Sbjct: 283 AALTFTHPGTGDVMRVEAPL 302
>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 = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/268 (26%), Positives = 118/268 (44%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + R K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIARDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P +AL
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPEVFEDAL 297
>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 = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/273 (26%), Positives = 117/273 (42%), Gaps = 55/273 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + GR K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIGRDKKD 196
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + + VT F+VL FK+ +
Sbjct: 197 RQSMTVDENG----------KHAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDINGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
L FDHP TG + +AP+P E L K
Sbjct: 270 GILGFDHPRTGEYIEFEAPVPAVFEEVLNVLRK 302
>gi|333367420|ref|ZP_08459685.1| tRNA pseudouridine synthase C [Psychrobacter sp. 1501(2011)]
gi|332978702|gb|EGK15396.1| tRNA pseudouridine synthase C [Psychrobacter sp. 1501(2011)]
Length = 261
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 80/278 (28%), Positives = 128/278 (46%), Gaps = 53/278 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA--N 142
D++YEDE LVA+NK G+ L L G++ R + + + H+ +
Sbjct: 21 DIIYEDEHLVAINKEAGL-----LVHRSWLDKGET------RFAMQLTRDAVGCHVVPVH 69
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLDR TSGV++ K+ VA L +AFT+ KV+K Y + ++ G
Sbjct: 70 RLDRPTSGVLLFAKNSAVARSLTEAFTERKVAKQY-------------LAVVRGF----- 111
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGE-GSFKEPS-ELQEHEENNIVVEKK 260
S+ G V D SF+ ++ + + +P+ E H ++ +E
Sbjct: 112 -------MSEEGTV--------DYALSFKPDAIADKFANLNKPAQEAVTHWQSLAQIELP 156
Query: 261 -AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVY-EWNGKRYDGH 317
AV L+R P +GR HQ+R H ++L I GD Y +G + ++ +YD
Sbjct: 157 FAVSKKHGTSRYSLMRLIPETGRKHQLRRHMRHLFHHIIGDTSYGDGRHNKFFRTQYDCT 216
Query: 318 E--LHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSS 353
LHA++L+ HPVTG P+M++A T L+ S
Sbjct: 217 RMLLHAQTLALSHPVTGEPLMLEAGFDDQWTRILEEFS 254
>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 = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/268 (26%), Positives = 118/268 (44%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + R K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIARDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P +AL
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPEVFEDAL 297
>gi|423217538|ref|ZP_17204034.1| hypothetical protein HMPREF1061_00807 [Bacteroides caccae
CL03T12C61]
gi|392628697|gb|EIY22723.1| hypothetical protein HMPREF1061_00807 [Bacteroides caccae
CL03T12C61]
Length = 590
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/277 (26%), Positives = 116/277 (41%), Gaps = 55/277 (19%)
Query: 76 SSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNL 135
S+ +K + ++++EDEWLV VNKP G + SVP + +S RL E +
Sbjct: 350 SNTHKDTELEIVFEDEWLVVVNKPSG------MLSVPG--KEEDMDSVYHRLKEKYP-DA 400
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ +RLD TSG++++ K+ +V L F + + K YIAL G
Sbjct: 401 TGPMIVHRLDMATSGLLLVAKTKEVHQHLQAQFENRSIKKRYIALLDGC----------- 449
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGS----------FKEPS 245
+ + G + + V + EV+S G+ P
Sbjct: 450 -----------ITETEETTNQTTGNTRKTEKVRATEVISTTGKAGRIELPLCPNPLDRPC 498
Query: 246 ELQEHEENNIVVEKKAVLDADAKKNEILVRAF-PRSGRTHQIRLHCQY---LGISIRGDV 301
+ + E + + ++ K I AF P +GRTHQ+R+H + L I GD
Sbjct: 499 QSVDEEHGKEAITEYQIITNSEKHTRI---AFCPLTGRTHQLRVHAAHPKGLNCPILGDE 555
Query: 302 KYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQ 338
Y GK+ D LHAE + F HP+ G + +Q
Sbjct: 556 LY-------GKKADRLYLHAEYIEFRHPIYGDIICIQ 585
>gi|257082401|ref|ZP_05576762.1| pseudouridylate synthase [Enterococcus faecalis E1Sol]
gi|256990431|gb|EEU77733.1| pseudouridylate synthase [Enterococcus faecalis E1Sol]
Length = 301
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/257 (28%), Positives = 112/257 (43%), Gaps = 49/257 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED ++ VNKPQG+ A P ++ + LS +++ + +R+D
Sbjct: 80 IVYEDNDVIVVNKPQGMVVHPS-AGHPKGTLVNALLHHADHLSAIN--DVVRPGIVHRID 136
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG++++ K+ + L K + + Y+AL G P K I + GRSK
Sbjct: 137 KDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPHDKG-EINTPIGRSKVD-- 193
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ V+ GG ++ VT F VL DA
Sbjct: 194 -----RKMQAVIEGG---KEAVTHFTVLER---------------------------FDA 218
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
LV +GRTHQIR+H +Y+G + GD Y G +G LHA+ L
Sbjct: 219 FT-----LVELQLETGRTHQIRVHMKYIGYPLAGDPLYGPKKTLPG---NGQFLHAKLLG 270
Query: 326 FDHPVTGCPVMVQAPLP 342
F HP TG ++ +APLP
Sbjct: 271 FTHPTTGEQLVFEAPLP 287
>gi|124022639|ref|YP_001016946.1| pseudouridylate synthase [Prochlorococcus marinus str. MIT 9303]
gi|123962925|gb|ABM77681.1| putative pseudouridylate synthase [Prochlorococcus marinus str. MIT
9303]
Length = 207
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 67/264 (25%), Positives = 111/264 (42%), Gaps = 63/264 (23%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
VL++D WL+AV KP G+ + L D +S GRL EL L +RLD
Sbjct: 3 VLFQDSWLIAVEKPPGLLSQPGLGV-------DQQDSLIGRLQFFDS----ELRLVHRLD 51
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ + + + F+ +V K Y+A+ +G R+ +G
Sbjct: 52 RDTSGLLLLARGAESLRRCSMLFSARRVRKLYLAVVVG------RMNRNAG--------- 96
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
SF + + K P +H + + V
Sbjct: 97 ---------------------TISFPMARLQ-----KNPPLYGKHSQGKESRSQWRVRSC 130
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR--YDGHELHAES 323
A + + + +P +GR+HQ+R H +G I GD Y GK+ ++ LH+ +
Sbjct: 131 HANGSTLWL--WPLTGRSHQLRAHLASVGHPILGDPIY-------GKKVFFERMHLHSTA 181
Query: 324 LSFDHPVTGCPVMVQAPLPLWGTE 347
LSF HP TG + +++ P G +
Sbjct: 182 LSFRHPFTGLRLRLRSRAPFLGAQ 205
>gi|335047539|ref|ZP_08540560.1| pseudouridine synthase, RluA family [Parvimonas sp. oral taxon 110
str. F0139]
gi|333761347|gb|EGL38902.1| pseudouridine synthase, RluA family [Parvimonas sp. oral taxon 110
str. F0139]
Length = 292
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 64/250 (25%), Positives = 109/250 (43%), Gaps = 55/250 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH---LA 141
D++YED++++ +NKP+ + AG+ A + L KL+++ +
Sbjct: 78 DIVYEDDYIIIINKPRNMVVHPA--------AGNEAHTLVNALLNHCKLSMINSERPGIV 129
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DT+G++V K + KLV+ F++ +++K Y+A+C G K I GR +
Sbjct: 130 HRLDKDTTGLIVCAKDDETHLKLVEMFSNREINKKYLAICNGSFSKENGF-IDKPIGRDE 188
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
++ S G ++ +T + +L+ N + S
Sbjct: 189 KDRKKMSVKSKSG---------KEALTEYNILTSNLKYS--------------------- 218
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H L I GD Y E + +G LH+
Sbjct: 219 -----------LVDVTLHTGRTHQIRVHFSSLNHPIVGDKTYGNKNE--KIKANGQMLHS 265
Query: 322 ESLSFDHPVT 331
L F HP+T
Sbjct: 266 YYLEFLHPIT 275
>gi|424887740|ref|ZP_18311343.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM2012]
gi|393173289|gb|EJC73333.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM2012]
Length = 330
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 81/275 (29%), Positives = 113/275 (41%), Gaps = 60/275 (21%)
Query: 76 SSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESK--SGRLSEGTKL 133
SS ++L VL+ED+ ++ +NKP G+ + G S S+ L T
Sbjct: 86 SSDFELLSRMVLHEDDKVIVLNKPPGIAVQ-----------GGSGVSRHIDQMLEAWTSP 134
Query: 134 NLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+ L +RLDRDTSGV+VI ++ A KL AF + KTY AL G K +
Sbjct: 135 KGEKPRLVHRLDRDTSGVLVIARTRGAAQKLTAAFRERDTKKTYWALVKGVPRKHE---- 190
Query: 194 ISGHGRSKFGAWRV---YAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEH 250
K W V A D R+ G D SF
Sbjct: 191 ------DKISTWLVKEPTADGDRMRIAKHGEDGADHAISF-------------------- 224
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVY 307
VVE A +N + P +GRTHQ+R+H ++G I GD KY + +
Sbjct: 225 ---YRVVET-------AAQNLAWLEMEPYTGRTHQLRVHALHIGHPIIGDPKYFDDDPNW 274
Query: 308 EWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
++ G LHA + HP +G + V APLP
Sbjct: 275 DFPGGVQKKLHLHARHIDIPHP-SGGRLRVSAPLP 308
>gi|417844357|ref|ZP_12490401.1| putative pseudouridine synthase, RluA-like protein [Haemophilus
haemolyticus M21639]
gi|341956810|gb|EGT83226.1| putative pseudouridine synthase, RluA-like protein [Haemophilus
haemolyticus M21639]
Length = 224
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 65/249 (26%), Positives = 111/249 (44%), Gaps = 66/249 (26%)
Query: 83 RSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN 142
+ +V+Y+ + +NKP+G+ D E L +LN+ ++ L +
Sbjct: 2 KIEVVYQHSDFIIINKPEGISVHK-----------DQEEQGLTELV-AKQLNIPQVWLVH 49
Query: 143 RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKF 202
RLD+ TSG++++ + + A++ + F++HK+ KTY+AL PK K+ II +S+
Sbjct: 50 RLDKVTSGLLILALNTESAAEFSRLFSEHKIHKTYLALS-NQKPKKKQGLIIGDMKKSRD 108
Query: 203 GAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAV 262
GAW++ D +T FE +S EP+
Sbjct: 109 GAWKLCQTKD-----------NPAITRFESVSC-------EPN----------------- 133
Query: 263 LDADAKKNEILVRAF---PRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHEL 319
+R F P++G+THQ+R+ + LG I GD +Y N ++ D L
Sbjct: 134 -----------LRLFILKPKTGKTHQLRVAMKSLGSPILGD----ELYGKNTEKIDRTYL 178
Query: 320 HAESLSFDH 328
HA L FD+
Sbjct: 179 HAVQLEFDY 187
>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 = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/257 (28%), Positives = 112/257 (43%), Gaps = 49/257 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED ++ VNKPQG+ A P ++ + LS +++ + +R+D
Sbjct: 80 IVYEDNDVIVVNKPQGMVVHPS-AGHPNGTLVNALLHHADHLSAIN--DVVRPGIVHRID 136
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG++++ K+ + L K + + Y+AL G P K I + GRSK
Sbjct: 137 KDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPHDKG-EINAPIGRSKVD-- 193
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ V+ GG ++ VT F VL DA
Sbjct: 194 -----RKMQAVIEGG---KEAVTHFTVLER---------------------------FDA 218
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
LV +GRTHQIR+H +Y+G + GD Y G +G LHA+ L
Sbjct: 219 FT-----LVELQLETGRTHQIRVHMKYIGYPLAGDPLYGPKKTLPG---NGQFLHAKLLG 270
Query: 326 FDHPVTGCPVMVQAPLP 342
F HP TG ++ +APLP
Sbjct: 271 FTHPTTGEQLVFEAPLP 287
>gi|170717346|ref|YP_001784455.1| 23S rRNA pseudouridylate synthase C [Haemophilus somnus 2336]
gi|168825475|gb|ACA30846.1| pseudouridine synthase, RluA family [Haemophilus somnus 2336]
Length = 326
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 71/272 (26%), Positives = 117/272 (43%), Gaps = 56/272 (20%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
+++ED +L+ +NKP G+ G + + L L +R
Sbjct: 98 QQIIFEDNYLLVLNKPSGLAVH----------GGSGLNFGAIEALRTLRPEARFLELVHR 147
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LDRDTSG+++I K L + + + K Y+AL + GH
Sbjct: 148 LDRDTSGILLIAKKRSALRSLHEQLREKTIQKEYLAL-------------VRGH------ 188
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
W+ + +++ + ++ + ++ V+ +G +PSE VE++
Sbjct: 189 -WQSHC-----KMIQAPLLKSELTSGERIVKVSEQG---KPSE------TKFSVEERY-- 231
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
N LV+A P +GRTHQIR+H QY G I D KY G +N + + L
Sbjct: 232 -----NNATLVKASPITGRTHQIRVHTQYAGHPIALDDKY-GDKNFNQQMTALGLNRLFL 285
Query: 320 HAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
HA ++ F+HP TG + + APL L LQ+
Sbjct: 286 HAFAICFEHPKTGERLRLVAPLDLAMKNILQA 317
>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 = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 78/278 (28%), Positives = 107/278 (38%), Gaps = 85/278 (30%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLA-----SVPCLLAGDSAESKSGRLSEGTKLNLLELH 139
++L+ED +V VNKP GV + + L+A + SG +
Sbjct: 80 EILFEDPDIVVVNKPVGVAAHTGPGWEGPTVIGALIASGRRVATSGPVERQG-------- 131
Query: 140 LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGR 199
+ +RLD TSG MV+TKS + + + AF KV K Y AL +SGH
Sbjct: 132 IVHRLDVGTSGAMVVTKSERAYTVMKNAFRYRKVKKIYHAL-------------VSGHPD 178
Query: 200 SKFGAWRVYAASDVGR-----VLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
G GR V+ GG + VT ++ +
Sbjct: 179 PSSGTVEAPIGRHPGREFKMGVVEGGKMA---VTHYDTI--------------------- 214
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG--------- 305
+A L+R +GRTHQIR+H Q +G I GD Y G
Sbjct: 215 -----------EAMPGASLLRVHLETGRTHQIRVHMQAIGHPIVGDPTYGGNPTEAERLG 263
Query: 306 -VYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
V +W LHA LSF HP+TG + V AP P
Sbjct: 264 LVRQW---------LHAVQLSFAHPITGRTLTVDAPYP 292
>gi|442318156|ref|YP_007358177.1| RNA pseudouridine synthase family protein [Myxococcus stipitatus
DSM 14675]
gi|441485798|gb|AGC42493.1| RNA pseudouridine synthase family protein [Myxococcus stipitatus
DSM 14675]
Length = 345
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/278 (25%), Positives = 110/278 (39%), Gaps = 75/278 (26%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL----- 140
V+ +D+WL+ ++KP G+ + R +GT +++L
Sbjct: 107 VVAQDDWLLVLDKPAGLPIHP-----------------TARYHKGTLVSILRERFGERFA 149
Query: 141 --ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
A+RLDR+TSG++V ++ + L + F V K Y+A+C GH
Sbjct: 150 EPAHRLDRETSGLVVCGRTTEACRVLGRLFVSRDVHKEYLAIC-------------EGHP 196
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
R ++ V A + G ++R V + V G+ S LQ
Sbjct: 197 RED--SFVVDAP-----IAEGTELIRIAV---RIDPVEGKPSRTRFEVLQRFSREGAPF- 245
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYE------- 308
L+R FP +GR HQIR+H + G + GD Y G ++
Sbjct: 246 -------------ALLRCFPETGRQHQIRIHLREAGFPLVGDKMYGPDPGYFDRFSKHSL 292
Query: 309 ----WNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
W R H LHA + F HP TG V +APLP
Sbjct: 293 EPEAWARLRLPRHALHAARIVFPHPGTGVEVSFEAPLP 330
>gi|126439038|ref|YP_001059822.1| RluA family pseudouridine synthase [Burkholderia pseudomallei 668]
gi|167903651|ref|ZP_02490856.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei NCTC 13177]
gi|126218531|gb|ABN82037.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei 668]
Length = 335
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 76/278 (27%), Positives = 114/278 (41%), Gaps = 81/278 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE------- 137
++L+ED+ ++ +NKP GV G ++E
Sbjct: 102 EILFEDDAIIVLNKPAGVAVHG---------------------GSGVAFGVIEQMRHARP 140
Query: 138 ----LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
L LA+RLDR+TSG++++ K L + ++++ K Y A C+
Sbjct: 141 HAKFLELAHRLDRETSGILMLAKKRSALVGLHEQIRENRMDKRYFA-CV----------- 188
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFK-EPSELQEHEE 252
G W A+D GR VVR F+ + +GE + + L H
Sbjct: 189 --------HGDW----AADWGR----RRVVR--APLFKYATPDGERRVRVQEDGLPSHTV 230
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
N+V D + LV A ++GRTHQIR+H +LG+ I GD KY G + N
Sbjct: 231 FNLV---------DRWPDYALVEAELKTGRTHQIRVHLAHLGLPIVGDAKY-GDFALNKA 280
Query: 313 RYDGHE--------LHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA L HP+TG P+ APLP
Sbjct: 281 LARANAVPSIKRMFLHAHRLRLAHPLTGEPLQFDAPLP 318
>gi|336233321|ref|YP_004590067.1| ribosomal large subunit pseudouridine synthase C [Buchnera
aphidicola (Cinara tujafilina)]
gi|335345262|gb|AEH39808.1| ribosomal large subunit pseudouridine synthase C [Buchnera
aphidicola (Cinara tujafilina)]
Length = 320
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 67/264 (25%), Positives = 109/264 (41%), Gaps = 63/264 (23%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED+ L+ +NKP G+ S G + + ++ L L +RLD
Sbjct: 95 IIYEDDHLLIINKPTGISVHS----------GSGINFGIIEIFREIRPDIFFLELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSGV+++ K + KL + D ++ K Y A+ G PK + +
Sbjct: 145 KDTSGVLMLAKKKSILKKLHQQLRDKEIYKEYKAIVYGHWPKNNIVDL---------PLL 195
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
R+ ++ +V + NG+ S + N +V+K
Sbjct: 196 RIKNLNNKNKV---------------CIHNNGKSS-----------QTNFIVQK------ 223
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--------EGVYEWNGKRYDGH 317
N L+ P +GRTHQIR+H Y G I D +Y E +Y+ N R
Sbjct: 224 -YYPNTTLLSVIPITGRTHQIRVHASYSGHPILFDNRYGTKEIKKTEKIYKKNNMRL--- 279
Query: 318 ELHAESLSFDHPVTGCPVMVQAPL 341
LHA+++ F HP + + APL
Sbjct: 280 LLHAQTVIFIHPKNQKKICIYAPL 303
>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 = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/273 (26%), Positives = 118/273 (43%), Gaps = 55/273 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 19 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 74
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + R K
Sbjct: 75 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIARDK-K 132
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ VT F+VL FK+ +
Sbjct: 133 ERQSMTVDENGK---------HAVTHFQVLE-----RFKDFT------------------ 160
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 161 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 206
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
L FDHP TG + +AP+P +AL K
Sbjct: 207 GILGFDHPRTGEYIQFEAPIPEVFEDALNILRK 239
>gi|427738523|ref|YP_007058067.1| 23S RNA-specific pseudouridylate synthase [Rivularia sp. PCC 7116]
gi|427373564|gb|AFY57520.1| 23S RNA-specific pseudouridylate synthase [Rivularia sp. PCC 7116]
Length = 642
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 75/276 (27%), Positives = 115/276 (41%), Gaps = 79/276 (28%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL----ELHLA 141
++Y+DEWL+AVNKP G L SVP ++ +S RL +NLL ++
Sbjct: 428 IIYQDEWLIAVNKPSG------LLSVPGRYH-NNQDSVVSRL-----INLLPDCEKMTAV 475
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD DTSG++++ K+ +V L K F V K Y A
Sbjct: 476 HRLDMDTSGILLLAKNKQVHRLLSKQFEQRLVKKVYEA---------------------- 513
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEP----SELQEHEENNIVV 257
++ D + + E +N EG+ + P E + ++E N
Sbjct: 514 --------------------ILSDYLLNKE---LNKEGTIELPLWGNPENRPYQEVNYQY 550
Query: 258 EKKAV-------LDADAKKNEILVRAFPRSGRTHQIRLHC---QYLGISIRGDVKYEGVY 307
K + L + K N + P +GRTHQ+R+H L + I GD Y
Sbjct: 551 GKHCITKFKVLNLSLNKKPNYTRIEFVPLTGRTHQLRIHAADKNGLNMPILGDKLYGSQL 610
Query: 308 EWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPL 343
+ Y LHA L+F+HP +G + +QA P
Sbjct: 611 TQANRLY----LHARELTFEHPYSGEKIYLQAETPF 642
>gi|209549478|ref|YP_002281395.1| pseudouridine synthase [Rhizobium leguminosarum bv. trifolii
WSM2304]
gi|424913830|ref|ZP_18337194.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM597]
gi|209535234|gb|ACI55169.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM2304]
gi|392850006|gb|EJB02527.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM597]
Length = 329
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 78/273 (28%), Positives = 110/273 (40%), Gaps = 56/273 (20%)
Query: 76 SSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNL 135
SS ++L VL+ED+ ++ +NKP G+ + A L T
Sbjct: 85 SSDFELLSRMVLHEDDKVIVLNKPPGIAVQG---------GSGVARHIDQMLEAWTSPKG 135
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ L +RLDRDTSGV+VI ++ A KL AF + KTY AL G K +
Sbjct: 136 EKPRLVHRLDRDTSGVLVIARTRGAAQKLTAAFRERDTKKTYWALVKGVPRKHE------ 189
Query: 196 GHGRSKFGAWRV---YAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
K W V A D R+ G D SF
Sbjct: 190 ----DKISTWLVKEPTADGDRMRIAKHGEDGADHAISF---------------------- 223
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYEW 309
V+E A +N + P +GRTHQ+R+H ++G I GD KY + +++
Sbjct: 224 -YRVIET-------AAQNLAWLEMEPYTGRTHQLRVHALHIGHPIIGDPKYFDDDPNWDF 275
Query: 310 NGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA + HP +G + V APLP
Sbjct: 276 PGGVQKKLHLHARHIDIPHP-SGGRLRVSAPLP 307
>gi|288929792|ref|ZP_06423635.1| ribosomal large subunit pseudouridine synthase A [Prevotella sp.
oral taxon 317 str. F0108]
gi|288328893|gb|EFC67481.1| ribosomal large subunit pseudouridine synthase A [Prevotella sp.
oral taxon 317 str. F0108]
Length = 542
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/245 (29%), Positives = 105/245 (42%), Gaps = 60/245 (24%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
V+YEDE LV V+KP G + SVP G S + T L+ +RLD
Sbjct: 336 VVYEDEGLVVVSKPHG------MLSVPGKDGGTSVAQMMRQRYPDTDSPLI----VHRLD 385
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG+M+I K+ ++ L AF +H+V K Y+A+ G P K+ IS S +
Sbjct: 386 QDTSGLMIIAKTKEMHRTLQLAFENHEVKKRYVAVLDGLLPPEKQRGEISLPLNSNY--- 442
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
D R + + VT +EV+ HEE +V
Sbjct: 443 -----LDRPRQMVDWLNGKSAVTRYEVIG---------------HEEGRTIVA------- 475
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGHELHAE 322
+P +GRTHQ+R+HC + L + I GD Y G++ D LHAE
Sbjct: 476 ----------LYPLTGRTHQLRVHCAHPDGLNLPILGDPLY-------GRKADRMYLHAE 518
Query: 323 SLSFD 327
+ +
Sbjct: 519 VIEVE 523
>gi|261339742|ref|ZP_05967600.1| pseudouridine synthase A [Enterobacter cancerogenus ATCC 35316]
gi|288318572|gb|EFC57510.1| pseudouridine synthase A [Enterobacter cancerogenus ATCC 35316]
Length = 228
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 71/248 (28%), Positives = 104/248 (41%), Gaps = 48/248 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++L++D+ L+ +NKP G+ S+ P L DS + + G L +RL
Sbjct: 18 EILWQDDDLILINKPSGLL--SLSGKNPQNL--DSVHYRLVQTFPGCTL-------VHRL 66
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D TSG+MVI ++ + + L F+ VSK Y AL + GH + G
Sbjct: 67 DFGTSGIMVIARNKAINAALCHQFSQRAVSKAYTAL-------------LCGHVKDDEGI 113
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
A D F ++S+ S + VVE+ +D
Sbjct: 114 IDAPIAKDPAL--------------FPLMSICAISGKPARSRFR-------VVER---ID 149
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
D + V P +GRTHQ+R+HCQ LG SI G Y G+ + LHA L
Sbjct: 150 KDEELPLTRVELIPETGRTHQLRIHCQQLGHSILGCDLYGGLEMPGAEGTPRLMLHASGL 209
Query: 325 SFDHPVTG 332
F HPV+G
Sbjct: 210 DFVHPVSG 217
>gi|258511286|ref|YP_003184720.1| RluA family pseudouridine synthase [Alicyclobacillus acidocaldarius
subsp. acidocaldarius DSM 446]
gi|257478012|gb|ACV58331.1| pseudouridine synthase, RluA family [Alicyclobacillus
acidocaldarius subsp. acidocaldarius DSM 446]
Length = 314
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 77/252 (30%), Positives = 106/252 (42%), Gaps = 65/252 (25%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKL----NLLELHLA 141
V YED+ ++ V+KP+GV + L +G L+ GT L L +
Sbjct: 91 VAYEDDDVIVVDKPRGVVVHPGAGHMRGTLV-------NGLLARGTPLCTLAGALRPGVV 143
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+R+D+DTSG++V KS + LV+AF H V + Y+A+ G P + TI R
Sbjct: 144 HRIDKDTSGLVVFAKSDRAYRALVEAFRAHDVEREYVAIAHGRMPH-REGTIDMPIARDP 202
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
R+ V GG + VT FEVL SF + S L+ E
Sbjct: 203 ADRQRMA-------VRQGG---KRAVTHFEVLE-----SFAKYSYLRLRLE--------- 238
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY----DGH 317
+GRTHQIR+H +G I GD Y G R+ DG
Sbjct: 239 ------------------TGRTHQIRVHLAAIGHPIAGDPVY-------GPRHTLPIDGQ 273
Query: 318 ELHAESLSFDHP 329
LHA +L F HP
Sbjct: 274 ALHARTLGFTHP 285
>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 = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 71/279 (25%), Positives = 111/279 (39%), Gaps = 82/279 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YED+ ++ +NKP+ A P +GT LN L H
Sbjct: 85 DIVYEDDDILVINKPRDFVVHPG-AGTP----------------DGTVLNALLFHCPEVA 127
Query: 140 ------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+ +RLD+DT+G+MV+ K+ ++LV+A +++ Y A+ IG ++
Sbjct: 128 EVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRNITREYEAIAIGRMTAGGKVDK 187
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
G +K + A S +G+ P VT F V +EH
Sbjct: 188 PIGRHATK---RTLMAVSPMGK--PA-------VTHFRV-----------AEHFREHTRI 224
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG-- 311
+ +E +GRTHQIR+H YL + GD Y G
Sbjct: 225 RLRLE---------------------TGRTHQIRVHMSYLQHPLLGDAAYGGRARIPAGA 263
Query: 312 --------KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ +D LHA L F+HP+TG + AP+P
Sbjct: 264 SEDVTAMIRNFDRQALHAVMLRFEHPITGEEMEFHAPVP 302
>gi|320333923|ref|YP_004170634.1| pseudouridine synthase [Deinococcus maricopensis DSM 21211]
gi|319755212|gb|ADV66969.1| pseudouridine synthase [Deinococcus maricopensis DSM 21211]
Length = 294
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 81/285 (28%), Positives = 116/285 (40%), Gaps = 63/285 (22%)
Query: 24 TFFSLASMSNPTEPTSQNAPQTQQNYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSR 83
T F ++ + P P Q P TP A + + TRA+SA + + +
Sbjct: 6 TAFCRSTWTLPQAPLPQRTPWGGAEATTPRRT---APASGVRHTRAVSAPTATPILP--- 59
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLA--SVPCLLAGDSAESKSGRLSEGTKLNLLELHLA 141
+VL+ E +NKP V A VP L A L EL A
Sbjct: 60 PEVLFSAESYHVLNKPPLWLTHQVHARFEVPDALGWARA-----------TLGEPELAPA 108
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI---ISGHG 198
+RLDR+TSGV+++T+S A + F D +V KTY+A+ G P W+ +T+ + G
Sbjct: 109 HRLDRETSGVLILTRSSSAARGFHRLFLDRRVEKTYLAIVHG-QPAWEEVTLDAPLGFLG 167
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
S + RV V+P G + VT FEVL G +
Sbjct: 168 LSDTNSIRVRQG-----VVPDG---KPAVTHFEVLGRRGAYA------------------ 201
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY 303
L+R PR+GR HQ+R H +LG + GD Y
Sbjct: 202 --------------LLRCSPRTGRMHQLRAHLAHLGHPMVGDKIY 232
>gi|16078227|ref|NP_389044.1| pseudouridylate synthase [Bacillus subtilis subsp. subtilis str.
168]
gi|402775386|ref|YP_006629330.1| Pseudouridylate synthase [Bacillus subtilis QB928]
gi|3915487|sp|O31613.1|YJBO_BACSU RecName: Full=Uncharacterized RNA pseudouridine synthase YjbO;
AltName: Full=RNA pseudouridylate synthase; AltName:
Full=RNA-uridine isomerase
gi|2633516|emb|CAB13019.1| pseudouridylate synthase [Bacillus subtilis subsp. subtilis str.
168]
gi|402483459|gb|AFQ59968.1| Pseudouridylate synthase [Bacillus subtilis QB928]
Length = 283
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 79/265 (29%), Positives = 115/265 (43%), Gaps = 67/265 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEG------TKLNLLEL 138
D+LYEDE ++ +NK + ++S+P S E SG ++ G T +
Sbjct: 67 DILYEDEHVLVINK------QPYVSSIP------SREHPSGSIANGIIDHYQTTGVRATV 114
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
HL RLDRDTSG+M++ K S L A + V + Y A+ G R+ + G
Sbjct: 115 HLVTRLDRDTSGIMLVAKHRFAHSILSSAQKNGLVKRRYAAVVHG------RMAQMEGTV 168
Query: 199 RSKFGAWRVYAASDVGR-VLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
+ G + S + R V P G + VT F V N +
Sbjct: 169 DAPIGR---HPDSIIERTVTPDG---QKAVTHFYVTCANDD------------------- 203
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
+ + A + E +GRTHQIR+H YLG + GD Y G + G++
Sbjct: 204 -----MTSVALQLE--------TGRTHQIRVHMSYLGHPLCGDTLYGGTRQEIGRQ---- 246
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LH+E LSF HP+T + APLP
Sbjct: 247 ALHSEHLSFIHPLTQENMRFHAPLP 271
>gi|417554611|ref|ZP_12205680.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-81]
gi|417561954|ref|ZP_12212833.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC137]
gi|421201278|ref|ZP_15658437.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC109]
gi|421634040|ref|ZP_16074661.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-13]
gi|421806219|ref|ZP_16242091.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
WC-A-694]
gi|395524536|gb|EJG12625.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC137]
gi|395563310|gb|EJG24963.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC109]
gi|400391028|gb|EJP58075.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-81]
gi|408705147|gb|EKL50496.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-13]
gi|410407096|gb|EKP59084.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
WC-A-694]
Length = 310
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 77/270 (28%), Positives = 113/270 (41%), Gaps = 61/270 (22%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S V+YEDE L+ VNKP G+ L+ ++ R + G K L L +R
Sbjct: 95 SRVVYEDEGLLVVNKPSGIAVHGGSGVAYGLI-------EALRAATGKKY----LELIHR 143
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DRDTSG+++I+K L +HK+ KTY A+ G
Sbjct: 144 IDRDTSGLVMISKKRSTLKMLQDMLREHKIRKTYAAIVKGQV------------------ 185
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTS--FEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
S+ + ++ + F NGE + E + + +V E+
Sbjct: 186 -----------------SLDKQLIDAPLFRYELANGERRVRVSKEGKPSKTEWVVAER-- 226
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
KN LV A P SGRTHQIR+H +G + GD KY + G LHA
Sbjct: 227 ------FKNATLVHASPLSGRTHQIRVHGLSIGHPLVGDDKYGHNTAYTGPEARRLCLHA 280
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
+ D P G P ++APLP T+ L++
Sbjct: 281 --MRLDIP--GYPT-IEAPLPEDMTQLLEA 305
>gi|424895151|ref|ZP_18318725.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM2297]
gi|393179378|gb|EJC79417.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM2297]
Length = 330
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 79/273 (28%), Positives = 110/273 (40%), Gaps = 56/273 (20%)
Query: 76 SSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNL 135
SS ++L VL+ED+ ++ +NKP G+ + A L T
Sbjct: 86 SSDFELLSRMVLHEDDKVIVLNKPPGIAVQG---------GSGVARHIDQMLEAWTSPKG 136
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ L +RLDRDTSGV+VI ++ A KL AF + KTY AL G K +
Sbjct: 137 EKPRLVHRLDRDTSGVLVIARTRGAAQKLTAAFRERDTKKTYWALVKGVPRKHE------ 190
Query: 196 GHGRSKFGAWRV---YAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
K W V A D R+ G D SF
Sbjct: 191 ----DKISTWLVKEPTADGDRMRIAKHGEDGADHAISF---------------------- 224
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYEW 309
VVE A +N + P +GRTHQ+R+H ++G I GD KY + +++
Sbjct: 225 -YRVVET-------AAQNLAWLEMEPYTGRTHQLRVHALHIGHPIIGDPKYFDDDPNWDF 276
Query: 310 NGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA + HP +G + V APLP
Sbjct: 277 PGGVQKKLHLHARHIDIPHP-SGGRLRVSAPLP 308
>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 = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/257 (28%), Positives = 112/257 (43%), Gaps = 49/257 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED ++ VNKPQG+ A P ++ + LS +++ + +R+D
Sbjct: 80 IVYEDNDVIVVNKPQGMVVHPS-AGHPKGTLVNALLHHADHLSAIN--DVVRPGIVHRID 136
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG++++ K+ + L K + + Y+AL G P K I + GRSK
Sbjct: 137 KDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPHDKG-EINAPIGRSKVD-- 193
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ V+ GG ++ VT F VL DA
Sbjct: 194 -----RKMQAVIEGG---KEAVTHFTVLER---------------------------FDA 218
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
LV +GRTHQIR+H +Y+G + GD Y G +G LHA+ L
Sbjct: 219 FT-----LVELQLETGRTHQIRVHMKYIGYPLAGDPLYGPKKTLPG---NGQFLHAKLLG 270
Query: 326 FDHPVTGCPVMVQAPLP 342
F HP TG ++ +APLP
Sbjct: 271 FTHPTTGEQLVFEAPLP 287
>gi|386015748|ref|YP_005934031.1| ribosomal large subunit pseudouridine synthase A RluA [Pantoea
ananatis AJ13355]
gi|327393813|dbj|BAK11235.1| ribosomal large subunit pseudouridine synthase A RluA [Pantoea
ananatis AJ13355]
Length = 232
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 74/259 (28%), Positives = 110/259 (42%), Gaps = 46/259 (17%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LY+D+ LV ++KP + S+ P L DS + + G L +RLD
Sbjct: 19 ILYQDDHLVLIDKPSELL--SLSGKNPQNL--DSVHYRLVTIFPGCTL-------VHRLD 67
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
TSG+MV+ ++ + + L + F+ V+K Y AL + GH + G
Sbjct: 68 FGTSGLMVVARNKTINAALSQQFSARTVAKHYSAL-------------LCGHLPDEEGII 114
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
A D R F +S+ E S + VVE+ +
Sbjct: 115 DAPIAKDPAR--------------FPRMSICAEWGKPARSRYR-------VVERFNLKRD 153
Query: 266 DAKKNEIL-VRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
DA+ + V P +GRTHQ+R+HCQ LG I G Y G+ ++ LHA L
Sbjct: 154 DARVIPLTRVTLIPETGRTHQLRIHCQLLGHPILGCDLYGGLLLPGMEQTPRLMLHASEL 213
Query: 325 SFDHPVTGCPVMVQAPLPL 343
F HPVTG P + +P P
Sbjct: 214 QFIHPVTGEPFHIVSPSPF 232
>gi|443315971|ref|ZP_21045436.1| pseudouridine synthase, RluA family [Leptolyngbya sp. PCC 6406]
gi|442784409|gb|ELR94284.1| pseudouridine synthase, RluA family [Leptolyngbya sp. PCC 6406]
Length = 306
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 76/261 (29%), Positives = 109/261 (41%), Gaps = 49/261 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH---LA 141
D+LYED+ L+ VNKP G+ V+ P +G + EG L + + +
Sbjct: 77 DILYEDDHLIIVNKPAGL----VVHPAPGNRSGTLVNALLAHCGEGL-LGIGGVQRPGIV 131
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+RLD+DT+G +V+ K+ L + Y+ + G AP+ + T+ + GR
Sbjct: 132 HRLDKDTTGAIVVAKTDLAHQDLQAQMKAKTARREYLGVVYG-APREQGGTVDAPLGRDP 190
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
R + V GG R+ VT ++V QE N V+ +
Sbjct: 191 SDRKRQAIVT----VEKGG---RNAVTHWQV---------------QERIGNFTVMAFRL 228
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
+GRTHQIR+HC +LG I GD Y G G G LHA
Sbjct: 229 -----------------ETGRTHQIRVHCAHLGHPIVGDPVY-GAGRSVGVNLPGQALHA 270
Query: 322 ESLSFDHPVTGCPVMVQAPLP 342
L+ HP TG V APLP
Sbjct: 271 ARLTLRHPATGETVCAIAPLP 291
>gi|398790540|ref|ZP_10551538.1| 23S RNA-specific pseudouridylate synthase [Pantoea sp. YR343]
gi|398218543|gb|EJN05049.1| 23S RNA-specific pseudouridylate synthase [Pantoea sp. YR343]
Length = 259
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 74/264 (28%), Positives = 116/264 (43%), Gaps = 50/264 (18%)
Query: 85 DVLYEDEWLVAVNKPQG-VYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
++LY+DEWLVAVNKP G + S L ++ + + G+ ++ +H R
Sbjct: 3 EILYQDEWLVAVNKPAGWLVHRSWLDRNEKVVVMQTVRDQIGQ-------HVFTVH---R 52
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LDR TSGV+++ S +VA L + F H++ KTY A+ G W
Sbjct: 53 LDRPTSGVLLMALSSEVAHLLAQQFEQHQMQKTYHAVLRG----W--------------- 93
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV--VEKKA 261
L GG+ + D E+ + + + +EP + + VE
Sbjct: 94 -------------LEGGATL-DYPLVEELDKIADKFATQEPVAQPAVTDYQALAHVEMPV 139
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+ LV P +GR HQ+R H +L I GD + + + G +
Sbjct: 140 AISRYNTARYTLVEMAPHTGRKHQLRRHMVHLRHPIIGDSAHGDLRQNRGAAAHFGLNRL 199
Query: 318 ELHAESLSFDHPVTGCPVMVQAPL 341
LHA +LSF HPVTG P++++A L
Sbjct: 200 MLHASALSFTHPVTGEPLVIRAGL 223
>gi|221309004|ref|ZP_03590851.1| hypothetical protein Bsubs1_06426 [Bacillus subtilis subsp.
subtilis str. 168]
gi|221313329|ref|ZP_03595134.1| hypothetical protein BsubsN3_06352 [Bacillus subtilis subsp.
subtilis str. NCIB 3610]
gi|221318253|ref|ZP_03599547.1| hypothetical protein BsubsJ_06296 [Bacillus subtilis subsp.
subtilis str. JH642]
gi|221322526|ref|ZP_03603820.1| hypothetical protein BsubsS_06402 [Bacillus subtilis subsp.
subtilis str. SMY]
gi|452913990|ref|ZP_21962617.1| pseudouridine synthase, RluA family protein [Bacillus subtilis
MB73/2]
gi|407956843|dbj|BAM50083.1| pseudouridylate synthase [Bacillus subtilis BEST7613]
gi|407964112|dbj|BAM57351.1| pseudouridylate synthase [Bacillus subtilis BEST7003]
gi|452116410|gb|EME06805.1| pseudouridine synthase, RluA family protein [Bacillus subtilis
MB73/2]
Length = 299
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 79/265 (29%), Positives = 115/265 (43%), Gaps = 67/265 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEG------TKLNLLEL 138
D+LYEDE ++ +NK + ++S+P S E SG ++ G T +
Sbjct: 83 DILYEDEHVLVINK------QPYVSSIP------SREHPSGSIANGIIDHYQTTGVRATV 130
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
HL RLDRDTSG+M++ K S L A + V + Y A+ G R+ + G
Sbjct: 131 HLVTRLDRDTSGIMLVAKHRFAHSILSSAQKNGLVKRRYAAVVHG------RMAQMEGTV 184
Query: 199 RSKFGAWRVYAASDVGR-VLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
+ G + S + R V P G + VT F V N +
Sbjct: 185 DAPIGR---HPDSIIERTVTPDG---QKAVTHFYVTCANDD------------------- 219
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
+ + A + E +GRTHQIR+H YLG + GD Y G + G++
Sbjct: 220 -----MTSVALQLE--------TGRTHQIRVHMSYLGHPLCGDTLYGGTRQEIGRQ---- 262
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLP 342
LH+E LSF HP+T + APLP
Sbjct: 263 ALHSEHLSFIHPLTQENMRFHAPLP 287
>gi|114776527|ref|ZP_01451572.1| pseudouridylate synthase, 23S RNA-specific [Mariprofundus
ferrooxydans PV-1]
gi|114553357|gb|EAU55755.1| pseudouridylate synthase, 23S RNA-specific [Mariprofundus
ferrooxydans PV-1]
Length = 579
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 71/263 (26%), Positives = 115/263 (43%), Gaps = 62/263 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+++YED+ L+ VNKP G L S P + ES RL++ + EL L +RL
Sbjct: 375 EIVYEDDQLLVVNKPAG------LMSTP---GREIEESLFSRLAQRYP-QIPELTLVHRL 424
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D DTSG++++ K + +L K F + V K Y A+ +
Sbjct: 425 DMDTSGLLLVAKDLRTHKRLQKQFIERSVEKCYEAVLVK--------------------- 463
Query: 205 WRVYAASDVGRV-LPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
R+ A D GR+ LP L V+ + P ++ ++ + ++
Sbjct: 464 -RLPAQPDQGRIELP--------------LRVDLD---DRPRQMVCYQHGKPATTRWQII 505
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEGVYEWNGKRYDGHELH 320
+ + I +P +GRTHQ+R+H + L +I GD G+Y +R LH
Sbjct: 506 ARENNRTRIWF--YPETGRTHQLRVHASHRDGLNAAIVGD----GLYGLPAERL---MLH 556
Query: 321 AESLSFDHPVTGCPVMVQAPLPL 343
A L F HPV+ P++ + P P
Sbjct: 557 ARRLCFTHPVSREPMVFELPAPF 579
>gi|194476821|ref|YP_002049000.1| Pseudouridine synthase, RluD [Paulinella chromatophora]
gi|171191828|gb|ACB42790.1| Pseudouridine synthase, RluD [Paulinella chromatophora]
Length = 315
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/271 (26%), Positives = 114/271 (42%), Gaps = 71/271 (26%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D+L+ED++L+ VNKP L + +K G L G + +L
Sbjct: 89 DILFEDQYLIVVNKPAD------------LTVHPAPGNKYGTLVNGLLFHCSDLMGIGGE 136
Query: 140 ----LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ +RLD+ T+G +VI K+ ++ + L + VS+ YI + G P + TII
Sbjct: 137 MRPGVVHRLDKSTTGCIVIAKTKEILAALQLQIQNRVVSREYIGIVHG-VPATNKGTIIG 195
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNI 255
GR R + VL VN +G + +
Sbjct: 196 KLGRHPVNRKR-----------------------YAVL-VNEKGRYAC--------THWC 223
Query: 256 VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR-- 313
++E+ + L+R +GRTHQIR+HC ++G I GD Y +R
Sbjct: 224 LIERWG--------DYSLLRFKLDTGRTHQIRIHCSHIGYPIIGDQYYS-----KQRRLP 270
Query: 314 --YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
++G LHA LSF+HPV ++ APLP
Sbjct: 271 LAFNGQALHAVELSFNHPVNSDRMVFHAPLP 301
>gi|257090036|ref|ZP_05584397.1| pseudouridylate synthase [Enterococcus faecalis CH188]
gi|256998848|gb|EEU85368.1| pseudouridylate synthase [Enterococcus faecalis CH188]
Length = 301
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/257 (28%), Positives = 112/257 (43%), Gaps = 49/257 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED ++ VNKPQG+ A P ++ + LS +++ + +R+D
Sbjct: 80 IVYEDNDVIVVNKPQGMVVHPS-AGHPKGTLVNALLHHADHLSAIN--DVVRPGIVHRID 136
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG++++ K+ + L K + + Y+AL G P K I + GRSK
Sbjct: 137 KDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPHDKG-EINAPIGRSKVD-- 193
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ V+ GG ++ VT F VL DA
Sbjct: 194 -----RKMQAVIEGG---KEAVTHFTVLER---------------------------FDA 218
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
LV +GRTHQIR+H +Y+G + GD Y G +G LHA+ L
Sbjct: 219 FT-----LVELQLETGRTHQIRVHMKYIGYPLAGDPLYGPKKTLPG---NGQFLHAKLLG 270
Query: 326 FDHPVTGCPVMVQAPLP 342
F HP TG ++ +APLP
Sbjct: 271 FTHPTTGEQLVFEAPLP 287
>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 = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/267 (26%), Positives = 115/267 (43%), Gaps = 51/267 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D++YEDE + V KPQG+ + +G + + + + +N ++ + +R
Sbjct: 75 DIVYEDEDVAVVYKPQGMVVHPSVGHT----SGTLVNALMYHIKDLSSINGVIRPGIVHR 130
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG+++I K+ + L D K + Y+A+ G P R I + GRS+
Sbjct: 131 IDKDTSGLLMIAKNDTAHNALAAELKDKKSLRKYVAIVHGNIPN-DRGVIEAPIGRSEKD 189
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ A + G+ P VT F+VL G
Sbjct: 190 RKK-QAVTAKGK--PA-------VTHFKVLERFG-------------------------- 213
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
N LV +GRTHQIR+H Y+G ++ GD Y G +G LHA++
Sbjct: 214 ------NYTLVELTLETGRTHQIRVHMAYIGHAVAGDPLYAPRKTLKG---NGQFLHAQT 264
Query: 324 LSFDHPVTGCPVMVQAPLPLWGTEALQ 350
L F HP TG + A +P+ E L+
Sbjct: 265 LGFTHPKTGETMTFTAEVPVIFKETLE 291
>gi|336415081|ref|ZP_08595424.1| hypothetical protein HMPREF1017_02532 [Bacteroides ovatus
3_8_47FAA]
gi|335941942|gb|EGN03793.1| hypothetical protein HMPREF1017_02532 [Bacteroides ovatus
3_8_47FAA]
Length = 612
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 74/273 (27%), Positives = 118/273 (43%), Gaps = 36/273 (13%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDEWL+ VNKP G + SVP + +S RL + + + +RLD
Sbjct: 347 IVFEDEWLLVVNKPAG------MLSVPG--KAEDRDSVYHRLKKKYPEATGPM-IVHRLD 397
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRIT--------IISGH 197
TSG++++ K+ +V L F + + K Y+A+ G K ++ T +I+
Sbjct: 398 MATSGLLLVAKTKEVHQDLQAQFANRSIKKRYVAVLDGAIIKTEKETKPIAEKAILIAKE 457
Query: 198 GRSKFGAWRVYAASDVGRV-----LPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
+ + GR+ L R MV+S E SE E
Sbjct: 458 TVLTKKTAKAERTGNTGRIELPLCLNPLDRPRQMVSSEHGKKAITEYQIISESERITSES 517
Query: 253 NNIVVEKKAVLDADAKKNE----ILVRAFPRSGRTHQIRLHCQY---LGISIRGDVKYEG 305
N E + +++ NE + +P +GRTHQ+R+H + LG I GD Y
Sbjct: 518 ENTFNESNRIDESERSINESRKYTRIIFYPLTGRTHQLRVHAAHPEGLGCPILGDELY-- 575
Query: 306 VYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQ 338
GK+ D LHAE + F HP+ G + +Q
Sbjct: 576 -----GKKADRLYLHAEYIEFRHPIYGDILCIQ 603
>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 = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/257 (28%), Positives = 112/257 (43%), Gaps = 49/257 (19%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED ++ VNKPQG+ A P ++ + LS +++ + +R+D
Sbjct: 80 IVYEDNDVIVVNKPQGMVVHPS-AGHPKGTLVNALLHHADHLSAIN--DVVRPGIVHRID 136
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
+DTSG++++ K+ + L K + + Y+AL G P K I + GRSK
Sbjct: 137 KDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPHDKG-EINAPIGRSKVD-- 193
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ V+ GG ++ VT F VL DA
Sbjct: 194 -----RKMQAVIEGG---KEAVTHFTVLER---------------------------FDA 218
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
LV +GRTHQIR+H +Y+G + GD Y G +G LHA+ L
Sbjct: 219 FT-----LVELQLETGRTHQIRVHMKYIGYPLAGDPLYGPKKTLPG---NGQFLHAKLLG 270
Query: 326 FDHPVTGCPVMVQAPLP 342
F HP TG ++ +APLP
Sbjct: 271 FTHPTTGEQLVFEAPLP 287
>gi|430003654|emb|CCF19443.1| Pseudouridine synthase [Rhizobium sp.]
Length = 329
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 88/299 (29%), Positives = 128/299 (42%), Gaps = 67/299 (22%)
Query: 55 PPLPAISKDIELTRAMSASSK----SSLYKLSRSDVLYEDEWLVAVNKPQGVYCES---V 107
PPL D++ +A + K SS Y+L + VL+ED+ ++ +NKP G+ + V
Sbjct: 65 PPL-----DVDTKKAGPIAGKDLKHSSDYELLQRMVLHEDDKVIVLNKPAGLAVQGGSGV 119
Query: 108 LASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLVKA 167
+ +L D+ S G L +RLDRDTSGV+VI ++ A KL A
Sbjct: 120 TRHIDQML--DAWTSPKGEKPR----------LVHRLDRDTSGVLVIARTRGAAQKLTAA 167
Query: 168 FTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMV 227
F + KTY AL G K + K W V + P G +R
Sbjct: 168 FRERDTKKTYWALVKGVPRKHE----------DKISTWLVKEQT------PDGDRMR--- 208
Query: 228 TSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIR 287
++ +GE + V VL+ A+ L P +GRTHQ+R
Sbjct: 209 -----IAKHGEAG------------ADHAVSFYRVLETAAQTMAWL-EMEPYTGRTHQLR 250
Query: 288 LHCQYLGISIRGDVKY-EGVYEW---NGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+H ++G I GD KY + W G + H LHA + HP +G + V APLP
Sbjct: 251 VHALHIGHPIIGDPKYFDDDINWPFPGGIQKRLH-LHARHIDIPHP-SGGRLKVTAPLP 307
>gi|421494286|ref|ZP_15941636.1| RLUC [Morganella morganii subsp. morganii KT]
gi|455739888|ref|YP_007506154.1| Ribosomal large subunit pseudouridine synthase C [Morganella
morganii subsp. morganii KT]
gi|400191453|gb|EJO24599.1| RLUC [Morganella morganii subsp. morganii KT]
gi|455421451|gb|AGG31781.1| Ribosomal large subunit pseudouridine synthase C [Morganella
morganii subsp. morganii KT]
Length = 319
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/259 (27%), Positives = 108/259 (41%), Gaps = 54/259 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
VLYED+ ++ +NKP G ++ A R L L +RLD
Sbjct: 95 VLYEDDHILVINKPAGTAVHGGSGLSFGVIEAMRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG+++I K L + ++ K Y+AL G +W+ +
Sbjct: 145 RDTSGILLIAKKRSALRALHEQLRLKQMQKDYLALVRG---QWQ-------------SSV 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G V+ V+ EG +PSE + E
Sbjct: 189 KVVQAPLLKNILQSGE---------RVVKVSPEG---KPSETRFKVEERF---------- 226
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVY---EWNGKRYDGHELHAE 322
+ LV+A P +GRTHQIR+H + G I D +Y + G + LHA
Sbjct: 227 ---EAATLVKASPVTGRTHQIRVHTLHAGHPIAFDNRYGDAQFDAQLKGTGLNRLFLHAA 283
Query: 323 SLSFDHPVTGCPVMVQAPL 341
+L+F HP TG + +QAPL
Sbjct: 284 ALAFTHPSTGEAMRLQAPL 302
>gi|423268979|ref|ZP_17247951.1| RluA family pseudouridine synthase [Bacteroides fragilis
CL05T00C42]
gi|423273460|ref|ZP_17252407.1| RluA family pseudouridine synthase [Bacteroides fragilis
CL05T12C13]
gi|392702288|gb|EIY95434.1| RluA family pseudouridine synthase [Bacteroides fragilis
CL05T00C42]
gi|392707753|gb|EIZ00868.1| RluA family pseudouridine synthase [Bacteroides fragilis
CL05T12C13]
Length = 539
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/268 (26%), Positives = 115/268 (42%), Gaps = 64/268 (23%)
Query: 76 SSLYKLSRS--DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKL 133
S Y LS++ ++L+ED+WL+ ++KP+GV SVP G S E L
Sbjct: 326 SERYSLSQNMPEILFEDQWLLVLHKPEGVL------SVP----GKSEEQSIYSLLRARYP 375
Query: 134 NLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+ +RLD TSG+++ K+ +V L F + + K YIAL G
Sbjct: 376 EATGPLVVHRLDMATSGLLLAAKTQEVHRHLQAQFENRSIKKRYIALLDG---------- 425
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+LP V D+ + L P ++ E
Sbjct: 426 ----------------------ILPEEEGVIDLPICPDYLD--------RPRQMVNEELG 455
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY-LGIS--IRGDVKYEGVYEWN 310
+ + V+D K + + FP +GRTHQ+R+H + LG++ I GD Y
Sbjct: 456 KTAITRYRVMDR--KNGQTRIAFFPLTGRTHQLRVHAAHPLGLNCPIVGDELY------- 506
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQ 338
G++ + LHAE L F HPV+G ++++
Sbjct: 507 GRKAERLYLHAEYLEFIHPVSGQRMVIE 534
>gi|329849859|ref|ZP_08264705.1| ribosomal large subunit pseudouridine synthase D [Asticcacaulis
biprosthecum C19]
gi|328841770|gb|EGF91340.1| ribosomal large subunit pseudouridine synthase D [Asticcacaulis
biprosthecum C19]
Length = 335
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 80/287 (27%), Positives = 115/287 (40%), Gaps = 70/287 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYC-------ESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D+L+EDE L+ +NK G+ + L + G+S G L G
Sbjct: 98 DILFEDEHLIVINKAPGMAAHPAPGTRDGTLVNALLFHCGESLSGIGGVLRPG------- 150
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +RLD+DTSGVMV KS L + F H + + Y A+ G AP++ T+ +
Sbjct: 151 --IVHRLDKDTSGVMVAAKSDVAHRSLSELFGRHDIDREYKAVVRG-APRYVSGTVNTRI 207
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GRS ++ VL GG R+ +T + + V G
Sbjct: 208 GRSHHDRKKMA-------VLRGGG--REAITHYRLEEVFGT------------------- 239
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY----------EGVY 307
K L+ +GRTHQIR+H +LG GD Y E V
Sbjct: 240 ---------VKPLAALLSCRLETGRTHQIRVHMAHLGCPCLGDPVYGSGAPAREVQEIVR 290
Query: 308 EWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP---LWGTEALQS 351
+ R LHA L F HP+TG + +A +P + EALQ
Sbjct: 291 DLEFGR---QALHAGLLGFVHPITGEKLKFKAKMPDDMVQLVEALQD 334
>gi|85713201|ref|ZP_01044230.1| Predicted pseudouridylate synthase, Rlu family protein [Idiomarina
baltica OS145]
gi|85692974|gb|EAQ30943.1| Predicted pseudouridylate synthase, Rlu family protein [Idiomarina
baltica OS145]
Length = 315
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 89/300 (29%), Positives = 122/300 (40%), Gaps = 76/300 (25%)
Query: 50 PTPLSP----PLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCE 105
P +SP P P ++K EL +A ++YED+ + VNKP G+
Sbjct: 70 PVKVSPKPELPSPKLAKVAELEQA----------------IVYEDDAFMIVNKPSGLAVH 113
Query: 106 SVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLDRDTSGVMVITKSHKVASKLV 165
L+ G A N LEL +RLDRDTSG+++I K V L
Sbjct: 114 GGSGLNFGLIEGLRALRPQD--------NALEL--VHRLDRDTSGLIMIAKKRSVLKVLH 163
Query: 166 KAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRD 225
D +++K Y+AL G +W++ V A + G +VR
Sbjct: 164 AQLRDKEMNKQYLALVRG---QWQK------------NVRNVEAPLKKNTLKSGERIVR- 207
Query: 226 MVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQ 285
V+ EG +PS + N E LV A P +GRTHQ
Sbjct: 208 ---------VDAEG---KPSHTR-FRINQRYAE------------ATLVEASPVTGRTHQ 242
Query: 286 IRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE----LHAESLSFDHPVTGCPVMVQAPL 341
IR+H + G I GD KY G +N + G LHA LSF HPVT V +AP+
Sbjct: 243 IRVHALHAGHPIAGDPKY-GDASFNERMQQGGLTRLFLHAWQLSFKHPVTEKTVSFEAPM 301
>gi|451944600|ref|YP_007465236.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
halotolerans YIM 70093 = DSM 44683]
gi|451903987|gb|AGF72874.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
halotolerans YIM 70093 = DSM 44683]
Length = 308
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 81/260 (31%), Positives = 105/260 (40%), Gaps = 49/260 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLA-SVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
DVLY D ++AVNKP GV + P ++ G +A R+S T + R
Sbjct: 84 DVLYSDSHIIAVNKPVGVAAHPTVGWEGPTVVGGLAAAGF--RIS--TSGPPERKGIVQR 139
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD TSGVMV+ S + S L +AF D V KTY AL G P TI + GR
Sbjct: 140 LDVGTSGVMVVAASERGYSVLKQAFRDRTVEKTYHALVQG-HPDPFSGTIDAPIGRHPSA 198
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
WR SD + VT +E + +F E +
Sbjct: 199 GWRFAVTSD----------GKHAVTHYETIE-----AFPEAT------------------ 225
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE-LHAE 322
LV +GRTHQIR+H + GD Y E G+ + LHA
Sbjct: 226 ---------LVEVSLETGRTHQIRVHMSAIKHPCVGDPMYGSNPELAGRLGLTRQWLHAV 276
Query: 323 SLSFDHPVTGCPVMVQAPLP 342
L F HP TG ++AP P
Sbjct: 277 RLGFTHPGTGRWTEIEAPYP 296
>gi|259416795|ref|ZP_05740715.1| ribosomal large subunit pseudouridine synthase C [Silicibacter sp.
TrichCH4B]
gi|259348234|gb|EEW60011.1| ribosomal large subunit pseudouridine synthase C [Silicibacter sp.
TrichCH4B]
Length = 348
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 81/304 (26%), Positives = 114/304 (37%), Gaps = 62/304 (20%)
Query: 55 PPLPAISKDIELTRAMSASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCL 114
PPL D++ A + K+ R V+Y+D+ ++ +NKP G+ +
Sbjct: 65 PPLA--KSDMKPAEARPVKISDADAKMIRDCVVYKDDDVLVINKPAGLAVQ--------- 113
Query: 115 LAGDSAESKSGRLSEGTKLNLLEL-HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKV 173
G LSE + + + L +RLD+DTSG++V+ ++ K A L AF
Sbjct: 114 -GGSGTTKHVDGLSEALRFDAEDKPRLVHRLDKDTSGLLVLARNRKAAQGLTAAFRHKNT 172
Query: 174 SKTYIALCIG-PAPKWKRITI----ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVT 228
K Y AL G P P I GHG+S G + PG
Sbjct: 173 RKIYWALVAGVPTPYLGEIKTGLVKAPGHGKSGEGEKMIPVDPRDVDATPGAKRAHTYYA 232
Query: 229 SFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRL 288
+ ++ EP +GRTHQ+R
Sbjct: 233 TLYRVASRASWVAMEPV----------------------------------TGRTHQLRA 258
Query: 289 HCQYLGISIRGDVKYEGVYEWN-----GKRYDG-----HELHAESLSFDHPVTGCPVMVQ 338
H +G I GD KY G + N G + G LHA L F+HPVTG V V
Sbjct: 259 HMAGMGHPIIGDGKYGGSGQENLGDGWGAQIGGLISKKLHLHARRLQFEHPVTGKVVTVT 318
Query: 339 APLP 342
A LP
Sbjct: 319 AALP 322
>gi|206559376|ref|YP_002230137.1| ribosomal large subunit pseudouridine synthase C 2 [Burkholderia
cenocepacia J2315]
gi|206561222|ref|YP_002231987.1| ribosomal large subunit pseudouridine synthase C 1 [Burkholderia
cenocepacia J2315]
gi|444363010|ref|ZP_21163491.1| pseudouridine synthase, RluA family [Burkholderia cenocepacia BC7]
gi|444372030|ref|ZP_21171530.1| pseudouridine synthase, RluA family [Burkholderia cenocepacia
K56-2Valvano]
gi|198035414|emb|CAR51290.1| ribosomal large subunit pseudouridine synthase C 2 [Burkholderia
cenocepacia J2315]
gi|198037264|emb|CAR53186.1| ribosomal large subunit pseudouridine synthase C 1 [Burkholderia
cenocepacia J2315]
gi|443594261|gb|ELT62928.1| pseudouridine synthase, RluA family [Burkholderia cenocepacia
K56-2Valvano]
gi|443595781|gb|ELT64336.1| pseudouridine synthase, RluA family [Burkholderia cenocepacia BC7]
Length = 334
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/268 (26%), Positives = 109/268 (40%), Gaps = 61/268 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
DVLYED+ ++ ++KP GV + + G + + R + LEL +RL
Sbjct: 101 DVLYEDDAMLVIDKPAGV----AVHGGSGVAFGVIEQMRQAR----PRAKFLEL--VHRL 150
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGP-APKWKRITIISGHGRSKFG 203
DR+TSG++++ K L + ++++ K Y A G P W R +
Sbjct: 151 DRETSGILMLAKKRTALVGLHEQIRENRMDKRYFACAHGEWQPDWGRRRAVKA------- 203
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFK-EPSELQEHEENNIVVEKKAV 262
F+ + GE + + L H N+V
Sbjct: 204 ------------------------PLFKYSTPEGERRVRVQEDGLASHTVFNLV------ 233
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE---- 318
D N +LV A ++GRTHQIR+H +LG+ I GD KY G + N +
Sbjct: 234 ---DRWPNYVLVEAELKTGRTHQIRVHLAHLGLPIAGDAKY-GDFALNKALARANAQPSL 289
Query: 319 ----LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP+TG + APLP
Sbjct: 290 KRMFLHAHRLKLAHPLTGEALQFDAPLP 317
>gi|352101009|ref|ZP_08958520.1| ribosomal large subunit pseudouridine synthase C [Halomonas sp.
HAL1]
gi|350600930|gb|EHA16987.1| ribosomal large subunit pseudouridine synthase C [Halomonas sp.
HAL1]
Length = 313
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/245 (29%), Positives = 104/245 (42%), Gaps = 67/245 (27%)
Query: 130 GTKLNLLE-----------LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYI 178
G K+ L+E L L +RLDRDTSG +++ KS L ++ H + K Y+
Sbjct: 116 GVKIGLIEALRQVRDDLSFLELVHRLDRDTSGCLLLAKSRDALVTLNESLKKHGMDKRYL 175
Query: 179 ALCIGPAPKWK-----RITII-SGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEV 232
AL G P K R+ +G+G + RV P G V R T F V
Sbjct: 176 ALVSGRWPARKTYESARLDRFDAGNGERRV------------RVDPNGKVSR---THFSV 220
Query: 233 LSVNGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY 292
+ +F++ + L+ A P +GRTHQIR+H +
Sbjct: 221 VE-----TFEKVT---------------------------LIEAEPVTGRTHQIRVHAAH 248
Query: 293 LGISIRGDVKY---EGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
G ++ GD KY E Y LHA +L+F P G PV V+APLP EAL
Sbjct: 249 AGHALLGDDKYATRESGYLTKQLGLGRLFLHARALTFPEPTNGRPVTVKAPLPEALEEAL 308
Query: 350 QSSSK 354
+ + +
Sbjct: 309 KRARQ 313
>gi|384134977|ref|YP_005517691.1| RluA family pseudouridine synthase [Alicyclobacillus acidocaldarius
subsp. acidocaldarius Tc-4-1]
gi|339289062|gb|AEJ43172.1| pseudouridine synthase, RluA family [Alicyclobacillus
acidocaldarius subsp. acidocaldarius Tc-4-1]
Length = 319
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/252 (28%), Positives = 102/252 (40%), Gaps = 65/252 (25%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKL----NLLELHLA 141
V YED+ ++ V+KP+GV + L +G L+ GT L + +
Sbjct: 96 VAYEDDDVIVVDKPRGVVVHPGAGHLRGTLV-------NGLLARGTSLCTLAGAMRPGVV 148
Query: 142 NRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSK 201
+R+D+DTSG++V KS + LV+AF H V + Y+A+ G P K G
Sbjct: 149 HRIDKDTSGLVVFAKSDRAYRALVEAFRAHDVEREYVAIAHGRMPHRK--------GTID 200
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
R A V GG + VT FEVL + S+
Sbjct: 201 MPIARDPADRQRMAVRQGG---KRAVTHFEVLELFANYSY-------------------- 237
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY----DGH 317
+R +GRTHQIR+H +G I GD Y G R+ DG
Sbjct: 238 ------------LRLRLETGRTHQIRVHLAAIGHPIAGDPVY-------GPRHTLPIDGQ 278
Query: 318 ELHAESLSFDHP 329
LHA +L F HP
Sbjct: 279 ALHARTLGFTHP 290
>gi|340359775|ref|ZP_08682248.1| ribosomal large subunit pseudouridine synthase D [Actinomyces sp.
oral taxon 448 str. F0400]
gi|339884065|gb|EGQ73887.1| ribosomal large subunit pseudouridine synthase D [Actinomyces sp.
oral taxon 448 str. F0400]
Length = 309
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 74/262 (28%), Positives = 111/262 (42%), Gaps = 55/262 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLA-SVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
+LYEDE +V V+KP GV + P +L K+ R+ T + +RL
Sbjct: 82 LLYEDEDIVVVDKPAGVAAHPSMGWDGPDVLGA----LKAMRVRVATSGAAERQGIVSRL 137
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG---PAPKWKRITIISGHGRSK 201
D TSGVM++ K + S L +AF +H V K Y AL G P+ TI + GR
Sbjct: 138 DVGTSGVMIVAKGEQAYSVLKRAFREHDVDKVYHALVQGHLDPSSG----TIDAPIGRHP 193
Query: 202 FGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
WR+ ++ GG R+ VT ++V+ +
Sbjct: 194 GRQWRMA-------IVDGG---RESVTHYDVVEL-------------------------- 217
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE-LH 320
L + P++GRTHQIR+H +G GD Y +G+ + LH
Sbjct: 218 ------MPAACLAQVRPQTGRTHQIRVHMAAVGHPCVGDAAYGADPRLSGRTGLARQWLH 271
Query: 321 AESLSFDHPVTGCPVMVQAPLP 342
A L+ HP+TG + ++P P
Sbjct: 272 ARELALAHPITGERMTFRSPYP 293
>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 = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/268 (26%), Positives = 115/268 (42%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + R K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIARDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ VT F+VL
Sbjct: 196 ERQSMTVDENGK---------HAVTHFQVL------------------------------ 216
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
D K+ LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 217 --DRFKDFTLVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P E L
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPEVFEETL 297
>gi|345429650|ref|YP_004822768.1| 23S rRNA pseudouridylate synthase [Haemophilus parainfluenzae T3T1]
gi|301155711|emb|CBW15179.1| 23S rRNA pseudouridylate synthase [Haemophilus parainfluenzae T3T1]
Length = 326
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/262 (27%), Positives = 113/262 (43%), Gaps = 56/262 (21%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S +L+ED+ L+ +NKP G+ ++ A R L L +R
Sbjct: 98 SHILFEDDCLLVLNKPSGIAVHGGSGLNFGVIEALRALRPEARF----------LELVHR 147
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LDRDTSG++++ K L + V K Y+AL G
Sbjct: 148 LDRDTSGILLVAKKRSALRNLHEQLRVKTVQKDYLALV--------------------RG 187
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
W+ + +V+ + ++ + ++ V+ +G +PS E +E++
Sbjct: 188 QWQSHV-----KVVQAPLLKNELASGERIVKVSEQG---KPS------ETRFSIEERY-- 231
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD-GHE---L 319
+N LV+A P +GRTHQIR+H QY G I D KY G E++ D G L
Sbjct: 232 -----QNATLVKASPVTGRTHQIRVHTQYAGHPIALDDKY-GDKEFDKYMQDLGLNRLFL 285
Query: 320 HAESLSFDHPVTGCPVMVQAPL 341
HA S+ F+HP TG + + A L
Sbjct: 286 HAFSIRFEHPKTGETLRLNAQL 307
>gi|330830420|ref|YP_004393372.1| Pseudouridine synthase [Aeromonas veronii B565]
gi|423208905|ref|ZP_17195459.1| RluA family pseudouridine synthase [Aeromonas veronii AER397]
gi|328805556|gb|AEB50755.1| Pseudouridine synthase [Aeromonas veronii B565]
gi|404618750|gb|EKB15670.1| RluA family pseudouridine synthase [Aeromonas veronii AER397]
Length = 231
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 68/263 (25%), Positives = 106/263 (40%), Gaps = 53/263 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----L 140
+ L+EDE L+ +NKP G+ S K+ + + L++ + L
Sbjct: 18 ETLFEDEHLLLINKPSGLL---------------SLSGKNPQNLDSVHYRLVQDYPGCTL 62
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
+RLD TSG+MV+ ++ + + L + F+ VSK Y AL + GH
Sbjct: 63 VHRLDFGTSGIMVVARNKAINALLCQQFSQRAVSKAYSAL-------------LCGHLID 109
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
G A D + ++ + +G+ + V+E+
Sbjct: 110 DEGVIDAPIAKDPA-----------LFPLMKICAASGKPA----------RSRYRVIERL 148
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELH 320
A VR P +GRTHQ+RLH Q LG I G Y G+ ++ LH
Sbjct: 149 AQQIQGQTVPLTRVRLVPETGRTHQLRLHSQLLGYPILGCDLYGGLLPPGCEQAPRLMLH 208
Query: 321 AESLSFDHPVTGCPVMVQAPLPL 343
A L F HPV+G P+ V+ P
Sbjct: 209 ASKLDFTHPVSGEPMQVRCAAPF 231
>gi|116252313|ref|YP_768151.1| ribosomal large subunit pseudouridine synthase C [Rhizobium
leguminosarum bv. viciae 3841]
gi|115256961|emb|CAK08055.1| putative ribosomal large subunit pseudouridine synthase C
[Rhizobium leguminosarum bv. viciae 3841]
Length = 330
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 78/274 (28%), Positives = 109/274 (39%), Gaps = 58/274 (21%)
Query: 76 SSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNL 135
S+ ++L VL+EDE ++ +NKP G+ + A L T
Sbjct: 86 STDFELLSRMVLHEDEKVIVLNKPPGLAVQG---------GSGVARHIDQMLEAWTSPKG 136
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ L +RLDRDTSGV+VI ++ A KL AF + KTY AL G K +
Sbjct: 137 EKPRLVHRLDRDTSGVLVIARTRGAAQKLTAAFRERDTKKTYWALVKGVPRKHE------ 190
Query: 196 GHGRSKFGAWRV---YAASDVGRVLPGGSVVRDMVTSF-EVLSVNGEGSFKEPSELQEHE 251
K W V A D R+ G D SF VL
Sbjct: 191 ----DKISTWLVKEPTADGDRMRIAKHGEDGADHAISFYRVLET---------------- 230
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYE 308
A +N + P +GRTHQ+R+H ++G I GD KY + ++
Sbjct: 231 ---------------AAQNLAWLEMEPYTGRTHQLRVHALHIGHPIIGDPKYFDDDPNWD 275
Query: 309 WNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ G LHA + HP +G + V APLP
Sbjct: 276 FPGGVQKKLHLHARHIDIPHP-SGGRLRVSAPLP 308
>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 = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 71/279 (25%), Positives = 111/279 (39%), Gaps = 82/279 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELH----- 139
D++YED+ ++ +NKP+ A P +GT LN L H
Sbjct: 85 DIVYEDDDILVINKPRDFVVHPG-AGTP----------------DGTVLNALLFHCPEVA 127
Query: 140 ------LANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+ +RLD+DT+G+MV+ K+ ++LV+A +++ Y A+ IG ++
Sbjct: 128 EVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRHITREYEAIAIGRMTAGGKVDK 187
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
G +K + A S +G+ P VT F V +EH
Sbjct: 188 PIGRHATK---RTLMAVSPMGK--PA-------VTHFRV-----------AEHFREHTRI 224
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG-- 311
+ +E +GRTHQIR+H YL + GD Y G
Sbjct: 225 RLRLE---------------------TGRTHQIRVHMSYLQHPLLGDAAYGGRARIPAGA 263
Query: 312 --------KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ +D LHA L F+HP+TG + AP+P
Sbjct: 264 SEDVTAMIRNFDRQALHAVMLRFEHPITGEEMEFHAPVP 302
>gi|323526881|ref|YP_004229034.1| RluA family pseudouridine synthase [Burkholderia sp. CCGE1001]
gi|323383883|gb|ADX55974.1| pseudouridine synthase, RluA family [Burkholderia sp. CCGE1001]
Length = 345
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 74/268 (27%), Positives = 120/268 (44%), Gaps = 63/268 (23%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDE L+ ++KP GV + + G + + R + LEL +RLD
Sbjct: 105 IIFEDEHLLVIDKPAGV----AVHGGSGVAFGVIEQMREAR----PQAKFLEL--VHRLD 154
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSG++++ K L ++++ K Y A C+ G W
Sbjct: 155 RETSGILMLAKKRSALVNLHDQIRENRMDKRYYA-CV-------------------HGEW 194
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSE-LQEHEENNIVVE--KKAV 262
ASD GR VR+ + + ++ +GE + ++ L H N++ + A+
Sbjct: 195 ----ASDWGR----RRAVREPLHKY--VTADGERRVRVQADGLASHTVFNLIDRWPEYAL 244
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE---- 318
L+A+ K +GRTHQIR+H Q+L + I GD KY G + N +
Sbjct: 245 LEAELK-----------TGRTHQIRVHLQHLELPIVGDAKY-GDFALNKALARANAKPAL 292
Query: 319 ----LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP TG P+ ++APLP
Sbjct: 293 KRMFLHAYRLKLTHPATGAPLQLEAPLP 320
>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 = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 70/263 (26%), Positives = 114/263 (43%), Gaps = 58/263 (22%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
D+ YED ++ VNKP+G+ V+ P ++G ++ + +N ++ + +R
Sbjct: 81 DIYYEDADVLVVNKPRGM----VVHPAPGHVSGTLVNGLMAHCTDLSGINGVMRPGIVHR 136
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G + TI + GR K
Sbjct: 137 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRKYTAVVHGII-QHDTGTIDAPIGRDK-- 193
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
D + + VT F+V+ E ++ VVE +
Sbjct: 194 -------KDRQSMTVTKESAKQAVTHFDVI---------------ERFQDFTVVECRL-- 229
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHEL 319
+GRTHQIR+H +Y+G + GD KY G R ++G L
Sbjct: 230 ---------------ETGRTHQIRVHMKYIGYPLAGDPKY-------GPRKTVDFNGQLL 267
Query: 320 HAESLSFDHPVTGCPVMVQAPLP 342
HA L FDHP TG + AP+P
Sbjct: 268 HAGVLGFDHPRTGEYIEFTAPIP 290
>gi|46111497|ref|XP_382806.1| hypothetical protein FG02630.1 [Gibberella zeae PH-1]
Length = 512
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 68/229 (29%), Positives = 97/229 (42%), Gaps = 33/229 (14%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDE ++ +NKP GV P AG + + + + +L NRLD
Sbjct: 182 IIHEDEDMIVINKPAGV---------PVHPAGRYNFNSVVEIMKSDRGPAFLPYLCNRLD 232
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKW-----KRITIISGHGRS 200
R TSG+M I K+ A L D V K YIA +G P + I IS
Sbjct: 233 RLTSGIMFIAKNPVAAEALGIKIKDRTVRKEYIARVMGEFPDGEVVCDQPILQIS----P 288
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
K G RV A R +V + + E + + + K P +LQ+ V
Sbjct: 289 KLGLNRVRANGKTAR-----TVFKKLAYYPEDENEDVDERPKTPEQLQDETHRPWV---- 339
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEW 309
KK +VR P +GRTHQ+R+H Q+LG I+ D Y W
Sbjct: 340 ------NKKGYSIVRCLPVTGRTHQLRVHLQHLGHPIQNDPIYANRRVW 382
>gi|445437385|ref|ZP_21441031.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC021]
gi|444753967|gb|ELW78603.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC021]
Length = 310
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 77/270 (28%), Positives = 114/270 (42%), Gaps = 61/270 (22%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S V+YEDE L+ VNKP G+ L+ ++ R + G K L L +R
Sbjct: 95 SRVVYEDEGLLVVNKPSGIAVHGGSGVAYGLI-------EALRAATGKKY----LELIHR 143
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DRDTSG+++I+K L +HK+ KTY A+ G
Sbjct: 144 IDRDTSGLVMISKKRSTLKLLQDMLREHKIRKTYAAIVKGQV------------------ 185
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTS--FEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
S+ + ++ + F NGE + E + + +V E+
Sbjct: 186 -----------------SLDKQLIDAPLFRYELANGERRVRVSKEGKPSKTEWVVAER-- 226
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
KN LV A P SGRTHQIR+H +G + GD KY ++G LHA
Sbjct: 227 ------FKNATLVHASPLSGRTHQIRVHGLSIGHPLLGDDKYGHNTAYSGPEARRLCLHA 280
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
+ D P G P ++APLP T+ L++
Sbjct: 281 --MRLDIP--GYPT-IEAPLPEDMTQLLEA 305
>gi|337291104|ref|YP_004630125.1| hypothetical protein CULC22_01496 [Corynebacterium ulcerans
BR-AD22]
gi|384516015|ref|YP_005711107.1| hypothetical protein CULC809_01481 [Corynebacterium ulcerans 809]
gi|397654365|ref|YP_006495048.1| hypothetical protein CULC0102_1614 [Corynebacterium ulcerans 0102]
gi|334697216|gb|AEG82013.1| hypothetical protein CULC809_01481 [Corynebacterium ulcerans 809]
gi|334699410|gb|AEG84206.1| hypothetical protein CULC22_01496 [Corynebacterium ulcerans
BR-AD22]
gi|393403321|dbj|BAM27813.1| hypothetical protein CULC0102_1614 [Corynebacterium ulcerans 0102]
Length = 307
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 84/267 (31%), Positives = 107/267 (40%), Gaps = 67/267 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLA-SVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
D+LY D+ L+AVNKP GV L P ++ G +A R+S T + R
Sbjct: 82 DILYSDDDLIAVNKPVGVAAHPTLGWEGPTVIGGLAAAGF--RIS--TSGPPERKGIVQR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD TSGVMVI S + S L +AF + VSKTY AL G + TI + GR
Sbjct: 138 LDVGTSGVMVIAASERGYSVLKRAFKERTVSKTYHALVQGHMDPFTG-TIDAPIGRHPSA 196
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
WR SD + VT +E L +F E S L+ H E
Sbjct: 197 GWRFAVTSD----------GKHAVTHYETLE-----AFAEASLLKIHLE----------- 230
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG----------VYEWNGKR 313
+GRTHQIR+H L GD Y V +W
Sbjct: 231 ----------------TGRTHQIRVHMSALHHPCCGDPMYGSDPKLSERLGLVRQW---- 270
Query: 314 YDGHELHAESLSFDHPVTGCPVMVQAP 340
LHA SL F HP G + + +P
Sbjct: 271 -----LHAVSLGFHHPADGRWMEITSP 292
>gi|317058953|ref|ZP_07923438.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp.
3_1_5R]
gi|313684629|gb|EFS21464.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp.
3_1_5R]
Length = 318
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 69/264 (26%), Positives = 114/264 (43%), Gaps = 46/264 (17%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D++YED++L+ VNK + L + L LS+ ++ + +RL
Sbjct: 86 DIVYEDKYLLVVNKQANMVVHPALGNYSGTLVNALLYYCKENLSDMN--GVIRPGIVHRL 143
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DT+G++++ K+++V SKL F + + KTY+A+ G + ++ GR +
Sbjct: 144 DKDTTGLIIVAKNNQVHSKLALMFQEKTIRKTYVAIVKGRFSEERK------EGRLETLI 197
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
R D ++ + ++++ VL LD
Sbjct: 198 TR--DPKDRKKMTVSQIQGKKAISNYRVL-----------------------------LD 226
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
D LV +GRTHQIR+H +YL I GD+ Y G + KR LHA L
Sbjct: 227 GDKHS---LVEVKIETGRTHQIRVHMKYLNHPILGDIVY-GQEDTKCKR---QMLHAYRL 279
Query: 325 SFDHPVTGCPVMVQAPLPLWGTEA 348
F HP+T + ++ LP EA
Sbjct: 280 EFIHPITEEAICLEGKLPEDFIEA 303
>gi|229166225|ref|ZP_04293984.1| Pseudouridine synthase [Bacillus cereus AH621]
gi|423594686|ref|ZP_17570717.1| RluA family pseudouridine synthase [Bacillus cereus VD048]
gi|228617170|gb|EEK74236.1| Pseudouridine synthase [Bacillus cereus AH621]
gi|401223638|gb|EJR30206.1| RluA family pseudouridine synthase [Bacillus cereus VD048]
Length = 307
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 75/270 (27%), Positives = 113/270 (41%), Gaps = 75/270 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA--- 141
+V++ED+ ++ +NK G S + GT NL+ H
Sbjct: 86 NVVFEDDHVLIINK-----------------QGQMDTHPSEKNGTGTLANLVAFHFQMQG 128
Query: 142 --------NRLDRDTSGVMVITKSHKVASKLV-KAFTDHKVSKTYIALCIGPAPKWKRIT 192
+RLD+DT+G +V K H++A ++ + + K+ +TY+AL G K K+ T
Sbjct: 129 LETKVRHIHRLDKDTTGGVVFAK-HRIAGAIMDRLLMERKIKRTYMALVEGKVKK-KQGT 186
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
I + GR + A R RV P G +T ++V E FK
Sbjct: 187 IDAAIGRDRHHATRR-------RVSPKGD---QAITYYKV-----EKYFK---------- 221
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
K+N LV +GRTHQIR+H Y G + GDV Y G +
Sbjct: 222 ---------------KQNATLVTLQLETGRTHQIRVHMSYNGNPLVGDVLYGGQTTY--- 263
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA ++F HP+T ++V P P
Sbjct: 264 -MSGQALHAMKINFLHPITKEEIVVDVPFP 292
>gi|265762620|ref|ZP_06091188.1| ribosomal large subunit pseudouridine synthase A [Bacteroides sp.
2_1_16]
gi|336408646|ref|ZP_08589137.1| hypothetical protein HMPREF1018_01152 [Bacteroides sp. 2_1_56FAA]
gi|383117361|ref|ZP_09938107.1| RluA family pseudouridine synthase [Bacteroides sp. 3_2_5]
gi|423249084|ref|ZP_17230100.1| RluA family pseudouridine synthase [Bacteroides fragilis
CL03T00C08]
gi|423256606|ref|ZP_17237534.1| RluA family pseudouridine synthase [Bacteroides fragilis
CL03T12C07]
gi|251947311|gb|EES87593.1| RluA family pseudouridine synthase [Bacteroides sp. 3_2_5]
gi|263255228|gb|EEZ26574.1| ribosomal large subunit pseudouridine synthase A [Bacteroides sp.
2_1_16]
gi|335935867|gb|EGM97815.1| hypothetical protein HMPREF1018_01152 [Bacteroides sp. 2_1_56FAA]
gi|392648605|gb|EIY42293.1| RluA family pseudouridine synthase [Bacteroides fragilis
CL03T12C07]
gi|392656631|gb|EIY50269.1| RluA family pseudouridine synthase [Bacteroides fragilis
CL03T00C08]
Length = 539
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/268 (26%), Positives = 115/268 (42%), Gaps = 64/268 (23%)
Query: 76 SSLYKLSRS--DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKL 133
S Y LS++ ++L+ED+WL+ ++KP+GV SVP G S E L
Sbjct: 326 SERYSLSQNMPEILFEDQWLLVLHKPEGVL------SVP----GKSEEQSIYSLLRARYP 375
Query: 134 NLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+ +RLD TSG+++ K+ +V L F + + K YIAL G
Sbjct: 376 EATGPLVVHRLDMATSGLLLAAKTQEVHRHLQAQFENRSIKKRYIALLDG---------- 425
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+LP V D+ + L P ++ E
Sbjct: 426 ----------------------ILPEEEGVIDLPICPDYLD--------RPRQMVNEELG 455
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY-LGIS--IRGDVKYEGVYEWN 310
+ + V+D K + + FP +GRTHQ+R+H + LG++ I GD Y
Sbjct: 456 KTAITRYRVMDR--KNGQTRIAFFPLTGRTHQLRVHAAHPLGLNCPIVGDELY------- 506
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQ 338
G++ + LHAE L F HPV+G ++++
Sbjct: 507 GRKAERLYLHAEYLEFIHPVSGQRMVIE 534
>gi|313679572|ref|YP_004057311.1| ribosomal large subunit pseudouridine synthase d [Oceanithermus
profundus DSM 14977]
gi|313152287|gb|ADR36138.1| ribosomal large subunit pseudouridine synthase D [Oceanithermus
profundus DSM 14977]
Length = 306
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 74/259 (28%), Positives = 108/259 (41%), Gaps = 55/259 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++LYEDE +V VNKP G+ V P + G + GR E + + +RL
Sbjct: 77 EILYEDEDMVVVNKPAGM----VTHPAPGVTRGTLVNALLGRWVEPGG-EPVRPGIVHRL 131
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIG-PAPKWKRITIISGHGRSKFG 203
D++TSGV+V+ + +L AF V K Y+AL G PA T+I+ GR
Sbjct: 132 DKETSGVIVVARHEAALRRLADAFKQRFVFKRYVALTEGVPA----NTTVIAPIGRHPVH 187
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
++++ GG R T FEV++
Sbjct: 188 RFKMHT---------GGIKARYAETDFEVVAT---------------------------- 210
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+ LV A P +GRTHQIR+H ++L I D Y + G+ LHA
Sbjct: 211 ----AEGRALVEARPHTGRTHQIRVHLKHLHTPIWADPLYGKPSPFIGRL----ALHAYE 262
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L HP +G + AP+P
Sbjct: 263 LRVPHPKSGKILSFTAPVP 281
>gi|53720057|ref|YP_109043.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei K96243]
gi|53725726|ref|YP_102318.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
mallei ATCC 23344]
gi|67641115|ref|ZP_00439900.1| pseudouridine synthase, RluA family [Burkholderia mallei GB8 horse
4]
gi|121600497|ref|YP_993794.1| RluA family pseudouridine synthase [Burkholderia mallei SAVP1]
gi|124385930|ref|YP_001028742.1| RluA family pseudouridine synthase [Burkholderia mallei NCTC 10229]
gi|126448075|ref|YP_001081352.1| RluA family pseudouridine synthase [Burkholderia mallei NCTC 10247]
gi|126452060|ref|YP_001067109.1| RluA family pseudouridine synthase [Burkholderia pseudomallei
1106a]
gi|134277927|ref|ZP_01764642.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei 305]
gi|167000755|ref|ZP_02266562.1| pseudouridine synthase, RluA family [Burkholderia mallei PRL-20]
gi|167739572|ref|ZP_02412346.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 14]
gi|167825182|ref|ZP_02456653.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 9]
gi|167846678|ref|ZP_02472186.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei B7210]
gi|167895267|ref|ZP_02482669.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 7894]
gi|167911901|ref|ZP_02498992.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 112]
gi|167919896|ref|ZP_02506987.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei BCC215]
gi|217420690|ref|ZP_03452195.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei 576]
gi|226199879|ref|ZP_03795429.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei
Pakistan 9]
gi|237813217|ref|YP_002897668.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei
MSHR346]
gi|242315815|ref|ZP_04814831.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei
1106b]
gi|254178644|ref|ZP_04885299.1| pseudouridine synthase, RluA family [Burkholderia mallei ATCC
10399]
gi|254184188|ref|ZP_04890778.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei
1655]
gi|254191223|ref|ZP_04897727.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei
Pasteur 52237]
gi|254195717|ref|ZP_04902143.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei S13]
gi|254199211|ref|ZP_04905577.1| pseudouridine synthase, RluA family [Burkholderia mallei FMH]
gi|254205518|ref|ZP_04911870.1| pseudouridine synthase, RluA family [Burkholderia mallei JHU]
gi|254259234|ref|ZP_04950288.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei
1710a]
gi|254357685|ref|ZP_04973958.1| pseudouridine synthase, RluA family [Burkholderia mallei
2002721280]
gi|386860969|ref|YP_006273918.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 1026b]
gi|403519533|ref|YP_006653667.1| RluA family pseudouridine synthase [Burkholderia pseudomallei
BPC006]
gi|418380375|ref|ZP_12966351.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 354a]
gi|418533440|ref|ZP_13099307.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 1026a]
gi|418540232|ref|ZP_13105791.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 1258a]
gi|418546479|ref|ZP_13111697.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 1258b]
gi|418552714|ref|ZP_13117565.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 354e]
gi|52210471|emb|CAH36454.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei K96243]
gi|52429149|gb|AAU49742.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
mallei ATCC 23344]
gi|121229307|gb|ABM51825.1| pseudouridine synthase, RluA family [Burkholderia mallei SAVP1]
gi|124293950|gb|ABN03219.1| pseudouridine synthase, RluA family [Burkholderia mallei NCTC
10229]
gi|126225702|gb|ABN89242.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei
1106a]
gi|126240945|gb|ABO04038.1| pseudouridine synthase, RluA family [Burkholderia mallei NCTC
10247]
gi|134251577|gb|EBA51656.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei 305]
gi|147748807|gb|EDK55881.1| pseudouridine synthase, RluA family [Burkholderia mallei FMH]
gi|147752961|gb|EDK60026.1| pseudouridine synthase, RluA family [Burkholderia mallei JHU]
gi|148026812|gb|EDK84833.1| pseudouridine synthase, RluA family [Burkholderia mallei
2002721280]
gi|157938895|gb|EDO94565.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei
Pasteur 52237]
gi|160699683|gb|EDP89653.1| pseudouridine synthase, RluA family [Burkholderia mallei ATCC
10399]
gi|169652462|gb|EDS85155.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei S13]
gi|184214719|gb|EDU11762.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei
1655]
gi|217396102|gb|EEC36119.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei 576]
gi|225927935|gb|EEH23972.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei
Pakistan 9]
gi|237503168|gb|ACQ95486.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei
MSHR346]
gi|238521978|gb|EEP85425.1| pseudouridine synthase, RluA family [Burkholderia mallei GB8 horse
4]
gi|242139054|gb|EES25456.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei
1106b]
gi|243063307|gb|EES45493.1| pseudouridine synthase, RluA family [Burkholderia mallei PRL-20]
gi|254217923|gb|EET07307.1| pseudouridine synthase, RluA family [Burkholderia pseudomallei
1710a]
gi|385361475|gb|EIF67360.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 1026a]
gi|385362373|gb|EIF68190.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 1258a]
gi|385364533|gb|EIF70245.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 1258b]
gi|385372631|gb|EIF77732.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 354e]
gi|385377417|gb|EIF81996.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 354a]
gi|385658097|gb|AFI65520.1| ribosomal large subunit pseudouridine synthase C [Burkholderia
pseudomallei 1026b]
gi|403075176|gb|AFR16756.1| RluA family pseudouridine synthase [Burkholderia pseudomallei
BPC006]
Length = 335
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 75/280 (26%), Positives = 115/280 (41%), Gaps = 85/280 (30%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE------- 137
++L+ED+ ++ +NKP GV G ++E
Sbjct: 102 EILFEDDAIIVLNKPAGVAVHG---------------------GSGVAFGVIEQMRHARP 140
Query: 138 ----LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
L LA+RLDR+TSG++++ K L + ++++ K Y A C+
Sbjct: 141 HAKFLELAHRLDRETSGILMLAKKRSALVGLHEQIRENRMDKRYFA-CV----------- 188
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTS--FEVLSVNGEGSFK-EPSELQEH 250
G W A+D GR R +V + F+ + +GE + + L H
Sbjct: 189 --------HGDW----AADWGR--------RRVVKAPLFKYATPDGERRVRVQEDGLPSH 228
Query: 251 EENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN 310
N+V D + LV A ++GRTHQIR+H +LG+ I GD KY G + N
Sbjct: 229 TVFNLV---------DRWPDYALVEAELKTGRTHQIRVHLAHLGLPIVGDAKY-GDFALN 278
Query: 311 GKRYDGHE--------LHAESLSFDHPVTGCPVMVQAPLP 342
+ LHA L HP+TG P+ APLP
Sbjct: 279 KALARANAVPSIKRMFLHAHRLRLAHPLTGEPLQFDAPLP 318
>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 = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/272 (26%), Positives = 112/272 (41%), Gaps = 77/272 (28%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN-- 142
D++YED +V +NK P L+ + + SG L ++ +L N
Sbjct: 85 DIIYEDSDIVVINKA------------PNLVVHPAHGNYSGTLVNALLYHIKDLSTINGV 132
Query: 143 -------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGP-APKWKRI-TI 193
RLD+DTSGV+V+ K+ + KL + F + + K Y+ + G K RI T+
Sbjct: 133 IRPGIVHRLDKDTSGVIVVAKNDEAHGKLSEMFKEKTLEKIYVCIAKGIFKEKSGRIKTL 192
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
I GR ++ ++ G++ ++++EV+
Sbjct: 193 I---GRDSRDRKKMAVVNENGKI---------AISNYEVI-------------------- 220
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR 313
D KN LV+ +GRTHQIR+H ++L I GD Y G
Sbjct: 221 ------------DEGKNHSLVKVRIETGRTHQIRVHMKHLNHPIMGDTTY-------GNG 261
Query: 314 YDGHE---LHAESLSFDHPVTGCPVMVQAPLP 342
DG + LHA L F HP + V APLP
Sbjct: 262 NDGADRQMLHAYRLKFIHPTKNTEMTVIAPLP 293
>gi|397168144|ref|ZP_10491582.1| pseudouridine synthase, RluA family protein [Enterobacter
radicincitans DSM 16656]
gi|396089679|gb|EJI87251.1| pseudouridine synthase, RluA family protein [Enterobacter
radicincitans DSM 16656]
Length = 317
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/260 (28%), Positives = 110/260 (42%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + ++ K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLRGKEMQKDYLALVRG---QWQ-------------SHV 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PS E VE++
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVNSEG---KPS------ETRFKVEERYEFAT 230
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGHELHA 321
LVR P +GRTHQIR+H Q+ G I D +Y G E++ + LHA
Sbjct: 231 -------LVRCSPVTGRTHQIRVHTQHAGHPIAFDDRY-GDREFDKQLAATGLSRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP +G + ++APL
Sbjct: 283 AALKFTHPNSGETLRIEAPL 302
>gi|383314557|ref|YP_005375412.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis P54B96]
gi|384507070|ref|YP_005683739.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis C231]
gi|384509157|ref|YP_005685825.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis I19]
gi|384511247|ref|YP_005690825.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis PAT10]
gi|385807859|ref|YP_005844256.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis 267]
gi|387136897|ref|YP_005692877.1| ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis 42/02-A]
gi|302206504|gb|ADL10846.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis C231]
gi|308276746|gb|ADO26645.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis I19]
gi|341825186|gb|AEK92707.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis PAT10]
gi|348607342|gb|AEP70615.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis 42/02-A]
gi|380870058|gb|AFF22532.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis P54B96]
gi|383805252|gb|AFH52331.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis 267]
Length = 307
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 82/258 (31%), Positives = 109/258 (42%), Gaps = 49/258 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLA-SVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
D+LY D+ L+AVNKP GV L P ++ G +A R+S T + R
Sbjct: 82 DILYSDDDLIAVNKPVGVAAHPTLGWEGPTVIGGLAAAGF--RIS--TSGPPERKGIVQR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD TSGVMVI S + S L +AF + VSKTY AL G + TI + GR
Sbjct: 138 LDVGTSGVMVIAASERGYSVLKRAFKERTVSKTYHALVQGHTDPFTG-TIDAPIGRHPSA 196
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
WR SD + VT +E L +F E S L+ H E
Sbjct: 197 GWRFAVTSD----------GKHAVTHYETLE-----AFAEASLLKIHLE----------- 230
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE-LHAE 322
+GRTHQIR+H L GD Y + + + + LHA
Sbjct: 231 ----------------TGRTHQIRVHMSALHHPCCGDPMYGSDPKLSERLGLTRQWLHAV 274
Query: 323 SLSFDHPVTGCPVMVQAP 340
SL F+HP G + + +P
Sbjct: 275 SLGFNHPADGRWMEITSP 292
>gi|212712798|ref|ZP_03320926.1| hypothetical protein PROVALCAL_03895 [Providencia alcalifaciens DSM
30120]
gi|422017691|ref|ZP_16364254.1| 23S rRNA pseudouridylate synthase C [Providencia alcalifaciens
Dmel2]
gi|212684490|gb|EEB44018.1| hypothetical protein PROVALCAL_03895 [Providencia alcalifaciens DSM
30120]
gi|414105284|gb|EKT66843.1| 23S rRNA pseudouridylate synthase C [Providencia alcalifaciens
Dmel2]
Length = 318
Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 74/260 (28%), Positives = 112/260 (43%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYEDE ++ +NKP G ++ G A R L L +RLD
Sbjct: 94 ILYEDESILVINKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 143
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG++++ K L + ++ K Y+AL G W+ T
Sbjct: 144 RDTSGILLVAKKRSALRALHEQLRLKQMQKDYLALVRG---NWQSHT------------- 187
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ V+ EG +PSE + E
Sbjct: 188 KVVQAPLLKNILQSGE---------RIVRVSSEG---KPSETRFKVEERF---------- 225
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD-GHE---LHA 321
+N LV+A P +GRTHQIR+H + G I D +Y G +++ + D G + LHA
Sbjct: 226 ---ENATLVKASPVTGRTHQIRVHTLHAGHPIAFDDRY-GDKQFDSQLADTGLKRLFLHA 281
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP +G + V APL
Sbjct: 282 YALKFTHPKSGEEMRVVAPL 301
>gi|375357457|ref|YP_005110229.1| putative ribosomal large subunit pseudouridine synthase
[Bacteroides fragilis 638R]
gi|423258566|ref|ZP_17239489.1| RluA family pseudouridine synthase [Bacteroides fragilis
CL07T00C01]
gi|423264462|ref|ZP_17243465.1| RluA family pseudouridine synthase [Bacteroides fragilis
CL07T12C05]
gi|423281687|ref|ZP_17260572.1| RluA family pseudouridine synthase [Bacteroides fragilis HMW 615]
gi|301162138|emb|CBW21683.1| putative ribosomal large subunit pseudouridine synthase
[Bacteroides fragilis 638R]
gi|387776146|gb|EIK38246.1| RluA family pseudouridine synthase [Bacteroides fragilis
CL07T00C01]
gi|392706728|gb|EIY99851.1| RluA family pseudouridine synthase [Bacteroides fragilis
CL07T12C05]
gi|404582728|gb|EKA87419.1| RluA family pseudouridine synthase [Bacteroides fragilis HMW 615]
Length = 539
Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/268 (26%), Positives = 115/268 (42%), Gaps = 64/268 (23%)
Query: 76 SSLYKLSRS--DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKL 133
S Y LS++ ++L+ED+WL+ ++KP+GV SVP G S E L
Sbjct: 326 SERYSLSQNMPEILFEDQWLLVLHKPEGVL------SVP----GKSEEQSIYSLLRARYP 375
Query: 134 NLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+ +RLD TSG+++ K+ +V L F + + K YIAL G
Sbjct: 376 EATGPLVVHRLDMATSGLLLAAKTQEVHRHLQAQFENRSIKKRYIALLDG---------- 425
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+LP V D+ + L P ++ E
Sbjct: 426 ----------------------ILPEEEGVIDLPICPDYLD--------RPRQMVNEELG 455
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY-LGIS--IRGDVKYEGVYEWN 310
+ + V+D K + + FP +GRTHQ+R+H + LG++ I GD Y
Sbjct: 456 KTAITRYRVMDR--KNGQTRIAFFPLTGRTHQLRVHAAHPLGLNCPIVGDELY------- 506
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQ 338
G++ + LHAE L F HPV+G ++++
Sbjct: 507 GRKAERLYLHAEYLEFIHPVSGQRMVIE 534
>gi|291285956|ref|YP_003502772.1| RluA family pseudouridine synthase [Denitrovibrio acetiphilus DSM
12809]
gi|290883116|gb|ADD66816.1| pseudouridine synthase, RluA family [Denitrovibrio acetiphilus DSM
12809]
Length = 302
Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 81/325 (24%), Positives = 121/325 (37%), Gaps = 69/325 (21%)
Query: 25 FFSLASMSNPTEPTSQNAPQTQQNYPTPLSPPLPAISKDIELTRAMSASSKSSLYKLSRS 84
F + +S P + ++ + P P L + DIE
Sbjct: 42 FVKVNGVSKPKKYKVKSGDSIVIDVPREEVPELTPVKMDIE------------------- 82
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
++Y+ + +NKP G+ A D+ + + T N L + +RL
Sbjct: 83 -IIYDCDEFAVINKPAGITVHPAPGH-----ADDTIVNAMLAEFDITDDNDLRPGIVHRL 136
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGA 204
D+DTSG+M++ K+ K L K F D + K Y+A+C G PK TI GR
Sbjct: 137 DKDTSGLMIVAKNRKSREVLSKVFADRDIDKRYLAVCWG-KPKELEFTIEQPIGRHYKDR 195
Query: 205 WRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
R+ D GR G VL N E
Sbjct: 196 KRMCVRED-GRYSKSG---------VRVLKQNNNAFLAE--------------------- 224
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESL 324
+R F +GRTHQIR+H + G + GDV Y G + LH+ L
Sbjct: 225 ---------IRIF--TGRTHQIRVHMSHAGFPLAGDVVY-GHRQSLKLPIKRQALHSFRL 272
Query: 325 SFDHPVTGCPVMVQAPLPLWGTEAL 349
+F P TG ++ ++PLPL E +
Sbjct: 273 AFVSPFTGEDMVFESPLPLDMKELI 297
>gi|410087392|ref|ZP_11284096.1| Ribosomal large subunit pseudouridine synthase C [Morganella
morganii SC01]
gi|409766127|gb|EKN50223.1| Ribosomal large subunit pseudouridine synthase C [Morganella
morganii SC01]
Length = 345
Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/259 (27%), Positives = 108/259 (41%), Gaps = 54/259 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
VLYED+ ++ +NKP G ++ A R L L +RLD
Sbjct: 121 VLYEDDHILVINKPAGTAVHGGSGLSFGVIEAMRALRPEARF----------LELVHRLD 170
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSG+++I K L + ++ K Y+AL G +W+ +
Sbjct: 171 RDTSGILLIAKKRSALRALHEQLRLKQMQKDYLALVRG---QWQ-------------SSV 214
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G V+ V+ EG +PSE + E
Sbjct: 215 KVVQAPLLKNILQSGE---------RVVKVSPEG---KPSETRFKVEERF---------- 252
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVY---EWNGKRYDGHELHAE 322
+ LV+A P +GRTHQIR+H + G I D +Y + G + LHA
Sbjct: 253 ---EAATLVKASPVTGRTHQIRVHTLHAGHPIAFDNRYGDAQFDAQLKGTGLNRLFLHAA 309
Query: 323 SLSFDHPVTGCPVMVQAPL 341
+L+F HP TG + +QAPL
Sbjct: 310 ALAFTHPSTGEAMRLQAPL 328
>gi|407714322|ref|YP_006834887.1| Ribosomal large subunit pseudouridine synthase C [Burkholderia
phenoliruptrix BR3459a]
gi|407236506|gb|AFT86705.1| Ribosomal large subunit pseudouridine synthase C [Burkholderia
phenoliruptrix BR3459a]
Length = 345
Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 74/268 (27%), Positives = 120/268 (44%), Gaps = 63/268 (23%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDE L+ ++KP GV + + G + + R + LEL +RLD
Sbjct: 105 IIFEDEHLLVIDKPAGV----AVHGGSGVAFGVIEQMREAR----PQAKFLEL--VHRLD 154
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSG++++ K L ++++ K Y A C+ G W
Sbjct: 155 RETSGILMLAKKRSALVNLHDQIRENRMDKRYYA-CV-------------------HGEW 194
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSE-LQEHEENNIVVE--KKAV 262
ASD GR VR+ + + ++ +GE + ++ L H N++ + A+
Sbjct: 195 ----ASDWGR----RRAVREPLHKY--VTADGERRVRVQADGLASHTVFNLIDRWPEYAL 244
Query: 263 LDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE---- 318
L+A+ K +GRTHQIR+H Q+L + I GD KY G + N +
Sbjct: 245 LEAELK-----------TGRTHQIRVHLQHLELPIVGDAKY-GDFALNKALARANAKPGL 292
Query: 319 ----LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP TG P+ ++APLP
Sbjct: 293 KRMFLHAYRLKLTHPATGAPLQLEAPLP 320
>gi|60680595|ref|YP_210739.1| ribosomal large subunit pseudouridine synthase [Bacteroides
fragilis NCTC 9343]
gi|60492029|emb|CAH06791.1| putative ribosomal large subunit pseudouridine synthase
[Bacteroides fragilis NCTC 9343]
Length = 539
Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/268 (26%), Positives = 115/268 (42%), Gaps = 64/268 (23%)
Query: 76 SSLYKLSRS--DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKL 133
S Y LS++ ++L+ED+WL+ ++KP+GV SVP G S E L
Sbjct: 326 SERYSLSQNMPEILFEDQWLLVLHKPEGVL------SVP----GKSEEQSIYSLLRARYP 375
Query: 134 NLLELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
+ +RLD TSG+++ K+ +V L F + + K YIAL G
Sbjct: 376 EATGPLVVHRLDMATSGLLLAAKAQEVHRHLQAQFENRSIKKRYIALLDG---------- 425
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
+LP V D+ + L P ++ E
Sbjct: 426 ----------------------ILPEEEGVIDLPICPDYLD--------RPRQMVNEELG 455
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY-LGIS--IRGDVKYEGVYEWN 310
+ + V+D K + + FP +GRTHQ+R+H + LG++ I GD Y
Sbjct: 456 KTAITRYRVMDR--KNGQTRIAFFPLTGRTHQLRVHAAHPLGLNCPIVGDELY------- 506
Query: 311 GKRYDGHELHAESLSFDHPVTGCPVMVQ 338
G++ + LHAE L F HPV+G ++++
Sbjct: 507 GRKAERLYLHAEYLEFIHPVSGQRMVIE 534
>gi|390452025|ref|ZP_10237581.1| ribosomal large subunit pseudouridine synthase D, partial
[Nitratireductor aquibiodomus RA22]
gi|389660237|gb|EIM71944.1| ribosomal large subunit pseudouridine synthase D, partial
[Nitratireductor aquibiodomus RA22]
Length = 267
Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 81/282 (28%), Positives = 114/282 (40%), Gaps = 67/282 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-----VPCLL--AGDSAESKSGRLSEGTKLNLLE 137
+VLYED+ L+ +NKP G+ + V LL G S G G
Sbjct: 16 EVLYEDDALIVINKPAGLVVHPAPGNWSGTLVNALLHHCGASLSGIGGVRRPG------- 68
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDH----KVSKTYIALCIGPAPKWKRITI 193
+ +RLDRDTSGVMV+ K+ L + F DH + + Y+A+ G AP+ TI
Sbjct: 69 --IVHRLDRDTSGVMVVAKTDNAHRLLSETFADHGRSGDLERAYVAVVWG-APERMAGTI 125
Query: 194 ISGHGRSKFGAWRVYAASDVGR-VLPGG-SVVRDMVTSFEVLSVNGEGSFKEPSELQEHE 251
+ GR +A S R V+P G S R VT ++
Sbjct: 126 DAPLGR--------HAQSRTLRAVVPAGRSDARHAVTRYQ-------------------- 157
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG 311
V+K+ D K V +GRTHQIR+H ++G + GD Y +
Sbjct: 158 -----VQKRYGADGSGKAFAAKVECRLETGRTHQIRVHMAHIGHPLIGDADYGRAFRTKV 212
Query: 312 KR-----------YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
R + LHA L+F HP TG + +A P
Sbjct: 213 NRLPEDIRPTVAAFPRQALHARLLAFRHPETGDLMRFEADPP 254
>gi|255036339|ref|YP_003086960.1| RluA family pseudouridine synthase [Dyadobacter fermentans DSM
18053]
gi|254949095|gb|ACT93795.1| pseudouridine synthase, RluA family [Dyadobacter fermentans DSM
18053]
Length = 343
Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 79/278 (28%), Positives = 111/278 (39%), Gaps = 68/278 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLAS-VPCLLAG---DSAESKSGRLSEGTKLNLLELHL 140
D++YED+ L+ VNK G+ + L+ G + +GR EG L
Sbjct: 97 DIIYEDDVLLIVNKAAGMVVHPAFGNWTGTLINGLVYHFQQLPTGRNGEGRP------GL 150
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
+R+D+DTSG++VI K+ + L F DH + +TY AL G PK ++ TI GRS
Sbjct: 151 VHRIDKDTSGLLVIAKTEFAMTFLASQFADHSIERTYHALIWG-EPKAEKGTITGHVGRS 209
Query: 201 KFGAWRVYAASD--VGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
A D V V GS + VT +EV+ +P
Sbjct: 210 ---------ARDRRVMDVYVDGSQGKHAVTHYEVI---------KPLRYVS--------- 242
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----- 313
L++ +GRTHQIR H +++G I D Y G G
Sbjct: 243 --------------LIKCNLETGRTHQIRAHMKHIGHPIFNDPMYGGDKILRGGSSGSFK 288
Query: 314 ---------YDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA+SL F HP T + LP
Sbjct: 289 AMVENAFGLISGQALHAKSLGFIHPTTRKWIQFDTELP 326
>gi|170695400|ref|ZP_02886545.1| pseudouridine synthase, RluA family [Burkholderia graminis C4D1M]
gi|170139591|gb|EDT07774.1| pseudouridine synthase, RluA family [Burkholderia graminis C4D1M]
Length = 345
Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 70/266 (26%), Positives = 113/266 (42%), Gaps = 59/266 (22%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDE L+ ++KP GV ++ + L L +RLD
Sbjct: 105 IIFEDEHLLVIDKPAGVAVHGGSGVAFGVIEQMRQSRPQAKF----------LELVHRLD 154
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSG++++ K L ++++ K Y A C+ G W
Sbjct: 155 RETSGILMLAKKRSALVNLHDQIRENRMDKRYYA-CV-------------------HGEW 194
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSE-LQEHEENNIVVEKKAVLD 264
ASD GR V++ + + L+ +GE + ++ L H N++
Sbjct: 195 ----ASDWGR----RRAVKEPLHKY--LTADGERRVRVQADGLASHTVFNLI-------- 236
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE------ 318
D + L+ A ++GRTHQIR+H Q+L + I GD KY G + N +
Sbjct: 237 -DRWPDYALLEAELKTGRTHQIRVHLQHLELPIVGDAKY-GDFALNKALARSNAKPGLKR 294
Query: 319 --LHAESLSFDHPVTGCPVMVQAPLP 342
LHA L HP TG P+ ++APLP
Sbjct: 295 MFLHAYRLKLTHPATGAPLQLEAPLP 320
>gi|149200603|ref|ZP_01877608.1| 23S rRNA/tRNA pseudouridine synthase [Lentisphaera araneosa
HTCC2155]
gi|149136305|gb|EDM24753.1| 23S rRNA/tRNA pseudouridine synthase [Lentisphaera araneosa
HTCC2155]
Length = 323
Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/262 (27%), Positives = 116/262 (44%), Gaps = 51/262 (19%)
Query: 85 DVLYEDEWLVAVNKPQGVYCE----SVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL 140
D++YED+ ++ VNKP G+ + ++ L G ++ S + +G+ +
Sbjct: 91 DIIYEDDDILVVNKPAGMVVHPGAGNYTGTLVNALLGRDLDTFSA-MDDGSS----RPGI 145
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
+RLD++TSGV+++ KS K KL ++F V K Y+ALC G + R TI S GRS
Sbjct: 146 VHRLDKETSGVIIVAKSAKNLDKLSRSFARRDVEKYYVALCRGTI-RVGRDTITSHIGRS 204
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
+ ++ +D R ++ ++ ++VL+ N +
Sbjct: 205 RSNRQKMENTNDSNR-------GKEAISHYKVLADNNGAT-------------------- 237
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY-DGHEL 319
LV+ +GRTHQIR+H + + GD Y GV + K D H L
Sbjct: 238 ------------LVKLKIDTGRTHQIRVHMSGINHPVVGDKLY-GVRRLDEKESPDRHIL 284
Query: 320 HAESLSFDHPVTGCPVMVQAPL 341
HA HP T + APL
Sbjct: 285 HAWRTRIIHPGTQEIMTFTAPL 306
>gi|402487861|ref|ZP_10834676.1| pseudouridine synthase [Rhizobium sp. CCGE 510]
gi|401813029|gb|EJT05376.1| pseudouridine synthase [Rhizobium sp. CCGE 510]
Length = 329
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 78/274 (28%), Positives = 109/274 (39%), Gaps = 58/274 (21%)
Query: 76 SSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNL 135
SS ++L VL+ED+ ++ +NKP G+ + A L T
Sbjct: 85 SSDFELLSRMVLHEDDKVIVLNKPPGIAVQG---------GSGVARHIDQMLEAWTSPRG 135
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ L +RLDRDTSGV+VI ++ A KL AF + KTY AL G K +
Sbjct: 136 EKPRLVHRLDRDTSGVLVIARTRGAAQKLTAAFRERDTKKTYWALVKGVPRKHE------ 189
Query: 196 GHGRSKFGAWRV---YAASDVGRVLPGGSVVRDMVTSF-EVLSVNGEGSFKEPSELQEHE 251
K W V A D R+ G D SF VL
Sbjct: 190 ----DKISTWLVKEPTADGDRMRIARHGEDGADHAISFYRVLET---------------- 229
Query: 252 ENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYE 308
A +N + P +GRTHQ+R+H ++G I GD KY + ++
Sbjct: 230 ---------------AAQNLAWLEMEPYTGRTHQLRVHALHIGHPIIGDPKYFDDDPNWD 274
Query: 309 WNGKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ G LHA + HP +G + V APLP
Sbjct: 275 FPGGVQKKLHLHARRIDIPHP-SGGRLRVSAPLP 307
>gi|169634491|ref|YP_001708227.1| 23S rRNA pseudouridylate synthase [Acinetobacter baumannii SDF]
gi|169153283|emb|CAP02389.1| 23S rRNA pseudouridylate synthase [Acinetobacter baumannii]
Length = 310
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 77/270 (28%), Positives = 113/270 (41%), Gaps = 61/270 (22%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S V+YEDE L+ VNKP G+ L+ ++ R + G K L L +R
Sbjct: 95 SRVVYEDEGLLVVNKPSGIAVHGGSGVAYGLI-------EALRAATGKKY----LELIHR 143
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DRDTSG+++I+K L +HK+ KTY A+ G
Sbjct: 144 IDRDTSGLVMISKKRSTLKLLQDMLREHKIRKTYAAIVKGQV------------------ 185
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTS--FEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
S+ + ++ + F NGE + E + + +V E+
Sbjct: 186 -----------------SLDKQLIDAPLFRYELANGERRVRVSKEGKPSKTEWVVAER-- 226
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
KN LV A P SGRTHQIR+H +G + GD KY + G LHA
Sbjct: 227 ------FKNATLVHASPLSGRTHQIRVHGLSIGHPLVGDDKYGHNTAYTGPEARRLCLHA 280
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
+ D P G P ++APLP T+ L++
Sbjct: 281 --MRLDIP--GYPT-IEAPLPEDMTQLLEA 305
>gi|421655203|ref|ZP_16095527.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-72]
gi|445486315|ref|ZP_21457373.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
AA-014]
gi|408509340|gb|EKK11015.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-72]
gi|444769800|gb|ELW93968.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
AA-014]
Length = 310
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 77/270 (28%), Positives = 113/270 (41%), Gaps = 61/270 (22%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S V+YEDE L+ VNKP G+ L+ ++ R + G K L L +R
Sbjct: 95 SRVVYEDEGLLVVNKPSGIAVHGGSGVAYGLI-------EALRAATGKKY----LELIHR 143
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DRDTSG+++I+K L +HK+ KTY A+ G
Sbjct: 144 IDRDTSGLVMISKKRSTLKLLQDMLREHKIRKTYAAIVKGQV------------------ 185
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTS--FEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
S+ + ++ + F NGE + E + + +V E+
Sbjct: 186 -----------------SLDKQLIDAPLFRYELANGERRVRVSKEGKPSKTEWVVAER-- 226
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
KN LV A P SGRTHQIR+H +G + GD KY + G LHA
Sbjct: 227 ------FKNATLVHASPLSGRTHQIRVHGLSIGHPLVGDDKYGHNTAYTGPEARRLCLHA 280
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
+ D P G P ++APLP T+ L++
Sbjct: 281 --MRLDIP--GYPT-IEAPLPEDMTQLLET 305
>gi|170023919|ref|YP_001720424.1| 23S rRNA pseudouridylate synthase C [Yersinia pseudotuberculosis
YPIII]
gi|169750453|gb|ACA67971.1| pseudouridine synthase, RluA family [Yersinia pseudotuberculosis
YPIII]
Length = 320
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 70/260 (26%), Positives = 111/260 (42%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+L+ED++L+ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILFEDDYLLVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + K Y+AL G W
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLRLKSMQKDYLALV--------------------RGQW 184
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFE-VLSVNGEGSFKEPSELQEHEENNIVVEKKAVLD 264
+ + + ++++++ S E V+ V+ EG +PSE + E
Sbjct: 185 QSHCKA------IQAPLLKNIMQSGERVVKVSSEG---KPSETRFKIEERF--------- 226
Query: 265 ADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY---EGVYEWNGKRYDGHELHA 321
++ LV+A P +GRTHQIR+H + G I D +Y E + G LHA
Sbjct: 227 ----EHATLVKASPVTGRTHQIRVHALHAGHPIAFDDRYGDREFDQQLQGTGLHRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F+HP TG + ++APL
Sbjct: 283 AALRFEHPNTGATMRIEAPL 302
>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 = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 70/261 (26%), Positives = 115/261 (44%), Gaps = 55/261 (21%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + R K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIARDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ + VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------NAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLP 342
L FDHP TG + +AP+P
Sbjct: 270 GILGFDHPRTGEYIQFEAPIP 290
>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 = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 72/268 (26%), Positives = 117/268 (43%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + R K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIARDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------HAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P +AL
Sbjct: 270 GILGFDHPRTGKYIQFEAPIPEVFEDAL 297
>gi|421808041|ref|ZP_16243898.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC035]
gi|410416220|gb|EKP67995.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC035]
Length = 310
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 77/270 (28%), Positives = 113/270 (41%), Gaps = 61/270 (22%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S V+YEDE L+ VNKP G+ L+ ++ R + G K L L +R
Sbjct: 95 SRVVYEDEGLLVVNKPSGIAVHGGSGVAYGLI-------EALRAATGKKY----LELIHR 143
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DRDTSG+++I+K L +HK+ KTY A+ G
Sbjct: 144 IDRDTSGLVMISKKRSTLKLLQDMLREHKIRKTYAAIVKGQV------------------ 185
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTS--FEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
S+ + ++ + F NGE + E + + +V E+
Sbjct: 186 -----------------SLDKQLIDAPLFRYELANGERRVRVSKEGKPSKTEWVVAER-- 226
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
KN LV A P SGRTHQIR+H +G + GD KY + G LHA
Sbjct: 227 ------FKNATLVHASPLSGRTHQIRVHGLSIGHPLVGDDKYGHNTAYTGPEARRLCLHA 280
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
+ D P G P ++APLP T+ L++
Sbjct: 281 --MRLDIP--GYPT-IEAPLPEDMTQLLEA 305
>gi|404482194|ref|ZP_11017421.1| RluA family pseudouridine synthase [Clostridiales bacterium
OBRC5-5]
gi|404344355|gb|EJZ70712.1| RluA family pseudouridine synthase [Clostridiales bacterium
OBRC5-5]
Length = 304
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 66/277 (23%), Positives = 112/277 (40%), Gaps = 61/277 (22%)
Query: 85 DVLYEDEWLVAVNKPQGV-------YCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
D++YED+ ++ +NKP+G+ + L + D+ +G L G
Sbjct: 81 DIVYEDDDVILINKPKGMVVHPAAGHYSGTLVNALLYHCKDNLSGINGVLRPG------- 133
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D DT+G+++ K+ + K +H +++ Y+A+ G K T+ +
Sbjct: 134 --IVHRIDMDTTGIIIACKNDNAHQHIAKQLAEHSITRKYVAIATGNI-KDDEGTVDAPI 190
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
RSK ++ D R VT ++VL
Sbjct: 191 ARSKNDRKKMAVDKDGKRA----------VTHYKVL------------------------ 216
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGH 317
+ N + +GRTHQIR+H Y+ + GD Y G E R +G
Sbjct: 217 --------ERLNNYTYIECVLETGRTHQIRVHMSYIHHPLLGDEVYSGKKE--NIRSEGQ 266
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQSSSK 354
LHA+ L F HP T + +AP+P + E L+ K
Sbjct: 267 CLHAKVLGFIHPRTNEYMEFEAPVPDYFNEILRKFRK 303
>gi|421675726|ref|ZP_16115645.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC065]
gi|421692682|ref|ZP_16132333.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
IS-116]
gi|404559968|gb|EKA65219.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
IS-116]
gi|410381243|gb|EKP33809.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC065]
Length = 310
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 77/270 (28%), Positives = 113/270 (41%), Gaps = 61/270 (22%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S V+YEDE L+ VNKP G+ L+ ++ R + G K L L +R
Sbjct: 95 SRVVYEDEGLLVVNKPSGIAVHGGSGVAYGLI-------EALRAATGKKY----LELIHR 143
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DRDTSG+++I+K L +HK+ KTY A+ G
Sbjct: 144 IDRDTSGLVMISKKRSTLKLLQDMLREHKIRKTYAAIVKGQV------------------ 185
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTS--FEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
S+ + ++ + F NGE + E + + +V E+
Sbjct: 186 -----------------SLDKQLIDAPLFRYELANGERRVRVSKEGKPSKTEWVVAER-- 226
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
KN LV A P SGRTHQIR+H +G + GD KY + G LHA
Sbjct: 227 ------FKNATLVHASPLSGRTHQIRVHGLSIGHPLVGDDKYGHNTAYTGPEARRLCLHA 280
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
+ D P G P ++APLP T+ L++
Sbjct: 281 --MRLDIP--GYPT-IEAPLPEDMTQLLEA 305
>gi|388257070|ref|ZP_10134250.1| pseudouridine synthase, RluA family subfamily [Cellvibrio sp. BR]
gi|387939274|gb|EIK45825.1| pseudouridine synthase, RluA family subfamily [Cellvibrio sp. BR]
Length = 336
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 82/291 (28%), Positives = 114/291 (39%), Gaps = 83/291 (28%)
Query: 72 ASSKSSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGT 131
A + + L +L+ED+ L+ +NKP G+ G
Sbjct: 95 AKASHQMMSLLSKSILFEDDGLLVINKPPGLAVHG---------------------GSGI 133
Query: 132 KLNLLE-----------LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHK-----VSK 175
L L+E L L +RLDRDTSG +++ K L A + ++K
Sbjct: 134 TLGLIETLRQMRPEARHLELVHRLDRDTSGCIMVAKKRSYLRHLQAALREKSAGAGGITK 193
Query: 176 TYIALCIGPAPKWKRITIISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSV 235
Y AL IG PK R+ ++ + V V RV P G + +T F++L
Sbjct: 194 VYQALVIGDWPK--RVHQVN----APLLKTEVAGGERVVRVHPEG---KPSLTEFKLLQ- 243
Query: 236 NGEGSFKEPSELQEHEENNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGI 295
F S L+ A P +GRTHQIR+H QY+G
Sbjct: 244 ----RFDGFS---------------------------LIEARPITGRTHQIRVHAQYVGC 272
Query: 296 SIRGDVKYEGVYEWN----GKRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
++ GD KY G E N G+ LHA SLSF P + V APLP
Sbjct: 273 ALVGDEKY-GNDEVNEAMRGQGIKRLFLHASSLSFYLPESDVITRVDAPLP 322
>gi|308173127|ref|YP_003919832.1| pseudouridylate synthase [Bacillus amyloliquefaciens DSM 7]
gi|384159943|ref|YP_005542016.1| pseudouridylate synthase [Bacillus amyloliquefaciens TA208]
gi|384163633|ref|YP_005545012.1| pseudouridylate synthase [Bacillus amyloliquefaciens LL3]
gi|384169008|ref|YP_005550386.1| pseudouridine synthase [Bacillus amyloliquefaciens XH7]
gi|307605991|emb|CBI42362.1| pseudouridylate synthase [Bacillus amyloliquefaciens DSM 7]
gi|328554031|gb|AEB24523.1| pseudouridylate synthase [Bacillus amyloliquefaciens TA208]
gi|328911188|gb|AEB62784.1| pseudouridylate synthase [Bacillus amyloliquefaciens LL3]
gi|341828287|gb|AEK89538.1| putative pseudouridine synthase [Bacillus amyloliquefaciens XH7]
Length = 297
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 81/268 (30%), Positives = 120/268 (44%), Gaps = 73/268 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGT----KLNLLE--L 138
D+LYED+ ++ VNK + ++S+P S E S ++ G + N ++ +
Sbjct: 83 DILYEDDHVLVVNK------QPYVSSIP------SREHPSESIANGVISHYRKNGVQSTV 130
Query: 139 HLANRLDRDTSGVMVITKSHKVASKLVKAFTDHK-VSKTYIALCIGPAPKWKRITIISGH 197
HL RLDRDTSG M+I K H++A L+ A V++ Y+A+ G I+
Sbjct: 131 HLVTRLDRDTSGAMLIAK-HRLAHSLLSAAQKKGLVNRRYLAVVHG--------VILQKE 181
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
G + +GR S++ MVT EG
Sbjct: 182 GT---------VDAPIGR--KPDSIIERMVTP--------EG------------------ 204
Query: 258 EKKAVLDADAKKN---EILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY 314
+KAV A+K L +GRTHQIR+H YLG + GD Y G E ++
Sbjct: 205 -QKAVTHFQAEKAGHASTLAALRLETGRTHQIRVHMSYLGHPLVGDTLYGGKNEGIARQ- 262
Query: 315 DGHELHAESLSFDHPVTGCPVMVQAPLP 342
LH+E LSF HP+TG ++ AP+P
Sbjct: 263 ---ALHSELLSFVHPMTGETLVFHAPVP 287
>gi|418051422|ref|ZP_12689507.1| pseudouridine synthase, RluA family [Mycobacterium rhodesiae JS60]
gi|353185079|gb|EHB50603.1| pseudouridine synthase, RluA family [Mycobacterium rhodesiae JS60]
Length = 303
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 79/264 (29%), Positives = 112/264 (42%), Gaps = 59/264 (22%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLA-SVPCLLAGDSAESKSGRLSEGTKLNLLELH----L 140
+LY D +VAV+KP GV + + P +L G +A G +++ +H +
Sbjct: 78 ILYSDADIVAVDKPPGVAAHATVGWHGPTVLGGLAAA--------GFRISTSGIHERQGI 129
Query: 141 ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRS 200
+RLD TSGVMV+ S + + L +AF V K Y A+ G P TI + GR
Sbjct: 130 VHRLDVGTSGVMVVALSERAYTVLKRAFKARTVDKRYHAVVQG-HPDPSSGTIDAPIGRH 188
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
+ W+ +A ++ GR +T ++ L + F+ S L H E
Sbjct: 189 RGHDWK-FAVTETGR---------HSITHYDTLEM-----FRAASLLDIHLE-------- 225
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRY--DGHE 318
+GRTHQIR+H L GD+ Y G KR D
Sbjct: 226 -------------------TGRTHQIRVHFAALHHPCAGDLTY-GADPVLAKRLGLDRQW 265
Query: 319 LHAESLSFDHPVTGCPVMVQAPLP 342
LHA SL+F HP G V AP P
Sbjct: 266 LHARSLAFTHPADGRQFEVTAPYP 289
>gi|146311257|ref|YP_001176331.1| 23S rRNA pseudouridylate synthase C [Enterobacter sp. 638]
gi|145318133|gb|ABP60280.1| ribosomal large subunit pseudouridine synthase C [Enterobacter sp.
638]
Length = 315
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 75/260 (28%), Positives = 109/260 (41%), Gaps = 56/260 (21%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+LYED+ ++ +NKP G ++ G A R L L +RLD
Sbjct: 95 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARF----------LELVHRLD 144
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
RDTSGV+++ K L + + + K Y+AL G +W+
Sbjct: 145 RDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRG---QWQ-------------SHV 188
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+V A + +L G ++ VN EG +PSE VE++
Sbjct: 189 KVVQAPLLKNILQSGE---------RIVRVNSEG---KPSE------TRFKVEERYEFCT 230
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWN----GKRYDGHELHA 321
LVR P +GRTHQIR+H + G I D +Y G E++ G LHA
Sbjct: 231 -------LVRCSPVTGRTHQIRVHTLHAGHPIAFDDRY-GDREFDKQLAGTGLSRLFLHA 282
Query: 322 ESLSFDHPVTGCPVMVQAPL 341
+L F HP TG + V+APL
Sbjct: 283 AALKFTHPGTGEEMRVEAPL 302
>gi|163939199|ref|YP_001644083.1| RluA family pseudouridine synthase [Bacillus weihenstephanensis
KBAB4]
gi|163861396|gb|ABY42455.1| pseudouridine synthase, RluA family [Bacillus weihenstephanensis
KBAB4]
Length = 307
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 76/270 (28%), Positives = 112/270 (41%), Gaps = 75/270 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA--- 141
+V++ED+ ++ VNK G S + GT NL+ H
Sbjct: 86 NVVFEDDHVLIVNK-----------------QGQMDTHPSEKNGTGTLANLVAFHFQMQG 128
Query: 142 --------NRLDRDTSGVMVITKSHKVASKLV-KAFTDHKVSKTYIALCIGPAPKWKRIT 192
+RLD+DT+G +V K H++A ++ + + K+ +TY AL G K K+ T
Sbjct: 129 LETKVRHIHRLDKDTTGGVVFAK-HRIAGAIMDRLLMERKIKRTYAALVEGKVKK-KQGT 186
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
I + GR + A R RV P G +T ++V E FK
Sbjct: 187 IDAAIGRDRHHATR-------RRVSPKGD---QAITYYKV-----EKYFK---------- 221
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
K+N LV +GRTHQIR+H Y G + GDV Y G +
Sbjct: 222 ---------------KQNATLVTLQLETGRTHQIRVHMSYNGNPLVGDVLYGGQTTY--- 263
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA ++F HP+T ++V P P
Sbjct: 264 -MSGQALHAMKINFLHPITKEEIVVDVPFP 292
>gi|408400325|gb|EKJ79407.1| hypothetical protein FPSE_00338 [Fusarium pseudograminearum CS3096]
Length = 515
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 68/229 (29%), Positives = 97/229 (42%), Gaps = 33/229 (14%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
+++EDE ++ +NKP GV P AG + + + + +L NRLD
Sbjct: 185 IIHEDEDMIVINKPAGV---------PVHPAGRYNFNSVVEIMKSDRGPAFLPYLCNRLD 235
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKW-----KRITIISGHGRS 200
R TSG+M I K+ A L D V K YIA +G P + I IS
Sbjct: 236 RLTSGIMFIAKNPIAAEALGIKIKDRTVRKEYIARVMGEFPDGEVVCDQPILQIS----P 291
Query: 201 KFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKK 260
K G RV A R +V + + E + + + K P +LQ+ V
Sbjct: 292 KLGLNRVRANGKTAR-----TVFKKLAYYPEDENEDVDERPKTPEQLQDEMHRPWV---- 342
Query: 261 AVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEW 309
KK +VR P +GRTHQ+R+H Q+LG I+ D Y W
Sbjct: 343 ------NKKGYSIVRCLPVTGRTHQLRVHLQHLGHPIQNDPIYANRRVW 385
>gi|418937635|ref|ZP_13491253.1| pseudouridine synthase, RluA family [Rhizobium sp. PDO1-076]
gi|375055679|gb|EHS51921.1| pseudouridine synthase, RluA family [Rhizobium sp. PDO1-076]
Length = 340
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 80/271 (29%), Positives = 113/271 (41%), Gaps = 63/271 (23%)
Query: 81 LSRSDVLYEDEWLVAVNKPQGVYCES---VLASVPCLLAGDSAESKSGRLSEGTKLNLLE 137
LSR +L+EDE ++ +NKP G+ + ++ + +L ++ SK G
Sbjct: 101 LSRM-LLHEDEKVIVLNKPAGLAVQGGSGLVRHIDKML--EAWTSKKGEKPR-------- 149
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
L +RLDRDTSGV+V+ K+ A KL AF + KTY AL G K
Sbjct: 150 --LVHRLDRDTSGVLVVAKTRGAAQKLTAAFRERDTKKTYWALVKGVPRKQS-------- 199
Query: 198 GRSKFGAWRVYAASDVG---RVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENN 254
K W V +D G RV G D S+ + +F
Sbjct: 200 --DKISTWLVKDQTDEGDRMRVCKHGEDGADHAISYYRVLETAAHTF------------- 244
Query: 255 IVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY-EGVYEWN--G 311
A L+ + P +GRTHQ+R+H Y+G I GD KY + + W+ G
Sbjct: 245 ------AWLEME-----------PYTGRTHQLRVHALYMGHPIIGDPKYFDEDHNWDFPG 287
Query: 312 KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
LHA + HP G + V APLP
Sbjct: 288 GVQKRLHLHARHIDIPHP-DGGRLKVTAPLP 317
>gi|169797345|ref|YP_001715138.1| 23S rRNA pseudouridylate synthase [Acinetobacter baumannii AYE]
gi|184156731|ref|YP_001845070.1| pseudouridylate synthase, 23S RNA-specific [Acinetobacter baumannii
ACICU]
gi|213155841|ref|YP_002317886.1| ribosomal large subunit pseudouridine synthase C [Acinetobacter
baumannii AB0057]
gi|215484783|ref|YP_002327018.1| pseudouridine synthase, RluA family protein [Acinetobacter
baumannii AB307-0294]
gi|260556236|ref|ZP_05828455.1| ribosomal large subunit pseudouridine synthase C [Acinetobacter
baumannii ATCC 19606 = CIP 70.34]
gi|301345638|ref|ZP_07226379.1| pseudouridine synthase, RluA family protein [Acinetobacter
baumannii AB056]
gi|301511837|ref|ZP_07237074.1| pseudouridine synthase, RluA family protein [Acinetobacter
baumannii AB058]
gi|301597322|ref|ZP_07242330.1| pseudouridine synthase, RluA family protein [Acinetobacter
baumannii AB059]
gi|332852954|ref|ZP_08434464.1| rRNA pseudouridylate synthase [Acinetobacter baumannii 6013150]
gi|332867958|ref|ZP_08437946.1| rRNA pseudouridylate synthase [Acinetobacter baumannii 6013113]
gi|332873142|ref|ZP_08441099.1| rRNA pseudouridylate synthase [Acinetobacter baumannii 6014059]
gi|384130401|ref|YP_005513013.1| rluC [Acinetobacter baumannii 1656-2]
gi|384141687|ref|YP_005524397.1| 23S rRNA pseudouridylate synthase [Acinetobacter baumannii
MDR-ZJ06]
gi|385236000|ref|YP_005797339.1| pseudouridylate synthase, 23S RNA-specific [Acinetobacter baumannii
TCDC-AB0715]
gi|387125355|ref|YP_006291237.1| RluA family pseudouridine synthase [Acinetobacter baumannii MDR-TJ]
gi|403675464|ref|ZP_10937627.1| rluC [Acinetobacter sp. NCTC 10304]
gi|407931336|ref|YP_006846979.1| 23S RNA-specific pseudouridylate synthase [Acinetobacter baumannii
TYTH-1]
gi|416147128|ref|ZP_11601584.1| pseudouridylate synthase, 23S RNA-specific [Acinetobacter baumannii
AB210]
gi|417546184|ref|ZP_12197270.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC032]
gi|417548044|ref|ZP_12199125.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-18]
gi|417566826|ref|ZP_12217698.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC143]
gi|417571202|ref|ZP_12222059.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC189]
gi|417574958|ref|ZP_12225811.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Canada BC-5]
gi|417577327|ref|ZP_12228172.1| pseudouridine synthase, RluA family [Acinetobacter baumannii
Naval-17]
gi|417871042|ref|ZP_12515986.1| pseudouridine synthase, RluA family protein [Acinetobacter
baumannii ABNIH1]
gi|417875704|ref|ZP_12520509.1| pseudouridine synthase, RluA family protein [Acinetobacter
baumannii ABNIH2]
gi|417879802|ref|ZP_12524355.1| pseudouridine synthase, RluA family protein [Acinetobacter
baumannii ABNIH3]
gi|417882040|ref|ZP_12526348.1| pseudouridine synthase, RluA family protein [Acinetobacter
baumannii ABNIH4]
gi|421202553|ref|ZP_15659701.1| 23S rRNA pseudouridylate synthase [Acinetobacter baumannii AC12]
gi|421533743|ref|ZP_15980024.1| 23S rRNA pseudouridylate synthase [Acinetobacter baumannii AC30]
gi|421620225|ref|ZP_16061163.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC074]
gi|421627244|ref|ZP_16068055.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC098]
gi|421630788|ref|ZP_16071489.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC180]
gi|421642868|ref|ZP_16083379.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
IS-235]
gi|421649114|ref|ZP_16089509.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
IS-251]
gi|421659450|ref|ZP_16099671.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-83]
gi|421662224|ref|ZP_16102392.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC110]
gi|421666275|ref|ZP_16106367.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC087]
gi|421671148|ref|ZP_16111130.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC099]
gi|421688308|ref|ZP_16128008.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
IS-143]
gi|421694096|ref|ZP_16133728.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
WC-692]
gi|421697925|ref|ZP_16137469.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
IS-58]
gi|421702134|ref|ZP_16141619.1| rluC [Acinetobacter baumannii ZWS1122]
gi|421705873|ref|ZP_16145294.1| rluC [Acinetobacter baumannii ZWS1219]
gi|421789357|ref|ZP_16225619.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-82]
gi|421792338|ref|ZP_16228493.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-2]
gi|421797989|ref|ZP_16234023.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-21]
gi|421801015|ref|ZP_16236982.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Canada BC1]
gi|424053842|ref|ZP_17791373.1| RluA family pseudouridine synthase [Acinetobacter baumannii
Ab11111]
gi|424061284|ref|ZP_17798774.1| RluA family pseudouridine synthase [Acinetobacter baumannii
Ab33333]
gi|424064777|ref|ZP_17802261.1| RluA family pseudouridine synthase [Acinetobacter baumannii
Ab44444]
gi|425751412|ref|ZP_18869357.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-113]
gi|445446758|ref|ZP_21443389.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
WC-A-92]
gi|445465008|ref|ZP_21449786.1| rRNA pseudouridylate synthase C [Acinetobacter baumannii OIFC338]
gi|445481684|ref|ZP_21456128.1| rRNA pseudouridylate synthase C [Acinetobacter baumannii Naval-78]
gi|169150272|emb|CAM88169.1| 23S rRNA pseudouridylate synthase [Acinetobacter baumannii AYE]
gi|183208325|gb|ACC55723.1| Pseudouridylate synthase, 23S RNA-specific [Acinetobacter baumannii
ACICU]
gi|213055001|gb|ACJ39903.1| ribosomal large subunit pseudouridine synthase C [Acinetobacter
baumannii AB0057]
gi|213987620|gb|ACJ57919.1| pseudouridine synthase, RluA family protein [Acinetobacter
baumannii AB307-0294]
gi|260410291|gb|EEX03590.1| ribosomal large subunit pseudouridine synthase C [Acinetobacter
baumannii ATCC 19606 = CIP 70.34]
gi|322506621|gb|ADX02075.1| rluC [Acinetobacter baumannii 1656-2]
gi|323516497|gb|ADX90878.1| pseudouridylate synthase, 23S RNA-specific [Acinetobacter baumannii
TCDC-AB0715]
gi|332728890|gb|EGJ60245.1| rRNA pseudouridylate synthase [Acinetobacter baumannii 6013150]
gi|332733659|gb|EGJ64818.1| rRNA pseudouridylate synthase [Acinetobacter baumannii 6013113]
gi|332738654|gb|EGJ69524.1| rRNA pseudouridylate synthase [Acinetobacter baumannii 6014059]
gi|333365699|gb|EGK47713.1| pseudouridylate synthase, 23S RNA-specific [Acinetobacter baumannii
AB210]
gi|342225057|gb|EGT90067.1| pseudouridine synthase, RluA family protein [Acinetobacter
baumannii ABNIH2]
gi|342226358|gb|EGT91331.1| pseudouridine synthase, RluA family protein [Acinetobacter
baumannii ABNIH1]
gi|342227449|gb|EGT92381.1| pseudouridine synthase, RluA family protein [Acinetobacter
baumannii ABNIH3]
gi|342238289|gb|EGU02722.1| pseudouridine synthase, RluA family protein [Acinetobacter
baumannii ABNIH4]
gi|347592180|gb|AEP04901.1| 23S rRNA pseudouridylate synthase [Acinetobacter baumannii
MDR-ZJ06]
gi|385879847|gb|AFI96942.1| pseudouridine synthase, RluA family [Acinetobacter baumannii
MDR-TJ]
gi|395551650|gb|EJG17659.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC189]
gi|395552498|gb|EJG18506.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC143]
gi|395570548|gb|EJG31210.1| pseudouridine synthase, RluA family [Acinetobacter baumannii
Naval-17]
gi|398327936|gb|EJN44066.1| 23S rRNA pseudouridylate synthase [Acinetobacter baumannii AC12]
gi|400205691|gb|EJO36671.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Canada BC-5]
gi|400384072|gb|EJP42750.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC032]
gi|400388343|gb|EJP51415.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-18]
gi|404561051|gb|EKA66287.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
IS-143]
gi|404569935|gb|EKA75020.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
WC-692]
gi|404572971|gb|EKA78011.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
IS-58]
gi|404666966|gb|EKB34896.1| RluA family pseudouridine synthase [Acinetobacter baumannii
Ab33333]
gi|404667328|gb|EKB35249.1| RluA family pseudouridine synthase [Acinetobacter baumannii
Ab11111]
gi|404672860|gb|EKB40664.1| RluA family pseudouridine synthase [Acinetobacter baumannii
Ab44444]
gi|407194897|gb|EKE66033.1| rluC [Acinetobacter baumannii ZWS1122]
gi|407195286|gb|EKE66420.1| rluC [Acinetobacter baumannii ZWS1219]
gi|407899917|gb|AFU36748.1| pseudouridylate synthase, 23S RNA-specific [Acinetobacter baumannii
TYTH-1]
gi|408511434|gb|EKK13082.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
IS-235]
gi|408513887|gb|EKK15499.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
IS-251]
gi|408693335|gb|EKL38944.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC098]
gi|408697174|gb|EKL42694.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC180]
gi|408700885|gb|EKL46330.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC074]
gi|408708161|gb|EKL53439.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-83]
gi|408715027|gb|EKL60157.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC110]
gi|409988415|gb|EKO44587.1| 23S rRNA pseudouridylate synthase [Acinetobacter baumannii AC30]
gi|410383445|gb|EKP35978.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC099]
gi|410388200|gb|EKP40639.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
OIFC087]
gi|410395614|gb|EKP47908.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-21]
gi|410399287|gb|EKP51484.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-82]
gi|410400645|gb|EKP52813.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-2]
gi|410406376|gb|EKP58388.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Canada BC1]
gi|425499859|gb|EKU65887.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
Naval-113]
gi|444759700|gb|ELW84162.1| putative rRNA pseudouridylate synthase C [Acinetobacter baumannii
WC-A-92]
gi|444770476|gb|ELW94633.1| rRNA pseudouridylate synthase C [Acinetobacter baumannii Naval-78]
gi|444779140|gb|ELX03134.1| rRNA pseudouridylate synthase C [Acinetobacter baumannii OIFC338]
gi|452955673|gb|EME61070.1| 23S RNA-specific pseudouridylate synthase [Acinetobacter baumannii
MSP4-16]
Length = 310
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 77/270 (28%), Positives = 113/270 (41%), Gaps = 61/270 (22%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S V+YEDE L+ VNKP G+ L+ ++ R + G K L L +R
Sbjct: 95 SRVVYEDEGLLVVNKPSGIAVHGGSGVAYGLI-------EALRAATGKKY----LELIHR 143
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DRDTSG+++I+K L +HK+ KTY A+ G
Sbjct: 144 IDRDTSGLVMISKKRSTLKLLQDMLREHKIRKTYAAIVKGQV------------------ 185
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTS--FEVLSVNGEGSFKEPSELQEHEENNIVVEKKA 261
S+ + ++ + F NGE + E + + +V E+
Sbjct: 186 -----------------SLDKQLIDAPLFRYELANGERRVRVSKEGKPSKTEWVVAER-- 226
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHA 321
KN LV A P SGRTHQIR+H +G + GD KY + G LHA
Sbjct: 227 ------FKNATLVHASPLSGRTHQIRVHGLSIGHPLVGDDKYGHNTAYTGPEARRLCLHA 280
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
+ D P G P ++APLP T+ L++
Sbjct: 281 --MRLDIP--GYPT-IEAPLPEDMTQLLEA 305
>gi|53712433|ref|YP_098425.1| ribosomal large subunit pseudouridine synthase A [Bacteroides
fragilis YCH46]
gi|52215298|dbj|BAD47891.1| ribosomal large subunit pseudouridine synthase A [Bacteroides
fragilis YCH46]
Length = 539
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 71/265 (26%), Positives = 114/265 (43%), Gaps = 64/265 (24%)
Query: 79 YKLSRS--DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLL 136
Y LS++ ++L+ED+WL+ ++KP+GV SVP G S E L
Sbjct: 329 YSLSQNMPEILFEDQWLLVLHKPEGVL------SVP----GKSEEQSIYSLLRARYPEAT 378
Query: 137 ELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISG 196
+ +RLD TSG+++ K+ +V L F + + K YIAL G
Sbjct: 379 GPLVVHRLDMATSGLLLAAKTQEVHRHLQAQFENRSIKKRYIALLDG------------- 425
Query: 197 HGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV 256
+LP V D+ + L P ++ E
Sbjct: 426 -------------------ILPEEEGVIDLPICPDYLD--------RPRQMVNEELGKTA 458
Query: 257 VEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQY-LGIS--IRGDVKYEGVYEWNGKR 313
+ + V+D K + + FP +GRTHQ+R+H + LG++ I GD Y G++
Sbjct: 459 ITRYQVMDR--KNGQTRIAFFPLTGRTHQLRVHAAHPLGLNCPIVGDELY-------GRK 509
Query: 314 YDGHELHAESLSFDHPVTGCPVMVQ 338
+ LHAE L F HPV+G ++++
Sbjct: 510 AERLYLHAEYLEFIHPVSGQRMVIE 534
>gi|392400903|ref|YP_006437503.1| ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis Cp162]
gi|390531981|gb|AFM07710.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis Cp162]
Length = 307
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 83/267 (31%), Positives = 107/267 (40%), Gaps = 67/267 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLA-SVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
D+LY D+ L+AVNKP GV L P ++ G +A R+S T + R
Sbjct: 82 DILYSDDDLIAVNKPVGVAAHPTLGWEGPTVIGGLAAAGF--RIS--TSGPPERKGIVQR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD TSGVMVI S + S L +AF + VSKTY AL G + TI + GR
Sbjct: 138 LDVGTSGVMVIAASERGYSVLKRAFKERTVSKTYHALVQGHMDPFTG-TIDAPIGRHPSA 196
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
WR SD + VT +E L +F E S L+ H E
Sbjct: 197 GWRFAVTSD----------GKHAVTHYETLE-----AFAEASLLKIHLE----------- 230
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEG----------VYEWNGKR 313
+GRTHQIR+H L GD Y +W
Sbjct: 231 ----------------TGRTHQIRVHMSALHHPCCGDPMYGSDPKLSERLGLTRQW---- 270
Query: 314 YDGHELHAESLSFDHPVTGCPVMVQAP 340
LHA SL F+HP G + + +P
Sbjct: 271 -----LHAVSLGFNHPADGRWMEITSP 292
>gi|153807696|ref|ZP_01960364.1| hypothetical protein BACCAC_01978 [Bacteroides caccae ATCC 43185]
gi|149129305|gb|EDM20519.1| pseudouridine synthase, RluA family [Bacteroides caccae ATCC 43185]
Length = 590
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 73/277 (26%), Positives = 116/277 (41%), Gaps = 55/277 (19%)
Query: 76 SSLYKLSRSDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNL 135
S+ +K + ++++EDEWLV VNKP G + SVP + +S RL E +
Sbjct: 350 SNTHKDTELEIVFEDEWLVVVNKPSG------MLSVPG--KEEDMDSVYHRLKEKYP-DA 400
Query: 136 LELHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
+ +RLD TSG++++ K+ +V L F + + K YIAL G
Sbjct: 401 TGPMIVHRLDMATSGLLLVAKTKEVHQHLQAQFENRSIKKRYIALLDGC----------- 449
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGE----------GSFKEPS 245
+ + G + + V + EV+S G+ P
Sbjct: 450 -----------ITETEETTNQTTGNTRKTEKVRATEVISTTGKVGRIELPLCPNPLDRPC 498
Query: 246 ELQEHEENNIVVEKKAVLDADAKKNEILVRAF-PRSGRTHQIRLHCQY---LGISIRGDV 301
+ + E + + ++ K I AF P +GRTHQ+R+H + L I GD
Sbjct: 499 QSVDEEHGKEAITEYQIITNSEKHTRI---AFCPLTGRTHQLRVHAAHPKGLNCPILGDE 555
Query: 302 KYEGVYEWNGKRYDGHELHAESLSFDHPVTGCPVMVQ 338
Y GK+ D LHAE + F HP+ G + +Q
Sbjct: 556 LY-------GKKADRLYLHAEYIEFRHPIYGDIICIQ 585
>gi|398800963|ref|ZP_10560221.1| 23S RNA-specific pseudouridylate synthase [Pantoea sp. GM01]
gi|398093512|gb|EJL83892.1| 23S RNA-specific pseudouridylate synthase [Pantoea sp. GM01]
Length = 259
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 76/274 (27%), Positives = 119/274 (43%), Gaps = 50/274 (18%)
Query: 85 DVLYEDEWLVAVNKPQG-VYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
++LY+DEWLVAVNKP G + S L ++ + + G+ ++ +H R
Sbjct: 3 EILYQDEWLVAVNKPAGWLVHRSWLDRNEKVVVMQTVRDQIGQ-------HVFTVH---R 52
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LDR TSGV+++ S +VA L + F H++ KTY A+ G W
Sbjct: 53 LDRPTSGVLLMGLSSEVAHLLAQQFEQHQMQKTYHAVLRG----W--------------- 93
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIV--VEKKA 261
L GG+ + D E+ + + + +EP + + VE
Sbjct: 94 -------------LEGGATL-DYPLVEELDKIADKFATQEPVAQPAVTDYQALAHVEMPV 139
Query: 262 VLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKR----YDGH 317
+ LV P +GR HQ+R H +L I GD + + + G +
Sbjct: 140 AISRYNTARYTLVEMAPHTGRKHQLRRHMVHLRHPIIGDSAHGDLRQNRGAAAHFGLNRL 199
Query: 318 ELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
LHA +LSF HPVTG P++++A L + LQ
Sbjct: 200 MLHASALSFTHPVTGEPLVIRAGLDRVWQQMLQQ 233
>gi|423516044|ref|ZP_17492525.1| RluA family pseudouridine synthase [Bacillus cereus HuA2-4]
gi|401165887|gb|EJQ73197.1| RluA family pseudouridine synthase [Bacillus cereus HuA2-4]
Length = 307
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 76/270 (28%), Positives = 112/270 (41%), Gaps = 75/270 (27%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLA--- 141
+V++ED+ ++ VNK G S + GT NL+ H
Sbjct: 86 NVVFEDDHVLIVNK-----------------QGQMDTHPSEKNGTGTLANLVAFHFQMQG 128
Query: 142 --------NRLDRDTSGVMVITKSHKVASKLV-KAFTDHKVSKTYIALCIGPAPKWKRIT 192
+RLD+DT+G +V K H++A ++ + + K+ +TY AL G K K+ T
Sbjct: 129 LETKVRHIHRLDKDTTGGVVFAK-HRIAGAIMDRLLMERKIKRTYAALVEGKVKK-KQGT 186
Query: 193 IISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEE 252
I + GR + A R RV P G +T ++V E FK
Sbjct: 187 IDAAIGRDRHHATR-------RRVSPKGD---QAITYYKV-----EKYFK---------- 221
Query: 253 NNIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGK 312
K+N LV +GRTHQIR+H Y G + GDV Y G +
Sbjct: 222 ---------------KQNATLVTLQLETGRTHQIRVHMSYNGNPLVGDVLYGGQTTY--- 263
Query: 313 RYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
G LHA ++F HP+T ++V P P
Sbjct: 264 -MSGQALHAMKINFLHPITKEEIVVDVPFP 292
>gi|393758434|ref|ZP_10347255.1| ribosomal large subunit pseudouridine synthase C [Alcaligenes
faecalis subsp. faecalis NCIB 8687]
gi|393164853|gb|EJC64905.1| ribosomal large subunit pseudouridine synthase C [Alcaligenes
faecalis subsp. faecalis NCIB 8687]
Length = 302
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 73/260 (28%), Positives = 110/260 (42%), Gaps = 54/260 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
V++EDE L+ ++KP GV + + G + ++ R E L LA+RLD
Sbjct: 80 VVFEDEHLMVIDKPAGV----AVHGGSGVSFGVIEQLRAARPQEPF------LELAHRLD 129
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSG+++I K L F + + K Y AL G W H R W
Sbjct: 130 RETSGLLIIAKRRAALMGLHDMFREIRARKFYWALVQG---DW---VNDRQHIRLPLLRW 183
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
+ RV P G ++T G F
Sbjct: 184 LTDSGERRVRVDPTGKPAHTIITMQRRF-----GRFS----------------------- 215
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKR-YDGHELHAE 322
LV+A ++GRTHQIR+H + G I GD KY + + + ++ + LH+
Sbjct: 216 -------LVQAELKTGRTHQIRVHLAHSGFPIVGDDKYGDDAIRDQFARQGFKRMFLHSG 268
Query: 323 SLSFDHPVTGCPVMVQAPLP 342
L F+HPVTG P++++APLP
Sbjct: 269 RLEFNHPVTGQPLVLEAPLP 288
>gi|197335573|ref|YP_002155322.1| 23S rRNA pseudouridine synthase D [Vibrio fischeri MJ11]
gi|197317063|gb|ACH66510.1| ribosomal large subunit pseudouridine synthase D [Vibrio fischeri
MJ11]
Length = 324
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 72/279 (25%), Positives = 110/279 (39%), Gaps = 82/279 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN-- 142
D++YED+ L+ +NKP+ A P +GT LN L H N
Sbjct: 85 DIVYEDDDLLVINKPRDFVVHPG-AGTP----------------DGTVLNALLFHYPNIA 127
Query: 143 ---------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
RLD+DT+G+MV+ K+ ++LV+A K+++ Y A+ +G I
Sbjct: 128 EVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRKITREYEAVVVGRMTAGGMIEK 187
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
G +K + A ++G+ D VT + V
Sbjct: 188 PIGRHPNK---RTLMAVHELGK---------DAVTHYRV--------------------- 214
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEW-NG- 311
A+ + +R +GRTHQIR+H YL + GD Y G G
Sbjct: 215 -----------AEHFRIHTRIRLRLETGRTHQIRVHMSYLQHPLVGDTAYGGRARIPKGA 263
Query: 312 --------KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ +D LHA L F+HP+TG + AP+P
Sbjct: 264 SQELIDMIRGFDRQALHAAMLRFEHPITGETMEFHAPIP 302
>gi|421855138|ref|ZP_16287519.1| 23S rRNA pseudouridine synthase RluC [Acinetobacter radioresistens
DSM 6976 = NBRC 102413]
gi|403189456|dbj|GAB73720.1| 23S rRNA pseudouridine synthase RluC [Acinetobacter radioresistens
DSM 6976 = NBRC 102413]
Length = 312
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 75/259 (28%), Positives = 109/259 (42%), Gaps = 57/259 (22%)
Query: 84 SDVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
S V+YEDE L+ VNKP G+ L+ G A + G K L L +R
Sbjct: 95 SRVIYEDEGLMVVNKPSGIAVHGGSGVAYGLIEGLRAAT-------GKKY----LELVHR 143
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+DRDTSG+++I+K V L +HK+ KTY A+
Sbjct: 144 IDRDTSGLVMISKKRSVLKTLQDLLREHKIKKTYAAIV---------------------- 181
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
G+V ++ + +E+ NGE + E ++ + V E+
Sbjct: 182 ---------KGQVSLDQQLIDAPLYRYEL--ANGERRVRVSKEGKDSKTQWNVAERFM-- 228
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAES 323
+ LV A P SGRTHQIR+H +G + GD KY E+ G + LHA
Sbjct: 229 ------HATLVYASPLSGRTHQIRVHGLSIGHPLVGDDKYGHETEYKGPKPRRLCLHAMR 282
Query: 324 LSFDHPVTGCPVMVQAPLP 342
L + G P ++APLP
Sbjct: 283 LE----IPGYPT-IEAPLP 296
>gi|300858799|ref|YP_003783782.1| hypothetical protein cpfrc_01382 [Corynebacterium
pseudotuberculosis FRC41]
gi|375288980|ref|YP_005123521.1| ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis 3/99-5]
gi|384504973|ref|YP_005681643.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis 1002]
gi|386740713|ref|YP_006213893.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis 31]
gi|300686253|gb|ADK29175.1| hypothetical protein cpfrc_01382 [Corynebacterium
pseudotuberculosis FRC41]
gi|302331059|gb|ADL21253.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis 1002]
gi|371576269|gb|AEX39872.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis 3/99-5]
gi|384477407|gb|AFH91203.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis 31]
Length = 307
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 82/258 (31%), Positives = 109/258 (42%), Gaps = 49/258 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLA-SVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
D+LY D+ L+AVNKP GV L P ++ G +A R+S T + R
Sbjct: 82 DILYSDDDLIAVNKPVGVAAHPTLGWEGPTVIGGLAAAGF--RIS--TSGPPERKGIVQR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD TSGVMVI S + S L +AF + VSKTY AL G + TI + GR
Sbjct: 138 LDVGTSGVMVIAASERGYSVLKRAFKERTVSKTYHALVQGHMDPFTG-TIDAPIGRHPSA 196
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
WR SD + VT +E L +F E S L+ H E
Sbjct: 197 GWRFAVTSD----------GKHAVTHYETLE-----AFAEASLLKIHLE----------- 230
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE-LHAE 322
+GRTHQIR+H L GD Y + + + + LHA
Sbjct: 231 ----------------TGRTHQIRVHMSALHHPCCGDPMYGSDPKLSERLGLTRQWLHAV 274
Query: 323 SLSFDHPVTGCPVMVQAP 340
SL F+HP G + + +P
Sbjct: 275 SLGFNHPADGRWMEITSP 292
>gi|237748406|ref|ZP_04578886.1| ribosomal large subunit pseudouridine synthase C [Oxalobacter
formigenes OXCC13]
gi|229379768|gb|EEO29859.1| ribosomal large subunit pseudouridine synthase C [Oxalobacter
formigenes OXCC13]
Length = 339
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 79/273 (28%), Positives = 112/273 (41%), Gaps = 73/273 (26%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRL 144
D+LYED+ ++ +NKP GV ++ A + R L L +RL
Sbjct: 107 DILYEDDSILVINKPAGVAVHGGSGVSYGVIEQLRAARPNARF----------LELVHRL 156
Query: 145 DRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWK------RITIISGHG 198
D++TSG++V+ K KL + + + K Y AL G WK ++ ++ H
Sbjct: 157 DKETSGILVLAKKRSALVKLHEQIREGSIDKRYQALVKGD---WKNQRQHVKLPLLKYH- 212
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
+ G RV RV GG T F VL F E +
Sbjct: 213 -TADGERRV-------RVDAGGLASH---TIFNVLK-----RFPEFT------------- 243
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE 318
L+ A ++GRTHQIR+H G I GD KY G +E N + G +
Sbjct: 244 --------------LLEAELKTGRTHQIRVHLASSGHVIAGDDKY-GDFELNREIQKGKK 288
Query: 319 ---------LHAESLSFDHPVTGCPVMVQAPLP 342
LHA ++F HP TG P+ V APLP
Sbjct: 289 GEDALKRMFLHAYKITFIHPETGKPLTVSAPLP 321
>gi|171463620|ref|YP_001797733.1| pseudouridine synthase Rlu family protein [Polynucleobacter
necessarius subsp. necessarius STIR1]
gi|171193158|gb|ACB44119.1| pseudouridine synthase, RluA family [Polynucleobacter necessarius
subsp. necessarius STIR1]
Length = 344
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 66/253 (26%), Positives = 106/253 (41%), Gaps = 59/253 (23%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHL---- 140
DV+YED ++ +NKP P L+ +A + SG L G EL +
Sbjct: 99 DVVYEDGDIIVINKP------------PGLVVHPAAGNWSGTLLNGLLFRYPELKMFPRA 146
Query: 141 --ANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHG 198
+RLD+DTSG+MV+ ++ + + LV+ D V + Y+A G AP ++ ++ G
Sbjct: 147 GIVHRLDKDTSGLMVVARTSQAQTSLVRQLQDRTVGRRYLAWVWGDAPSQGKV--LASVG 204
Query: 199 RSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVE 258
R + ++ A S G+ P ++ R + +V+
Sbjct: 205 RDQRDRLKMAAGSPQGK--PAATLFRRLSKG--------------------------LVQ 236
Query: 259 KKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVY--EWNGKRYDG 316
+ V L+ +GRTHQIR+H + LG + GD Y N +
Sbjct: 237 ETPV---------TLLECRLETGRTHQIRVHFESLGFPLVGDPVYRKKTPGAANNLEFKR 287
Query: 317 HELHAESLSFDHP 329
LHA +LS HP
Sbjct: 288 QALHAFALSLQHP 300
>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 = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 72/268 (26%), Positives = 117/268 (43%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + R K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIARDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------HAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P +AL
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPEVFEDAL 297
>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 = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 75/276 (27%), Positives = 113/276 (40%), Gaps = 67/276 (24%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN-- 142
D++YED + VNKPQG+ SA SG L ++ +L N
Sbjct: 75 DIIYEDADVAVVNKPQGMVVHP------------SAGHPSGTLVNALLFHIKDLSTINGV 122
Query: 143 -------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIIS 195
R+D+DTSG+++I K+ + L + K + Y+A+ G P R I +
Sbjct: 123 VRPGIVHRIDKDTSGLLMIAKNDRAHQFLADELKEKKSLRQYLAIVHGNLPN-DRGVIEA 181
Query: 196 GHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNI 255
GRS + A + G+ P +T F+V+ G+ +
Sbjct: 182 PIGRSDKDRKK-QAVTAKGK--PA-------LTHFQVVEHLGDYT--------------- 216
Query: 256 VVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD 315
LV+ +GRTHQIR+H Y+G + GD Y G+
Sbjct: 217 -----------------LVKLTLETGRTHQIRVHMAYIGHPLAGDPLYAPKKTLKGQ--- 256
Query: 316 GHELHAESLSFDHPVTGCPVMVQAPLPLWGTEALQS 351
G LHAE+L+F HPVTG + A +P E L+
Sbjct: 257 GQFLHAETLAFTHPVTGQLMRFSAEVPAIFQETLEQ 292
>gi|429737635|ref|ZP_19271491.1| pseudouridine synthase, RluA family [Selenomonas sp. oral taxon 138
str. F0429]
gi|429151998|gb|EKX94835.1| pseudouridine synthase, RluA family [Selenomonas sp. oral taxon 138
str. F0429]
Length = 291
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 74/268 (27%), Positives = 110/268 (41%), Gaps = 56/268 (20%)
Query: 86 VLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLANRLD 145
++YED L+ ++KP G +A + R G L+ H +RLD
Sbjct: 78 IVYEDNDLLVIDKPAGQLVHPTTKEAHGTVANAVLGLYTAR---GISLDF---HPCHRLD 131
Query: 146 RDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFGAW 205
R+TSG+++I K +V ++ + H + +TY+AL G IT SG +
Sbjct: 132 RNTSGLLLIAKRPEVQHQIART---HTLERTYLALIEGA------ITPTSGTIDAPIA-- 180
Query: 206 RVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVLDA 265
R + + V P G R T +E + NGE
Sbjct: 181 RALPSIILRHVAPDGKPAR---THYETVWTNGEHP------------------------- 212
Query: 266 DAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHELHAESLS 325
L+R +GRTHQIR+H +LG + GD Y G N +R H LH+ L+
Sbjct: 213 -------LLRLRLETGRTHQIRVHLAHLGYPLLGDDLYGG----NTERITRHALHSAQLT 261
Query: 326 FDHPVTGCPVMVQAPLPLWGTEALQSSS 353
HP T + + APLP TE + S
Sbjct: 262 LTHPFTHEVLTITAPLPEDMTEIVHHIS 289
>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 = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 71/279 (25%), Positives = 109/279 (39%), Gaps = 82/279 (29%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLNLLELHLAN-- 142
D++YED+ L+ +NKP+ A P +GT LN L H N
Sbjct: 85 DIVYEDDDLLVINKPRDFVVHPG-AGTP----------------DGTVLNALLFHYPNIA 127
Query: 143 ---------RLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITI 193
RLD+DT+G+MV+ K+ ++LV+A K+++ Y A+ +G I
Sbjct: 128 EVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRKITREYEAVVVGRMTAGGMIEK 187
Query: 194 ISGHGRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEEN 253
G +K + A ++G+ D VT + V
Sbjct: 188 PIGRHPNK---RTLMAVHELGK---------DAVTHYRV--------------------- 214
Query: 254 NIVVEKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNG-- 311
A+ + +R +GRTHQIR+H YL + GD Y G
Sbjct: 215 -----------AEHFRIHTRIRLRLETGRTHQIRVHMSYLQHPLVGDTAYGGRARIPKGA 263
Query: 312 --------KRYDGHELHAESLSFDHPVTGCPVMVQAPLP 342
+ +D LHA L F+HP+TG + AP+P
Sbjct: 264 SQELIDMIRGFDRQALHAAMLRFEHPITGETMEFHAPIP 302
>gi|379715678|ref|YP_005304015.1| ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis 316]
gi|387138974|ref|YP_005694953.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis CIP 52.97]
gi|387140962|ref|YP_005696940.1| ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis 1/06-A]
gi|389850729|ref|YP_006352964.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis 258]
gi|349735452|gb|AEQ06930.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis CIP 52.97]
gi|355392753|gb|AER69418.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis 1/06-A]
gi|377654384|gb|AFB72733.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis 316]
gi|388248035|gb|AFK17026.1| Ribosomal large subunit pseudouridine synthase D [Corynebacterium
pseudotuberculosis 258]
Length = 307
Score = 75.9 bits (185), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 82/258 (31%), Positives = 109/258 (42%), Gaps = 49/258 (18%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLA-SVPCLLAGDSAESKSGRLSEGTKLNLLELHLANR 143
D+LY D+ L+AVNKP GV L P ++ G +A R+S T + R
Sbjct: 82 DILYSDDDLIAVNKPVGVAAHPTLGWEGPTVIGGLAAAGF--RIS--TSGPPERKGIVQR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
LD TSGVMVI S + S L +AF + VSKTY AL G + TI + GR
Sbjct: 138 LDVGTSGVMVIAASERGYSVLKRAFKERTVSKTYHALVQGHMDPFTG-TIDAPIGRHPSA 196
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
WR SD + VT +E L +F E S L+ H E
Sbjct: 197 GWRFAVTSD----------GKHAVTHYETLE-----AFAEASLLKIHLE----------- 230
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYDGHE-LHAE 322
+GRTHQIR+H L GD Y + + + + LHA
Sbjct: 231 ----------------TGRTHQIRVHMSALHHPCCGDPMYGSDPKLSERLGLTRQWLHAV 274
Query: 323 SLSFDHPVTGCPVMVQAP 340
SL F+HP G + + +P
Sbjct: 275 SLGFNHPADGRWMEITSP 292
>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 = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 72/268 (26%), Positives = 117/268 (43%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + R K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIARDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------HAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P +AL
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPEVFEDAL 297
>gi|326203544|ref|ZP_08193408.1| pseudouridine synthase, RluA family [Clostridium papyrosolvens DSM
2782]
gi|325986364|gb|EGD47196.1| pseudouridine synthase, RluA family [Clostridium papyrosolvens DSM
2782]
Length = 304
Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 70/272 (25%), Positives = 113/272 (41%), Gaps = 70/272 (25%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLA-------GDSAESKSGRLSEGTKLNLLE 137
D++YED+ ++ +NKP+G+ + + L GDS +G + G
Sbjct: 79 DIVYEDKHIIVINKPKGMVVHPAVGNYSGTLVNALMKHCGDSLSDINGVIRPG------- 131
Query: 138 LHLANRLDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGH 197
+ +R+D+DTSG++V+ KS+ +L + H + + YIAL G + I +
Sbjct: 132 --IVHRIDKDTSGLLVVAKSNIAHERLSEKLKTHDIKREYIALVDGIIYE-NSGKIDAPI 188
Query: 198 GRSKFGAWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVV 257
GR ++ + G R+ +T F+VL F + +Q E
Sbjct: 189 GRHPVERKKMSVNTQNG---------RNAITHFKVLE-----RFPSATYVQLKLE----- 229
Query: 258 EKKAVLDADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKYEGVYEWNGKRYD-- 315
+GRTHQIR+H Y+ I GD+ Y G+R
Sbjct: 230 ----------------------TGRTHQIRVHMSYINHPIIGDMVY-------GRRKQKF 260
Query: 316 ---GHELHAESLSFDHPVTGCPVMVQAPLPLW 344
G LHA LSF HPVTG + + +P +
Sbjct: 261 KTKGQVLHAWRLSFQHPVTGEDMKFETAVPEY 292
>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 = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 72/268 (26%), Positives = 117/268 (43%), Gaps = 55/268 (20%)
Query: 85 DVLYEDEWLVAVNKPQGVYCESVLASVPCLLAGDSAESKSGRLSEGTKLN-LLELHLANR 143
++ YED ++ VNKP+G+ V+ P +G ++ + +N ++ + +R
Sbjct: 82 EIYYEDADVLVVNKPRGM----VVHPAPGHTSGTLVNGLMHHCTDLSGINGVMRPGIVHR 137
Query: 144 LDRDTSGVMVITKSHKVASKLVKAFTDHKVSKTYIALCIGPAPKWKRITIISGHGRSKFG 203
+D+DTSG++++ K+ LV V++ Y A+ G P K TI + R K
Sbjct: 138 IDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG-TIDAPIARDK-K 195
Query: 204 AWRVYAASDVGRVLPGGSVVRDMVTSFEVLSVNGEGSFKEPSELQEHEENNIVVEKKAVL 263
+ + G+ VT F+VL FK+ +
Sbjct: 196 ERQSMTVDENGK---------HAVTHFQVLE-----RFKDFT------------------ 223
Query: 264 DADAKKNEILVRAFPRSGRTHQIRLHCQYLGISIRGDVKY--EGVYEWNGKRYDGHELHA 321
LV +GRTHQIR+H +Y+G + GD KY + + NG+ LHA
Sbjct: 224 ---------LVECRLETGRTHQIRVHMKYIGYPLAGDPKYGPKKTLDMNGQ-----ALHA 269
Query: 322 ESLSFDHPVTGCPVMVQAPLPLWGTEAL 349
L FDHP TG + +AP+P +AL
Sbjct: 270 GILGFDHPRTGEYIQFEAPIPKVFEDAL 297
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
0.315 0.131 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,494,245,777
Number of Sequences: 23463169
Number of extensions: 225915763
Number of successful extensions: 771464
Number of sequences better than 100.0: 1000
Number of HSP's better than 100.0 without gapping: 5213
Number of HSP's successfully gapped in prelim test: 7061
Number of HSP's that attempted gapping in prelim test: 735932
Number of HSP's gapped (non-prelim): 25579
length of query: 354
length of database: 8,064,228,071
effective HSP length: 143
effective length of query: 211
effective length of database: 9,003,962,200
effective search space: 1899836024200
effective search space used: 1899836024200
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 77 (34.3 bits)