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= psy13081
(335 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q3SX07|PUS3_BOVIN tRNA pseudouridine(38/39) synthase OS=Bos taurus GN=PUS3 PE=2 SV=1
Length = 481
Score = 277 bits (708), Expect = 9e-74, Method: Compositional matrix adjust.
Identities = 143/310 (46%), Positives = 198/310 (63%), Gaps = 22/310 (7%)
Query: 2 RPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVS 61
R +ALKI Y G+ Y GF Q ++ NTI L +AL KT L+E+++ S++ CGRTD GVS
Sbjct: 63 RHVALKIAYLGWGYQGFASQENTSNTIEEKLFEALTKTRLVENRQTSNYHRCGRTDKGVS 122
Query: 62 AFCQVVTLKIRSKLTSPGEESD-----------DNELPYLKMLNNNLPRDIKVVAWSPVP 110
AF QV++L +RS + G +S+ E+ Y +LN LP DI+V+AW+PV
Sbjct: 123 AFGQVISLDLRSHIPK-GRDSEHFNLKNEVNDVATEIRYTHILNRVLPPDIRVLAWAPVE 181
Query: 111 EKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLV 170
+SARF CL R Y+Y+FP+A LDI M+ AAQ VGTHDFRNLCKM+V NGV+NF+R +
Sbjct: 182 TSFSARFSCLERTYRYFFPRANLDIVTMNYAAQKYVGTHDFRNLCKMDVANGVINFQRTI 241
Query: 171 THAGVTSAWQNVQFN--DSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQ 228
A V QN+ +C+F + Q FL+HQ+RC+M+VLFL+GQG EKPE+I +
Sbjct: 242 LSAQVQRVGQNLGEEGWQEPFQLCQFEVTGQAFLYHQVRCMMAVLFLIGQGMEKPEVIDE 301
Query: 229 LVDIEKYPRKPVYPMVRGEPLNLYHTEFDNLTWHYD----EIEVSHVLRDLHEDWSLLSI 284
L++IEK P+KP Y M PL LY +F+N+ W YD E V+H L + W+ ++
Sbjct: 302 LLNIEKNPQKPQYSMAVEFPLVLYDCKFENIKWIYDREVQEFNVTH----LQQLWANHAV 357
Query: 285 KATMLGEMIK 294
K ML M++
Sbjct: 358 KTQMLYSMLQ 367
>sp|Q9JI38|PUS3_MOUSE tRNA pseudouridine(38/39) synthase OS=Mus musculus GN=Pus3 PE=1
SV=2
Length = 481
Score = 276 bits (706), Expect = 2e-73, Method: Compositional matrix adjust.
Identities = 141/309 (45%), Positives = 196/309 (63%), Gaps = 20/309 (6%)
Query: 2 RPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVS 61
R +ALKI Y G+ Y GF Q ++ NTI L +AL KT L+E ++ S++ CGRTD GVS
Sbjct: 64 RHVALKIAYLGWGYQGFASQENTSNTIEEKLFEALTKTRLVESRQTSNYHRCGRTDKGVS 123
Query: 62 AFCQVVTLKIRSKLTSPGEESDDN----------ELPYLKMLNNNLPRDIKVVAWSPVPE 111
AF QV++L +RS+ + + D N E+ Y +LN LP DI+V+AW+PV
Sbjct: 124 AFGQVISLDLRSQFPTSRDSEDSNLKHEADDLAKEIRYTHILNRVLPADIRVLAWAPVEP 183
Query: 112 KYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVT 171
+SARF CL R Y+Y+FP+A LDI M+ AAQ VGTHDFRNLCKM+V NGV+NF+R +
Sbjct: 184 SFSARFSCLERTYRYFFPRADLDIATMNYAAQKYVGTHDFRNLCKMDVANGVINFQRTIL 243
Query: 172 HAGVTSAWQNV--QFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQL 229
A V Q+ + +C+F + Q FL+HQ+RC+M++LFL+GQG EKPEII +L
Sbjct: 244 CAQVQLVAQSPGEERRQEPFQLCQFEVIGQAFLYHQVRCMMAILFLIGQGMEKPEIIDEL 303
Query: 230 VDIEKYPRKPVYPMVRGEPLNLYHTEFDNLTWHYD----EIEVSHVLRDLHEDWSLLSIK 285
++I+K P+KP Y M PL LY +F+N W YD E V+H L + W+ ++K
Sbjct: 304 LNIQKNPQKPQYSMAVEFPLVLYDCKFENTKWIYDHEVQEFNVTH----LQQLWANHAVK 359
Query: 286 ATMLGEMIK 294
ML M++
Sbjct: 360 THMLYSMLQ 368
>sp|Q9BZE2|PUS3_HUMAN tRNA pseudouridine(38/39) synthase OS=Homo sapiens GN=PUS3 PE=1
SV=3
Length = 481
Score = 273 bits (697), Expect = 2e-72, Method: Compositional matrix adjust.
Identities = 141/311 (45%), Positives = 198/311 (63%), Gaps = 16/311 (5%)
Query: 2 RPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVS 61
R +AL+I Y G+ Y GF Q +++NTI L +AL KT L+E ++ S++ CGRTD GVS
Sbjct: 63 RHVALRIAYMGWGYQGFASQENTNNTIEEKLFEALTKTRLVESRQTSNYHRCGRTDKGVS 122
Query: 62 AFCQVVTLKIRSKLTSPGEESDD-----------NELPYLKMLNNNLPRDIKVVAWSPVP 110
AF QV++L +RS+ G +S+D E+ Y +LN LP DI+++AW+PV
Sbjct: 123 AFGQVISLDLRSQFPR-GRDSEDFNVKEEANAAAEEIRYTHILNRVLPPDIRILAWAPVE 181
Query: 111 EKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLV 170
+SARF CL R Y+Y+FP+A LDI M AAQ VGTHDFRNLCKM+V NGV+NF+R +
Sbjct: 182 PSFSARFSCLERTYRYFFPRADLDIVTMDYAAQKYVGTHDFRNLCKMDVANGVINFQRTI 241
Query: 171 THAGVTSAWQNVQFN--DSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQ 228
A V Q+ +C+F + Q FL+HQ+RC+M++LFL+GQG EKPEII +
Sbjct: 242 LSAQVQLVGQSPGEGRWQEPFQLCQFEVTGQAFLYHQVRCMMAILFLIGQGMEKPEIIDE 301
Query: 229 LVDIEKYPRKPVYPMVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATM 288
L++IEK P+KP Y M PL LY +F+N+ W YD+ + L + W+ ++K M
Sbjct: 302 LLNIEKNPQKPQYSMAVEFPLVLYDCKFENVKWIYDQEAQEFNITHLQQLWANHAVKTHM 361
Query: 289 LGEMIK--DTV 297
L M++ DTV
Sbjct: 362 LYSMLQGLDTV 372
>sp|Q09524|TG124_CAEEL Probable tRNA pseudouridine synthase tag-124 OS=Caenorhabditis
elegans GN=tag-124 PE=3 SV=1
Length = 402
Score = 209 bits (533), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 111/328 (33%), Positives = 181/328 (55%), Gaps = 25/328 (7%)
Query: 2 RPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVS 61
R IA++ Y G+ + G Q + NT+ +H+++AL KT LIED K F+ CGRTD GVS
Sbjct: 30 RKIAIQFFYLGWEHDGLVQQPHTQNTVENHIMQALIKTHLIEDWTKCDFSRCGRTDKGVS 89
Query: 62 AFCQVVTLKIRSKLTSPGE-----------------ESDDNELPYLKMLNNNLPRDIKVV 104
AF Q + +RS PG+ ++ ELPY+KMLN LP+ I+V
Sbjct: 90 AFKQTAAMVVRS--LCPGDSGVFWSDSTQEHQKVDYKASGEELPYVKMLNGVLPKTIRVF 147
Query: 105 AWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCK--MNVGNG 162
AW+PV + ++ARFDC R YKY F +A L+++ M + A+ LVG HDF N C+ MN
Sbjct: 148 AWAPVAQTFNARFDCNRRTYKYSFAKADLNLEKMRQGAELLVGEHDFSNFCQIDMNEKRL 207
Query: 163 VVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEK 222
+ ++ R V V + + +++ E + GFLWH IR I+++L +G+ NE+
Sbjct: 208 LQSYVRKVYEVKVEQV--STHPENDMYSMVELTVSGSGFLWHMIRYIVTILQEIGRENEQ 265
Query: 223 PEIIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEF--DNLTWHYDEIEVSHVLRDLHEDWS 280
P +I QL+D++KYP +P Y + PL L+ + +++ W + + + L + W+
Sbjct: 266 PSLISQLLDLKKYPSRPQYTLASDTPLCLFDCGYKSEDVEWKVHDYTLKSTVTGLQKTWA 325
Query: 281 LLSIKATMLGEMIKDTVRESKCTMGDLD 308
++ M+ M+ + ++ + GD +
Sbjct: 326 TYQARSRMMENMLGELTGMAEFSSGDAN 353
>sp|P31115|PUS3_YEAST tRNA pseudouridine(38/39) synthase OS=Saccharomyces cerevisiae
(strain ATCC 204508 / S288c) GN=DEG1 PE=1 SV=1
Length = 442
Score = 199 bits (507), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 109/270 (40%), Positives = 156/270 (57%), Gaps = 19/270 (7%)
Query: 2 RPIALKILYQGFNYHGFQIQT--SSDNTIAHHLLKALQKTCLIEDK--EKSSFACCGRTD 57
R IAL+ Y G+NY+G +Q + T+ +L+A+ K L+ + F+ CGRTD
Sbjct: 92 RFIALRFAYLGWNYNGLAVQKEYTPLPTVEGTILEAMNKCKLVPSMVLQDYKFSRCGRTD 151
Query: 58 SGVSAFCQVVTLKIRSKLTSPGEE---SDDNELPYLKMLNNNLPRDIKV--VAWSPVPEK 112
GVSA QV++L++RS LT + +D E+PY+ +LN LP DI++ V P P
Sbjct: 152 KGVSAMNQVISLEVRSNLTDEEQRDPTNDSREIPYVHVLNQLLPDDIRISAVCLRP-PPN 210
Query: 113 YSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTH 172
+ ARF C+ R+YKY F L+I+ M KAA Y VG DFRN CK++ + NF+R +
Sbjct: 211 FDARFSCVHRHYKYIFNGKNLNIEKMSKAASYFVGERDFRNFCKLDGSKQITNFKRTIIS 270
Query: 173 AGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDI 232
+ + S C F++ FLWHQ+RC+M++LFLVGQ E PEI+ +L DI
Sbjct: 271 SKILPL--------SETFYC-FDLVGSAFLWHQVRCMMAILFLVGQSLEVPEIVLRLTDI 321
Query: 233 EKYPRKPVYPMVRGEPLNLYHTEFDNLTWH 262
EK P++PVY M PL LY +F + W
Sbjct: 322 EKTPQRPVYEMANDIPLLLYDCKFPEMDWQ 351
>sp|Q9UTB3|YL85_SCHPO Putative tRNA pseudouridine synthase C25B8.05
OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843)
GN=SPAC25B8.05 PE=3 SV=1
Length = 450
Score = 197 bits (500), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 106/303 (34%), Positives = 159/303 (52%), Gaps = 28/303 (9%)
Query: 4 IALKILYQGFNYHG--FQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVS 61
+A K Y G+NY+G +Q++ + T+ + +AL + LI D SF+ CGRTD GVS
Sbjct: 94 VAFKFAYCGWNYNGLAYQLEPTPLPTVEGKVFEALLRAHLITDPSSCSFSRCGRTDKGVS 153
Query: 62 AFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLF 121
A QV++L +R S+ + Y +LN LP DI++ ++ PE + ARF C
Sbjct: 154 AMGQVISLNVR--------HSERRPIIYCDVLNRLLPADIRITGYAFPPEGFDARFSCKQ 205
Query: 122 RNYKYWF----PQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTS 177
R+YKY F P LDID M++AA +G HDFRN CK++ + N+ R + + V
Sbjct: 206 RHYKYLFTKDYPGGSLDIDRMNEAAALYLGEHDFRNFCKIDASKQITNYHRRILSSKVIC 265
Query: 178 AWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPR 237
D + F+++ FLWHQ+RC+M++LFL+GQ E +I L+DI+K P
Sbjct: 266 I-------DPSTGLYAFDLQGTAFLWHQVRCMMAILFLIGQKLEPASLINDLLDIKKVPT 318
Query: 238 KPVYPMVRGEPLNLYHTEFDNLTWHYDEIE-------VSHVLRDLHEDWSLLSIKATMLG 290
KP+Y M PL LY +FDN+ W H ++ W L I+ +
Sbjct: 319 KPIYDMASEYPLILYDCDFDNIEWTLPTDSPTTAPRIAKHTYETIYHQWHSLRIREQIAS 378
Query: 291 EMI 293
M+
Sbjct: 379 FML 381
>sp|A0B7V0|TRUA_METTP tRNA pseudouridine synthase A OS=Methanosaeta thermophila (strain
DSM 6194 / PT) GN=truA PE=3 SV=1
Length = 267
Score = 126 bits (317), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 89/291 (30%), Positives = 139/291 (47%), Gaps = 32/291 (10%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
IALKI Y G Y+GFQ Q T+ + AL + + F GRTD GVSA
Sbjct: 3 IALKIAYLGDRYYGFQRQPGL-RTVESVMRDALLRIGV----ANGDFCYAGRTDRGVSAL 57
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
QV+ I E D L + +++N+ LP D+ A + P +SAR+ L+R
Sbjct: 58 GQVIDFWI---------EEDRAYLAFPRVINSLLPSDVWAWARAVAPVGFSARWSALWRE 108
Query: 124 YKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQ 183
Y+Y+ +D+ A+ +AA +LVGTHDFRN V RR+++ +
Sbjct: 109 YRYFLFSPDIDLSAVREAAGHLVGTHDFRNFSMSKVD----TVRRIIS----------ID 154
Query: 184 FNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYPM 243
N +H I F++R++GF+W+ +R I+ L L+G G + + I +L+D P P
Sbjct: 155 VN-AHCGIVVFDVRAEGFIWNMVRRIVGALELIGIGEKPVDWILELLDPSTPHGAPTAP- 212
Query: 244 VRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMIK 294
E L L + +L W D V R L + + + ++ EM++
Sbjct: 213 --PEGLMLMDVGYSDLEWEEDRYTKQRVSRMLISEARRRAAMSGVIQEMLR 261
>sp|Q5JI92|TRUA_PYRKO tRNA pseudouridine synthase A OS=Pyrococcus kodakaraensis (strain
ATCC BAA-918 / JCM 12380 / KOD1) GN=truA PE=3 SV=1
Length = 267
Score = 124 bits (312), Expect = 8e-28, Method: Compositional matrix adjust.
Identities = 84/290 (28%), Positives = 135/290 (46%), Gaps = 28/290 (9%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
+AL++ Y G ++GFQ Q T+ ++K LQK +IE EK+ F RTD GVSAF
Sbjct: 3 LALRVAYDGSAFYGFQRQPGV-RTVEGEIIKVLQKLGIIESPEKNDFKGASRTDRGVSAF 61
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
VV+ P E D L ++LN++L D+ V+ + VP+ + RF F+
Sbjct: 62 FNVVSF-------VPSERPD---LARPEVLNHHL-SDVWVLGIAEVPDDFHPRFWAKFKT 110
Query: 124 YKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQ 183
Y+Y+ G D+ AM + A VG HDF K+ G + R V V
Sbjct: 111 YRYYLVNEGFDLSAMRECASLFVGRHDFSAFAKLEPGRDPI---REVERVEVI------- 160
Query: 184 FNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYPM 243
++ + FLW +R I++ L G G + E +++++ E + P P
Sbjct: 161 ---ERQGYLVIEVQGKSFLWEMVRRIVNALRFCGLGLLEAEEVERMLSGEYGKKIPPAPP 217
Query: 244 VRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMI 293
E L L+H E+ + + DE + RD+ E +S +A + G+ +
Sbjct: 218 ---EGLVLWHIEYPGIGFEGDEKGIKKARRDIFERYSRALTRAALFGDFL 264
>sp|C5A7E9|TRUA_THEGJ tRNA pseudouridine synthase A OS=Thermococcus gammatolerans (strain
DSM 15229 / JCM 11827 / EJ3) GN=truA PE=3 SV=1
Length = 267
Score = 121 bits (303), Expect = 9e-27, Method: Compositional matrix adjust.
Identities = 86/288 (29%), Positives = 134/288 (46%), Gaps = 28/288 (9%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
+AL+I Y G ++GFQ Q T+ L+ L K +IE EK+ F RTD GVSAF
Sbjct: 3 LALRIAYDGTAFYGFQRQPGI-RTVEGELINVLTKLKIIESPEKNDFKGASRTDRGVSAF 61
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
VV+ PGE +D L ++LN+NL D+ V+ + VP+ + RF + +
Sbjct: 62 FNVVSF-------VPGERAD---LARPEVLNHNL-HDLWVLGVAEVPDDFHPRFWAISKT 110
Query: 124 YKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQ 183
Y+Y+ G +++ M A+ G HDF ++ G V R +TH +T
Sbjct: 111 YRYYLIDEGFELEKMVGCAKLFEGRHDFSAFARLEPGRDPV---REITHISIT------- 160
Query: 184 FNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYPM 243
H I + FLW +R I++ L G +PE + ++ + P P
Sbjct: 161 ---PRHGYYVIEITGKSFLWEMVRRIVNALRFCGLSLLEPEEVGAMLSGVYEKKVPPAP- 216
Query: 244 VRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGE 291
E L L+H E+ N+ + D +S RDL E +S +A + G+
Sbjct: 217 --PENLILWHIEYPNVEFKTDGKSLSKARRDLFERYSRALARAALFGD 262
>sp|B6YTJ2|TRUA_THEON tRNA pseudouridine synthase A OS=Thermococcus onnurineus (strain
NA1) GN=truA PE=3 SV=1
Length = 267
Score = 117 bits (293), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 87/292 (29%), Positives = 140/292 (47%), Gaps = 32/292 (10%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
+AL+I Y G ++GFQ Q T+ +++AL K +IED E S+F RTD GVSAF
Sbjct: 3 LALRIAYDGTAFYGFQRQPGL-RTVEGEIIRALTKLGIIEDVESSNFKGASRTDRGVSAF 61
Query: 64 CQVVTLKIRSK--LTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLF 121
VV + S+ L P ++LN +L +D+ V+ + VPE + RF
Sbjct: 62 FNVVAFDVASRPDLVRP------------EVLNFHL-KDVWVLGTAEVPEDFHPRFWAKS 108
Query: 122 RNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQN 181
+ Y+Y+ AG D AM + A+ +GTHDF ++ V R + A +
Sbjct: 109 KTYRYYLIDAGFDEKAMRECAKLFIGTHDFSAFARLEPHKNPV---RELIRADII----- 160
Query: 182 VQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVY 241
+ I E +S FLW R I++ L G G E ++++++ E Y RK
Sbjct: 161 ---KRQGYYIIELEGKS--FLWEMARRIVNALRFCGLGILTEEEVEKMLNGE-YSRK--I 212
Query: 242 PMVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMI 293
P R E L L+ E++ + + +E + DL E +S +A + G+++
Sbjct: 213 PPARPEGLVLWGIEYEGIEFRGNEKGIRKAKHDLFERYSEALTRAALFGDLL 264
>sp|Q8PWT1|TRUA_METMA tRNA pseudouridine synthase A OS=Methanosarcina mazei (strain ATCC
BAA-159 / DSM 3647 / Goe1 / Go1 / JCM 11833 / OCM 88)
GN=truA PE=3 SV=1
Length = 269
Score = 117 bits (292), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 70/232 (30%), Positives = 119/232 (51%), Gaps = 25/232 (10%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
+ALK+ Y G +HG QIQ S + T+ L KAL+ +IE + +++ C GRTD+GV A
Sbjct: 3 VALKLAYIGTEFHGSQIQPSVE-TVEKELFKALRNLRIIESPKSANYICAGRTDAGVHAL 61
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
QV+ ++D L +++N+ LP I V A + VP + AR + R+
Sbjct: 62 GQVIAF-----------DTDRPNLAIPRIINSGLPPTIWVWAHAEVPYDFDARRHAVSRH 110
Query: 124 YKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQ 183
Y+Y G DI M +A++ L+GTHDF N + N V + NV+
Sbjct: 111 YRYVISGEGYDISKMREASKLLLGTHDFENFSRSNGEKSTVRTLERI----------NVR 160
Query: 184 FNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKY 235
+ +I + ++ FLW+ +R I++ L ++G+G + + Q+++ + Y
Sbjct: 161 VDG---DITKIDVVGNSFLWNMVRKIVTALSMIGKGVRDNDWLIQMLNPDIY 209
>sp|B8GFU5|TRUA_METPE tRNA pseudouridine synthase A OS=Methanosphaerula palustris (strain
ATCC BAA-1556 / DSM 19958 / E1-9c) GN=truA PE=3 SV=1
Length = 280
Score = 117 bits (292), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 74/239 (30%), Positives = 116/239 (48%), Gaps = 27/239 (11%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
+A ++ Y G + G Q+Q + T+ L+ A Q+ L +D K+ FA GRTD GV A
Sbjct: 3 LAFQLSYDGNQFRGSQLQPAY-RTVEGELITACQRVQLFDDPCKAGFALAGRTDRGVHAR 61
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
QV ++P E ++ LN L D+ ++ VP + RFD + R
Sbjct: 62 GQV------GAFSTPFPER------AVEALNGQLSPDLWCNGFAEVPPSFHPRFDAISRT 109
Query: 124 YKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQ 183
Y+Y+F LDI AM +AA L+GTHDF L ++ + + R V A V
Sbjct: 110 YRYFFADWPLDIRAMDQAAAALIGTHDFSRLARVREKSPI----RTVKSARV-------- 157
Query: 184 FNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYP 242
F D I F + + +LWH +RC+ + L L+G +PE++++L+ + P P
Sbjct: 158 FQD--RGIPVFEVTAHTYLWHMVRCMAAALLLIGTHEREPELMERLLSGKCRRNPPAAP 214
>sp|Q12VJ7|TRUA_METBU tRNA pseudouridine synthase A OS=Methanococcoides burtonii (strain
DSM 6242) GN=truA PE=3 SV=1
Length = 275
Score = 116 bits (291), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 71/232 (30%), Positives = 112/232 (48%), Gaps = 25/232 (10%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
+ALKI Y G N+HG Q+Q + D T+ L K L++ ++ED ++F GRTDSGV A
Sbjct: 3 VALKIAYIGSNFHGSQVQLN-DPTVEGELFKVLKELGIMEDPRTANFISSGRTDSGVHAM 61
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
QVV ++D L +++N+ LP I A + VPE + R L R+
Sbjct: 62 GQVVAF-----------DTDAPNLAMPRVINSKLPGTIWAWAHAIVPENFDPRRHALSRS 110
Query: 124 YKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQ 183
Y+Y DI + A++ L+G+HDF N G R+V + +
Sbjct: 111 YRYILYGEQFDISKIRSASKLLLGSHDFSNFS---TSRGSKKTVRIVKRIDIRVS----- 162
Query: 184 FNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKY 235
N+ ++ + FLW+ +R I++ L +VG G E + ++D E Y
Sbjct: 163 -----GNLTRIDVEANSFLWNMVRKIVAALMMVGSGVRDEEWLGHMLDPESY 209
>sp|O26928|TRUA_METTH tRNA pseudouridine synthase A OS=Methanothermobacter
thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM
10044 / NBRC 100330 / Delta H) GN=truA PE=3 SV=1
Length = 275
Score = 113 bits (283), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 72/235 (30%), Positives = 120/235 (51%), Gaps = 30/235 (12%)
Query: 1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGV 60
MR IALK+ Y G NYHGFQ Q T+ LL+AL+ +IED +++ F GRTD GV
Sbjct: 1 MRKIALKVAYIGTNYHGFQRQPDV-PTVEGKLLEALEGAGIIEDPKRARFQIAGRTDRGV 59
Query: 61 SAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCL 120
A V+ + ++ +N+ LPRDI+V+AW+ V + R+ L
Sbjct: 60 HALGNFVSFFTEEDI-------------HVNQINDLLPRDIRVLAWASVMYPFKVRY-PL 105
Query: 121 FRNYKYWF-PQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAW 179
R+Y+Y + +D +M +AA + GTHDF N + + + V RR+
Sbjct: 106 ERHYRYILHREESMDTYSMAEAAAHFRGTHDFSNFSRRSDRDPV---RRI---------- 152
Query: 180 QNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEK 234
+V+ ++ +I ++ + FLW +R ++ L +V +G P+ + L+D ++
Sbjct: 153 NDVRISEVGDSII-IDVYGESFLWQMVRKMVRALLMVSEGELAPDDMAGLLDTDR 206
>sp|Q46CU8|TRUA_METBF tRNA pseudouridine synthase A OS=Methanosarcina barkeri (strain
Fusaro / DSM 804) GN=truA PE=3 SV=1
Length = 269
Score = 113 bits (282), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 68/234 (29%), Positives = 120/234 (51%), Gaps = 29/234 (12%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
+ALK+ Y G +HG QIQ + + T+ L KAL+ +IE + +++ C GRTD+GV A
Sbjct: 3 VALKLAYIGTEFHGSQIQPNVE-TVEGELFKALRNLGIIESPKSANYTCAGRTDAGVHAL 61
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
QVV ++D L +++N+ L I V A + VP + AR D + R+
Sbjct: 62 EQVVAF-----------DTDKLNLAIPRVINSELTPGIWVWAHAEVPLSFDARRDAVSRH 110
Query: 124 YKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQ 183
Y+Y DI + +A+++L+GTHDF N + N G S + ++
Sbjct: 111 YRYVMSGKEYDISKIREASKFLLGTHDFENFSRTN---------------GEKSTVRTIE 155
Query: 184 FNDSHHN--ICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKY 235
D+ + + + ++ FLW+ +R I++ L ++G+G + + Q+++ E Y
Sbjct: 156 RIDARIDGELIKIDVVGNSFLWNMVRKIVTALSMIGKGVRDTDWLLQMLNPEIY 209
>sp|Q8TU65|TRUA_METAC tRNA pseudouridine synthase A OS=Methanosarcina acetivorans (strain
ATCC 35395 / DSM 2834 / JCM 12185 / C2A) GN=truA PE=3
SV=1
Length = 269
Score = 112 bits (279), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 83/296 (28%), Positives = 135/296 (45%), Gaps = 38/296 (12%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
+ALK+ Y G +HG QIQ + + T+ L KAL+ +IE + + + C GRTD+GV A
Sbjct: 3 VALKLAYIGTEFHGSQIQPNVE-TVEKELFKALRNLSIIESPKSADYTCAGRTDAGVHAL 61
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYL---KMLNNNLPRDIKVVAWSPVPEKYSARFDCL 120
QVV D E P L +++N+ LP I A + VP + AR +
Sbjct: 62 GQVVAF--------------DTEKPNLAIPRVINSELPPAIWAWAHAEVPYYFDARRSAV 107
Query: 121 FRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQ 180
R+Y Y DI M +A++ L+GTHDF N + N V +
Sbjct: 108 SRHYHYVMSGEDYDISKMREASKLLLGTHDFENFSRSNGEKSTVRTLERI---------- 157
Query: 181 NVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPR--K 238
NV+ + I + ++ FLW+ +R I++ L ++G G + + Q+++ E Y +
Sbjct: 158 NVRVDGE---ITKIDVVGNSFLWNMVRKIVTALSMIGNGVRDNDWLLQMLNPEIYEEGIE 214
Query: 239 PVYPMVRGEPLNLYHTEF-DNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMI 293
P P L L + +N+ W D+ + H+ + A +L E+I
Sbjct: 215 PAPPY----GLTLMGVNYGENIEWIEDDYSIRRAGEQNHKRILRHRVMAEVLEELI 266
>sp|A5ULI2|TRUA_METS3 tRNA pseudouridine synthase A OS=Methanobrevibacter smithii (strain
PS / ATCC 35061 / DSM 861) GN=truA PE=3 SV=1
Length = 290
Score = 108 bits (269), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 85/301 (28%), Positives = 143/301 (47%), Gaps = 27/301 (8%)
Query: 1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGV 60
M+ ALKI Y G N+HGFQ Q T+ L+ L+K I+D +KS F GRTD+GV
Sbjct: 1 MKRTALKIGYIGTNFHGFQRQPDL-RTVEEELIYHLRKLGYIDDLKKSRFRIAGRTDAGV 59
Query: 61 SAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCL 120
+ V++ + +E NE +NN+LP DI+++A +PV + R+
Sbjct: 60 HSLGNVISFQ-------SEKEVRVNE------INNSLPDDIQILAKAPVRFGFKPRY-AE 105
Query: 121 FRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSA-- 178
R Y+Y ++ LD+ +++ A+ GTH+F N K R + +T A
Sbjct: 106 MRQYRYVLFRSDLDLYKLNEVAEIFKGTHNFTNFTKRFQKTTT----RTIDDIKITKANL 161
Query: 179 --WQNVQFNDSHHNICE--FNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVD-IE 233
+ +F + H + +I + FLW+ +R +M V V G E +++L++ E
Sbjct: 162 NDYHKKEFPNLHDTLSPVFVDIYGESFLWNMVRKMMRVFVDVAIGKLSLEKVEELLNPAE 221
Query: 234 KYPRKPVYPMVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMI 293
PR + ++ + L L ++D + + YD+ R+L + L K + MI
Sbjct: 222 NDPRANI-KVLDPDYLILMDIKYDGVKFVYDDYACERFKRNLVDSLGDLQRKYAIRESMI 280
Query: 294 K 294
K
Sbjct: 281 K 281
>sp|Q2NHB4|TRUA_METST tRNA pseudouridine synthase A OS=Methanosphaera stadtmanae (strain
DSM 3091) GN=truA PE=3 SV=1
Length = 274
Score = 104 bits (260), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 82/295 (27%), Positives = 139/295 (47%), Gaps = 52/295 (17%)
Query: 1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGV 60
MR +ALKI Y G N+HG+Q Q + T+ LL+ ++T +IED + ++ GRTD GV
Sbjct: 1 MRRVALKIAYIGSNFHGYQRQPNY-RTVEGELLRVFKETNIIEDTWTAHYSVAGRTDKGV 59
Query: 61 SAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCL 120
+ V++ +E ++ LN LP DIK++ + VP + RF L
Sbjct: 60 HSTGNVISFIT-------------DEDIHINQLNGLLPDDIKIIGEARVPYGFKVRF-PL 105
Query: 121 FRNYKYW-----FPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGV 175
R Y Y F + LDI MH A + +G H+FRN K N N R+++
Sbjct: 106 TRTYTYIQPISPFEKKNLDITKMHVAMESFIGKHNFRNFSKRNEKNPN---RKIID---- 158
Query: 176 TSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQG-------NE--KPEII 226
N++ ++ ++ F I + FLW+ +R +++ + VG G NE KP+ +
Sbjct: 159 ----VNLEVDE---DVLIFTIVGESFLWNMVRKMVTSIMEVGYGKLDINDINELLKPKEL 211
Query: 227 QQLVDIEKYPRKPVYPMVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSL 281
+Q + ++ P L L E+ N+ + E + ++ L +++ L
Sbjct: 212 RQFIRLQPAP---------ANGLILSDMEYKNIKFKDSEYAKNKLVEFLKKEYML 257
>sp|C6A238|TRUA_THESM tRNA pseudouridine synthase A OS=Thermococcus sibiricus (strain MM
739 / DSM 12597) GN=truA PE=3 SV=1
Length = 266
Score = 104 bits (259), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 79/289 (27%), Positives = 129/289 (44%), Gaps = 35/289 (12%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
IALKI Y G ++GFQ Q T+ L+K L+K +IED ++++F RTD GVSA
Sbjct: 3 IALKIAYDGTKFYGFQRQPDL-RTVEGELIKVLKKLGIIEDVKEANFKGASRTDRGVSAL 61
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
V+ + EL ++LN++L RDI ++ + VPE + RF +
Sbjct: 62 GNVIAFN-----------TAKPELAEARILNHHL-RDIWILGKAEVPEDFHPRFWAKNKI 109
Query: 124 YKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQ 183
Y+Y+ G+D+ + A+ +G HDF N ++ FR+ V +
Sbjct: 110 YRYYLFDEGIDVIKLKACAEAFLGRHDFSNFARLE------EFRKPVREINRIDVF---- 159
Query: 184 FNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPV--- 240
S I I + FLW R I++ L L G G + + D+E ++ V
Sbjct: 160 ---SRGRIIVVEIEGKSFLWEMTRRIITALKLCGLG------VLSIGDVELMLKEKVDKK 210
Query: 241 YPMVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATML 289
P E L L+ ++ + + D + V R+ E + K+ +L
Sbjct: 211 LPPAPPENLVLWEVGYEGIKFEVDAYAIEKVKREFLERFRKYLTKSAIL 259
>sp|O28544|TRUA_ARCFU tRNA pseudouridine synthase A OS=Archaeoglobus fulgidus (strain
ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
GN=truA PE=3 SV=1
Length = 265
Score = 102 bits (253), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 76/269 (28%), Positives = 120/269 (44%), Gaps = 41/269 (15%)
Query: 1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGV 60
M A KI Y G N+HG Q Q T+ ++ AL++ + E GRTD+GV
Sbjct: 1 MMKFAFKIAYFGDNFHGSQFQPDQ-RTVEGEVINALRRLGV----ENPRLRSAGRTDAGV 55
Query: 61 SAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCL 120
A+ QV++ S+D P +MLN LP DI AW+ V E + R
Sbjct: 56 HAYGQVISFY-----------SEDKIFP--RMLNAELPEDITAWAWAKVSEDFDPR-RAK 101
Query: 121 FRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQ 180
R Y Y + DI AM KA + L+G HDF N K G G R +++ A +
Sbjct: 102 SRVYTYVMYGSDYDISAMRKAVKELIGVHDFSNFTK-KFGEGESCVREIIS-ADIR---- 155
Query: 181 NVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRK-- 238
+ F I F W+ +RCI++ + +G+ + E + L++ EK+ +
Sbjct: 156 ------ADREFIIFEIEGNAFTWNMVRCIVTAIMEIGKQHRSIEWFRDLLNPEKHKERVE 209
Query: 239 --PVYPMVRGEPLNLYHTEFDNLTWHYDE 265
P Y ++ L ++D++ + D+
Sbjct: 210 PAPPYGLI------LKDVKYDDVEFEIDD 232
>sp|Q8U2C1|TRUA_PYRFU tRNA pseudouridine synthase A OS=Pyrococcus furiosus (strain ATCC
43587 / DSM 3638 / JCM 8422 / Vc1) GN=truA PE=3 SV=1
Length = 266
Score = 101 bits (252), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 74/290 (25%), Positives = 135/290 (46%), Gaps = 32/290 (11%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
+ALKI Y G +HGFQ Q + TI +L+AL+ + E +F RTD GVSA
Sbjct: 3 VALKIAYDGTKFHGFQRQPNV-RTIEGEILRALKDAGI----EFENFKSASRTDRGVSAR 57
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
V+ L ++D+ + +LN+ + D+ + + VPE + RF +
Sbjct: 58 GNVIALS-----------TEDDRIKNPMVLNSRMS-DVWIWGIAEVPEDFHPRFWANTKV 105
Query: 124 YKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQ 183
Y+Y+ P G++I M + + +GTHDF +++ + + + R+ W+
Sbjct: 106 YRYYLPSLGMNIKKMKECSLLFLGTHDFSAFSRVDGRDTIRSIDRI-------EIWEKC- 157
Query: 184 FNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYPM 243
N+ I + FLW +R I+S L L QG E I ++++ K+ + P
Sbjct: 158 ------NVVVVEIEGKSFLWEMVRRIVSALVLCSQGVLAEERIVEMLN-GKFEKSRKVPP 210
Query: 244 VRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMI 293
E L L+ +++N+ + D + R++ E + L + + + ++I
Sbjct: 211 APPEGLLLWDIKYENVEFQIDNASLKKFQREIVERFKLHASLSALYEDLI 260
>sp|Q8XHV5|TRUA2_CLOPE tRNA pseudouridine synthase A 2 OS=Clostridium perfringens (strain
13 / Type A) GN=truA2 PE=3 SV=1
Length = 244
Score = 98.2 bits (243), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 74/248 (29%), Positives = 115/248 (46%), Gaps = 44/248 (17%)
Query: 1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGV 60
MR I L I Y G +Y G+Q Q NTI + +A++K KE+ RTDSGV
Sbjct: 1 MRNIKLTIEYDGTSYFGWQKQPIG-NTIQQKVEEAIKKVT----KEEVEILGSSRTDSGV 55
Query: 61 SAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARF--- 117
A V K S + PG+ + LN+ LP+DI ++ V E + AR+
Sbjct: 56 HAKAYVANFKTNSNI--PGKN-------FKAALNSKLPKDIVIINSEEVAEDFHARYMTT 106
Query: 118 --------------DCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGV 163
L RNY Y + LD+++M +A +Y +G HDF+ + G V
Sbjct: 107 GKTYCYTILNREEPPALERNYVYHVKKQ-LDVESMKEACKYFLGKHDFKAFQRP--GGTV 163
Query: 164 VNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKP 223
R +T + ++ N + + + GFL++ +R I+ L VG+G EKP
Sbjct: 164 KTSVRTITDIHI----------ETEGNKIKIYVSADGFLYNMVRLIVGTLLKVGRGKEKP 213
Query: 224 EIIQQLVD 231
E I++++D
Sbjct: 214 EYIKEVID 221
>sp|Q0AUL4|TRUA_SYNWW tRNA pseudouridine synthase A OS=Syntrophomonas wolfei subsp.
wolfei (strain Goettingen) GN=truA PE=3 SV=1
Length = 249
Score = 98.2 bits (243), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 79/270 (29%), Positives = 123/270 (45%), Gaps = 50/270 (18%)
Query: 1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGV 60
M I L + Y G NYHGFQ+Q ++ NT+ L KA+ + E+++ C GRTD+GV
Sbjct: 1 MSRIKLLLEYDGSNYHGFQLQKNA-NTVQAELEKAIYRL----SGERATIVCAGRTDAGV 55
Query: 61 SAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCL 120
A+ QVV S T PG+ + LN+ LP DI+V+ +++ RFD L
Sbjct: 56 HAWGQVVAFD--SCSTIPGDR-------WAYALNSQLPEDIQVLESQETRAEFNPRFDAL 106
Query: 121 FRNYKYWFPQAG----------------LDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVV 164
+ Y Y + L ++AM +AA+ L G +FR+ C G+
Sbjct: 107 KKCYGYLIYRQKKKATFYRHYALCNTEPLKLEAMQEAAEILKGRQNFRSFCAS--GSSAR 164
Query: 165 NFRRLVTHAGVTSAWQNVQFNDSHHNIC-EFNIRSQGFLWHQIRCIMSVLFLVGQGNEKP 223
F R + H + S C +I + GFL++ +R I L VG+G P
Sbjct: 165 TFEREIFHCRL-----------SEKGPCLLLHIAADGFLYNMVRIITGTLLEVGKGKYPP 213
Query: 224 EIIQQLVDIEKYPRK-PVYPMVRGEPLNLY 252
+ +++++ + R P P P LY
Sbjct: 214 QHLREIIASQDRTRAGPTAP-----PQGLY 238
>sp|Q8XLQ0|TRUA1_CLOPE tRNA pseudouridine synthase A 1 OS=Clostridium perfringens (strain
13 / Type A) GN=truA1 PE=3 SV=1
Length = 248
Score = 97.8 bits (242), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 69/256 (26%), Positives = 114/256 (44%), Gaps = 44/256 (17%)
Query: 1 MRPIALKILYQGFNYHGFQIQT---SSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTD 57
MR I + + Y G Y G+Q Q S+ +T+ L K L K E+ CGRTD
Sbjct: 1 MRNIKITLDYDGSKYKGWQKQNQKGSNVSTVQDKLEKVLTKMT----SEEIQLIGCGRTD 56
Query: 58 SGVSAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARF 117
SGV A V K S +T ++ +N LP DI+V E++ ARF
Sbjct: 57 SGVHAKNYVANFKTNSLMTLE---------QIIEYINEYLPEDIRVTEIREASERFHARF 107
Query: 118 DCLFRNYKY----------------WFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGN 161
+ + Y+Y W + LD++AM + A+YL+GTHDF++ + N
Sbjct: 108 NVKSKTYEYTIDNNKFKDVFLRKYAWHVEEKLDLEAMEEGAKYLLGTHDFKSFTSLKSKN 167
Query: 162 GVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNE 221
+++F++ ++NI I GFL + +R ++ L VG G
Sbjct: 168 -----------KSTLRTINSIEFHE-NNNILSIKINGNGFLLNMVRIMVGTLVDVGLGKI 215
Query: 222 KPEIIQQLVDIEKYPR 237
+P+ I +++ ++ +
Sbjct: 216 EPKYINDILEAKERAK 231
>sp|A3CXX4|TRUA_METMJ tRNA pseudouridine synthase A OS=Methanoculleus marisnigri (strain
ATCC 35101 / DSM 1498 / JR1) GN=truA PE=3 SV=1
Length = 270
Score = 96.7 bits (239), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 67/227 (29%), Positives = 106/227 (46%), Gaps = 28/227 (12%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
+A + Y G + G Q+Q T+ + A + L +D +++FA GRTD GV A
Sbjct: 3 LAFRFSYFGDRFFGSQMQPDL-CTVEGEFIGACRLLRLFDDWREANFATAGRTDRGVHAR 61
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
QV + LT E + ++ LN LP DI W+ P+ + R+ + R
Sbjct: 62 SQVCSF-----LTDKPERA-------IEALNRVLPADIWCTGWAEAPDGFHPRYSAVSRT 109
Query: 124 YKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQ 183
Y+Y+F G D AMH+AAQ +G HDF + G N R + + V
Sbjct: 110 YRYYFSAPG-DAAAMHEAAQEFLGRHDFSAFARA----GDRNPERRILASRV-------- 156
Query: 184 FNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLV 230
F D + F + + FLW+ +RC+ ++L VG+G + I +L+
Sbjct: 157 FIDGEFAV--FEVTGESFLWNMVRCMATMLGRVGRGEAEAGEIARLL 201
>sp|A9BNH5|TRUA_DELAS tRNA pseudouridine synthase A OS=Delftia acidovorans (strain DSM
14801 / SPH-1) GN=truA PE=3 SV=1
Length = 282
Score = 96.7 bits (239), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 75/257 (29%), Positives = 106/257 (41%), Gaps = 40/257 (15%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
+AL + Y G Y G+Q Q S NTI HL AL + E C GRTD+GV
Sbjct: 3 VALGVAYNGQRYSGWQSQLSG-NTIQDHLEAALGRFAAQEVHTL----CAGRTDAGVHGL 57
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
QVV D +++ N LP DI V PVP+ + +R R
Sbjct: 58 MQVVHFDT---------PLDRAPFSWVRGTNTFLPPDIAVQWAQPVPDAFHSRACATARR 108
Query: 124 YKYWFPQA----------------GLDIDAMHKAAQYLVGTHDFRNL----CKMNVGNGV 163
Y Y Q+ LD DAM AA++L+G HDF + C+
Sbjct: 109 YAYVLLQSPVRPSVEAGRVGWVFHALDGDAMQAAARHLLGEHDFSSFRASGCQAKSPVKT 168
Query: 164 VN----FRRLVTHAGVTSAWQNVQFNDSHHNIC--EFNIRSQGFLWHQIRCIMSVLFLVG 217
++ RR+ +A +++ D+ C F FL H +R IM L +G
Sbjct: 169 LHRLSITRRMAGDGAQMAAASSMRPGDAAMECCYWRFEFEGSAFLHHMVRNIMGCLIAIG 228
Query: 218 QGNEKPEIIQQLVDIEK 234
QG P+ +QQ++D
Sbjct: 229 QGTYAPQWMQQVLDARS 245
>sp|Q890R5|TRUA2_CLOTE tRNA pseudouridine synthase A 2 OS=Clostridium tetani (strain
Massachusetts / E88) GN=truA2 PE=3 SV=1
Length = 248
Score = 96.7 bits (239), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 74/246 (30%), Positives = 114/246 (46%), Gaps = 42/246 (17%)
Query: 2 RPIALKILYQGFNYHGFQIQTSSD-NTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGV 60
R + LK+ Y G NY G+Q Q + TI + KA+++ KE+ RTD+GV
Sbjct: 3 RNVRLKVEYDGTNYSGWQKQKDKNIKTIQSSIEKAIEEAT----KEEVELIGSSRTDAGV 58
Query: 61 SAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCL 120
A K S T PGE+ + LN LP DI ++ VP ++ +RFDC+
Sbjct: 59 HALAYTANFKTCS--TIPGEK-------FKHALNRFLPEDIVILESEEVPMEFHSRFDCI 109
Query: 121 FRNYKY----------------WFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVV 164
+ Y Y + + LDI++M +A+++L+GTHDF N K + GN
Sbjct: 110 GKTYVYKILNRPLFSPIQRNYIYHVKDELDINSMIEASKFLIGTHDF-NAFKKSGGNLKT 168
Query: 165 NFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPE 224
R + N+ S ++I E ++ GFL++ +R I L VG KPE
Sbjct: 169 TVRTIT----------NINILKS-NDIVEIHVSGDGFLYNMVRIISGTLIEVGLSRRKPE 217
Query: 225 IIQQLV 230
I ++
Sbjct: 218 DISIIL 223
>sp|Q0W2P8|TRUA_UNCMA tRNA pseudouridine synthase A OS=Uncultured methanogenic archaeon
RC-I GN=truA PE=3 SV=1
Length = 266
Score = 95.5 bits (236), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 75/262 (28%), Positives = 117/262 (44%), Gaps = 32/262 (12%)
Query: 5 ALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFC 64
ALKI Y G N++G Q Q T+ L KAL++ I K + A GRTD+GV A
Sbjct: 4 ALKIAYVGTNFYGSQAQPGLP-TVESELRKALEEAGAI--KLGTKIAMAGRTDAGVHALG 60
Query: 65 QVVTL-KIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
QVV + KLT+P +++N+ LP+D+ A + VP+ + R R
Sbjct: 61 QVVAFEQADPKLTAP------------RIINSKLPKDLWAYARAEVPDDFDPRRHATSRE 108
Query: 124 YKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQ 183
Y+Y + + + + +GTHDF N + G V R VT +
Sbjct: 109 YRYILYAPDVIERRLKECSSRFLGTHDFTNFSSVEAGKYPV---RTVTRLDIA------- 158
Query: 184 FNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYPM 243
+ +I + FLW+ +R I++ L LVG+ I+++ D E R+ + P
Sbjct: 159 ---KRGDFYIIDIEADSFLWNMVRKIVTALRLVGENKRPDGWIEKMFDPEY--REGIPPA 213
Query: 244 VRGEPLNLYHTEFDNLTWHYDE 265
G L L +D + + DE
Sbjct: 214 APGG-LYLSRVNYDGIAFEEDE 234
>sp|B0K5S6|TRUA_THEPX tRNA pseudouridine synthase A OS=Thermoanaerobacter sp. (strain
X514) GN=truA PE=3 SV=1
Length = 244
Score = 94.7 bits (234), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 76/240 (31%), Positives = 111/240 (46%), Gaps = 42/240 (17%)
Query: 1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGV 60
MR + + + Y G NYHG+Q Q ++ T+ L KA++K E+ + RTD+GV
Sbjct: 1 MRNVMIVVEYDGTNYHGWQYQKNA-VTVQEVLQKAIKKVT----GEEVNLIGASRTDTGV 55
Query: 61 SAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCL 120
A QV K +K+ P E+ LPY LN+ LP DI VV V + + AR+
Sbjct: 56 HALYQVANFKTNTKI--PAEK-----LPY--ALNSVLPDDIVVVQAKDVEDSFHARYSAK 106
Query: 121 FRNYKY----------------WFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVV 164
+ YKY W L+I+ M KAA YL+GTHDF +G
Sbjct: 107 RKRYKYIILNRKFQMPTMRNYCWHISYPLNIEEMKKAASYLIGTHDFSAFK----ASGSS 162
Query: 165 NFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPE 224
+ T +T ++ N+ NI I + GFL++ +R I+ L VG G K +
Sbjct: 163 KTSTIRTVYDLT-----IEKNEDFINI---EIEANGFLYNMVRIIVGTLSYVGLGKIKED 214
>sp|B0KCN3|TRUA_THEP3 tRNA pseudouridine synthase A OS=Thermoanaerobacter
pseudethanolicus (strain ATCC 33223 / 39E) GN=truA PE=3
SV=1
Length = 244
Score = 94.7 bits (234), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 76/240 (31%), Positives = 111/240 (46%), Gaps = 42/240 (17%)
Query: 1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGV 60
MR + + + Y G NYHG+Q Q ++ T+ L KA++K E+ + RTD+GV
Sbjct: 1 MRNVMIVVEYDGTNYHGWQYQKNA-VTVQEVLQKAIKKVT----GEEVNLIGASRTDTGV 55
Query: 61 SAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCL 120
A QV K +K+ P E+ LPY LN+ LP DI VV V + + AR+
Sbjct: 56 HALYQVANFKTNTKI--PAEK-----LPY--ALNSVLPDDIVVVQAKDVEDSFHARYSAK 106
Query: 121 FRNYKY----------------WFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVV 164
+ YKY W L+I+ M KAA YL+GTHDF +G
Sbjct: 107 RKRYKYIILNRKFQMPTMRNYCWHISYPLNIEEMKKAASYLIGTHDFSAFK----ASGSS 162
Query: 165 NFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPE 224
+ T +T ++ N+ NI I + GFL++ +R I+ L VG G K +
Sbjct: 163 KTSTIRTVYDLT-----IEKNEDFINI---EIEANGFLYNMVRIIVGTLSYVGLGKIKED 214
>sp|A4J151|TRUA_DESRM tRNA pseudouridine synthase A OS=Desulfotomaculum reducens (strain
MI-1) GN=truA PE=3 SV=1
Length = 247
Score = 94.7 bits (234), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 75/248 (30%), Positives = 110/248 (44%), Gaps = 41/248 (16%)
Query: 1 MRPIALKILYQGFNYHGFQIQTSSD-NTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSG 59
M+ I L + Y G NYHGFQ Q + TI L KAL + GRTD+G
Sbjct: 1 MKNIKLTLAYDGTNYHGFQEQRGTGLATIQEALEKALSTIA----QTPIQVIGAGRTDAG 56
Query: 60 VSAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDC 119
V A QVV + K P E++ LN LP DIKVV VP + ARF
Sbjct: 57 VHAQGQVVNFR-SEKWPVPAEKAP-------LALNVLLPGDIKVVKAEEVPMDFHARFSA 108
Query: 120 LFRNYKY----------------WFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGV 163
+ + Y+Y + LD++AM + A YL+GT+DF++ G V
Sbjct: 109 VAKTYRYSIYHHRVMSPFHRYYCYHEPRRLDVNAMQEGAAYLLGTYDFKSFQAQ--GTPV 166
Query: 164 VNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKP 223
+ R + A + D+ + +R GFL++ +R I L +G G KP
Sbjct: 167 KDTIRTIYRADI--------IEDA--PVINLYLRGNGFLYNMVRIITGTLLNIGFGKIKP 216
Query: 224 EIIQQLVD 231
E + ++++
Sbjct: 217 EDMVKIIE 224
>sp|O86776|TRUA_STRCO tRNA pseudouridine synthase A OS=Streptomyces coelicolor (strain
ATCC BAA-471 / A3(2) / M145) GN=truA PE=3 SV=1
Length = 284
Score = 94.7 bits (234), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 66/241 (27%), Positives = 100/241 (41%), Gaps = 43/241 (17%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
+ L + Y G + G+ Q T+ + AL+ + +E GRTD+GV A
Sbjct: 12 VRLDLSYDGSEFSGWAKQAGGRRTVQGEIEDALR--TVTRSRETYELTVAGRTDAGVHAR 69
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
QV + + P E ++ + LK L LPRD++V A P ++ARF ++R
Sbjct: 70 GQVAHVDL------PREVWAEHHVKLLKRLAGRLPRDVRVWALREAPSGFNARFSAVWRR 123
Query: 124 YKY------------------W--FPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGV 163
Y Y W +P LD+DAM+ AA+ L+G HDF CK G
Sbjct: 124 YAYRVTDNPGGVDPLLRGHVLWHDWP---LDVDAMNAAARGLLGEHDFAAYCKKR--EGA 178
Query: 164 VNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKP 223
R L Q + I +R+ F + +R ++ L VG G+ P
Sbjct: 179 TTIRTL----------QELSLVRGEDGIVTATVRADAFCHNMVRSLIGALLFVGDGHRGP 228
Query: 224 E 224
E
Sbjct: 229 E 229
>sp|A2SU30|TRUA_METLZ tRNA pseudouridine synthase A OS=Methanocorpusculum labreanum
(strain ATCC 43576 / DSM 4855 / Z) GN=truA PE=3 SV=1
Length = 281
Score = 94.7 bits (234), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 65/227 (28%), Positives = 107/227 (47%), Gaps = 26/227 (11%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
+A Y+G N+ G Q Q T+ + + L D +++ F GRTD GVSA
Sbjct: 3 LAFLAGYRGQNFAGSQYQPHK-RTVEGEFVAGGIELGLFSDAKEAHFRTAGRTDKGVSAR 61
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
Q+ ++ ++ EL ++ LN +LP DI + + V E++ R+ R+
Sbjct: 62 RQLFSIT-----------TEKPELA-IEALNFHLPDDIWCIGAAEVDEEFYPRYAARERS 109
Query: 124 YKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQ 183
Y+Y+FP D+ M AA L+GTH+F KM G V R VT A V
Sbjct: 110 YRYYFPYPA-DVSRMQDAASRLIGTHNFSGFAKMEAGRDPV---RTVTRAEVF------- 158
Query: 184 FNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLV 230
+ F + ++ FLW+ +R + L +G G +P++I++L+
Sbjct: 159 --EGKDGCPVFEVAAKSFLWNMVRGMAGALQTIGLGLCEPDVIEELL 203
>sp|B6EIW6|TRUA_ALISL tRNA pseudouridine synthase A OS=Aliivibrio salmonicida (strain
LFI1238) GN=truA PE=3 SV=1
Length = 262
Score = 94.0 bits (232), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 78/269 (28%), Positives = 114/269 (42%), Gaps = 44/269 (16%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
IAL I Y G +YHG+Q Q + + + L+K ++ E C GRTD+GV
Sbjct: 3 IALCIEYDGASYHGWQSQKDVTS-----VQEELEKALMVVANEPIEVMCAGRTDAGVHGT 57
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
QVV S P ++ +N NLP++I V V E + ARF R
Sbjct: 58 GQVVHFDTNSVRKLP---------VWMVGVNANLPKNIAVRWVKEVNEDFHARFTATARR 108
Query: 124 YKYWF----------------PQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFR 167
Y+Y LD D MH+A QYL+G +DF + + +R
Sbjct: 109 YRYIIFNNRQRPAIFSHGVSHYHETLDADLMHEAGQYLLGENDFTSFRAVRC-QSRTPWR 167
Query: 168 RLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQ 227
L+ H VT H + +I++ F+ H +R I L VG+G +KPE +Q
Sbjct: 168 NLI-HLKVTR----------HGDFIVIDIKANAFVHHMVRNITGSLIEVGRGKQKPEWVQ 216
Query: 228 QLVDIEKYPRKPVYPMVRGEPLNLYHTEF 256
L +E RK + E L L ++
Sbjct: 217 WL--LEAKDRKLAGATAKAEGLYLIDVDY 243
>sp|C3LTP7|TRUA_VIBCM tRNA pseudouridine synthase A OS=Vibrio cholerae serotype O1
(strain M66-2) GN=truA PE=3 SV=1
Length = 264
Score = 94.0 bits (232), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 75/245 (30%), Positives = 107/245 (43%), Gaps = 46/245 (18%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
IAL I Y G +Y+G+Q Q ++ L KAL K C GRTD+GV
Sbjct: 3 IALGIEYDGTHYYGWQRQREV-KSVQEALEKALSKIA----NHPVEVQCAGRTDAGVHGT 57
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
QVV ++ + + N NLP+DI V VP+++ ARF R
Sbjct: 58 GQVVHFDT---------TAERQMVAWTMGANANLPKDIAVRWAMAVPDEFHARFSATARR 108
Query: 124 YKY------WFP----------QAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFR 167
Y+Y + P LD++ M +A QYL+G +DF +FR
Sbjct: 109 YRYVIYNHVYRPGILNSGVSHYHGELDVEKMQQAGQYLLGENDF------------TSFR 156
Query: 168 RLVTHAGVTSAWQNV-QFNDSHHN-ICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEI 225
H S W+NV N + H +I++ F+ H +R I L VG+G +KPE
Sbjct: 157 --AVHCQSRSPWRNVMHLNVTRHGRYVVIDIKANAFVHHMVRNITGSLIAVGRGEQKPEW 214
Query: 226 IQQLV 230
IQ L+
Sbjct: 215 IQWLL 219
>sp|Q9KTA4|TRUA_VIBCH tRNA pseudouridine synthase A OS=Vibrio cholerae serotype O1
(strain ATCC 39315 / El Tor Inaba N16961) GN=truA PE=3
SV=1
Length = 264
Score = 94.0 bits (232), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 75/245 (30%), Positives = 107/245 (43%), Gaps = 46/245 (18%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
IAL I Y G +Y+G+Q Q ++ L KAL K C GRTD+GV
Sbjct: 3 IALGIEYDGTHYYGWQRQREV-KSVQEALEKALSKIA----NHPVEVQCAGRTDAGVHGT 57
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
QVV ++ + + N NLP+DI V VP+++ ARF R
Sbjct: 58 GQVVHFDT---------TAERQMVAWTMGANANLPKDIAVRWAMAVPDEFHARFSATARR 108
Query: 124 YKY------WFP----------QAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFR 167
Y+Y + P LD++ M +A QYL+G +DF +FR
Sbjct: 109 YRYVIYNHVYRPGILNSGVSHYHGELDVEKMQQAGQYLLGENDF------------TSFR 156
Query: 168 RLVTHAGVTSAWQNV-QFNDSHHN-ICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEI 225
H S W+NV N + H +I++ F+ H +R I L VG+G +KPE
Sbjct: 157 --AVHCQSRSPWRNVMHLNVTRHGRYVVIDIKANAFVHHMVRNITGSLIAVGRGEQKPEW 214
Query: 226 IQQLV 230
IQ L+
Sbjct: 215 IQWLL 219
>sp|A5F2T4|TRUA_VIBC3 tRNA pseudouridine synthase A OS=Vibrio cholerae serotype O1
(strain ATCC 39541 / Ogawa 395 / O395) GN=truA PE=3 SV=1
Length = 264
Score = 94.0 bits (232), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 75/245 (30%), Positives = 107/245 (43%), Gaps = 46/245 (18%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
IAL I Y G +Y+G+Q Q ++ L KAL K C GRTD+GV
Sbjct: 3 IALGIEYDGTHYYGWQRQREV-KSVQEALEKALSKIA----NHPVEVQCAGRTDAGVHGT 57
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
QVV ++ + + N NLP+DI V VP+++ ARF R
Sbjct: 58 GQVVHFDT---------TAERQMVAWTMGANANLPKDIAVRWAMAVPDEFHARFSATARR 108
Query: 124 YKY------WFP----------QAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFR 167
Y+Y + P LD++ M +A QYL+G +DF +FR
Sbjct: 109 YRYVIYNHVYRPGILNSGVSHYHGELDVEKMQQAGQYLLGENDF------------TSFR 156
Query: 168 RLVTHAGVTSAWQNV-QFNDSHHN-ICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEI 225
H S W+NV N + H +I++ F+ H +R I L VG+G +KPE
Sbjct: 157 --AVHCQSRSPWRNVMHLNVTRHGRYVVIDIKANAFVHHMVRNITGSLIAVGRGEQKPEW 214
Query: 226 IQQLV 230
IQ L+
Sbjct: 215 IQWLL 219
>sp|B7VL84|TRUA_VIBSL tRNA pseudouridine synthase A OS=Vibrio splendidus (strain LGP32)
GN=truA PE=3 SV=1
Length = 264
Score = 93.6 bits (231), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 78/271 (28%), Positives = 114/271 (42%), Gaps = 48/271 (17%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
IAL I Y G +Y G+Q Q + + + L+K + C GRTD+GV
Sbjct: 3 IALGIEYNGTHYFGWQRQRDVKS-----VQEELEKALSVVANHPVEVMCAGRTDAGVHGT 57
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
QVV + D + + N N+P+DI V + V E + ARF R
Sbjct: 58 GQVVHFET---------NVDRKMVAWTMGANANMPKDIAVRWATEVNEDFHARFSATARR 108
Query: 124 YKYWF----------------PQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFR 167
Y+Y LD MH+A QYL+G +DF +FR
Sbjct: 109 YRYIIFNHALRPGILNSGVSHYHGHLDEKKMHEAGQYLLGENDF------------TSFR 156
Query: 168 RLVTHAGVTSAWQN-VQFNDSHH-NICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEI 225
TH S W+N + N + H + +I++ F+ H +R I L VG+G++KPE
Sbjct: 157 --ATHCQSRSPWRNMIHLNVTRHGHYIVIDIKANAFVHHMVRNITGSLIAVGKGDQKPEW 214
Query: 226 IQQLVDIEKYPRKPVYPMVRGEPLNLYHTEF 256
IQ L +E RK + E L L ++
Sbjct: 215 IQWL--LEAKDRKVAGATAKAEGLYLVDVDY 243
>sp|Q7M7J4|TRUA_VIBVY tRNA pseudouridine synthase A OS=Vibrio vulnificus (strain YJ016)
GN=truA PE=3 SV=1
Length = 264
Score = 93.6 bits (231), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 82/276 (29%), Positives = 116/276 (42%), Gaps = 52/276 (18%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
IAL I Y G +Y G+Q Q ++ L KAL K C GRTD+GV
Sbjct: 3 IALGIEYNGTDYFGWQRQREV-ASVQEKLEKALSKVA----NHPVEVQCAGRTDAGVHGT 57
Query: 64 CQVVTL--KIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLF 121
QVV + K+ + + N NLP+DI V VP+++ ARF
Sbjct: 58 GQVVHFDTNVERKMVA-----------WTMGANANLPKDIAVRWAKAVPDEFHARFSATA 106
Query: 122 RNYKYWF----------------PQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVN 165
R Y+Y LD MH+A QYL+G +DF + + +
Sbjct: 107 RRYRYIIFNHALRPGILGSGVSHYHGELDEKKMHEAGQYLLGENDFTSFRAVQC-QSLSP 165
Query: 166 FRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEI 225
FR ++ H VT H + +I++ F+ H +R I L +VG+G + PE
Sbjct: 166 FRNMI-HLNVT----------RHGHYVVIDIKANAFVHHMVRNITGSLIMVGRGEQDPEW 214
Query: 226 IQQLVDIEKYPRKPVYPMVRGEPLNL----YHTEFD 257
I+ L +E RK P + E L L Y EFD
Sbjct: 215 IKWL--LEAKDRKLAGPTAKAEGLYLVDVDYPEEFD 248
>sp|Q8CWK3|TRUA_VIBVU tRNA pseudouridine synthase A OS=Vibrio vulnificus (strain CMCP6)
GN=truA PE=3 SV=1
Length = 264
Score = 93.6 bits (231), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 82/276 (29%), Positives = 116/276 (42%), Gaps = 52/276 (18%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
IAL I Y G +Y G+Q Q ++ L KAL K C GRTD+GV
Sbjct: 3 IALGIEYNGTDYFGWQRQREV-ASVQEKLEKALSKVA----NHPVEVQCAGRTDAGVHGT 57
Query: 64 CQVVTL--KIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLF 121
QVV + K+ + + N NLP+DI V VP+++ ARF
Sbjct: 58 GQVVHFDTNVERKMVA-----------WTMGANANLPKDIAVRWAKAVPDEFHARFSATA 106
Query: 122 RNYKYWF----------------PQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVN 165
R Y+Y LD MH+A QYL+G +DF + + +
Sbjct: 107 RRYRYIIFNHALRPGILGSGVSHYHGELDEKKMHEAGQYLLGENDFTSFRAVQC-QSLSP 165
Query: 166 FRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEI 225
FR ++ H VT H + +I++ F+ H +R I L +VG+G + PE
Sbjct: 166 FRNMI-HLNVT----------RHGHYVVIDIKANAFVHHMVRNITGSLIMVGRGEQDPEW 214
Query: 226 IQQLVDIEKYPRKPVYPMVRGEPLNL----YHTEFD 257
I+ L +E RK P + E L L Y EFD
Sbjct: 215 IKWL--LEAKDRKLAGPTAKAEGLYLVDVDYPEEFD 248
>sp|B7GJ99|TRUA_ANOFW tRNA pseudouridine synthase A OS=Anoxybacillus flavithermus (strain
DSM 21510 / WK1) GN=truA PE=3 SV=1
Length = 246
Score = 93.2 bits (230), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 80/275 (29%), Positives = 120/275 (43%), Gaps = 46/275 (16%)
Query: 1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGV 60
MR I I Y G N+ G+QIQ T+ L +AL +I + GRTD+ V
Sbjct: 1 MRRIKCTIAYDGTNFAGYQIQ-QQKRTVQGELERAL---SIIHKGQFVRVYASGRTDATV 56
Query: 61 SAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCL 120
A+ QV+ + LT P E + K LN LP D+ V S VP + ARF
Sbjct: 57 HAYGQVIHFD--TPLTIPDER-------WPKALNALLPDDVIVKEASEVPSSFHARFSVK 107
Query: 121 FRNYKY--WFPQAGL-------------DIDAMHKAAQYLVGTHDFRNLC--KMNVGNGV 163
+ Y+Y W + + + AM++A +YL+GTHDF + C K V + V
Sbjct: 108 KKEYRYRVWIGEKNVFLRHYVYHHPYDVSVPAMNEALRYLIGTHDFTSFCSAKTEVDDKV 167
Query: 164 VNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKP 223
R + A V + + F + GFL++ +R I+ + VG+G
Sbjct: 168 ----RTIYEAEVVQEGEELI----------FRLVGNGFLYNMVRIIVGTVLEVGRGERCA 213
Query: 224 EIIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEFDN 258
E I+ + +E+ R G L L+H +DN
Sbjct: 214 EEIKTI--LEQKNRSVAGKTAPGHGLYLWHVSYDN 246
>sp|Q9UZZ3|TRUA_PYRAB tRNA pseudouridine synthase A OS=Pyrococcus abyssi (strain GE5 /
Orsay) GN=truA PE=3 SV=1
Length = 263
Score = 92.4 bits (228), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 69/291 (23%), Positives = 132/291 (45%), Gaps = 32/291 (10%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
+A KI Y G +HGFQ Q + T+ ++KAL + ++ S F RTD GVSA
Sbjct: 3 VAFKIAYDGTRFHGFQRQPNL-RTVEGEIIKALNNSGIM----YSDFKSASRTDRGVSAL 57
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
VV + + ++E M+ N D+ +++ VP+ + RF +
Sbjct: 58 GNVVAI------------TTEDEKALNPMVLNARLEDVWILSAIEVPQDFHPRFWAKSKV 105
Query: 124 YKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQ 183
Y+Y+ P GL+++ + + +Q +G HDF +++ + V + R+
Sbjct: 106 YRYYLPSIGLEVEKVKECSQLFLGVHDFSAFSRVDGRDTVRSIDRIEVF----------- 154
Query: 184 FNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYPM 243
+ I I ++ FLW +R I+ L L G G E I+++++ K+ + P
Sbjct: 155 ---TLGPILIIEIEAKSFLWEMVRRIVKALELCGLGRLSCEEIKEMLE-GKFEKSKKVPP 210
Query: 244 VRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMIK 294
E L L +++ + + ++ + R++ E + + A +L +MI+
Sbjct: 211 APPEGLLLVDIKYEGIEFPLNDKALKKFKREVEERFRQKIMGAYLLWDMIQ 261
>sp|B8I814|TRUA_CLOCE tRNA pseudouridine synthase A OS=Clostridium cellulolyticum (strain
ATCC 35319 / DSM 5812 / JCM 6584 / H10) GN=truA PE=3
SV=1
Length = 245
Score = 91.7 bits (226), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 77/249 (30%), Positives = 106/249 (42%), Gaps = 45/249 (18%)
Query: 1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGV 60
MR I L I Y G NYHG+QIQ ++ T+ + KAL K E C RTD GV
Sbjct: 1 MRKIRLTIEYDGTNYHGWQIQKNA-KTVQEVIQKALSKLL----GEDVGVTGCSRTDVGV 55
Query: 61 SAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCL 120
A+ QV SK+ PG++ + +NN LP DI + VPE++ AR+
Sbjct: 56 HAYGQVAHFLTDSKI--PGDK-------FSYAINNLLPDDIVIKNSEEVPEEFHARYSAK 106
Query: 121 FRNYKYWF---PQAG-------------LDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVV 164
+ Y+Y P A L++ M KAA Y G HDF L G V
Sbjct: 107 GKKYRYLIYNSPHASAIMRNRSCHVRPELNVAEMQKAAGYFKGEHDF--LAFQATGGQVR 164
Query: 165 NFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQG----N 220
+ R + ++ N+ + GFL++ +R I L VG G +
Sbjct: 165 STVREI---------YGMEVYVKEDNMISIEVSGNGFLYNMVRIIAGTLIYVGMGKLHES 215
Query: 221 EKPEIIQQL 229
E P II L
Sbjct: 216 EIPGIIAGL 224
>sp|A8FTU0|TRUA_SHESH tRNA pseudouridine synthase A OS=Shewanella sediminis (strain
HAW-EB3) GN=truA PE=3 SV=1
Length = 261
Score = 91.3 bits (225), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 77/249 (30%), Positives = 112/249 (44%), Gaps = 48/249 (19%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
+AL I Y G Y G+Q Q D+ A L +AL K E C GRTD+GV A
Sbjct: 3 VALGIEYDGRQYFGWQRQAEVDSVQAQ-LERALSKVA----NEPIRVHCAGRTDAGVHAT 57
Query: 64 CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
QVV + + + + +N NLP DI V V +++ ARF R
Sbjct: 58 GQVVHFETNAI---------RKDSAWTLGVNVNLPDDIAVRWVKIVDDEFHARFSATARR 108
Query: 124 YKYWFP----------------QAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFR 167
Y+Y + +D D MH+AAQ VG HDF +FR
Sbjct: 109 YRYMIYNYDFRPGILRSGVSHYRGNIDADIMHQAAQQFVGEHDF------------TSFR 156
Query: 168 RLVTHAGVTSAWQNV-QFNDSHHN--ICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPE 224
L H + +++V + N + IC +I++ FL H +R I+ L +G GN++PE
Sbjct: 157 AL--HCQSKTPFRSVHEVNVTRQGMYIC-VDIKANAFLHHMVRNIVGTLLEIGLGNQRPE 213
Query: 225 IIQQLVDIE 233
I QL+D++
Sbjct: 214 WIPQLLDLK 222
>sp|B5FFN7|TRUA_VIBFM tRNA pseudouridine synthase A OS=Vibrio fischeri (strain MJ11)
GN=truA PE=3 SV=1
Length = 262
Score = 91.3 bits (225), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 85/291 (29%), Positives = 120/291 (41%), Gaps = 53/291 (18%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
IAL I Y G Y+G+Q Q N++ L KAL I E C GRTD+GV
Sbjct: 3 IALCIEYDGAEYYGWQRQRDV-NSVQEELEKALT----IVANEPIEVHCAGRTDAGVHGT 57
Query: 64 CQVVTLKIRS--KLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLF 121
QVV S KL + ++ N NLP++I V V E + ARF
Sbjct: 58 GQVVHFDTTSSRKLAA-----------WMMGANANLPKNIAVRWAKEVNEDFHARFTATA 106
Query: 122 RNYKYWFP----------------QAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVN 165
R Y+Y LD + MH+A QYL+G +DF +
Sbjct: 107 RRYRYIIYNNRLRPAILGHGVSHYHDALDANLMHEAGQYLLGENDF------------TS 154
Query: 166 FRRLVTHAGVTSAWQNVQF--NDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKP 223
FR H S W+N+ H + +I++ F+ H +R I L VG+G +KP
Sbjct: 155 FR--AVHCQSRSPWRNLMHLKVTRHGDFIVIDIKANAFVHHMVRNITGSLIEVGKGKQKP 212
Query: 224 EIIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRD 274
E I+ L +E RK + E L L ++ L W + + + D
Sbjct: 213 EWIKWL--LEAKDRKLAGATAKAEGLYLVDVDYP-LEWELPRVPLGPLFLD 260
>sp|Q5E455|TRUA_VIBF1 tRNA pseudouridine synthase A OS=Vibrio fischeri (strain ATCC
700601 / ES114) GN=truA PE=3 SV=1
Length = 262
Score = 91.3 bits (225), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 85/291 (29%), Positives = 120/291 (41%), Gaps = 53/291 (18%)
Query: 4 IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
IAL I Y G Y+G+Q Q N++ L KAL I E C GRTD+GV
Sbjct: 3 IALCIEYDGAEYYGWQRQRDV-NSVQEELEKALT----IVANEPIEVHCAGRTDAGVHGT 57
Query: 64 CQVVTLKIRS--KLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLF 121
QVV S KL + ++ N NLP++I V V E + ARF
Sbjct: 58 GQVVHFDTTSSRKLAA-----------WMMGANANLPKNIAVRWAKEVNEDFHARFTATA 106
Query: 122 RNYKYWFP----------------QAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVN 165
R Y+Y LD + MH+A QYL+G +DF +
Sbjct: 107 RRYRYIIYNNRLRPAILGHGVSHYHDALDANLMHEAGQYLLGENDF------------TS 154
Query: 166 FRRLVTHAGVTSAWQNVQF--NDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKP 223
FR H S W+N+ H + +I++ F+ H +R I L VG+G +KP
Sbjct: 155 FR--AVHCQSRSPWRNLMHLKVTRHGDFIVIDIKANAFVHHMVRNITGSLIEVGKGKQKP 212
Query: 224 EIIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRD 274
E I+ L +E RK + E L L ++ L W + + + D
Sbjct: 213 EWIKWL--LEAKDRKLAGATAKAEGLYLVDVDYP-LEWELPRVPLGPLFLD 260
>sp|A8F9B7|TRUA_BACP2 tRNA pseudouridine synthase A OS=Bacillus pumilus (strain SAFR-032)
GN=truA PE=3 SV=1
Length = 247
Score = 91.3 bits (225), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 74/240 (30%), Positives = 109/240 (45%), Gaps = 42/240 (17%)
Query: 8 ILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVV 67
+ Y G ++ G+Q+Q T+ + AL K + + E GRTDSGV A QV+
Sbjct: 7 VSYDGTHFKGYQVQ-PGQRTVQTEIESALAK--MHKQDELVPIVASGRTDSGVHAKGQVI 63
Query: 68 TLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKY- 126
+ L+ P E P+ LN+ LP DI+V+ V E + ARF + + Y+Y
Sbjct: 64 HFD--TPLSIPMER-----WPF--ALNSLLPDDIRVLKAEEVDESFHARFSVVSKEYRYK 114
Query: 127 ----------------WFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLV 170
FP LD D M +AA YL+GTHDF + C N V + R +
Sbjct: 115 VSTETHQNVFTRQYACHFPYR-LDADKMREAAGYLIGTHDFTSFCAAN--TEVQDKVREI 171
Query: 171 THAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLV 230
T W+NV + E +R GFL++ +R I L VG G P+ I+ ++
Sbjct: 172 ----YTLEWKNVS------DGLEMRVRGNGFLYNMVRIIAGTLLEVGSGKFHPDEIKAML 221
>sp|Q8R7Y7|TRUA_THETN tRNA pseudouridine synthase A OS=Thermoanaerobacter tengcongensis
(strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4)
GN=truA PE=3 SV=1
Length = 240
Score = 91.3 bits (225), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 75/242 (30%), Positives = 109/242 (45%), Gaps = 46/242 (19%)
Query: 6 LKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQ 65
L I Y G NYHG+Q Q ++ T+ L KA++K EK + RTD+GV A Q
Sbjct: 2 LIIEYDGTNYHGWQYQKNAI-TVQEVLEKAIEKVT----GEKVNLIGSSRTDTGVHALYQ 56
Query: 66 VVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYK 125
V K ++K+ P E+ LPY LN LP D+ VV V + + AR+ + Y+
Sbjct: 57 VANFKTKTKI--PPEK-----LPY--ALNAVLPDDVVVVKAKEVDKSFHARYSARSKRYR 107
Query: 126 Y----------------WFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRL 169
Y W LD++AM KAA + GTHDF GN VN +
Sbjct: 108 YLILNRQFPMPTMRNYCWHVPYPLDVEAMKKAAFFFRGTHDFSAFKAS--GNKKVNPVKT 165
Query: 170 VTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQG----NEKPEI 225
+ V + ++ + + + GFL++ +R I+ L VG G E P I
Sbjct: 166 IFDLTV----------EKEGDLIKIEVEADGFLYNMVRIIVGTLVYVGLGKIKAGEIPAI 215
Query: 226 IQ 227
I+
Sbjct: 216 IE 217
>sp|Q2RFT1|TRUA_MOOTA tRNA pseudouridine synthase A OS=Moorella thermoacetica (strain
ATCC 39073) GN=truA PE=3 SV=1
Length = 246
Score = 90.9 bits (224), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 75/270 (27%), Positives = 120/270 (44%), Gaps = 44/270 (16%)
Query: 4 IALKILYQGFNYHGFQIQTSSDN-TIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSA 62
+ + + Y G NY G+Q+Q + T+ + AL++ E+ + GRTD+GV A
Sbjct: 4 LKITLAYDGSNYAGWQVQPEAHGPTVQGEVAAALKRL----TGEEITPVAAGRTDAGVHA 59
Query: 63 FCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFR 122
QV++ R+++ P E + LN+ LP DI + V + AR+ +
Sbjct: 60 RGQVISFSTRARI--PVER-------WPLALNSVLPADIAALEAVEVAPDFHARYCAKRK 110
Query: 123 NYKY----------------WFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNF 166
Y+Y W + LD+ AM +AA YL G HDFR+ C G+ V +F
Sbjct: 111 WYRYTIYNNRVPDVFCRRYSWHLRQPLDVIAMARAAAYLQGCHDFRSFCA--AGSPVRHF 168
Query: 167 RRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEII 226
R V A V+ QN F F++ + GFL+H +R ++ L +G+ PE I
Sbjct: 169 ERQVQQASVS---QNGPF-------IYFDVIADGFLYHMVRIMVGTLVEIGRRRLVPEAI 218
Query: 227 QQLVDIEKYPRKPVYPMVRGEPLNLYHTEF 256
++ R+ P L L E+
Sbjct: 219 PAILAARS--REKAGPTAPARGLCLERVEY 246
>sp|Q5WLN0|TRUA_BACSK tRNA pseudouridine synthase A OS=Bacillus clausii (strain KSM-K16)
GN=truA PE=3 SV=1
Length = 261
Score = 90.5 bits (223), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 67/236 (28%), Positives = 105/236 (44%), Gaps = 41/236 (17%)
Query: 1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGV 60
M +A K+ Y G + G+Q+Q T+ + +ALQ+ I + GRTD+GV
Sbjct: 1 MSRMACKLSYDGTAFAGYQVQ-PGKRTVQSEVERALQE---IHKGARVPVVASGRTDAGV 56
Query: 61 SAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCL 120
A QV L ++LT E ++ LN +LP DI V + V + AR+
Sbjct: 57 HACGQV--LHFDTELTIAPER-------WVSALNTHLPDDIVVTNAAMVEPDFHARYGAQ 107
Query: 121 FRNYKYWFP----------------QAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVV 164
+ Y+Y+ + LD+ AM AA++L+GTHDF C N V
Sbjct: 108 AKEYRYYIQCGPFENVFRRHFAVHIKQALDVPAMQTAAKHLLGTHDFSAFCAAN--TTVT 165
Query: 165 NFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGN 220
+ R +TH V + + + +IR GFL++ +R I+ L +G G
Sbjct: 166 DKVRTITHVAVQPSEEGLL----------ISIRGTGFLYNMVRIIVGTLLEIGTGK 211
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
Lambda K H
0.322 0.137 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 129,598,910
Number of Sequences: 539616
Number of extensions: 5512490
Number of successful extensions: 13670
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 326
Number of HSP's successfully gapped in prelim test: 355
Number of HSP's that attempted gapping in prelim test: 11547
Number of HSP's gapped (non-prelim): 756
length of query: 335
length of database: 191,569,459
effective HSP length: 118
effective length of query: 217
effective length of database: 127,894,771
effective search space: 27753165307
effective search space used: 27753165307
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 61 (28.1 bits)