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= 015260
(410 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 = 275 bits (703), Expect = 4e-73, Method: Compositional matrix adjust.
Identities = 149/340 (43%), Positives = 215/340 (63%), Gaps = 16/340 (4%)
Query: 27 EADNAKLLSKLSLCRCEKIEDKVHDGVEDGTTLVEENRKTESGGCKTGKKKVKEKMSGTL 86
E D ++ ++ L R +++E +V ++ + N + S G K K +
Sbjct: 3 ENDVDRIQTEKLLKRVQELEQEVKRLKKEQANNKDSNIRENSSGAGG-----KPKRAFDF 57
Query: 87 NHHFKRYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGR 146
+ H +R+VALK+ Y G + GFAS N T+E ++F+AL KTRL V +++ S+Y RCGR
Sbjct: 58 SAHGQRHVALKIAYLGWGYQGFASQENTSNTIEEKLFEALTKTRL-VENRQTSNYHRCGR 116
Query: 147 TDKGVSSVGQVIAIYLRSNI-KECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRV 205
TDKGVS+ GQVI++ LRS+I K ++ + ++ V + + EI Y +LNRVLP DIRV
Sbjct: 117 TDKGVSAFGQVISLDLRSHIPKGRDSEHFNLKNEVND--VATEIRYTHILNRVLPPDIRV 174
Query: 206 IGWSPAPTDFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAAN-V 264
+ W+P T FSARFSC+ R Y+YFF R NL++ M A +K+VG HDFRN CKMD AN V
Sbjct: 175 LAWAPVETSFSARFSCLERTYRYFFPRANLDIVTMNYAAQKYVGTHDFRNLCKMDVANGV 234
Query: 265 HNYKRHVTSFEISPCYISF------EGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLE 318
N++R + S ++ + E QLC ++ G AFL+HQVRCM+AVLF+IGQG+E
Sbjct: 235 INFQRTILSAQVQRVGQNLGEEGWQEPFQLCQFEVTGQAFLYHQVRCMMAVLFLIGQGME 294
Query: 319 SIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDFDGLKF 358
+VI+ LL+ P+KPQY+MA E PLVL C F+ +K+
Sbjct: 295 KPEVIDELLNIEKNPQKPQYSMAVEFPLVLYDCKFENIKW 334
>sp|Q9JI38|PUS3_MOUSE tRNA pseudouridine(38/39) synthase OS=Mus musculus GN=Pus3 PE=1
SV=2
Length = 481
Score = 271 bits (692), Expect = 9e-72, Method: Compositional matrix adjust.
Identities = 153/355 (43%), Positives = 215/355 (60%), Gaps = 35/355 (9%)
Query: 13 QSQLEALQNRVKELEADNAKLLSKLSLCRCEKIEDKVHDGVEDGTTLVEENRKTESGGCK 72
++Q+E L NRVKELE + +L K + + + ++D + + EN
Sbjct: 7 RNQIEKLLNRVKELEQEVERL----------KKKKEQANNIKDSS--IREN------SLG 48
Query: 73 TGKKKVKEKMSGTLNHHFKRYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLL 132
+GK K S H +R+VALK+ Y G + GFAS N T+E ++F+AL KTRL
Sbjct: 49 SGKAKRAFDFSA----HGRRHVALKIAYLGWGYQGFASQENTSNTIEEKLFEALTKTRL- 103
Query: 133 VADKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECNTNNASMGETVQEE--QIEDEID 190
V ++ S+Y RCGRTDKGVS+ GQVI++ LRS T+ S ++ E + EI
Sbjct: 104 VESRQTSNYHRCGRTDKGVSAFGQVISLDLRSQFP---TSRDSEDSNLKHEADDLAKEIR 160
Query: 191 YVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGE 250
Y +LNRVLP DIRV+ W+P FSARFSC+ R Y+YFF R +L+++ M A +K+VG
Sbjct: 161 YTHILNRVLPADIRVLAWAPVEPSFSARFSCLERTYRYFFPRADLDIATMNYAAQKYVGT 220
Query: 251 HDFRNFCKMDAAN-VHNYKRHVTSFEISPCYISF------EGNQLCAIKIRGSAFLWHQV 303
HDFRN CKMD AN V N++R + ++ S E QLC ++ G AFL+HQV
Sbjct: 221 HDFRNLCKMDVANGVINFQRTILCAQVQLVAQSPGEERRQEPFQLCQFEVIGQAFLYHQV 280
Query: 304 RCMVAVLFMIGQGLESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDFDGLKF 358
RCM+A+LF+IGQG+E ++I+ LL+ P+KPQY+MA E PLVL C F+ K+
Sbjct: 281 RCMMAILFLIGQGMEKPEIIDELLNIQKNPQKPQYSMAVEFPLVLYDCKFENTKW 335
>sp|Q9BZE2|PUS3_HUMAN tRNA pseudouridine(38/39) synthase OS=Homo sapiens GN=PUS3 PE=1
SV=3
Length = 481
Score = 267 bits (683), Expect = 1e-70, Method: Compositional matrix adjust.
Identities = 156/397 (39%), Positives = 233/397 (58%), Gaps = 35/397 (8%)
Query: 13 QSQLEALQNRVKELEADNAKLLSKLSLCRCEKIEDKVHDGVEDGTTLVEENRKTESGGCK 72
++Q E L RV+ELE + +L + E+ ++K ED R+ +G K
Sbjct: 8 RNQTEKLLKRVRELEQEVQRL-------KKEQAKNK-----EDSNI-----RENSAGAGK 50
Query: 73 TGKKKVKEKMSGTLNHHFKRYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLL 132
T K + + H +R+VAL++ Y G + GFAS N T+E ++F+AL KTRL
Sbjct: 51 T-------KRAFDFSAHGRRHVALRIAYMGWGYQGFASQENTNNTIEEKLFEALTKTRL- 102
Query: 133 VADKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYV 192
V ++ S+Y RCGRTDKGVS+ GQVI++ LRS ++ + +EI Y
Sbjct: 103 VESRQTSNYHRCGRTDKGVSAFGQVISLDLRSQFPR-GRDSEDFNVKEEANAAAEEIRYT 161
Query: 193 RVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHD 252
+LNRVLP DIR++ W+P FSARFSC+ R Y+YFF R +L++ M+ A +K+VG HD
Sbjct: 162 HILNRVLPPDIRILAWAPVEPSFSARFSCLERTYRYFFPRADLDIVTMDYAAQKYVGTHD 221
Query: 253 FRNFCKMDAAN-VHNYKRHVTSFEI-----SPCYISF-EGNQLCAIKIRGSAFLWHQVRC 305
FRN CKMD AN V N++R + S ++ SP + E QLC ++ G AFL+HQVRC
Sbjct: 222 FRNLCKMDVANGVINFQRTILSAQVQLVGQSPGEGRWQEPFQLCQFEVTGQAFLYHQVRC 281
Query: 306 MVAVLFMIGQGLESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDFDGLKFTCSLDAG 365
M+A+LF+IGQG+E ++I+ LL+ P+KPQY+MA E PLVL C F+ +K+ +A
Sbjct: 282 MMAILFLIGQGMEKPEIIDELLNIEKNPQKPQYSMAVEFPLVLYDCKFENVKWIYDQEAQ 341
Query: 366 HDLRLHLRNECQVYQLQAAIFHEAL--LNCLPLANGL 400
HL+ + ++ + + L L+ +P+ G+
Sbjct: 342 EFNITHLQQLWANHAVKTHMLYSMLQGLDTVPVPCGI 378
>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 = 225 bits (573), Expect = 5e-58, Method: Compositional matrix adjust.
Identities = 140/374 (37%), Positives = 207/374 (55%), Gaps = 53/374 (14%)
Query: 60 VEENRK---TESGGCKTGKKKVKEKMSGTLNHHFKRYVALKVMYFGQRFYGFASDGNMEP 116
+E+N+K ++ ++ KK +K + H R++AL+ Y G + G A P
Sbjct: 59 IEDNKKRKISQEEVTRSKAKKAPKKFD--FSKHNTRFIALRFAYLGWNYNGLAVQKEYTP 116
Query: 117 --TVESEIFKALEKTRLLVADKKESH-YSRCGRTDKGVSSVGQVIAIYLRSNIKECNTNN 173
TVE I +A+ K +L+ + + + +SRCGRTDKGVS++ QVI++ +RSN
Sbjct: 117 LPTVEGTILEAMNKCKLVPSMVLQDYKFSRCGRTDKGVSAMNQVISLEVRSN-------- 168
Query: 174 ASMGETVQEEQIED--EIDYVRVLNRVLPKDIRV--IGWSPAPTDFSARFSCISREYKYF 229
+ + Q + D EI YV VLN++LP DIR+ + P P +F ARFSC+ R YKY
Sbjct: 169 --LTDEEQRDPTNDSREIPYVHVLNQLLPDDIRISAVCLRPPP-NFDARFSCVHRHYKYI 225
Query: 230 FWRENLNLSAMESAGKKFVGEHDFRNFCKMDAA-NVHNYKRHVTSFEISPCYISFEGNQL 288
F +NLN+ M A FVGE DFRNFCK+D + + N+KR + S +I P +F L
Sbjct: 226 FNGKNLNIEKMSKAASYFVGERDFRNFCKLDGSKQITNFKRTIISSKILPLSETFYCFDL 285
Query: 289 CAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGIPRKPQYNMAPEIPLVL 348
GSAFLWHQVRCM+A+LF++GQ LE +++ L D P++P Y MA +IPL+L
Sbjct: 286 V-----GSAFLWHQVRCMMAILFLVGQSLEVPEIVLRLTDIEKTPQRPVYEMANDIPLLL 340
Query: 349 QSC-------------DFDGLKFTCSLDAGHDLRLHLRNECQVYQLQAAIFHEALLNCLP 395
C D+ +KFT + +A L LH Y+L+AA+ + + LP
Sbjct: 341 YDCKFPEMDWQEPTVDDYKAIKFTTATEA---LTLH-------YELKAAVCN-IFKDVLP 389
Query: 396 LANGLEIGSSLIHL 409
AN ++I+L
Sbjct: 390 TANTNNFSKTIINL 403
>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 = 219 bits (558), Expect = 3e-56, Method: Compositional matrix adjust.
Identities = 118/279 (42%), Positives = 165/279 (59%), Gaps = 30/279 (10%)
Query: 93 YVALKVMYFGQRFYGFAS--DGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKG 150
+VA K Y G + G A + PTVE ++F+AL + L + D +SRCGRTDKG
Sbjct: 93 FVAFKFAYCGWNYNGLAYQLEPTPLPTVEGKVFEALLRAHL-ITDPSSCSFSRCGRTDKG 151
Query: 151 VSSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSP 210
VS++GQVI++ +R + + I Y VLNR+LP DIR+ G++
Sbjct: 152 VSAMGQVISLNVRHSERR-------------------PIIYCDVLNRLLPADIRITGYAF 192
Query: 211 APTDFSARFSCISREYKYFFWRE----NLNLSAMESAGKKFVGEHDFRNFCKMDAA-NVH 265
P F ARFSC R YKY F ++ +L++ M A ++GEHDFRNFCK+DA+ +
Sbjct: 193 PPEGFDARFSCKQRHYKYLFTKDYPGGSLDIDRMNEAAALYLGEHDFRNFCKIDASKQIT 252
Query: 266 NYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIES 325
NY R + S ++ C G L A ++G+AFLWHQVRCM+A+LF+IGQ LE +I
Sbjct: 253 NYHRRILSSKVI-CIDPSTG--LYAFDLQGTAFLWHQVRCMMAILFLIGQKLEPASLIND 309
Query: 326 LLDTNGIPRKPQYNMAPEIPLVLQSCDFDGLKFTCSLDA 364
LLD +P KP Y+MA E PL+L CDFD +++T D+
Sbjct: 310 LLDIKKVPTKPIYDMASEYPLILYDCDFDNIEWTLPTDS 348
>sp|Q09524|TG124_CAEEL Probable tRNA pseudouridine synthase tag-124 OS=Caenorhabditis
elegans GN=tag-124 PE=3 SV=1
Length = 402
Score = 187 bits (474), Expect = 2e-46, Method: Compositional matrix adjust.
Identities = 109/297 (36%), Positives = 156/297 (52%), Gaps = 18/297 (6%)
Query: 71 CKTGKKKVKEKMSGTLNH--HFKRYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEK 128
C VK K + TL+ H +R +A++ Y G G + + TVE+ I +AL K
Sbjct: 7 CPDANNSVKSKKAKTLDFLAHPRRKIAIQFFYLGWEHDGLVQQPHTQNTVENHIMQALIK 66
Query: 129 TRLLVADKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECNTNNASM-GETVQEEQIED 187
T L + D + +SRCGRTDKGVS+ Q A+ +RS C ++ ++ QE Q D
Sbjct: 67 THL-IEDWTKCDFSRCGRTDKGVSAFKQTAAMVVRS---LCPGDSGVFWSDSTQEHQKVD 122
Query: 188 ------EIDYVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWRENLNLSAME 241
E+ YV++LN VLPK IRV W+P F+ARF C R YKY F + +LNL M
Sbjct: 123 YKASGEELPYVKMLNGVLPKTIRVFAWAPVAQTFNARFDCNRRTYKYSFAKADLNLEKMR 182
Query: 242 SAGKKFVGEHDFRNFCKMDAAN---VHNYKRHVTSFEISPCYISFEGN--QLCAIKIRGS 296
+ VGEHDF NFC++D + +Y R V ++ E + + + + GS
Sbjct: 183 QGAELLVGEHDFSNFCQIDMNEKRLLQSYVRKVYEVKVEQVSTHPENDMYSMVELTVSGS 242
Query: 297 AFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDF 353
FLWH +R +V +L IG+ E +I LLD P +PQY +A + PL L C +
Sbjct: 243 GFLWHMIRYIVTILQEIGRENEQPSLISQLLDLKKYPSRPQYTLASDTPLCLFDCGY 299
>sp|Q2NHB4|TRUA_METST tRNA pseudouridine synthase A OS=Methanosphaera stadtmanae (strain
DSM 3091) GN=truA PE=3 SV=1
Length = 274
Score = 130 bits (326), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 92/294 (31%), Positives = 141/294 (47%), Gaps = 41/294 (13%)
Query: 92 RYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGV 151
R VALK+ Y G F+G+ N TVE E+ + ++T + + D +HYS GRTDKGV
Sbjct: 2 RRVALKIAYIGSNFHGYQRQPNYR-TVEGELLRVFKETNI-IEDTWTAHYSVAGRTDKGV 59
Query: 152 SSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPA 211
S G VI+ I DE ++ LN +LP DI++IG +
Sbjct: 60 HSTGNVISF------------------------ITDEDIHINQLNGLLPDDIKIIGEARV 95
Query: 212 PTDFSARFSCISREYKYF-----FWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHN 266
P F RF ++R Y Y F ++NL+++ M A + F+G+H+FRNF K + N N
Sbjct: 96 PYGFKVRFP-LTRTYTYIQPISPFEKKNLDITKMHVAMESFIGKHNFRNFSKRNEKN-PN 153
Query: 267 YKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESL 326
K + E+ + F I G +FLW+ VR MV + +G G I+ I L
Sbjct: 154 RKIIDVNLEVDEDVLIFT--------IVGESFLWNMVRKMVTSIMEVGYGKLDINDINEL 205
Query: 327 LDTNGIPRKPQYNMAPEIPLVLQSCDFDGLKFTCSLDAGHDLRLHLRNECQVYQ 380
L + + + AP L+L ++ +KF S A + L L+ E +++
Sbjct: 206 LKPKELRQFIRLQPAPANGLILSDMEYKNIKFKDSEYAKNKLVEFLKKEYMLHE 259
>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 = 126 bits (316), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 83/300 (27%), Positives = 146/300 (48%), Gaps = 36/300 (12%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
+ALK+ Y G +FYGF ++ TVE E+ K L+K + + D KE+++ RTD+GVS+
Sbjct: 3 IALKIAYDGTKFYGFQRQPDLR-TVEGELIKVLKKLGI-IEDVKEANFKGASRTDRGVSA 60
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPT 213
+G VIA NT + E R+LN L +DI ++G + P
Sbjct: 61 LGNVIAF---------NTAKPELAEA-------------RILNHHL-RDIWILGKAEVPE 97
Query: 214 DFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTS 273
DF RF ++ Y+Y+ + E +++ +++ + F+G HDF NF +++ R +
Sbjct: 98 DFHPRFWAKNKIYRYYLFDEGIDVIKLKACAEAFLGRHDFSNFARLE--EFRKPVREINR 155
Query: 274 FEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGIP 333
++ F ++ ++I G +FLW R ++ L + G G+ SI +E +L
Sbjct: 156 IDV------FSRGRIIVVEIEGKSFLWEMTRRIITALKLCGLGVLSIGDVELMLKEKVDK 209
Query: 334 RKPQYNMAPEIPLVLQSCDFDGLKFTCSLDAGHDLRLHLRNECQVYQLQAAIFHEALLNC 393
+ P AP LVL ++G+KF A ++ + Y ++AI + L++
Sbjct: 210 KLPP---APPENLVLWEVGYEGIKFEVDAYAIEKVKREFLERFRKYLTKSAILEDWLISL 266
>sp|A0B7V0|TRUA_METTP tRNA pseudouridine synthase A OS=Methanosaeta thermophila (strain
DSM 6194 / PT) GN=truA PE=3 SV=1
Length = 267
Score = 125 bits (314), Expect = 6e-28, Method: Compositional matrix adjust.
Identities = 85/249 (34%), Positives = 124/249 (49%), Gaps = 45/249 (18%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
+ALK+ Y G R+YGF + TVES + AL R+ VA+ + GRTD+GVS+
Sbjct: 3 IALKIAYLGDRYYGFQRQPGLR-TVESVMRDAL--LRIGVAN---GDFCYAGRTDRGVSA 56
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPT 213
+GQVI ++ E+ + + RV+N +LP D+ + AP
Sbjct: 57 LGQVIDFWI--------------------EEDRAYLAFPRVINSLLPSDVWAWARAVAPV 96
Query: 214 DFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTS 273
FSAR+S + REY+YF + +++LSA+ A VG HDFRNF + V +R
Sbjct: 97 GFSARWSALWREYRYFLFSPDIDLSAVREAAGHLVGTHDFRNFSM---SKVDTVRR---- 149
Query: 274 FEISPCYISFEGNQLCAI---KIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTN 330
IS + N C I +R F+W+ VR +V L +IG G + +D I LLD +
Sbjct: 150 ------IISIDVNAHCGIVVFDVRAEGFIWNMVRRIVGALELIGIGEKPVDWILELLDPS 203
Query: 331 ---GIPRKP 336
G P P
Sbjct: 204 TPHGAPTAP 212
>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 = 124 bits (310), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 91/289 (31%), Positives = 136/289 (47%), Gaps = 46/289 (15%)
Query: 94 VALKVMYFGQRFYGFASDGNMEP---TVESEIFKALEKTRLLVADKKESHYSRCGRTDKG 150
+A + YFG RF+G M+P TVE E A RL D +E++++ GRTD+G
Sbjct: 3 LAFRFSYFGDRFFG----SQMQPDLCTVEGEFIGACRLLRLF-DDWREANFATAGRTDRG 57
Query: 151 VSSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSP 210
V + QV + T + E+ + LNRVLP DI GW+
Sbjct: 58 VHARSQVCSFL-----------------TDKPERA------IEALNRVLPADIWCTGWAE 94
Query: 211 APTDFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRH 270
AP F R+S +SR Y+Y+F + +AM A ++F+G HDF F + A N +R
Sbjct: 95 APDGFHPRYSAVSRTYRYYFSAPG-DAAAMHEAAQEFLGRHDFSAFAR---AGDRNPERR 150
Query: 271 VTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTN 330
+ + + F + ++ G +FLW+ VRCM +L +G+G I LL T
Sbjct: 151 ILASRV------FIDGEFAVFEVTGESFLWNMVRCMATMLGRVGRGEAEAGEIARLL-TG 203
Query: 331 GIPRKPQYNMAPEIPLVLQSCDFDGLKFT-CSLDAGHDLRLHLRNECQV 378
+ R+ AP L+L D+ G+ FT +DAG L R+ V
Sbjct: 204 PVERR--VAAAPPEGLILWDIDY-GIPFTPLPIDAGSSRHLGDRHRYHV 249
>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 = 116 bits (290), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 81/252 (32%), Positives = 123/252 (48%), Gaps = 36/252 (14%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
VALK+ Y G F+G ++E TVE E+FKAL R+ + K ++Y GRTD GV +
Sbjct: 3 VALKLAYIGTEFHGSQIQPSVE-TVEKELFKALRNLRI-IESPKSANYICAGRTDAGVHA 60
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPT 213
+GQVIA +T+ ++ R++N LP I V + P
Sbjct: 61 LGQVIAF---------DTDRPNLA-------------IPRIINSGLPPTIWVWAHAEVPY 98
Query: 214 DFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTS 273
DF AR +SR Y+Y E ++S M A K +G HDF NF + + K V +
Sbjct: 99 DFDARRHAVSRHYRYVISGEGYDISKMREASKLLLGTHDFENFSRSNGE-----KSTVRT 153
Query: 274 FEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTN--- 330
E + +G+ + I + G++FLW+ VR +V L MIG+G+ D + +L+ +
Sbjct: 154 LE--RINVRVDGD-ITKIDVVGNSFLWNMVRKIVTALSMIGKGVRDNDWLIQMLNPDIYE 210
Query: 331 -GIPRKPQYNMA 341
GI P Y +
Sbjct: 211 EGIEPAPAYGLT 222
>sp|Q0W2P8|TRUA_UNCMA tRNA pseudouridine synthase A OS=Uncultured methanogenic archaeon
RC-I GN=truA PE=3 SV=1
Length = 266
Score = 115 bits (288), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 80/269 (29%), Positives = 123/269 (45%), Gaps = 45/269 (16%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
ALK+ Y G FYG + + PTVESE+ KALE+ + K + + GRTD GV +
Sbjct: 3 TALKIAYVGTNFYGSQAQPGL-PTVESELRKALEEAGAI---KLGTKIAMAGRTDAGVHA 58
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPT 213
+GQV+A EQ + ++ R++N LPKD+ + P
Sbjct: 59 LGQVVAF----------------------EQADPKLTAPRIINSKLPKDLWAYARAEVPD 96
Query: 214 DFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTS 273
DF R SREY+Y + ++ ++ +F+G HDF NF ++A R VT
Sbjct: 97 DFDPRRHATSREYRYILYAPDVIERRLKECSSRFLGTHDFTNFSSVEAGKYP--VRTVTR 154
Query: 274 FEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGIP 333
+I+ + I I +FLW+ VR +V L ++G+ IE + D
Sbjct: 155 LDIA------KRGDFYIIDIEADSFLWNMVRKIVTALRLVGENKRPDGWIEKMFD----- 203
Query: 334 RKPQY--NMAPEIP--LVLQSCDFDGLKF 358
P+Y + P P L L ++DG+ F
Sbjct: 204 --PEYREGIPPAAPGGLYLSRVNYDGIAF 230
>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 = 81/277 (29%), Positives = 131/277 (47%), Gaps = 45/277 (16%)
Query: 92 RYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGV 151
R +ALKV Y G ++GF ++ PTVE ++ +ALE + + D K + + GRTD+GV
Sbjct: 2 RKIALKVAYIGTNYHGFQRQPDV-PTVEGKLLEALEGAGI-IEDPKRARFQIAGRTDRGV 59
Query: 152 SSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPA 211
++G ++ + +I +V +N +LP+DIRV+ W+
Sbjct: 60 HALGNFVSFFTEEDI------------------------HVNQINDLLPRDIRVLAWASV 95
Query: 212 PTDFSARFSCISREYKYFFWRE-NLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRH 270
F R+ + R Y+Y RE +++ +M A F G HDF NF + ++ +R
Sbjct: 96 MYPFKVRYP-LERHYRYILHREESMDTYSMAEAAAHFRGTHDFSNFSR--RSDRDPVRR- 151
Query: 271 VTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTN 330
I+ IS G+ + I + G +FLW VR MV L M+ +G + D + LLDT+
Sbjct: 152 -----INDVRISEVGDSII-IDVYGESFLWQMVRKMVRALLMVSEGELAPDDMAGLLDTD 205
Query: 331 GIPRKPQYNMAPEIPLVLQSCDFDGLKFTCSLDAGHD 367
R+ P L+L LK+ + HD
Sbjct: 206 ---RRVFLEPMPPENLILMD-----LKYGVKIKLRHD 234
>sp|Q12VJ7|TRUA_METBU tRNA pseudouridine synthase A OS=Methanococcoides burtonii (strain
DSM 6242) GN=truA PE=3 SV=1
Length = 275
Score = 112 bits (279), Expect = 7e-24, Method: Compositional matrix adjust.
Identities = 75/237 (31%), Positives = 114/237 (48%), Gaps = 36/237 (15%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
VALK+ Y G F+G N +PTVE E+FK L++ ++ D + +++ GRTD GV +
Sbjct: 3 VALKIAYIGSNFHGSQVQLN-DPTVEGELFKVLKELGIM-EDPRTANFISSGRTDSGVHA 60
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPT 213
+GQV+A + + N +M RV+N LP I + P
Sbjct: 61 MGQVVAF-------DTDAPNLAMP---------------RVINSKLPGTIWAWAHAIVPE 98
Query: 214 DFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAA--NVHNYKRHV 271
+F R +SR Y+Y + E ++S + SA K +G HDF NF + V KR
Sbjct: 99 NFDPRRHALSRSYRYILYGEQFDISKIRSASKLLLGSHDFSNFSTSRGSKKTVRIVKR-- 156
Query: 272 TSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLD 328
I GN L I + ++FLW+ VR +VA L M+G G+ + + +LD
Sbjct: 157 -------IDIRVSGN-LTRIDVEANSFLWNMVRKIVAALMMVGSGVRDEEWLGHMLD 205
>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 = 111 bits (278), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 80/252 (31%), Positives = 119/252 (47%), Gaps = 36/252 (14%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
VALK+ Y G F+G N+E TVE E+FKAL + ++ K + Y+ GRTD GV +
Sbjct: 3 VALKLAYIGTEFHGSQIQPNVE-TVEKELFKAL-RNLSIIESPKSADYTCAGRTDAGVHA 60
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPT 213
+GQV+A +T ++ RV+N LP I + P
Sbjct: 61 LGQVVAF---------DTEKPNLA-------------IPRVINSELPPAIWAWAHAEVPY 98
Query: 214 DFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTS 273
F AR S +SR Y Y E+ ++S M A K +G HDF NF + + K V +
Sbjct: 99 YFDARRSAVSRHYHYVMSGEDYDISKMREASKLLLGTHDFENFSRSNGE-----KSTVRT 153
Query: 274 FEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDT---- 329
E + +G ++ I + G++FLW+ VR +V L MIG G+ D + +L+
Sbjct: 154 LE--RINVRVDG-EITKIDVVGNSFLWNMVRKIVTALSMIGNGVRDNDWLLQMLNPEIYE 210
Query: 330 NGIPRKPQYNMA 341
GI P Y +
Sbjct: 211 EGIEPAPPYGLT 222
>sp|Q46CU8|TRUA_METBF tRNA pseudouridine synthase A OS=Methanosarcina barkeri (strain
Fusaro / DSM 804) GN=truA PE=3 SV=1
Length = 269
Score = 107 bits (266), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 78/252 (30%), Positives = 118/252 (46%), Gaps = 36/252 (14%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
VALK+ Y G F+G N+E TVE E+FKAL + ++ K ++Y+ GRTD GV +
Sbjct: 3 VALKLAYIGTEFHGSQIQPNVE-TVEGELFKAL-RNLGIIESPKSANYTCAGRTDAGVHA 60
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPT 213
+ QV+A +T+ ++ RV+N L I V + P
Sbjct: 61 LEQVVAF---------DTDKLNLA-------------IPRVINSELTPGIWVWAHAEVPL 98
Query: 214 DFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTS 273
F AR +SR Y+Y + ++S + A K +G HDF NF + + K V +
Sbjct: 99 SFDARRDAVSRHYRYVMSGKEYDISKIREASKFLLGTHDFENFSRTNGE-----KSTVRT 153
Query: 274 FEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDT---- 329
E I E L I + G++FLW+ VR +V L MIG+G+ D + +L+
Sbjct: 154 IERIDARIDGE---LIKIDVVGNSFLWNMVRKIVTALSMIGKGVRDTDWLLQMLNPEIYE 210
Query: 330 NGIPRKPQYNMA 341
GI P Y +
Sbjct: 211 EGIESAPAYGLT 222
>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 = 106 bits (265), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 85/266 (31%), Positives = 121/266 (45%), Gaps = 44/266 (16%)
Query: 95 ALKVMYFGQRFYG--FASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVS 152
A K+ YFG F+G F D + TVE E+ AL RL V + + GRTD GV
Sbjct: 5 AFKIAYFGDNFHGSQFQPD---QRTVEGEVINALR--RLGVENPR---LRSAGRTDAGVH 56
Query: 153 SVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAP 212
+ GQVI+ Y ED+I + R+LN LP+DI W+
Sbjct: 57 AYGQVISFYS-----------------------EDKI-FPRMLNAELPEDITAWAWAKVS 92
Query: 213 TDFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVT 272
DF R SR Y Y + + ++SAM A K+ +G HDF NF K + R +
Sbjct: 93 EDFDPR-RAKSRVYTYVMYGSDYDISAMRKAVKELIGVHDFSNFTKKFGEG-ESCVREII 150
Query: 273 SFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGI 332
S +I + +I G+AF W+ VRC+V + IG+ SI+ LL N
Sbjct: 151 SADIRA------DREFIIFEIEGNAFTWNMVRCIVTAIMEIGKQHRSIEWFRDLL--NPE 202
Query: 333 PRKPQYNMAPEIPLVLQSCDFDGLKF 358
K + AP L+L+ +D ++F
Sbjct: 203 KHKERVEPAPPYGLILKDVKYDDVEF 228
>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 = 103 bits (258), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 87/322 (27%), Positives = 141/322 (43%), Gaps = 63/322 (19%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
ALK+ Y G F+GF ++ TVE E+ L K + D K+S + GRTD GV S
Sbjct: 4 TALKIGYIGTNFHGFQRQPDLR-TVEEELIYHLRKLGY-IDDLKKSRFRIAGRTDAGVHS 61
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPT 213
+G VI+ ++ NN+ LP DI+++ +P
Sbjct: 62 LGNVISFQSEKEVRVNEINNS------------------------LPDDIQILAKAPVRF 97
Query: 214 DFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFC--------------KM 259
F R++ + R+Y+Y +R +L+L + + F G H+F NF K+
Sbjct: 98 GFKPRYAEM-RQYRYVLFRSDLDLYKLNEVAEIFKGTHNFTNFTKRFQKTTTRTIDDIKI 156
Query: 260 DAANVHNYKRHVTSFE-----ISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIG 314
AN+++Y H F +SP ++ I G +FLW+ VR M+ V +
Sbjct: 157 TKANLNDY--HKKEFPNLHDTLSPVFVD----------IYGESFLWNMVRKMMRVFVDVA 204
Query: 315 QGLESIDVIESLLDTNGIPRKPQYNMAPEIP--LVLQSCDFDGLKFTCSLDAGHDLRLHL 372
G S++ +E LL N P+ N+ P L+L +DG+KF A + +L
Sbjct: 205 IGKLSLEKVEELL--NPAENDPRANIKVLDPDYLILMDIKYDGVKFVYDDYACERFKRNL 262
Query: 373 RNECQVYQLQAAIFHEALLNCL 394
+ Q + AI E+++ L
Sbjct: 263 VDSLGDLQRKYAI-RESMIKSL 283
>sp|O58941|TRUA_PYRHO tRNA pseudouridine synthase A OS=Pyrococcus horikoshii (strain ATCC
700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
GN=truA PE=3 SV=1
Length = 262
Score = 101 bits (252), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 76/265 (28%), Positives = 126/265 (47%), Gaps = 39/265 (14%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
VALK+ Y G +F+GF N+ TVE EI KAL + ++ + K + RTDKGVS+
Sbjct: 3 VALKIAYDGTKFHGFQRQPNVR-TVEGEIIKALNNSGIMFNELKSA-----SRTDKGVSA 56
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPT 213
+G V+AI T ++E+I + + +LN L KD+ V+ P+
Sbjct: 57 LGNVVAI------------------TTEDERITNPM----ILNAKL-KDVWVLSAVKVPS 93
Query: 214 DFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTS 273
DF RF S+ Y+Y+ +L++ ++ K F+G HDF F ++D +
Sbjct: 94 DFHPRFWARSKVYRYYLPSFDLDVEKVKECSKLFLGVHDFSAFSRVDGRETVRSIDRIEV 153
Query: 274 FEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGIP 333
++ P + AI++ +FLW VR +V L + G G S + + +L
Sbjct: 154 LDLGP---------VLAIEVEAKSFLWEMVRRIVKTLELCGLGKLSSEEVRKML-RGKFE 203
Query: 334 RKPQYNMAPEIPLVLQSCDFDGLKF 358
+ + AP L+L + G++F
Sbjct: 204 KSRKVPPAPAEGLLLVEVKYKGIEF 228
>sp|B2S1K1|TRUA_BORHD tRNA pseudouridine synthase A OS=Borrelia hermsii (strain DAH)
GN=truA PE=3 SV=1
Length = 245
Score = 101 bits (251), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 79/274 (28%), Positives = 117/274 (42%), Gaps = 53/274 (19%)
Query: 98 VMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQV 157
+ Y G +YGF +PT++ EI KALEK K + GRTDKGV + GQ+
Sbjct: 8 IAYDGSLYYGFQIQPT-KPTIQGEIEKALEKI-----SKTKVKVHSAGRTDKGVHARGQI 61
Query: 158 IAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSA 217
I+ Y+R NIK N A +N +L KDIR+I +F
Sbjct: 62 ISFYIRINIKLKNLKTA--------------------INSLLRKDIRIIKLKYVADEFQP 101
Query: 218 RFSCISREYKYFF--------W--------RENLNLSAMESAGKKFVGEHDFRNF-CKMD 260
RF+ R+Y Y+ W ++ LN++ + K +G HDF F C D
Sbjct: 102 RFNAKRRKYSYYILNNENHYPWEGYQAYYVKKKLNINRLNEMAKMLIGIHDFTTFSCIKD 161
Query: 261 AANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESI 320
N K + F+ + N+L +I GS+FLW VR +V + I E +
Sbjct: 162 QTNSKLKKIYFARFK--------KKNKLIIFEIIGSSFLWKMVRSIVGTIIDIEIKNEPV 213
Query: 321 DVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDFD 354
+ +L++ RK AP L L ++
Sbjct: 214 YTFKKILNSKN--RKFTRTTAPAKALFLDKVFYE 245
>sp|Q9UZZ3|TRUA_PYRAB tRNA pseudouridine synthase A OS=Pyrococcus abyssi (strain GE5 /
Orsay) GN=truA PE=3 SV=1
Length = 263
Score = 100 bits (250), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 75/268 (27%), Positives = 125/268 (46%), Gaps = 39/268 (14%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
VA K+ Y G RF+GF N+ TVE EI KAL + ++ +D + RTD+GVS+
Sbjct: 3 VAFKIAYDGTRFHGFQRQPNLR-TVEGEIIKALNNSGIMYSD-----FKSASRTDRGVSA 56
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPT 213
+G V+AI T ++E+ + + VLN L +D+ ++ P
Sbjct: 57 LGNVVAI------------------TTEDEKALNPM----VLNARL-EDVWILSAIEVPQ 93
Query: 214 DFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTS 273
DF RF S+ Y+Y+ L + ++ + F+G HDF F ++D + +
Sbjct: 94 DFHPRFWAKSKVYRYYLPSIGLEVEKVKECSQLFLGVHDFSAFSRVDGRDTVRSIDRIEV 153
Query: 274 FEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGIP 333
F + P I I+I +FLW VR +V L + G G S + I+ +L+
Sbjct: 154 FTLGPILI---------IEIEAKSFLWEMVRRIVKALELCGLGRLSCEEIKEMLEGK-FE 203
Query: 334 RKPQYNMAPEIPLVLQSCDFDGLKFTCS 361
+ + AP L+L ++G++F +
Sbjct: 204 KSKKVPPAPPEGLLLVDIKYEGIEFPLN 231
>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 = 100 bits (249), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 86/298 (28%), Positives = 130/298 (43%), Gaps = 35/298 (11%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
+AL+V Y G FYGF + TVE EI K L+K ++ + +K + + RTD+GVS+
Sbjct: 3 LALRVAYDGSAFYGFQRQPGVR-TVEGEIIKVLQKLGIIESPEK-NDFKGASRTDRGVSA 60
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPT 213
V++ V E+ ++ VLN L D+ V+G + P
Sbjct: 61 FFNVVSF-------------------VPSER--PDLARPEVLNHHL-SDVWVLGIAEVPD 98
Query: 214 DFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTS 273
DF RF + Y+Y+ E +LSAM FVG HDF F K++ + R V
Sbjct: 99 DFHPRFWAKFKTYRYYLVNEGFDLSAMRECASLFVGRHDFSAFAKLEPGR--DPIREVER 156
Query: 274 FEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGIP 333
E+ E I+++G +FLW VR +V L G GL + +E +L
Sbjct: 157 VEV------IERQGYLVIEVQGKSFLWEMVRRIVNALRFCGLGLLEAEEVERMLSGEYGK 210
Query: 334 RKPQYNMAPEIPLVLQSCDFDGLKFTCSLDAGHDLRLHLRNECQVYQLQAAIFHEALL 391
+ P AP LVL ++ G+ F R + +AA+F + LL
Sbjct: 211 KIPP---APPEGLVLWHIEYPGIGFEGDEKGIKKARRDIFERYSRALTRAALFGDFLL 265
>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 = 99.0 bits (245), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 78/240 (32%), Positives = 112/240 (46%), Gaps = 41/240 (17%)
Query: 94 VALKVMYFGQRFYGFASDGNMEP---TVESEIFKALEKTRLLVADKKESHYSRCGRTDKG 150
+A Y GQ F G +P TVE E F A L +D KE+H+ GRTDKG
Sbjct: 3 LAFLAGYRGQNFAG----SQYQPHKRTVEGE-FVAGGIELGLFSDAKEAHFRTAGRTDKG 57
Query: 151 VSSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSP 210
VS+ Q+ +I T ++ ++ + LN LP DI IG +
Sbjct: 58 VSARRQLFSI------------------TTEKPELA-----IEALNFHLPDDIWCIGAAE 94
Query: 211 APTDFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRH 270
+F R++ R Y+Y+F ++S M+ A + +G H+F F KM+A + R
Sbjct: 95 VDEEFYPRYAARERSYRYYF-PYPADVSRMQDAASRLIGTHNFSGFAKMEAGR--DPVRT 151
Query: 271 VTSFEISPCYISFEGNQLCAI-KIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDT 329
VT E+ FEG C + ++ +FLW+ VR M L IG GL DVIE LL +
Sbjct: 152 VTRAEV------FEGKDGCPVFEVAAKSFLWNMVRGMAGALQTIGLGLCEPDVIEELLSS 205
>sp|A1QYG5|TRUA_BORT9 tRNA pseudouridine synthase A OS=Borrelia turicatae (strain 91E135)
GN=truA PE=3 SV=1
Length = 245
Score = 98.2 bits (243), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 79/278 (28%), Positives = 116/278 (41%), Gaps = 53/278 (19%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
V K+ Y G +YGF +PT++ EI K LEK K + GRTDKGV +
Sbjct: 4 VLAKITYDGSLYYGFQIQPK-KPTIQGEIEKVLEKI-----SKTKIKIHSAGRTDKGVHA 57
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPT 213
GQ+I+ Y++ NIK N A +N +L DIR+I
Sbjct: 58 RGQIISFYIKINIKLKNLKTA--------------------INSLLKDDIRIIKLKYVED 97
Query: 214 DFSARFSCISREYKYFF--------W--------RENLNLSAMESAGKKFVGEHDFRNF- 256
F RF R+Y Y+ W ++ LN++ + + +G HDF F
Sbjct: 98 KFQPRFDAKRRKYSYYILNNENHYPWEGYRAYYVKKKLNINRLNEMAEMLIGIHDFTTFS 157
Query: 257 CKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQG 316
C D N + + F+ +I FE I GS+FLW VR +V V+ I
Sbjct: 158 CIRDQTNSKLKEIYYARFKKKNKFIIFE--------IIGSSFLWKMVRSIVGVMIDIEIK 209
Query: 317 LESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDFD 354
E +D + +L++ RK AP L L ++
Sbjct: 210 NEPVDTFKKILNSKN--RKLTRKTAPAKALFLDKVFYE 245
>sp|B6YTJ2|TRUA_THEON tRNA pseudouridine synthase A OS=Thermococcus onnurineus (strain
NA1) GN=truA PE=3 SV=1
Length = 267
Score = 98.2 bits (243), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 86/302 (28%), Positives = 138/302 (45%), Gaps = 39/302 (12%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
+AL++ Y G FYGF + TVE EI +AL K + + D + S++ RTD+GVS+
Sbjct: 3 LALRIAYDGTAFYGFQRQPGLR-TVEGEIIRALTKLGI-IEDVESSNFKGASRTDRGVSA 60
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPT 213
V+A + AS + V+ E VLN L KD+ V+G + P
Sbjct: 61 FFNVVAF-----------DVASRPDLVRPE----------VLNFHL-KDVWVLGTAEVPE 98
Query: 214 DFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTS 273
DF RF S+ Y+Y+ + AM K F+G HDF F +++ N R +
Sbjct: 99 DFHPRFWAKSKTYRYYLIDAGFDEKAMRECAKLFIGTHDFSAFARLEPHK--NPVRELIR 156
Query: 274 FEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGIP 333
+I I +G + I++ G +FLW R +V L G G+ + + +E +L+
Sbjct: 157 ADI----IKRQGYYI--IELEGKSFLWEMARRIVNALRFCGLGILTEEEVEKMLNGEYSR 210
Query: 334 RKPQYNMAPEIP--LVLQSCDFDGLKFTCSLDAGHDLRLHLRNECQVYQLQAAIFHEALL 391
+ P P P LVL +++G++F + + L +AA+F + LL
Sbjct: 211 KIP-----PARPEGLVLWGIEYEGIEFRGNEKGIRKAKHDLFERYSEALTRAALFGDLLL 265
Query: 392 NC 393
Sbjct: 266 GL 267
>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 = 97.4 bits (241), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 76/300 (25%), Positives = 143/300 (47%), Gaps = 41/300 (13%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
VALK+ Y G +F+GF N+ T+E EI +AL+ A + ++ RTD+GVS+
Sbjct: 3 VALKIAYDGTKFHGFQRQPNVR-TIEGEILRALKD-----AGIEFENFKSASRTDRGVSA 56
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPT 213
G VIA+ + ++++I++ + VLN + D+ + G + P
Sbjct: 57 RGNVIAL------------------STEDDRIKNPM----VLNSRM-SDVWIWGIAEVPE 93
Query: 214 DFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTS 273
DF RF ++ Y+Y+ +N+ M+ F+G HDF F ++D + R +
Sbjct: 94 DFHPRFWANTKVYRYYLPSLGMNIKKMKECSLLFLGTHDFSAFSRVDG---RDTIRSIDR 150
Query: 274 FEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNG-I 332
EI +E + ++I G +FLW VR +V+ L + QG+ + + I +L NG
Sbjct: 151 IEI------WEKCNVVVVEIEGKSFLWEMVRRIVSALVLCSQGVLAEERIVEML--NGKF 202
Query: 333 PRKPQYNMAPEIPLVLQSCDFDGLKFTCSLDAGHDLRLHLRNECQVYQLQAAIFHEALLN 392
+ + AP L+L ++ ++F + + + +++ +A++ + +LN
Sbjct: 203 EKSRKVPPAPPEGLLLWDIKYENVEFQIDNASLKKFQREIVERFKLHASLSALYEDLILN 262
>sp|Q8FS31|TRUA_COREF tRNA pseudouridine synthase A OS=Corynebacterium efficiens (strain
DSM 44549 / YS-314 / AJ 12310 / JCM 11189 / NBRC 100395)
GN=truA PE=3 SV=2
Length = 282
Score = 96.7 bits (239), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 81/283 (28%), Positives = 119/283 (42%), Gaps = 50/283 (17%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
+ L + Y G F+G+A G+ + + K LE +V + + GRTD GV +
Sbjct: 3 IRLDLDYDGTDFHGWARQGDSD---LRTVQKVLEDNLGMVL-RAPVELTVAGRTDAGVHA 58
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIE-DEIDYVRVLNRVLPKDIRVIGWSPAP 212
GQV + E++Q+ I+ D VR L+R+LP+DIRV G + AP
Sbjct: 59 AGQVAHFDIPR-------------ESLQQRSIDGDPTKLVRRLSRLLPEDIRVHGVNYAP 105
Query: 213 TDFSARFSCISREYKYFF-----------------WRENLNLSAMESAGKKFVGEHDFRN 255
F ARFS + R Y Y W + +++ AM++A +G HDF
Sbjct: 106 EGFDARFSALRRHYVYRITTHPAGPLPTRVRDTAAWPKPVDIQAMQTAADVLIGLHDFVA 165
Query: 256 FCKM--DAANV---HNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVL 310
FCK +A+ V + H S P QL + AF W VR +V
Sbjct: 166 FCKAKPNASTVRELQEFTWHDVSTPTEP--------QLYEAHVVADAFCWSMVRSLVGSC 217
Query: 311 FMIGQGLESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDF 353
+G+G + D LL R P +AP L L D+
Sbjct: 218 MAVGEGRRAGDFTAQLL--TATERSPDVPVAPAKGLSLVGVDY 258
>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 = 95.5 bits (236), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 77/271 (28%), Positives = 119/271 (43%), Gaps = 44/271 (16%)
Query: 94 VALKVMYFGQRFYGFASDGNMEP---TVESEIFKALEKTRLLVADKKESHYSRCGRTDKG 150
+A ++ Y G +F G ++P TVE E+ A ++ +L D ++ ++ GRTD+G
Sbjct: 3 LAFQLSYDGNQFRG----SQLQPAYRTVEGELITACQRVQLF-DDPCKAGFALAGRTDRG 57
Query: 151 VSSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSP 210
V + GQV + E +E LN L D+ G++
Sbjct: 58 VHARGQV----------------GAFSTPFPERAVE-------ALNGQLSPDLWCNGFAE 94
Query: 211 APTDFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRH 270
P F RF ISR Y+YFF L++ AM+ A +G HDF ++ + R
Sbjct: 95 VPPSFHPRFDAISRTYRYFFADWPLDIRAMDQAAAALIGTHDFSRLARV---REKSPIRT 151
Query: 271 VTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTN 330
V S + F+ + ++ +LWH VRCM A L +IG +++E LL +
Sbjct: 152 VKSARV------FQDRGIPVFEVTAHTYLWHMVRCMAAALLLIGTHEREPELMERLL-SG 204
Query: 331 GIPRKPQYNMAPEIPLVLQSCDFDGLKFTCS 361
R P AP LVL D G+ FT +
Sbjct: 205 KCRRNPP--AAPADGLVLWDVDC-GVTFTPT 232
>sp|B5RQJ5|TRUA_BORRA tRNA pseudouridine synthase A OS=Borrelia recurrentis (strain A1)
GN=truA PE=3 SV=1
Length = 245
Score = 94.7 bits (234), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 76/274 (27%), Positives = 115/274 (41%), Gaps = 53/274 (19%)
Query: 98 VMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQV 157
+ Y G ++GF +PT++ EI KALEK +K + GRTDKGV + Q+
Sbjct: 8 IAYDGSLYHGFQIQPT-KPTIQGEIEKALEKI-----NKTKVKIQSAGRTDKGVHAKRQI 61
Query: 158 IAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSA 217
I+ Y++ NI N A +N +L DIR+I +F
Sbjct: 62 ISFYIKININLKNLKTA--------------------INSLLKNDIRIIKLKYVSNEFQP 101
Query: 218 RFSCISREYKYFF--------W--------RENLNLSAMESAGKKFVGEHDFRNF-CKMD 260
RF R+Y Y+ W R+ LN++ + + + +G HDF F C D
Sbjct: 102 RFHAKKRKYTYYILNNENHYPWEEYQAYYVRKKLNINRLNTMAEMLIGLHDFTTFSCIRD 161
Query: 261 AANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESI 320
N + ++ F+ +I FE I GS+FLW VR +V + I ES+
Sbjct: 162 QTNSKLKEIYLAKFKKKNKFIVFE--------IIGSSFLWKMVRSIVGTMIDIEIKNESV 213
Query: 321 DVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDFD 354
D +L + RK AP L L ++
Sbjct: 214 DTFIKILKSKN--RKYARTTAPAKALFLDRVFYE 245
>sp|B5RLM0|TRUA_BORDL tRNA pseudouridine synthase A OS=Borrelia duttonii (strain Ly)
GN=truA PE=3 SV=1
Length = 245
Score = 94.7 bits (234), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 76/274 (27%), Positives = 115/274 (41%), Gaps = 53/274 (19%)
Query: 98 VMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQV 157
+ Y G ++GF +PT++ EI KALEK +K + GRTDKGV + Q+
Sbjct: 8 IAYDGSLYHGFQIQPT-KPTIQGEIEKALEKI-----NKTKVKIQSAGRTDKGVHAKRQI 61
Query: 158 IAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSA 217
I+ Y++ NI N A +N +L DIR+I +F
Sbjct: 62 ISFYIKININLKNLKTA--------------------INSLLKNDIRIIKLKYVSNEFQP 101
Query: 218 RFSCISREYKYFF--------W--------RENLNLSAMESAGKKFVGEHDFRNF-CKMD 260
RF R+Y Y+ W R+ LN++ + + + +G HDF F C D
Sbjct: 102 RFHAKKRKYTYYILNNENHYPWEEYQAYYVRKKLNINRLNTMAEMLIGLHDFTTFSCIRD 161
Query: 261 AANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESI 320
N + ++ F+ +I FE I GS+FLW VR +V + I ES+
Sbjct: 162 QTNSKLKEIYLAKFKKKNKFIVFE--------IIGSSFLWKMVRSIVGTMIDIEIKNESV 213
Query: 321 DVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDFD 354
D +L + RK AP L L ++
Sbjct: 214 DTFIKILKSKN--RKYARTTAPAKALFLDRVFYE 245
>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 = 92.4 bits (228), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 81/301 (26%), Positives = 129/301 (42%), Gaps = 41/301 (13%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
+AL++ Y G FYGF + TVE E+ L K +++ + +K + + RTD+GVS+
Sbjct: 3 LALRIAYDGTAFYGFQRQPGIR-TVEGELINVLTKLKIIESPEK-NDFKGASRTDRGVSA 60
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPT 213
V++ GE + E VLN L D+ V+G + P
Sbjct: 61 FFNVVSF--------------VPGERADLARPE-------VLNHNL-HDLWVLGVAEVPD 98
Query: 214 DFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTS 273
DF RF IS+ Y+Y+ E L M K F G HDF F +++ + R +T
Sbjct: 99 DFHPRFWAISKTYRYYLIDEGFELEKMVGCAKLFEGRHDFSAFARLEPGR--DPVREITH 156
Query: 274 FEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGL---ESIDVIESLLDTN 330
I+P + + I+I G +FLW VR +V L G L E + + S +
Sbjct: 157 ISITPRHGYY------VIEITGKSFLWEMVRRIVNALRFCGLSLLEPEEVGAMLSGVYEK 210
Query: 331 GIPRKPQYNMAPEIPLVLQSCDFDGLKFTCSLDAGHDLRLHLRNECQVYQLQAAIFHEAL 390
+P P N L+L ++ ++F + R L +AA+F + L
Sbjct: 211 KVPPAPPEN------LILWHIEYPNVEFKTDGKSLSKARRDLFERYSRALARAALFGDCL 264
Query: 391 L 391
+
Sbjct: 265 V 265
>sp|Q6MDE3|TRUA2_PARUW tRNA pseudouridine synthase A 2 OS=Protochlamydia amoebophila
(strain UWE25) GN=truA2 PE=3 SV=1
Length = 262
Score = 90.1 bits (222), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 74/277 (26%), Positives = 121/277 (43%), Gaps = 55/277 (19%)
Query: 94 VALKVMYFGQRFYGF---ASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKG 150
+ LK+ Y GQ ++G+ + ++E T+++ + + L+ T L A RTDKG
Sbjct: 18 IKLKIAYDGQAYFGWQKTPAGPSVEKTLQNSLEQILQHTISLQA---------ASRTDKG 68
Query: 151 VSSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSP 210
V + GQ++ + + I D ++ LN +LP D+R++
Sbjct: 69 VHARGQIVNF-------------------LTTKSITDLQKFILSLNSLLPTDLRILSAEK 109
Query: 211 APTDFSARFSCISREYKYFF--------------WR--ENLNLSAMESAGKKFVGEHDFR 254
P+ F +C+++EY Y+ W L L M A +GEHDF
Sbjct: 110 MPSTFHPTLNCVAKEYCYYICYDFVQLPEYRPYSWHCPFPLMLGKMTQAISVLIGEHDFS 169
Query: 255 NFCKMDA-ANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMI 313
FC N +Y R V + + +LC I+I+G+ FL+ VR +V L I
Sbjct: 170 AFCNFKKNVNYTDYIRRVQAIHLE----VLNHKRLC-IRIKGNHFLYKMVRNIVGTLIYI 224
Query: 314 GQGLESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQS 350
G+G ++ I S+L + RK AP L LQ+
Sbjct: 225 GKGKLMVEDIPSILQSQD--RKMAGVTAPAHGLFLQT 259
>sp|P60349|TRUA_CORDI tRNA pseudouridine synthase A OS=Corynebacterium diphtheriae
(strain ATCC 700971 / NCTC 13129 / Biotype gravis)
GN=truA PE=3 SV=1
Length = 288
Score = 89.4 bits (220), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 67/252 (26%), Positives = 108/252 (42%), Gaps = 38/252 (15%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
+ L + Y G F+G+A G+ + + K +E T LV ++ + GRTD GV +
Sbjct: 8 IRLDLAYDGTDFHGWARQGDSD---LRTVQKIIEDTLTLVL-QRPIDLTVAGRTDAGVHA 63
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPT 213
GQV + E + D +R L R++P D+R+ S P
Sbjct: 64 TGQVAHFDVDPAALETRSIAG------------DPARLIRRLARLMPDDVRIHNMSFVPA 111
Query: 214 DFSARFSCISREYKY-----------------FFWRENLNLSAMESAGKKFVGEHDFRNF 256
+F ARFS + R Y Y W ++++SAM++A +G HDF F
Sbjct: 112 EFDARFSALRRHYVYRVTTHPRGALPTRARDTAHWPRSVDISAMQAAADALIGMHDFAAF 171
Query: 257 CKM-DAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQ 315
CK + A+ + T ++S + + QL + AF W VR +V ++G+
Sbjct: 172 CKYREGASTIRDLQEFTWHDVS----TPQEPQLYEAHVTADAFCWSMVRSLVGACLVVGE 227
Query: 316 GLESIDVIESLL 327
G + E LL
Sbjct: 228 GKRADGFTEHLL 239
>sp|Q71WI0|TRUA_LISMF tRNA pseudouridine synthase A OS=Listeria monocytogenes serotype 4b
(strain F2365) GN=truA PE=3 SV=1
Length = 248
Score = 88.6 bits (218), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 80/280 (28%), Positives = 122/280 (43%), Gaps = 51/280 (18%)
Query: 92 RYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGV 151
RY A+ + Y G FYG+ N TV++EI KAL K + K + GRTD GV
Sbjct: 3 RYKAI-ISYDGSGFYGYQVQPNTR-TVQAEIEKALTK----MHKGKTVRITASGRTDTGV 56
Query: 152 SSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPA 211
+ GQVI ++ + T ++ Q + L + P DI +
Sbjct: 57 HAKGQVIHF------------DSELDITAEKFQ--------KALQVMTPFDISFLTVEEV 96
Query: 212 PTDFSARFSCISREYKYFFWREN----------------LNLSAMESAGKKFVGEHDFRN 255
P DF ARF + +EY+Y R L++S M+ A K+ +GEHDF +
Sbjct: 97 PDDFHARFGTVGKEYRYVVKRTKIFDPFSRNFALHYPYELDISKMKLASKRLIGEHDFTS 156
Query: 256 FCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQ 315
FC +A + T + I E ++ I +G+ FL++ VR + L GQ
Sbjct: 157 FC---SARTERDSKVRTLYSID---FYEEDDETLVIAFQGNGFLYNMVRILTGTLLDAGQ 210
Query: 316 G-LESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDFD 354
G + D+ E+LL + +K AP L L D++
Sbjct: 211 GRISPDDISEALLARD--RQKLISKTAPPQGLYLWRVDYE 248
>sp|C1KZ13|TRUA_LISMC tRNA pseudouridine synthase A OS=Listeria monocytogenes serotype 4b
(strain CLIP80459) GN=truA PE=3 SV=1
Length = 248
Score = 88.6 bits (218), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 80/280 (28%), Positives = 122/280 (43%), Gaps = 51/280 (18%)
Query: 92 RYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGV 151
RY A+ + Y G FYG+ N TV++EI KAL K + K + GRTD GV
Sbjct: 3 RYKAI-ISYDGSGFYGYQVQPNTR-TVQAEIEKALTK----MHKGKTVRITASGRTDTGV 56
Query: 152 SSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPA 211
+ GQVI ++ + T ++ Q + L + P DI +
Sbjct: 57 HAKGQVIHF------------DSELDITAEKFQ--------KALQVMTPFDISFLTVEEV 96
Query: 212 PTDFSARFSCISREYKYFFWREN----------------LNLSAMESAGKKFVGEHDFRN 255
P DF ARF + +EY+Y R L++S M+ A K+ +GEHDF +
Sbjct: 97 PDDFHARFGTVGKEYRYVVKRTKIFDPFSRNFALHYPYELDISKMKLASKRLIGEHDFTS 156
Query: 256 FCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQ 315
FC +A + T + I E ++ I +G+ FL++ VR + L GQ
Sbjct: 157 FC---SARTERDSKVRTLYSID---FYEEDDETLVIAFQGNGFLYNMVRILTGTLLDAGQ 210
Query: 316 G-LESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDFD 354
G + D+ E+LL + +K AP L L D++
Sbjct: 211 GRISPDDISEALLARD--RQKLISKTAPPQGLYLWRVDYE 248
>sp|Q8Y457|TRUA_LISMO tRNA pseudouridine synthase A OS=Listeria monocytogenes serovar
1/2a (strain ATCC BAA-679 / EGD-e) GN=truA PE=3 SV=1
Length = 248
Score = 88.2 bits (217), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 80/280 (28%), Positives = 122/280 (43%), Gaps = 51/280 (18%)
Query: 92 RYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGV 151
RY A+ + Y G FYG+ N TV++EI KAL K + K + GRTD GV
Sbjct: 3 RYKAI-ISYDGSGFYGYQVQPNTR-TVQAEIEKALTK----MHKGKTVRVTASGRTDTGV 56
Query: 152 SSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPA 211
+ GQVI ++ + T ++ Q + L + P DI +
Sbjct: 57 HAKGQVIHF------------DSELDITAEKFQ--------KALQVMTPFDISFLTVEEV 96
Query: 212 PTDFSARFSCISREYKYFFWREN----------------LNLSAMESAGKKFVGEHDFRN 255
P DF ARF + +EY+Y R L++S M+ A K+ +GEHDF +
Sbjct: 97 PDDFHARFGTVGKEYRYVVKRTKIFDPFSRNFALHYPYELDISKMKLASKRLIGEHDFTS 156
Query: 256 FCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQ 315
FC +A + T + I E ++ I +G+ FL++ VR + L GQ
Sbjct: 157 FC---SARTERDSKVRTLYSID---FYEEDDETLVIAFQGNGFLYNMVRILTGTLLDAGQ 210
Query: 316 G-LESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDFD 354
G + D+ E+LL + +K AP L L D++
Sbjct: 211 GRISPDDISEALLARD--RQKLISKTAPPQGLYLWRVDYE 248
>sp|B8DB42|TRUA_LISMH tRNA pseudouridine synthase A OS=Listeria monocytogenes serotype 4a
(strain HCC23) GN=truA PE=3 SV=1
Length = 248
Score = 87.4 bits (215), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 74/252 (29%), Positives = 109/252 (43%), Gaps = 48/252 (19%)
Query: 92 RYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGV 151
RY A+ + Y G FYG+ N TV++EI KAL K + K + GRTD GV
Sbjct: 3 RYKAI-ISYDGSGFYGYQVQPNTR-TVQAEIEKALTK----MHKGKTVRITASGRTDTGV 56
Query: 152 SSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPA 211
+ GQVI ++ + T ++ Q + L + P DI +
Sbjct: 57 HAKGQVIHF------------DSELDITAEKFQ--------KALQVMTPFDISFLTVEEV 96
Query: 212 PTDFSARFSCISREYKYFFWREN----------------LNLSAMESAGKKFVGEHDFRN 255
P DF ARF + +EY+Y R L++S M+ A K+ +GEHDF +
Sbjct: 97 PDDFHARFGTVGKEYRYVVKRTKIFDPFSRDFALHYPYELDISKMKLASKRLIGEHDFTS 156
Query: 256 FCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQ 315
FC +A + T + I E ++ I +G+ FL++ VR + L GQ
Sbjct: 157 FC---SARTERDSKVRTLYSID---FYEEDDETLVIAFQGNGFLYNMVRILTGTLLDAGQ 210
Query: 316 GLESIDVIESLL 327
G S D I L
Sbjct: 211 GRISPDDISKAL 222
>sp|Q927P1|TRUA_LISIN tRNA pseudouridine synthase A OS=Listeria innocua serovar 6a
(strain CLIP 11262) GN=truA PE=3 SV=1
Length = 248
Score = 87.4 bits (215), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 78/280 (27%), Positives = 123/280 (43%), Gaps = 51/280 (18%)
Query: 92 RYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGV 151
RY A+ + Y G F+G+ N TV++EI KALEK + K + GRTD GV
Sbjct: 3 RYKAI-ISYDGSGFFGYQVQPNTR-TVQAEIEKALEK----MHKGKSVRITASGRTDTGV 56
Query: 152 SSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPA 211
+ GQVI ++ + T ++ Q + L + P DI + A
Sbjct: 57 HAKGQVIHF------------DSELDITAEKFQ--------KALQVMTPFDISFLTVEEA 96
Query: 212 PTDFSARFSCISREYKYFFWREN----------------LNLSAMESAGKKFVGEHDFRN 255
P DF ARF + +EY+Y R L+++ M+ A ++ +GEHDF +
Sbjct: 97 PADFHARFGTVGKEYRYVIKRTKIFDPFSRNFALHYPYELDIAKMKQASERLIGEHDFTS 156
Query: 256 FCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQ 315
FC +A + T + I E + I +G+ FL++ VR + L GQ
Sbjct: 157 FC---SARTERDSKVRTLYSID---FYEEDAETLVIAFQGNGFLYNMVRILTGTLLDAGQ 210
Query: 316 G-LESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDFD 354
G + D+ ++LL + +K AP L L D++
Sbjct: 211 GRISPDDITKALLAHD--RQKLISKTAPPQGLYLWRVDYE 248
>sp|B8CPW5|TRUA_SHEPW tRNA pseudouridine synthase A OS=Shewanella piezotolerans (strain
WP3 / JCM 13877) GN=truA PE=3 SV=1
Length = 261
Score = 87.4 bits (215), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 72/251 (28%), Positives = 112/251 (44%), Gaps = 51/251 (20%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRC-GRTDKGVS 152
VAL + Y G R+YG+ +++ +V+ ++ KAL K E +C GRTD GV
Sbjct: 3 VALGIEYDGSRYYGWQRQLDVD-SVQGQLEKALSKV------ANEPITVQCAGRTDTGVH 55
Query: 153 SVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAP 212
GQV+ +TN I E + +N LP DI V
Sbjct: 56 GTGQVV---------HFDTN-----------AIRKETAWTLGVNVNLPDDIAVRWVKVVD 95
Query: 213 TDFSARFSCISREYKYFF----------------WRENLNLSAMESAGKKFVGEHDFRNF 256
+F ARFS +R Y+Y +R N++ M A + FVGEHDF +F
Sbjct: 96 EEFHARFSATARRYRYMIYNHQLRPGILRSGVSHYRGNIDEDKMHQAAQLFVGEHDFTSF 155
Query: 257 CKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQG 316
+ + ++ EI ++ +G +C + I+ +AFL H VR +V L IG+G
Sbjct: 156 RALQCQSKTPFR------EIHEVNVTRQGMYIC-VDIKANAFLHHMVRNIVGTLLEIGKG 208
Query: 317 LESIDVIESLL 327
+ + + +LL
Sbjct: 209 NQPKEWVNTLL 219
>sp|A0ALT4|TRUA_LISW6 tRNA pseudouridine synthase A OS=Listeria welshimeri serovar 6b
(strain ATCC 35897 / DSM 20650 / SLCC5334) GN=truA PE=3
SV=1
Length = 248
Score = 87.0 bits (214), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 80/280 (28%), Positives = 122/280 (43%), Gaps = 51/280 (18%)
Query: 92 RYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGV 151
RY A+ + Y G FYG+ N TV++EI KAL+K + K + GRTD GV
Sbjct: 3 RYKAI-ISYDGSGFYGYQIQPNAR-TVQAEIEKALKK----MHKGKNVRITASGRTDTGV 56
Query: 152 SSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPA 211
+ GQVI ++ + T + Q + L + P DI + A
Sbjct: 57 HAKGQVIHF------------DSDLDITADKFQ--------KALQVMTPFDISFLTVDEA 96
Query: 212 PTDFSARFSCISREYKYFFWREN----------------LNLSAMESAGKKFVGEHDFRN 255
P DF ARF + +EY+Y R L+++ M+ A + +GEHDF +
Sbjct: 97 PADFHARFGTVGKEYRYIVKRTKIFDPFSRNFALHYPYELDIAKMKLASECLIGEHDFTS 156
Query: 256 FCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQ 315
FC +A + T + I E + I +G+ FL++ VR + L GQ
Sbjct: 157 FC---SARTERDSKVRTLYSID---FYEEDEETLVIAFQGNGFLYNMVRILTGTLLDAGQ 210
Query: 316 G-LESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDFD 354
G + S D+ E+LL + +K AP L L D++
Sbjct: 211 GRISSEDITEALLARD--RQKLISKTAPPQGLYLWRVDYE 248
>sp|Q2JFE6|TRUA_FRASC tRNA pseudouridine synthase A OS=Frankia sp. (strain CcI3) GN=truA
PE=3 SV=1
Length = 274
Score = 86.7 bits (213), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 73/266 (27%), Positives = 104/266 (39%), Gaps = 55/266 (20%)
Query: 96 LKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVG 155
L + Y G F G+A TV+ ++ AL + VA + GRTD GV +VG
Sbjct: 10 LDLSYDGTPFAGWARQPGQR-TVQGDVEDALMR----VARLPAVRLTVAGRTDSGVHAVG 64
Query: 156 QVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDF 215
QV + L ++ R LN VL + +R+IG +PAP F
Sbjct: 65 QVAHVDLPDDVPLGG--------------------LARRLNGVLDRAVRIIGLAPAPPGF 104
Query: 216 SARFSCISREYKY-----------------FFWRENLNLSAMESAGKKFVGEHDFRNFCK 258
ARFS +SR Y Y W L++ AM +A VGEHDF FC+
Sbjct: 105 DARFSALSRRYVYRITDAPYGAEPLRRFDTLAWPRPLDVPAMAAAALFLVGEHDFAAFCR 164
Query: 259 M--DAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQG 316
A V R + + + AF VR +V L +G+G
Sbjct: 165 RREGATTVRTLLR---------LDVLRRPEGVVVADVEADAFCHSMVRALVGALLAVGEG 215
Query: 317 LESIDVIESLLDTNGIPRKPQYNMAP 342
+ ++L G+ R P +AP
Sbjct: 216 RKPPQWPAAVLH-RGV-RDPAVTVAP 239
>sp|A9BGW7|TRUA_PETMO tRNA pseudouridine synthase A OS=Petrotoga mobilis (strain DSM
10674 / SJ95) GN=truA PE=3 SV=1
Length = 245
Score = 86.7 bits (213), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 79/255 (30%), Positives = 109/255 (42%), Gaps = 50/255 (19%)
Query: 92 RYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGV 151
++VA VMY G FYG+ S TV+ E KAL+ V KKE CGRTD GV
Sbjct: 2 KWVAATVMYDGSNFYGYQSQPTFR-TVQDEFEKALK-----VIFKKEIPSYACGRTDTGV 55
Query: 152 SSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPA 211
+VGQVI+ + + E + E+ I+D LN +LP+D+ V
Sbjct: 56 HAVGQVISFKVEN-------------ENMTEKNIKD------ALNAILPEDVYVKEVKEV 96
Query: 212 PTDFSARFSCISREYKYF---------FWREN-------LNLSAMESAGKKFVGEHDFRN 255
F+ R R Y YF F R+ LNL M A K F GEHDF +
Sbjct: 97 KEGFNPRAEAKKRIYHYFIYISEDPNIFLRDRVWWIPFALNLEKMRQAAKYFEGEHDFTS 156
Query: 256 F-CKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIG 314
F D N V E+ L I++ G +FL VR +V L +G
Sbjct: 157 FKTGNDERNPIRTIYRVRIIELR--------KDLILIRVEGKSFLKRMVRNIVGSLVKVG 208
Query: 315 QGLESIDVIESLLDT 329
+ ++ I+ +L+
Sbjct: 209 TDVWEVEKIQEILEA 223
>sp|Q5WLN0|TRUA_BACSK tRNA pseudouridine synthase A OS=Bacillus clausii (strain KSM-K16)
GN=truA PE=3 SV=1
Length = 261
Score = 86.3 bits (212), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 78/279 (27%), Positives = 122/279 (43%), Gaps = 56/279 (20%)
Query: 94 VALKVMYFGQRFYGFASDGNMEP---TVESEIFKALEKTRLLVADKKESHYSRCGRTDKG 150
+A K+ Y G F G+ ++P TV+SE+ +AL++ + GRTD G
Sbjct: 4 MACKLSYDGTAFAGY----QVQPGKRTVQSEVERALQE----IHKGARVPVVASGRTDAG 55
Query: 151 VSSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSP 210
V + GQV+ + + + T+ E+ +V LN LP DI V +
Sbjct: 56 VHACGQVL--HFDTEL------------TIAPER------WVSALNTHLPDDIVVTNAAM 95
Query: 211 APTDFSARFSCISREYKYFFW----------------RENLNLSAMESAGKKFVGEHDFR 254
DF AR+ ++EY+Y+ ++ L++ AM++A K +G HDF
Sbjct: 96 VEPDFHARYGAQAKEYRYYIQCGPFENVFRRHFAVHIKQALDVPAMQTAAKHLLGTHDFS 155
Query: 255 NFCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIG 314
FC + V + R +T + P S EG I IRG+ FL++ VR +V L IG
Sbjct: 156 AFCAAN-TTVTDKVRTITHVAVQP---SEEG---LLISIRGTGFLYNMVRIIVGTLLEIG 208
Query: 315 QGLESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDF 353
G ++ +L G R AP L L D+
Sbjct: 209 TGKRVASEMKVIL--AGKSRNLAGKTAPAHGLCLYEVDY 245
>sp|Q2KYM0|TRUA_BORA1 tRNA pseudouridine synthase A OS=Bordetella avium (strain 197N)
GN=truA PE=3 SV=1
Length = 267
Score = 85.9 bits (211), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 69/235 (29%), Positives = 97/235 (41%), Gaps = 50/235 (21%)
Query: 144 CGRTDKGVSSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDI 203
GRTD GV + QV+ + N + + +VR +N LP I
Sbjct: 50 AGRTDTGVHAAMQVVHVDTHLNRRAES--------------------WVRGVNAFLPSSI 89
Query: 204 RVIGWSPAPTDFSARFSCISREYKYFFWR----------------ENLNLSAMESAGKKF 247
+ DF ARFS SR Y Y WR + L+++AM A +
Sbjct: 90 SIHWAKEVGEDFHARFSARSRTYVYLLWRGRVRPALWAHRAGWCFQPLDVTAMRQAAQAL 149
Query: 248 VGEHDFRNFCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMV 307
+GEHDF +F H RH+T +I+ E ++ +AFL H VR ++
Sbjct: 150 LGEHDFSSFRSSQCQARHPV-RHLTRLDIA------ERGSFLVFTLQANAFLHHMVRNIM 202
Query: 308 AVLFMIGQGLESIDVIESLLDTN----GIPR-KPQ--YNMAPEIPLVLQSCDFDG 355
L IGQG ES+D + SLL G P P Y A + P + + D DG
Sbjct: 203 GALLQIGQGRESVDWMASLLRARDRRLGAPTFSPDGLYLSAIDYPTLFELPDLDG 257
>sp|P65846|TRUA_MYCTU tRNA pseudouridine synthase A OS=Mycobacterium tuberculosis GN=truA
PE=3 SV=1
Length = 297
Score = 85.5 bits (210), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 70/278 (25%), Positives = 108/278 (38%), Gaps = 45/278 (16%)
Query: 96 LKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVG 155
L + Y G F G+A+ TV ++ AL + GRTD GV + G
Sbjct: 26 LDIAYDGTDFAGWAAQVGQR-TVAGDLDAALTTIF-----RTPVRLRAAGRTDAGVHASG 79
Query: 156 QVIAIYLRSN-IKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTD 214
QV + + ++ + +G+ + + +R L R LP D+R++ + AP
Sbjct: 80 QVAHVDVPADALPNAYPRAGHVGD-------PEFLPLLRRLGRFLPADVRILDITRAPAG 132
Query: 215 FSARFSCISREYKYFF-----------------WRENLNLSAMESAGKKFVGEHDFRNFC 257
F ARFS + R Y Y W L+L AM +A + +G HDF FC
Sbjct: 133 FDARFSALRRHYVYRLSTAPYGVEPQQARYITAWPRELDLDAMTAASRDLMGLHDFAAFC 192
Query: 258 KM--DAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQ 315
+ A + + +R S L + AF W VR +V L +G+
Sbjct: 193 RHREGATTIRDLQRLDWS----------RAGTLVTAHVTADAFCWSMVRSLVGALLAVGE 242
Query: 316 GLESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDF 353
+ LL G R + +AP L L D+
Sbjct: 243 HRRATTWCRELLTATG--RSSDFAVAPAHGLTLIQVDY 278
>sp|P65847|TRUA_MYCBO tRNA pseudouridine synthase A OS=Mycobacterium bovis (strain ATCC
BAA-935 / AF2122/97) GN=truA PE=3 SV=1
Length = 297
Score = 85.5 bits (210), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 70/278 (25%), Positives = 108/278 (38%), Gaps = 45/278 (16%)
Query: 96 LKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVG 155
L + Y G F G+A+ TV ++ AL + GRTD GV + G
Sbjct: 26 LDIAYDGTDFAGWAAQVGQR-TVAGDLDAALTTIF-----RTPVRLRAAGRTDAGVHASG 79
Query: 156 QVIAIYLRSN-IKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTD 214
QV + + ++ + +G+ + + +R L R LP D+R++ + AP
Sbjct: 80 QVAHVDVPADALPNAYPRAGHVGD-------PEFLPLLRRLGRFLPADVRILDITRAPAG 132
Query: 215 FSARFSCISREYKYFF-----------------WRENLNLSAMESAGKKFVGEHDFRNFC 257
F ARFS + R Y Y W L+L AM +A + +G HDF FC
Sbjct: 133 FDARFSALRRHYVYRLSTAPYGVEPQQARYITAWPRELDLDAMTAASRDLMGLHDFAAFC 192
Query: 258 KM--DAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQ 315
+ A + + +R S L + AF W VR +V L +G+
Sbjct: 193 RHREGATTIRDLQRLDWS----------RAGTLVTAHVTADAFCWSMVRSLVGALLAVGE 242
Query: 316 GLESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDF 353
+ LL G R + +AP L L D+
Sbjct: 243 HRRATTWCRELLTATG--RSSDFAVAPAHGLTLIQVDY 278
>sp|B9MKC1|TRUA_CALBD tRNA pseudouridine synthase A OS=Caldicellulosiruptor bescii
(strain ATCC BAA-1888 / DSM 6725 / Z-1320) GN=truA PE=3
SV=1
Length = 244
Score = 85.5 bits (210), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 66/248 (26%), Positives = 117/248 (47%), Gaps = 50/248 (20%)
Query: 92 RYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGV 151
R + L + Y G ++G+ N + T++ I +A++K +E + GRTD+GV
Sbjct: 2 RNILLTIEYDGTGYFGWQKQPNKK-TIQGTIEEAIKKLT-----GEEVNLIGSGRTDRGV 55
Query: 152 SSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPA 211
++ Q ++N K + +I + + LN VLP DI + A
Sbjct: 56 HALNQ------KANFKTSS-------------KIPTD-KFPLALNSVLPGDISIKDAVEA 95
Query: 212 PTDFSARFSCISREYKY----------------FFWRENLNLSAMESAGKKFVGEHDFRN 255
P DFSAR+S + YKY +++ L++ AM+ A + F+GE+DF++
Sbjct: 96 PLDFSARYSARQKTYKYLIYNKKSRPALLRNYAYYYPYQLDVDAMQRACEYFIGEYDFKS 155
Query: 256 FCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQ 315
FC D+ +R + Y++FE N+ AI I + FL++ R + + +G
Sbjct: 156 FCSADSEAKTTIRR------VYNAYLTFE-NECIAIYITANGFLYNMARIIAGTILDVGA 208
Query: 316 G-LESIDV 322
G L+ +D+
Sbjct: 209 GKLKPMDI 216
>sp|Q45557|TRUA_BACSV tRNA pseudouridine synthase A OS=Bacillus sp. (strain KSM-64)
GN=truA PE=3 SV=1
Length = 244
Score = 85.1 bits (209), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 78/275 (28%), Positives = 118/275 (42%), Gaps = 53/275 (19%)
Query: 96 LKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVG 155
L + Y G R+ G+ GN E T++ +I L + +V K E S GRTD GV ++G
Sbjct: 6 LMIQYDGGRYKGWQRLGNGENTIQGKIETVLSE---MVGRKIEIIGS--GRTDAGVHALG 60
Query: 156 QVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDF 215
QV + L N TV+E + LNR LP DI V + P F
Sbjct: 61 QVANVKLSENF------------TVKEVK--------EYLNRYLPHDISVTEVTLVPDRF 100
Query: 216 SARFSCISREYKYFFWREN----------------LNLSAMESAGKKFVGEHDFRNFCKM 259
+R++ + Y Y W E+ L++ M A + FVGEHDF F
Sbjct: 101 HSRYNAKDKTYLYKIWNEDYTHPFMRKYSLHIEKKLHIDNMVKASQLFVGEHDFTAFSNA 160
Query: 260 DAANVHNYKRHVTSFEISPCYISFEGNQ-LCAIKIRGSAFLWHQVRCMVAVLFMIGQGLE 318
+ N R + S I+ + NQ I++ G FL++ VR MV L +G G +
Sbjct: 161 KSKKKTN-TRTIHS-------ITIQDNQGFIDIRVCGDGFLYNMVRKMVGTLIEVGLGEK 212
Query: 319 SIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDF 353
+ + ++L++ + Q A L L+ F
Sbjct: 213 EPEQVLTILES---KDRSQAGFADATGLYLEGISF 244
>sp|Q8NSV0|TRUA_CORGL tRNA pseudouridine synthase A OS=Corynebacterium glutamicum (strain
ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB
10025) GN=truA PE=3 SV=1
Length = 289
Score = 84.7 bits (208), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 77/278 (27%), Positives = 108/278 (38%), Gaps = 40/278 (14%)
Query: 94 VALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSS 153
+ L + Y G F+G+A G + + K LE +V ++ + GRTD GV +
Sbjct: 3 IRLDLAYDGTDFHGWAKQGTSD---LRTVQKVLEDNLSMVL-RETVELTVAGRTDAGVHA 58
Query: 154 VGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPT 213
GQV + ++ E + + D VR L R+LP DIRV G A
Sbjct: 59 AGQVAHFDIPAHALEQRSIDG------------DPSKLVRRLGRLLPDDIRVHGVRFAEP 106
Query: 214 DFSARFSCISREYKYFF-----------------WRENLNLSAMESAGKKFVGEHDFRNF 256
F ARFS + R Y Y W + + L M+ A +G HDF F
Sbjct: 107 GFDARFSAMRRHYVYRITTHPAGALPTRRHDTAQWPKPVELERMQLAADALLGLHDFVAF 166
Query: 257 CKMDAANVHNYK-RHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQ 315
CK A H R + F E Q+ + AF W VR +V +G+
Sbjct: 167 CK---AKPHATTVRELQKFAWKDVSTDIE-PQVYEAHVVADAFCWSMVRSLVGSCMAVGE 222
Query: 316 GLESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDF 353
G LLD + R P +AP L L D+
Sbjct: 223 GRRGSGFTAELLDAS--ERSPMVPVAPAKGLSLVGVDY 258
>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 = 84.7 bits (208), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 73/244 (29%), Positives = 107/244 (43%), Gaps = 51/244 (20%)
Query: 92 RYVALKVMYFGQRFYGFASD---GNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTD 148
R + + + Y G ++ G+ G+ TV+ ++ K L K +E CGRTD
Sbjct: 2 RNIKITLDYDGSKYKGWQKQNQKGSNVSTVQDKLEKVLTK-----MTSEEIQLIGCGRTD 56
Query: 149 KGVSSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGW 208
GV + V +N K N+ M +E I+Y+ N LP+DIRV
Sbjct: 57 SGVHAKNYV------ANFK----TNSLM-------TLEQIIEYI---NEYLPEDIRVTEI 96
Query: 209 SPAPTDFSARFSCISREYKY--------------FFW--RENLNLSAMESAGKKFVGEHD 252
A F ARF+ S+ Y+Y + W E L+L AME K +G HD
Sbjct: 97 REASERFHARFNVKSKTYEYTIDNNKFKDVFLRKYAWHVEEKLDLEAMEEGAKYLLGTHD 156
Query: 253 FRNFCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFM 312
F++F + + N R + S E E N + +IKI G+ FL + VR MV L
Sbjct: 157 FKSFTSLKSKNKSTL-RTINSIEFH------ENNNILSIKINGNGFLLNMVRIMVGTLVD 209
Query: 313 IGQG 316
+G G
Sbjct: 210 VGLG 213
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
0.320 0.135 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 147,966,894
Number of Sequences: 539616
Number of extensions: 6219557
Number of successful extensions: 19304
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 305
Number of HSP's successfully gapped in prelim test: 364
Number of HSP's that attempted gapping in prelim test: 17313
Number of HSP's gapped (non-prelim): 747
length of query: 410
length of database: 191,569,459
effective HSP length: 120
effective length of query: 290
effective length of database: 126,815,539
effective search space: 36776506310
effective search space used: 36776506310
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 62 (28.5 bits)