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= 045140
(468 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|O94396|PUS1_SCHPO tRNA pseudouridine synthase 1 OS=Schizosaccharomyces pombe (strain
972 / ATCC 24843) GN=pus1 PE=1 SV=1
Length = 534
Score = 199 bits (505), Expect = 4e-50, Method: Compositional matrix adjust.
Identities = 135/415 (32%), Positives = 201/415 (48%), Gaps = 33/415 (7%)
Query: 59 RRKIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSART 118
+RK+A YCG GY GMQ NP +KTIEGDL +A +GAVS + +P++ AR+ART
Sbjct: 43 KRKVACLVGYCGSGYHGMQLNPPSKTIEGDLFDAFVKAGAVSSYNADDPKKVALARAART 102
Query: 119 DKGVSAVGQVVSGRFCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYL 178
DKGV A G V+S + ++ L+E++N +LP IR++ R SFN + +C+ R Y Y+
Sbjct: 103 DKGVHAAGNVISLKLIMEDEKLIEKVNEHLPPSIRLWDVIRTINSFNPRTYCESRIYEYM 162
Query: 179 LPVFAL--DSSSHRDRESVMASLGSGNELVKCLECSERGRKVIGVMGKRTYQ-------- 228
+P +A S +M + E + ++ R + GK +
Sbjct: 163 VPTYAFVPPKPSSILGNCIMKNSPMPAEPINKENINQLSRSLFYEEGKEFWDDYDIAAKE 222
Query: 229 -LGLPSNDENASLNSQVKVDTVVSTCNGDRHNTNLESVESNKTISESVMVE-NANSESVN 286
L L D +N K R L + E+NK V + N + +S +
Sbjct: 223 ILSLYEQDPEGFVNPYSK-----------RGAAALANSENNKGSEAGVSAKTNPDMDSDS 271
Query: 287 ETLV-ESRTSETVQNENTDLSLDLDSKNDSKVMAEERSVNGEEKLLKGSGFCYGEEEKKR 345
+V E ++V++E+ +D + ER++ E +LK + +
Sbjct: 272 SAIVNEFLKPDSVEDESAGSKIDPSYR-------LERALKHIE-VLKLKNYRISADRLSV 323
Query: 346 FNRILKHYVGSHNFHNFTTRTKAEDPSARRYIISFGADSVVNVEGIDFLKCEVVGQSFML 405
L YVG HNFHNFT ++ R I SF A + +++ C+V GQSFML
Sbjct: 324 IRETLNQYVGVHNFHNFTVGQAFHQKNSNRVIRSFTASDPFMIGDTEWISCKVHGQSFML 383
Query: 406 HQIRKMIGLAVAVVRNCAPQSLIETALQKDVNINVPTAPEVGLYLDECIFASYNK 460
HQIRKMI LA+ VVR P I+ A +K IN+P P GL L+ F YN+
Sbjct: 384 HQIRKMIALAILVVRTGCPVERIQDAFKK-TKINIPKGPGFGLLLESPFFKGYNE 437
>sp|Q9Y606|TRUA_HUMAN tRNA pseudouridine synthase A, mitochondrial OS=Homo sapiens
GN=PUS1 PE=1 SV=3
Length = 427
Score = 133 bits (334), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 86/207 (41%), Positives = 110/207 (53%), Gaps = 36/207 (17%)
Query: 12 PSPSLSPRQ----EPDPKRLKMSATSTSDDERDLIPAAAGADSTT--------------- 52
P PS SPR EP P A + +R AG D
Sbjct: 21 PRPSCSPRMAGNAEPPP------AGAACPQDRRSCSGRAGGDRVWEDGEHPAKKLKSGGD 74
Query: 53 --KRQLCKRRKIAIFFAYCGVGYQGMQKNPGA---KTIEGDLEEALFHSGAVSERDRGNP 107
+R+ +RKI + AY G GY GMQ+N G+ KTIE DL AL SG + E +
Sbjct: 75 EERREKPPKRKIVLLMAYSGKGYHGMQRNVGSSQFKTIEDDLVSALVRSGCIPENHGEDM 134
Query: 108 RRYDWARSARTDKGVSAVGQVVSGR-FCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNA 166
R+ + R ARTDKGVSA GQVVS + + ID ++E++NS+LP+ IRI G KRVT FN+
Sbjct: 135 RKMSFQRCARTDKGVSAAGQVVSLKVWLID--DILEKINSHLPSHIRILGLKRVTGGFNS 192
Query: 167 KKFCDQRRYVYLLPVFALDSSSHRDRE 193
K CD R Y YLLP FA +H+DR+
Sbjct: 193 KNRCDARTYCYLLPTFAF---AHKDRD 216
Score = 115 bits (289), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 54/122 (44%), Positives = 81/122 (66%), Gaps = 1/122 (0%)
Query: 341 EEKKRFNRILKHYVGSHNFHNFTTRTKAEDPSARRYIISFGADSVVNVEGIDFLKCEVVG 400
E ++ NR+L Y G+HNFHNFT++ +DPSA RYI+ + EG++F V G
Sbjct: 227 ETLQQVNRLLACYKGTHNFHNFTSQKGPQDPSACRYILEMYCEEPFVREGLEFAVIRVKG 286
Query: 401 QSFMLHQIRKMIGLAVAVVRNCAPQSLIETALQKDVNINVPTAPEVGLYLDECIFASYNK 460
QSFM+HQIRKM+GL VA+V+ AP+S++E + + ++VP AP +GL L+ F YN+
Sbjct: 287 QSFMMHQIRKMVGLVVAIVKGYAPESVLERSWGTE-KVDVPKAPGLGLVLERVHFEKYNQ 345
Query: 461 KW 462
++
Sbjct: 346 RF 347
>sp|Q6CC39|PUS1_YARLI tRNA pseudouridine synthase 1 OS=Yarrowia lipolytica (strain CLIB
122 / E 150) GN=PUS1 PE=3 SV=1
Length = 528
Score = 130 bits (328), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 55/126 (43%), Positives = 83/126 (65%)
Query: 59 RRKIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSART 118
+RK+A YCG GY GMQ NP KTIEGD+ +A +GA+S+ + +P++ + R+ART
Sbjct: 84 KRKVACMIGYCGTGYHGMQLNPPQKTIEGDIFQAFVKAGAISQNNADDPKKSAFMRAART 143
Query: 119 DKGVSAVGQVVSGRFCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYL 178
DKGV A G V+S + I+ +VE++NS+LP Q+R++G R +F +K C R Y YL
Sbjct: 144 DKGVHAAGNVISLKMIIEDENIVEKINSHLPEQLRVWGVSRTNKAFECRKLCSSRVYEYL 203
Query: 179 LPVFAL 184
+P ++
Sbjct: 204 MPTYSF 209
Score = 106 bits (265), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 60/153 (39%), Positives = 84/153 (54%), Gaps = 6/153 (3%)
Query: 310 DSKNDSKVMAEERSVNGEEKLLKGSGFCYGEEEKKRFNRILKHYVGSHNFHNFTTRTKAE 369
DSK D+ + + ++V + F E + ILK Y G+HNFHNFT +
Sbjct: 279 DSKTDAATLEKIKAVERRHR----EEFRISGERLAKIREILKIYEGTHNFHNFTLGKAFK 334
Query: 370 DPSARRYIISFGADSVVNVEGIDFLKCEVVGQSFMLHQIRKMIGLAVAVVR-NCAPQSLI 428
DPSA R + S ++G +++ ++ GQSFMLHQIRKMI + VR N PQ LI
Sbjct: 335 DPSAMRTMKSLTCSDPFLIDGTEWVSIKIHGQSFMLHQIRKMISMVALSVRCNADPQKLI 394
Query: 429 ETALQKDVNINVPTAPEVGLYLDECIFASYNKK 461
+K IN+P AP +GL L+ ++ SYNKK
Sbjct: 395 PQTFEK-ARINIPKAPALGLLLERPVYDSYNKK 426
>sp|Q4KM92|TRUA_RAT tRNA pseudouridine synthase A, mitochondrial OS=Rattus norvegicus
GN=Pus1 PE=2 SV=2
Length = 423
Score = 130 bits (326), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 78/184 (42%), Positives = 104/184 (56%), Gaps = 12/184 (6%)
Query: 14 PSLSPRQEPDPKRLKMSATSTSDDERDLIPAAAGADSTTKRQLCKRRKIAIFFAYCGVGY 73
P P +PD R + E G D R+L KR KI + AY G GY
Sbjct: 37 PPALPSHQPD--RKGRGGWVWEETEHPAKRVKGGEDEEPPRKLPKR-KIVLLMAYSGKGY 93
Query: 74 QGMQKNPGA---KTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDKGVSAVGQVVS 130
GMQ+N G+ +TIE DL AL +G + E + R+ + R ARTDKGVSA GQVVS
Sbjct: 94 HGMQRNLGSSQFRTIEDDLVSALVQAGCIPENHGTDMRKMSFQRCARTDKGVSAAGQVVS 153
Query: 131 GR-FCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYLLPVFALDSSSH 189
+ + ID +++++NS+LP+ IRI G KRVT FN+K CD R Y Y+LP FA +H
Sbjct: 154 LKVWLID--DILDKINSHLPSHIRILGLKRVTGGFNSKNKCDARTYCYMLPTFAF---AH 208
Query: 190 RDRE 193
+DR+
Sbjct: 209 KDRD 212
Score = 117 bits (293), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 54/121 (44%), Positives = 82/121 (67%), Gaps = 1/121 (0%)
Query: 341 EEKKRFNRILKHYVGSHNFHNFTTRTKAEDPSARRYIISFGADSVVNVEGIDFLKCEVVG 400
E ++ NR+L Y G+HNFHNFT++ +PSARRYI+ + EG++F +V G
Sbjct: 223 ETLQQVNRLLGCYKGTHNFHNFTSQKGPREPSARRYILEMYCEEPFVREGLEFAVIKVKG 282
Query: 401 QSFMLHQIRKMIGLAVAVVRNCAPQSLIETALQKDVNINVPTAPEVGLYLDECIFASYNK 460
QSFM+HQIRKM+GL VA+V+ AP+S++E + ++ ++VP AP +GL L+ F YN+
Sbjct: 283 QSFMMHQIRKMVGLVVAIVKGYAPESVLERSWGEE-KVDVPKAPGLGLVLERVHFEKYNQ 341
Query: 461 K 461
+
Sbjct: 342 R 342
>sp|Q9WU56|TRUA_MOUSE tRNA pseudouridine synthase A, mitochondrial OS=Mus musculus
GN=Pus1 PE=1 SV=2
Length = 423
Score = 129 bits (325), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 80/188 (42%), Positives = 108/188 (57%), Gaps = 14/188 (7%)
Query: 10 KLPSPSLSPRQEPDPKRLKMSATSTSDDERDLIPAAAGADSTTKRQLCKRRKIAIFFAYC 69
K+P P+L+ Q P R + E G D R+L KR KI + AY
Sbjct: 35 KVP-PALASHQ---PDRKGRGGWVWEETEHPAKRVKGGEDEEPPRKLPKR-KIVLLMAYS 89
Query: 70 GVGYQGMQKNPGA---KTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDKGVSAVG 126
G GY GMQ+N G+ +TIE DL AL +G + E + R+ + R ARTDKGVSA G
Sbjct: 90 GKGYHGMQRNLGSSQFRTIEDDLVSALVQAGCIPENHGTDMRKMSFQRCARTDKGVSAAG 149
Query: 127 QVVSGR-FCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYLLPVFALD 185
QVVS + + ID +++++NS+LP+ IRI G KRVT FN+K CD R Y Y+LP FA
Sbjct: 150 QVVSLKVWLID--DILDKINSHLPSHIRILGLKRVTGGFNSKNKCDARTYCYMLPTFAF- 206
Query: 186 SSSHRDRE 193
+H+DR+
Sbjct: 207 --AHKDRD 212
Score = 117 bits (293), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 54/121 (44%), Positives = 82/121 (67%), Gaps = 1/121 (0%)
Query: 341 EEKKRFNRILKHYVGSHNFHNFTTRTKAEDPSARRYIISFGADSVVNVEGIDFLKCEVVG 400
E ++ NR+L Y G+HNFHNFT++ +PSARRYI+ + EG++F +V G
Sbjct: 223 ETLQQVNRLLACYKGTHNFHNFTSQKGPREPSARRYILEMYCEEPFVREGLEFAVIKVKG 282
Query: 401 QSFMLHQIRKMIGLAVAVVRNCAPQSLIETALQKDVNINVPTAPEVGLYLDECIFASYNK 460
QSFM+HQIRKM+GL VA+V+ AP+S++E + ++ ++VP AP +GL L+ F YN+
Sbjct: 283 QSFMMHQIRKMVGLVVAIVKGYAPESVLERSWGEE-KVDVPKAPGLGLVLERVHFEKYNQ 341
Query: 461 K 461
+
Sbjct: 342 R 342
>sp|Q6CWQ8|PUS1_KLULA tRNA pseudouridine synthase 1 OS=Kluyveromyces lactis (strain ATCC
8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 /
WM37) GN=PUS1 PE=3 SV=1
Length = 553
Score = 124 bits (310), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 61/152 (40%), Positives = 92/152 (60%), Gaps = 2/152 (1%)
Query: 35 SDDERDLIPAAAGADSTTKRQLCK--RRKIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEA 92
S D+ + + A AD Q + +RK+A+ YCG GY GMQ NP TIE +L EA
Sbjct: 72 SKDKDESVALAVDADGNPIPQEVRLPKRKVAVMIGYCGTGYHGMQYNPPNDTIEKELFEA 131
Query: 93 LFHSGAVSERDRGNPRRYDWARSARTDKGVSAVGQVVSGRFCIDPPGLVERLNSNLPTQI 152
+GA+S+ + + ++ + R+ARTDKGV A G V+S + I+ P + E++N+ LP QI
Sbjct: 132 FVRAGAISKANSTDLKKNGFQRAARTDKGVHAGGNVISLKLIIEDPEVKEKINNELPDQI 191
Query: 153 RIFGYKRVTASFNAKKFCDQRRYVYLLPVFAL 184
R++ RV +F+ +K C R Y YLLP ++L
Sbjct: 192 RVWDISRVNKAFDCRKMCSSRWYEYLLPTYSL 223
Score = 94.7 bits (234), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 47/122 (38%), Positives = 71/122 (58%), Gaps = 3/122 (2%)
Query: 345 RFNRILKHYVGSHNFHNFTTRTKAEDPSARRYI--ISFGADSVVNVEGIDFLKCEVVGQS 402
RF LK Y G+ NFHNFT DPSA+R++ I+ V+ +++ ++ GQS
Sbjct: 319 RFRSALKQYEGTFNFHNFTLGKDFNDPSAKRFMKQITVSEPFVIGEAKTEWVSIKIHGQS 378
Query: 403 FMLHQIRKMIGLAVAVVRNCAPQSLIETALQKDVNINVPTAPEVGLYLDECIFASYNKKW 462
FMLHQIRKMI +A + R +P I A ++ IN+P AP +GL L+ ++ YN +
Sbjct: 379 FMLHQIRKMISMATLITRCFSPLERIRQAYGQE-KINIPKAPALGLLLEAPVYDGYNTRL 437
Query: 463 KD 464
++
Sbjct: 438 QE 439
>sp|Q755C8|PUS1_ASHGO tRNA pseudouridine synthase 1 OS=Ashbya gossypii (strain ATCC 10895
/ CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN=PUS1 PE=3
SV=2
Length = 528
Score = 122 bits (307), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 56/140 (40%), Positives = 84/140 (60%)
Query: 45 AAGADSTTKRQLCKRRKIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDR 104
A S K +RK+A+ YCG GY GMQ NP +TIE +L EA +GA+S +
Sbjct: 52 ALAGTSEEKEARLPKRKVAVMVGYCGTGYHGMQYNPPNRTIEAELFEAFVKAGAISRANS 111
Query: 105 GNPRRYDWARSARTDKGVSAVGQVVSGRFCIDPPGLVERLNSNLPTQIRIFGYKRVTASF 164
+ ++ + R+ARTDKGV A G V+S + I+ P + +++N +LP IR++G RV +F
Sbjct: 112 TDLKKNGFMRAARTDKGVHAGGNVISLKLIIEDPAIKDKINEHLPPGIRVWGISRVNKAF 171
Query: 165 NAKKFCDQRRYVYLLPVFAL 184
+ +K C R Y YLLP ++
Sbjct: 172 DCRKLCGSRWYEYLLPTYSF 191
Score = 97.4 bits (241), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 49/121 (40%), Positives = 74/121 (61%), Gaps = 7/121 (5%)
Query: 345 RFNRILKHYVGSHNFHNFTTRTKAEDPSARRYI--ISFGADSVVNVEGIDFLKCEVVGQS 402
RF +K Y+G HNFHN+T +DPS R++ I+ V+ +++ ++ GQS
Sbjct: 288 RFREAMKQYLGPHNFHNYTLGKDFKDPSTVRFMKDITVSDPFVIGEMKTEWVSIKIHGQS 347
Query: 403 FMLHQIRKMIGLAVAVVR-NCAPQSLIET-ALQKDVNINVPTAPEVGLYLDECIFASYNK 460
FMLHQIRKMI +A V R NC+P+ + ++ QK IN+P AP +GL L+ ++ YNK
Sbjct: 348 FMLHQIRKMISMATLVARCNCSPERIAQSYGPQK---INIPKAPALGLLLESPVYEGYNK 404
Query: 461 K 461
+
Sbjct: 405 R 405
>sp|Q6FV05|PUS1_CANGA tRNA pseudouridine synthase 1 OS=Candida glabrata (strain ATCC 2001
/ CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) GN=PUS1
PE=3 SV=1
Length = 549
Score = 122 bits (306), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 53/126 (42%), Positives = 84/126 (66%)
Query: 59 RRKIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSART 118
+RK+A+ YCG GY GMQ NP TIE L +A +GA+S+ + + ++ ++ R+ART
Sbjct: 86 KRKVAVMIGYCGTGYHGMQYNPPNPTIEAALFKAFVDAGAISKANSNDLKKNNFMRAART 145
Query: 119 DKGVSAVGQVVSGRFCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYL 178
DKGV A G ++S + I+ P +++++N+NLP IRI+ +RV +F+ +K C R Y YL
Sbjct: 146 DKGVHAGGNLISLKMIIEDPEIMDKINANLPEGIRIWDIERVNKAFDCRKMCSSRWYEYL 205
Query: 179 LPVFAL 184
LP ++L
Sbjct: 206 LPTYSL 211
Score = 96.7 bits (239), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 48/119 (40%), Positives = 69/119 (57%), Gaps = 3/119 (2%)
Query: 345 RFNRILKHYVGSHNFHNFTTRTKAEDPSARRYI--ISFGADSVVNVEGIDFLKCEVVGQS 402
+F + Y+G+HNFHNFT + +DPSA R++ I V+ +++ ++ GQS
Sbjct: 308 KFRAAMNQYLGAHNFHNFTLGKEFKDPSAIRFMKEIKVSDPFVIGDAKAEWVSIKIHGQS 367
Query: 403 FMLHQIRKMIGLAVAVVRNCAPQSLIETALQKDVNINVPTAPEVGLYLDECIFASYNKK 461
FMLHQIRKMI +A + R P I A IN+P AP +GL L+ +F SYNK+
Sbjct: 368 FMLHQIRKMISMATLIARCGTPVERISQAFGPQ-KINIPKAPALGLLLEAPVFESYNKR 425
>sp|Q12211|PUS1_YEAST tRNA pseudouridine synthase 1 OS=Saccharomyces cerevisiae (strain
ATCC 204508 / S288c) GN=PUS1 PE=1 SV=1
Length = 544
Score = 115 bits (287), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 51/126 (40%), Positives = 80/126 (63%)
Query: 59 RRKIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSART 118
+RK+A+ YCG GY GMQ NP TIE L +A +GA+S+ + + ++ + R+ART
Sbjct: 74 KRKVAVMVGYCGTGYHGMQYNPPNPTIESALFKAFVEAGAISKDNSNDLKKNGFMRAART 133
Query: 119 DKGVSAVGQVVSGRFCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYL 178
DKGV A G ++S + I+ P + +++N LP IR++ +RV +F+ +K C R Y YL
Sbjct: 134 DKGVHAGGNLISLKMIIEDPDIKQKINEKLPEGIRVWDIERVNKAFDCRKMCSSRWYEYL 193
Query: 179 LPVFAL 184
LP ++L
Sbjct: 194 LPTYSL 199
Score = 90.1 bits (222), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 45/119 (37%), Positives = 67/119 (56%), Gaps = 3/119 (2%)
Query: 345 RFNRILKHYVGSHNFHNFTTRTKAEDPSARRYI--ISFGADSVVNVEGIDFLKCEVVGQS 402
+F Y+G+HNFHNFT ++PSA R++ I V+ +++ ++ GQS
Sbjct: 296 KFRASTSQYLGAHNFHNFTLGKDFKEPSAIRFMKDIKVSDPFVIGDAQTEWISIKIHGQS 355
Query: 403 FMLHQIRKMIGLAVAVVRNCAPQSLIETALQKDVNINVPTAPEVGLYLDECIFASYNKK 461
FMLHQIRKM+ +A + R P I A + IN+P AP +GL L+ +F YNK+
Sbjct: 356 FMLHQIRKMVSMATLITRCGCPVERISQAYGQQ-KINIPKAPALGLLLEAPVFEGYNKR 413
>sp|Q59S63|PUS1_CANAL tRNA pseudouridine synthase 1 OS=Candida albicans (strain SC5314 /
ATCC MYA-2876) GN=PUS1 PE=3 SV=1
Length = 450
Score = 105 bits (261), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 52/125 (41%), Positives = 71/125 (56%), Gaps = 1/125 (0%)
Query: 344 KRFNRILKHYVGSHNFHNFTTRTKAEDPSARRYIISFGADSVVNVEGIDFLKCEVVGQSF 403
+ F ++K Y G+HNFHNFT +D SA R++I +EG +++ ++ GQSF
Sbjct: 224 QHFREVMKQYEGTHNFHNFTVGKPFKDTSANRFMIKTIVSDPFVIEGTEWISIKIHGQSF 283
Query: 404 MLHQIRKMIGLAVAVVRNCAPQSLIETALQKDVNINVPTAPEVGLYLDECIFASYNKKWK 463
MLHQIRKMI +A VVR P +I Q IN+P AP +GL L+ +F YN K
Sbjct: 284 MLHQIRKMIAMAALVVRLSLPCGIINNFFQ-STKINIPKAPALGLLLENPVFDGYNIKLT 342
Query: 464 DSHEE 468
S E
Sbjct: 343 KSDYE 347
Score = 80.1 bits (196), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 40/98 (40%), Positives = 59/98 (60%), Gaps = 3/98 (3%)
Query: 108 RRYDWARSARTDKGVSAVGQVVSGRFCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAK 167
++ + R+ARTDKGV A G V+S + I+ P ++ ++N LP QIRI+G +R T F+ +
Sbjct: 37 KKSGFQRAARTDKGVHAAGNVISLKMIIEDPEIINKINDLLPKQIRIWGIQRATKGFDCR 96
Query: 168 KFCDQRRYVYLLPVFALDSSSHRDRESVMASLGSGNEL 205
K C R Y YLLP F+L + SV++ L EL
Sbjct: 97 KCCSSRIYEYLLPTFSLLPPKPK---SVLSELVKEKEL 131
>sp|P53167|PUS2_YEAST tRNA pseudouridine(27/28) synthase OS=Saccharomyces cerevisiae
(strain ATCC 204508 / S288c) GN=PUS2 PE=1 SV=4
Length = 370
Score = 103 bits (258), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 52/121 (42%), Positives = 74/121 (61%), Gaps = 1/121 (0%)
Query: 64 IFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDKGVS 123
+ YCG GY GMQ NP KTIEG++ LF GA+SE + P++ + +ARTDKGV
Sbjct: 1 MLLGYCGSGYYGMQYNPPHKTIEGEILTKLFDVGAISEENSLAPKKNSFMAAARTDKGVH 60
Query: 124 AVGQVVSGRFCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYLLPVFA 183
A+ ++S + + V +LN+ LP +IR++G + V FNA+ CD R Y YL+P F
Sbjct: 61 AMLNLLSLKITLR-EDTVAKLNAALPPEIRVWGIQPVNKKFNARSACDSRWYQYLIPEFI 119
Query: 184 L 184
L
Sbjct: 120 L 120
Score = 94.7 bits (234), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 52/137 (37%), Positives = 73/137 (53%), Gaps = 6/137 (4%)
Query: 330 LLKG--SGFCYGEEEKKRFNRILKHYVGSHNFHNFTTRTKAEDPSARRYIISFGADSVVN 387
LL G SG+C + F ++ YVG+HNFHNFTT DPSA+R+I VV+
Sbjct: 185 LLSGTLSGYCLSPSKLDAFEAAMQEYVGTHNFHNFTTGKLWGDPSAQRHI----KKVVVS 240
Query: 388 VEGIDFLKCEVVGQSFMLHQIRKMIGLAVAVVRNCAPQSLIETALQKDVNINVPTAPEVG 447
++ + GQSFMLHQIR+M+ LAV R P +++ +P AP G
Sbjct: 241 QASPGWICVRIHGQSFMLHQIRRMVALAVLAARCQLPPNIVRNYFNAGPRKYIPRAPAQG 300
Query: 448 LYLDECIFASYNKKWKD 464
L L+ +F YN K ++
Sbjct: 301 LLLEGPVFDGYNTKLRN 317
>sp|O94295|PUS2_SCHPO tRNA pseudouridine synthase 2 OS=Schizosaccharomyces pombe (strain
972 / ATCC 24843) GN=pus2 PE=3 SV=1
Length = 451
Score = 93.6 bits (231), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 49/144 (34%), Positives = 76/144 (52%), Gaps = 5/144 (3%)
Query: 330 LLKGSGFCY-----GEEEKKRFNRILKHYVGSHNFHNFTTRTKAEDPSARRYIISFGADS 384
L + +CY E+ K ++LK Y G HNFHNFT + PS R+I S +
Sbjct: 256 LKQAEYYCYMNYRIKEDRLKVLQQLLKKYEGRHNFHNFTVTDDSTSPSNYRFIESVTCGT 315
Query: 385 VVNVEGIDFLKCEVVGQSFMLHQIRKMIGLAVAVVRNCAPQSLIETALQKDVNINVPTAP 444
E +++ + G SFML+QIRKM+ + ++R+CAP LI+ A ++ +N+ +P
Sbjct: 316 PFVYENWEWIPVTIKGNSFMLNQIRKMMAHVLMIIRSCAPTGLIDKAFDPNITMNISKSP 375
Query: 445 EVGLYLDECIFASYNKKWKDSHEE 468
L L + F+SYN D E+
Sbjct: 376 GHVLLLKDIKFSSYNDSVTDGLEK 399
Score = 77.0 bits (188), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 56/171 (32%), Positives = 81/171 (47%), Gaps = 20/171 (11%)
Query: 29 MSATSTSDDERDLIPAAAGADSTTKRQLCKRRKI-----------AIFFAYCGVGYQGMQ 77
M++ S ++++ IPA + +L KR KI I Y G GY G+Q
Sbjct: 1 MTSISKRKNQQEHIPA----EDLETPKLPKREKIEGTKESNKVRIIILLGYSGYGYHGIQ 56
Query: 78 KNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDKGVSAVGQVVSGRFCIDP 137
N KTIEGD+ L G + + + + AR+ARTDKGV + ++S +D
Sbjct: 57 INNPLKTIEGDVVAVLKKLGYL-KTNNIDAEHLCIARAARTDKGVHTLRNLISLNLFVDK 115
Query: 138 PG----LVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYLLPVFAL 184
P L LN L +QIR++ FN + C+ R Y YL+P FAL
Sbjct: 116 PLDISLLKTELNEALCSQIRVWSVFPAPKYFNPRISCESRTYEYLIPSFAL 166
>sp|O22928|PUSH_ARATH Putative tRNA pseudouridine synthase OS=Arabidopsis thaliana
GN=At2g30320 PE=3 SV=1
Length = 510
Score = 92.8 bits (229), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 54/170 (31%), Positives = 91/170 (53%), Gaps = 12/170 (7%)
Query: 53 KRQLCKRRKIAIFFAYCGVGYQGMQ---KNPGAKTIEGDLEEALFHSGAVSERDRGNPRR 109
K + +++K+ I Y G Y+G+Q +P KTIEG+LE A++ +G + + + G+ +
Sbjct: 56 KWESYRKKKVVIRIGYVGTDYRGLQIQRDDPSIKTIEGELEVAIYKAGGIRDSNYGDLHK 115
Query: 110 YDWARSARTDKGVSAVGQVVSGRFCI-------DPPG--LVERLNSNLPTQIRIFGYKRV 160
WARS+RTDKGV ++ +S + I DP G L + ++ +LP IR+F
Sbjct: 116 IGWARSSRTDKGVHSLATSISLKMEIPETAWKDDPQGTVLAKCISKHLPENIRVFSVLPS 175
Query: 161 TASFNAKKFCDQRRYVYLLPVFALDSSSHRDRESVMASLGSGNELVKCLE 210
F+ ++ C R+Y YLLPV L + + + + NE++K E
Sbjct: 176 NRRFDPRRECTLRKYSYLLPVDVLGIKNSFTSDEIDYHITDFNEILKEFE 225
Score = 63.5 bits (153), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 31/64 (48%), Positives = 39/64 (60%)
Query: 387 NVEGIDFLKCEVVGQSFMLHQIRKMIGLAVAVVRNCAPQSLIETALQKDVNINVPTAPEV 446
N G F++ + G+SFMLHQIRKMIG AVAV R P+ +I +L K I +P AP
Sbjct: 337 NSLGFGFVEISIWGESFMLHQIRKMIGTAVAVKRELLPRDIIRLSLNKFTRIVLPLAPSE 396
Query: 447 GLYL 450
L L
Sbjct: 397 VLIL 400
>sp|O74451|YCG6_SCHPO Putative tRNA pseudouridine synthase C16C4.06c
OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843)
GN=SPCC16C4.06c PE=3 SV=2
Length = 413
Score = 77.4 bits (189), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 46/130 (35%), Positives = 69/130 (53%), Gaps = 4/130 (3%)
Query: 58 KRRKIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSAR 117
++R + +Y G G+ G+Q N KTI+ L +A GAV + + +P++ +AR
Sbjct: 35 RKRMVYCVVSYRGTGFAGLQYNANVKTIQDTLFQAFARVGAVVQVNADSPKKIRMCSAAR 94
Query: 118 TDKGVSAVGQVVSGRFCID---PPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRR 174
TDKGV A+ V+ G +D P +V +N LP IR++ R SF+ CD R
Sbjct: 95 TDKGVHAIVNVL-GLKVLDNQPLPHVVNLVNDILPPCIRVWKMARTFNSFSPHTVCDSRV 153
Query: 175 YVYLLPVFAL 184
Y Y LPV +L
Sbjct: 154 YEYWLPVSSL 163
Score = 73.6 bits (179), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 39/119 (32%), Positives = 67/119 (56%), Gaps = 7/119 (5%)
Query: 349 ILKH----YVGSHNFHNFTTRTKAEDPSARRYIISFGADSVVNVEGID--FLKCEVVGQS 402
LKH + G+H FH++TT D S+RR+++ D++ +++ ++ ++K GQS
Sbjct: 219 FLKHACTMFRGTHRFHSYTTEKGFSDASSRRFLLDVRVDNL-HIDKLNRQWVKLIFHGQS 277
Query: 403 FMLHQIRKMIGLAVAVVRNCAPQSLIETALQKDVNINVPTAPEVGLYLDECIFASYNKK 461
FM HQIRKM+G+ + + R ++ I +P AP L L++ IF ++NKK
Sbjct: 278 FMKHQIRKMVGILIHLTRTGWNAQVLLNTFNNSYRIRIPRAPAEFLLLNQPIFQAFNKK 336
>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 = 74.3 bits (181), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 51/131 (38%), Positives = 66/131 (50%), Gaps = 11/131 (8%)
Query: 55 QLCKRRKIAIFFAYCGVGYQGM--QKNPGA-KTIEGDLEEALFHSGAVSERDRGNPRRYD 111
QL K +A FAYCG Y G+ Q P T+EG + EAL + +++ P
Sbjct: 87 QLEKTVFVAFKFAYCGWNYNGLAYQLEPTPLPTVEGKVFEALLRAHLITD-----PSSCS 141
Query: 112 WARSARTDKGVSAVGQVVSGRFCID---PPGLVERLNSNLPTQIRIFGYKRVTASFNAKK 168
++R RTDKGVSA+GQV+S P + LN LP IRI GY F+A+
Sbjct: 142 FSRCGRTDKGVSAMGQVISLNVRHSERRPIIYCDVLNRLLPADIRITGYAFPPEGFDARF 201
Query: 169 FCDQRRYVYLL 179
C QR Y YL
Sbjct: 202 SCKQRHYKYLF 212
Score = 40.4 bits (93), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 36/131 (27%), Positives = 57/131 (43%), Gaps = 14/131 (10%)
Query: 339 GEEEKKRFNRILKHYVGSHNFHNFTTRTKAEDPS-ARRYIISFGADSVVNVEGIDFLKCE 397
G + R N Y+G H+F NF ++ + R I+S + G+ +
Sbjct: 219 GSLDIDRMNEAAALYLGEHDFRNFCKIDASKQITNYHRRILSSKVICIDPSTGL--YAFD 276
Query: 398 VVGQSFMLHQIRKMIGLAVAVVRNCAPQSLIETALQKDVNINVPTAP------EVGLYLD 451
+ G +F+ HQ+R M+ + + + P SLI L D+ VPT P E L L
Sbjct: 277 LQGTAFLWHQVRCMMAILFLIGQKLEPASLINDLL--DIK-KVPTKPIYDMASEYPLILY 333
Query: 452 ECIFASYNKKW 462
+C F N +W
Sbjct: 334 DCDFD--NIEW 342
>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 = 73.2 bits (178), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 43/120 (35%), Positives = 63/120 (52%), Gaps = 8/120 (6%)
Query: 60 RKIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTD 119
RKIA+ AY G Y G Q+ P T+EG L EAL +G + +P+R + + RTD
Sbjct: 2 RKIALKVAYIGTNYHGFQRQPDVPTVEGKLLEALEGAGIIE-----DPKRARFQIAGRTD 56
Query: 120 KGVSAVGQVVSGRFCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYLL 179
+GV A+G VS F + V ++N LP IR+ + V F ++ +R Y Y+L
Sbjct: 57 RGVHALGNFVS--FFTEEDIHVNQINDLLPRDIRVLAWASVMYPFKV-RYPLERHYRYIL 113
Score = 36.2 bits (82), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 35/121 (28%), Positives = 54/121 (44%), Gaps = 19/121 (15%)
Query: 352 HYVGSHNFHNFTTRTKAEDPSAR--RYIISFGADSVVNVEGIDFLKCEVVGQSFMLHQIR 409
H+ G+H+F NF+ R+ DP R IS DS++ +V G+SF+ +R
Sbjct: 130 HFRGTHDFSNFSRRSD-RDPVRRINDVRISEVGDSII---------IDVYGESFLWQMVR 179
Query: 410 KMI-GLAVAVVRNCAPQSLIETALQKDVNINV-PTAPEVGLYLDECIFASYNKKWKDSHE 467
KM+ L + AP + L D + + P PE + +D Y K K H+
Sbjct: 180 KMVRALLMVSEGELAPDDM-AGLLDTDRRVFLEPMPPENLILMD----LKYGVKIKLRHD 234
Query: 468 E 468
E
Sbjct: 235 E 235
>sp|Q3SX07|PUS3_BOVIN tRNA pseudouridine(38/39) synthase OS=Bos taurus GN=PUS3 PE=2 SV=1
Length = 481
Score = 70.1 bits (170), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 66/212 (31%), Positives = 90/212 (42%), Gaps = 38/212 (17%)
Query: 4 AETNTEKLPSPSLSPR---QEPDPKRLKMSATSTSDDERDLIPAAAGADSTTKRQL---- 56
AE + +++ + L R E + KRLK + D ++ ++GA KR
Sbjct: 2 AENDVDRIQTEKLLKRVQELEQEVKRLKKEQANNKDS--NIRENSSGAGGKPKRAFDFSA 59
Query: 57 CKRRKIAIFFAYCGVGYQGM--QKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWAR 114
+R +A+ AY G GYQG Q+N + TIE L EAL + V R N + R
Sbjct: 60 HGQRHVALKIAYLGWGYQGFASQENT-SNTIEEKLFEALTKTRLVENRQTSN-----YHR 113
Query: 115 SARTDKGVSAVGQVVSGRFCIDPPG---------------------LVERLNSNLPTQIR 153
RTDKGVSA GQV+S P LN LP IR
Sbjct: 114 CGRTDKGVSAFGQVISLDLRSHIPKGRDSEHFNLKNEVNDVATEIRYTHILNRVLPPDIR 173
Query: 154 IFGYKRVTASFNAKKFCDQRRYVYLLPVFALD 185
+ + V SF+A+ C +R Y Y P LD
Sbjct: 174 VLAWAPVETSFSARFSCLERTYRYFFPRANLD 205
Score = 40.4 bits (93), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 38/128 (29%), Positives = 56/128 (43%), Gaps = 13/128 (10%)
Query: 346 FNRILKHYVGSHNFHNFTTRTKAEDP-SARRYIISFGADSV---VNVEGID--FLKC--E 397
N + YVG+H+F N A + +R I+S V + EG F C E
Sbjct: 209 MNYAAQKYVGTHDFRNLCKMDVANGVINFQRTILSAQVQRVGQNLGEEGWQEPFQLCQFE 268
Query: 398 VVGQSFMLHQIRKMIGLAVAVVRNCAPQSLIETALQKDVNINVP---TAPEVGLYLDECI 454
V GQ+F+ HQ+R M+ + + + +I+ L + N P A E L L +C
Sbjct: 269 VTGQAFLYHQVRCMMAVLFLIGQGMEKPEVIDELLNIEKNPQKPQYSMAVEFPLVLYDCK 328
Query: 455 FASYNKKW 462
F N KW
Sbjct: 329 FE--NIKW 334
>sp|Q9JI38|PUS3_MOUSE tRNA pseudouridine(38/39) synthase OS=Mus musculus GN=Pus3 PE=1
SV=2
Length = 481
Score = 69.3 bits (168), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 53/153 (34%), Positives = 67/153 (43%), Gaps = 29/153 (18%)
Query: 59 RRKIAIFFAYCGVGYQGM--QKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSA 116
RR +A+ AY G GYQG Q+N + TIE L EAL + V R N + R
Sbjct: 63 RRHVALKIAYLGWGYQGFASQEN-TSNTIEEKLFEALTKTRLVESRQTSN-----YHRCG 116
Query: 117 RTDKGVSAVGQVVSGRFCIDPPG---------------------LVERLNSNLPTQIRIF 155
RTDKGVSA GQV+S P LN LP IR+
Sbjct: 117 RTDKGVSAFGQVISLDLRSQFPTSRDSEDSNLKHEADDLAKEIRYTHILNRVLPADIRVL 176
Query: 156 GYKRVTASFNAKKFCDQRRYVYLLPVFALDSSS 188
+ V SF+A+ C +R Y Y P LD ++
Sbjct: 177 AWAPVEPSFSARFSCLERTYRYFFPRADLDIAT 209
Score = 44.3 bits (103), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 36/133 (27%), Positives = 54/133 (40%), Gaps = 13/133 (9%)
Query: 346 FNRILKHYVGSHNFHNFTTRTKAEDP-SARRYIISFGADSVVNVEG-------IDFLKCE 397
N + YVG+H+F N A + +R I+ V G + E
Sbjct: 210 MNYAAQKYVGTHDFRNLCKMDVANGVINFQRTILCAQVQLVAQSPGEERRQEPFQLCQFE 269
Query: 398 VVGQSFMLHQIRKMIGLAVAVVRNCAPQSLIETALQKDVNINVP---TAPEVGLYLDECI 454
V+GQ+F+ HQ+R M+ + + + +I+ L N P A E L L +C
Sbjct: 270 VIGQAFLYHQVRCMMAILFLIGQGMEKPEIIDELLNIQKNPQKPQYSMAVEFPLVLYDCK 329
Query: 455 FASYNKKWKDSHE 467
F N KW HE
Sbjct: 330 FE--NTKWIYDHE 340
>sp|Q9BZE2|PUS3_HUMAN tRNA pseudouridine(38/39) synthase OS=Homo sapiens GN=PUS3 PE=1
SV=3
Length = 481
Score = 68.6 bits (166), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 67/195 (34%), Positives = 84/195 (43%), Gaps = 41/195 (21%)
Query: 21 EPDPKRLKMSATSTSDDERDLIPAAAGADSTTKRQL----CKRRKIAIFFAYCGVGYQGM 76
E + +RLK +D ++ +AGA TKR RR +A+ AY G GYQG
Sbjct: 22 EQEVQRLKKEQAKNKEDS-NIRENSAGA-GKTKRAFDFSAHGRRHVALRIAYMGWGYQGF 79
Query: 77 --QKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDKGVSAVGQVVS---- 130
Q+N TIE L EAL + V R N + R RTDKGVSA GQV+S
Sbjct: 80 ASQENTN-NTIEEKLFEALTKTRLVESRQTSN-----YHRCGRTDKGVSAFGQVISLDLR 133
Query: 131 GRFCIDPPG--------------------LVERLNSNLPTQIRIFGYKRVTASFNAKKFC 170
+F P G LN LP IRI + V SF+A+ C
Sbjct: 134 SQF---PRGRDSEDFNVKEEANAAAEEIRYTHILNRVLPPDIRILAWAPVEPSFSARFSC 190
Query: 171 DQRRYVYLLPVFALD 185
+R Y Y P LD
Sbjct: 191 LERTYRYFFPRADLD 205
Score = 41.2 bits (95), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 51/121 (42%), Gaps = 13/121 (10%)
Query: 353 YVGSHNFHNFTTRTKAEDP-SARRYIISFGADSVVNVEG-------IDFLKCEVVGQSFM 404
YVG+H+F N A + +R I+S V G + EV GQ+F+
Sbjct: 216 YVGTHDFRNLCKMDVANGVINFQRTILSAQVQLVGQSPGEGRWQEPFQLCQFEVTGQAFL 275
Query: 405 LHQIRKMIGLAVAVVRNCAPQSLIETALQKDVNINVP---TAPEVGLYLDECIFASYNKK 461
HQ+R M+ + + + +I+ L + N P A E L L +C F N K
Sbjct: 276 YHQVRCMMAILFLIGQGMEKPEIIDELLNIEKNPQKPQYSMAVEFPLVLYDCKFE--NVK 333
Query: 462 W 462
W
Sbjct: 334 W 334
>sp|Q2NHB4|TRUA_METST tRNA pseudouridine synthase A OS=Methanosphaera stadtmanae (strain
DSM 3091) GN=truA PE=3 SV=1
Length = 274
Score = 67.4 bits (163), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 38/122 (31%), Positives = 61/122 (50%), Gaps = 8/122 (6%)
Query: 60 RKIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTD 119
R++A+ AY G + G Q+ P +T+EG+L + + + + ++ + RTD
Sbjct: 2 RRVALKIAYIGSNFHGYQRQPNYRTVEGELLRVFKETNIIEDTWTAH-----YSVAGRTD 56
Query: 120 KGVSAVGQVVSGRFCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYLL 179
KGV + G V+S F D + +LN LP I+I G RV F +F R Y Y+
Sbjct: 57 KGVHSTGNVIS--FITDEDIHINQLNGLLPDDIKIIGEARVPYGFKV-RFPLTRTYTYIQ 113
Query: 180 PV 181
P+
Sbjct: 114 PI 115
Score = 38.1 bits (87), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 33/119 (27%), Positives = 60/119 (50%), Gaps = 13/119 (10%)
Query: 350 LKHYVGSHNFHNFTTRTKAEDPSARRYIISFGADSVVNVEGIDFLKCEVVGQSFMLHQIR 409
++ ++G HNF NF+ R + ++P+ + ++ D D L +VG+SF+ + +R
Sbjct: 132 MESFIGKHNFRNFSKRNE-KNPNRKIIDVNLEVDE-------DVLIFTIVGESFLWNMVR 183
Query: 410 KMIGLAVAVVRNCAPQSLIETALQ-KDVN--INVPTAPEVGLYLDECIFASYNKKWKDS 465
KM+ + V + I L+ K++ I + AP GL L + + N K+KDS
Sbjct: 184 KMVTSIMEVGYGKLDINDINELLKPKELRQFIRLQPAPANGLILSDMEYK--NIKFKDS 240
>sp|Q5UXW0|TRUA_HALMA tRNA pseudouridine synthase A OS=Haloarcula marismortui (strain
ATCC 43049 / DSM 3752 / JCM 8966 / VKM B-1809) GN=truA
PE=3 SV=1
Length = 275
Score = 66.2 bits (160), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 44/115 (38%), Positives = 54/115 (46%), Gaps = 9/115 (7%)
Query: 67 AYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDKGVSAVG 126
AY G Y G Q+ P T+EG L AL G V ER G P RY A + RTD GVSA
Sbjct: 7 AYDGQPYHGFQRQPDVDTVEGRLRSALVRLG-VCERGEGLPDRY--AAAGRTDAGVSART 63
Query: 127 QVVSGRFCIDPPGLVE--RLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYLL 179
Q V+ D P + N LP +R++ V F+A +R Y Y L
Sbjct: 64 QTVA----FDAPAWLSPAAFNGELPNDVRVWASADVPEDFHATHDAAERTYTYYL 114
Score = 39.7 bits (91), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 48/117 (41%), Gaps = 13/117 (11%)
Query: 342 EKKRFNRILKHYVGSHNFHNFTTRTKAEDPSARRYIISFGADSVVNVEGIDFLKCEVVGQ 401
+ R+ + G+H+FHN TT E + R I + D FL ++
Sbjct: 129 DDGRWADAVDALAGTHDFHNLTTD---ETGTERTVAIDWTRDG-------QFLVVQLTAG 178
Query: 402 SFMLHQIRKMIGLAVAVVRNCAPQSLIETALQKDV---NINVPTAPEVGLYLDECIF 455
F +R+++ LA AV AP S ++ L + VP AP L L + +
Sbjct: 179 GFCRQLVRRLVSLAAAVADGSAPLSKVDRILSPEPVSGPDGVPPAPPEPLVLTDVRY 235
>sp|Q09524|TG124_CAEEL Probable tRNA pseudouridine synthase tag-124 OS=Caenorhabditis
elegans GN=tag-124 PE=3 SV=1
Length = 402
Score = 64.3 bits (155), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 46/146 (31%), Positives = 66/146 (45%), Gaps = 32/146 (21%)
Query: 59 RRKIAIFFAYCGVGYQGMQKNPGAK-TIEGDLEEALFHSGAVSERDRGNPRRYDWARSAR 117
RRKIAI F Y G + G+ + P + T+E + +AL + + + + D++R R
Sbjct: 29 RRKIAIQFFYLGWEHDGLVQQPHTQNTVENHIMQALIKTHLIEDWTKC-----DFSRCGR 83
Query: 118 TDKGVSAVGQVV-----------SGRFCIDPPG---------------LVERLNSNLPTQ 151
TDKGVSA Q SG F D V+ LN LP
Sbjct: 84 TDKGVSAFKQTAAMVVRSLCPGDSGVFWSDSTQEHQKVDYKASGEELPYVKMLNGVLPKT 143
Query: 152 IRIFGYKRVTASFNAKKFCDQRRYVY 177
IR+F + V +FNA+ C++R Y Y
Sbjct: 144 IRVFAWAPVAQTFNARFDCNRRTYKY 169
>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 = 64.3 bits (155), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 41/138 (29%), Positives = 72/138 (52%), Gaps = 9/138 (6%)
Query: 61 KIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDK 120
++A+ AY G + G Q P +T+E +L +AL + + +P+ ++ + RTD
Sbjct: 2 RVALKLAYIGTEFHGSQIQPSVETVEKELFKALRNLRIIE-----SPKSANYICAGRTDA 56
Query: 121 GVSAVGQVVSGRFCIDPPGL-VERL-NSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYL 178
GV A+GQV++ F D P L + R+ NS LP I ++ + V F+A++ R Y Y+
Sbjct: 57 GVHALGQVIA--FDTDRPNLAIPRIINSGLPPTIWVWAHAEVPYDFDARRHAVSRHYRYV 114
Query: 179 LPVFALDSSSHRDRESVM 196
+ D S R+ ++
Sbjct: 115 ISGEGYDISKMREASKLL 132
Score = 34.7 bits (78), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 46/101 (45%), Gaps = 8/101 (7%)
Query: 351 KHYVGSHNFHNFTTRTKAEDPSARRYIISFGADSVVNVEGIDFLKCEVVGQSFMLHQIRK 410
K +G+H+F NF+ R+ E + R V V+G D K +VVG SF+ + +RK
Sbjct: 130 KLLLGTHDFENFS-RSNGEKSTVRTL-----ERINVRVDG-DITKIDVVGNSFLWNMVRK 182
Query: 411 MIGLAVAVVRNCAPQSLIETALQKDV-NINVPTAPEVGLYL 450
++ + + + L D+ + AP GL L
Sbjct: 183 IVTALSMIGKGVRDNDWLIQMLNPDIYEEGIEPAPAYGLTL 223
>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 = 63.5 bits (153), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 41/138 (29%), Positives = 69/138 (50%), Gaps = 9/138 (6%)
Query: 61 KIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDK 120
++A+ AY G + G Q P +T+E +L +AL + + +P+ D+ + RTD
Sbjct: 2 RVALKLAYIGTEFHGSQIQPNVETVEKELFKALRNLSIIE-----SPKSADYTCAGRTDA 56
Query: 121 GVSAVGQVVSGRFCIDPPGLV--ERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYL 178
GV A+GQVV+ F + P L +NS LP I + + V F+A++ R Y Y+
Sbjct: 57 GVHALGQVVA--FDTEKPNLAIPRVINSELPPAIWAWAHAEVPYYFDARRSAVSRHYHYV 114
Query: 179 LPVFALDSSSHRDRESVM 196
+ D S R+ ++
Sbjct: 115 MSGEDYDISKMREASKLL 132
>sp|Q2JFE6|TRUA_FRASC tRNA pseudouridine synthase A OS=Frankia sp. (strain CcI3) GN=truA
PE=3 SV=1
Length = 274
Score = 62.4 bits (150), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 39/119 (32%), Positives = 55/119 (46%), Gaps = 10/119 (8%)
Query: 61 KIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDK 120
++ + +Y G + G + PG +T++GD+E+AL + + RTD
Sbjct: 7 RLRLDLSYDGTPFAGWARQPGQRTVQGDVEDALMRVARLPA--------VRLTVAGRTDS 58
Query: 121 GVSAVGQVVSGRFCIDPP--GLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVY 177
GV AVGQV D P GL RLN L +RI G F+A+ RRYVY
Sbjct: 59 GVHAVGQVAHVDLPDDVPLGGLARRLNGVLDRAVRIIGLAPAPPGFDARFSALSRRYVY 117
>sp|Q0W2P8|TRUA_UNCMA tRNA pseudouridine synthase A OS=Uncultured methanogenic archaeon
RC-I GN=truA PE=3 SV=1
Length = 266
Score = 62.0 bits (149), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 46/142 (32%), Positives = 67/142 (47%), Gaps = 11/142 (7%)
Query: 61 KIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDK 120
K A+ AY G + G Q PG T+E +L +AL +GA+ + A + RTD
Sbjct: 2 KTALKIAYVGTNFYGSQAQPGLPTVESELRKALEEAGAIKLGTKI-------AMAGRTDA 54
Query: 121 GVSAVGQVVSGRFCIDPPGLVER-LNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYLL 179
GV A+GQVV+ DP R +NS LP + + V F+ ++ R Y Y+L
Sbjct: 55 GVHALGQVVAFEQA-DPKLTAPRIINSKLPKDLWAYARAEVPDDFDPRRHATSREYRYIL 113
Query: 180 PVFALDSSSHRDRESVMASLGS 201
+A D R +E LG+
Sbjct: 114 --YAPDVIERRLKECSSRFLGT 133
Score = 38.1 bits (87), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 26/108 (24%), Positives = 46/108 (42%), Gaps = 7/108 (6%)
Query: 343 KKRFNRILKHYVGSHNFHNFTTRTKAEDPSARRYIISFGADSVVNVEGIDFLKCEVVGQS 402
++R ++G+H+F NF++ A +Y + + G DF ++ S
Sbjct: 120 ERRLKECSSRFLGTHDFTNFSSV------EAGKYPVRTVTRLDIAKRG-DFYIIDIEADS 172
Query: 403 FMLHQIRKMIGLAVAVVRNCAPQSLIETALQKDVNINVPTAPEVGLYL 450
F+ + +RK++ V N P IE + +P A GLYL
Sbjct: 173 FLWNMVRKIVTALRLVGENKRPDGWIEKMFDPEYREGIPPAAPGGLYL 220
>sp|Q12VJ7|TRUA_METBU tRNA pseudouridine synthase A OS=Methanococcoides burtonii (strain
DSM 6242) GN=truA PE=3 SV=1
Length = 275
Score = 61.6 bits (148), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 40/121 (33%), Positives = 61/121 (50%), Gaps = 9/121 (7%)
Query: 61 KIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDK 120
++A+ AY G + G Q T+EG+L + L G + + PR ++ S RTD
Sbjct: 2 RVALKIAYIGSNFHGSQVQLNDPTVEGELFKVLKELGIMED-----PRTANFISSGRTDS 56
Query: 121 GVSAVGQVVSGRFCIDPPGLV--ERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYL 178
GV A+GQVV+ F D P L +NS LP I + + V +F+ ++ R Y Y+
Sbjct: 57 GVHAMGQVVA--FDTDAPNLAMPRVINSKLPGTIWAWAHAIVPENFDPRRHALSRSYRYI 114
Query: 179 L 179
L
Sbjct: 115 L 115
>sp|Q035B5|TRUA_LACC3 tRNA pseudouridine synthase A OS=Lactobacillus casei (strain ATCC
334) GN=truA PE=3 SV=1
Length = 247
Score = 61.2 bits (147), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 40/118 (33%), Positives = 61/118 (51%), Gaps = 18/118 (15%)
Query: 66 FAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDKGVSAV 125
AY G + G Q P +T++G L++AL ++ +G P D S RTD GV A+
Sbjct: 8 LAYDGTNFAGYQVQPKQRTVQGVLQKAL------TKMTKGQPVHVDG--SGRTDSGVHAL 59
Query: 126 GQVVSGRFCIDPPG------LVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVY 177
GQV+S D PG +++ +NS +P I I + V A F+A+ +RY+Y
Sbjct: 60 GQVIS----FDYPGNIPAESMLKAMNSLMPLDIEILKAEIVDADFHARYSAKGKRYLY 113
>sp|B3WAI6|TRUA_LACCB tRNA pseudouridine synthase A OS=Lactobacillus casei (strain BL23)
GN=truA PE=3 SV=1
Length = 247
Score = 61.2 bits (147), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 40/118 (33%), Positives = 61/118 (51%), Gaps = 18/118 (15%)
Query: 66 FAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDKGVSAV 125
AY G + G Q P +T++G L++AL ++ +G P D S RTD GV A+
Sbjct: 8 LAYDGTNFAGYQVQPKQRTVQGVLQKAL------TKMTKGQPVHVDG--SGRTDSGVHAL 59
Query: 126 GQVVSGRFCIDPPG------LVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVY 177
GQV+S D PG +++ +NS +P I I + V A F+A+ +RY+Y
Sbjct: 60 GQVIS----FDYPGNIPAESMLKAMNSLMPLDIEILKAEIVDADFHARYSAKGKRYLY 113
>sp|Q46CU8|TRUA_METBF tRNA pseudouridine synthase A OS=Methanosarcina barkeri (strain
Fusaro / DSM 804) GN=truA PE=3 SV=1
Length = 269
Score = 60.8 bits (146), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 41/133 (30%), Positives = 68/133 (51%), Gaps = 9/133 (6%)
Query: 61 KIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDK 120
++A+ AY G + G Q P +T+EG+L +AL + G + +P+ ++ + RTD
Sbjct: 2 RVALKLAYIGTEFHGSQIQPNVETVEGELFKALRNLGIIE-----SPKSANYTCAGRTDA 56
Query: 121 GVSAVGQVVSGRFCIDPPGLV--ERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYL 178
GV A+ QVV+ F D L +NS L I ++ + V SF+A++ R Y Y+
Sbjct: 57 GVHALEQVVA--FDTDKLNLAIPRVINSELTPGIWVWAHAEVPLSFDARRDAVSRHYRYV 114
Query: 179 LPVFALDSSSHRD 191
+ D S R+
Sbjct: 115 MSGKEYDISKIRE 127
Score = 37.4 bits (85), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 30/118 (25%), Positives = 53/118 (44%), Gaps = 23/118 (19%)
Query: 351 KHYVGSHNFHNFTTRTKAEDPSARRYIISFGADSVVNVEGID------FLKCEVVGQSFM 404
K +G+H+F NF+ RT E + R +E ID +K +VVG SF+
Sbjct: 130 KFLLGTHDFENFS-RTNGEKSTVR------------TIERIDARIDGELIKIDVVGNSFL 176
Query: 405 LHQIRKMIGLAVAVVRNCAPQSLIETALQKDV-NINVPTAPEVGLYLDECIFASYNKK 461
+ +RK++ + + + L ++ + +AP GL L + +YN+K
Sbjct: 177 WNMVRKIVTALSMIGKGVRDTDWLLQMLNPEIYEEGIESAPAYGLTL---LKVNYNEK 231
>sp|A0B7V0|TRUA_METTP tRNA pseudouridine synthase A OS=Methanosaeta thermophila (strain
DSM 6194 / PT) GN=truA PE=3 SV=1
Length = 267
Score = 59.7 bits (143), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 42/135 (31%), Positives = 64/135 (47%), Gaps = 15/135 (11%)
Query: 61 KIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDK 120
KIA+ AY G Y G Q+ PG +T+E + +AL G + D+ + RTD+
Sbjct: 2 KIALKIAYLGDRYYGFQRQPGLRTVESVMRDALLRIGVANG---------DFCYAGRTDR 52
Query: 121 GVSAVGQVVSGRFCIDPP----GLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYV 176
GVSA+GQV+ F I+ +NS LP+ + + F+A+ R Y
Sbjct: 53 GVSALGQVID--FWIEEDRAYLAFPRVINSLLPSDVWAWARAVAPVGFSARWSALWREYR 110
Query: 177 YLLPVFALDSSSHRD 191
Y L +D S+ R+
Sbjct: 111 YFLFSPDIDLSAVRE 125
Score = 35.0 bits (79), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 28/99 (28%), Positives = 45/99 (45%), Gaps = 9/99 (9%)
Query: 352 HYVGSHNFHNFTTRTKAEDPSARRYIISFGADSVVNVEGIDFLKCEVVGQSFMLHQIRKM 411
H VG+H+F NF+ +K + + RR IIS ++ + D V + F+ + +R++
Sbjct: 129 HLVGTHDFRNFSM-SKVD--TVRR-IISIDVNAHCGIVVFD-----VRAEGFIWNMVRRI 179
Query: 412 IGLAVAVVRNCAPQSLIETALQKDVNINVPTAPEVGLYL 450
+G + P I L PTAP GL L
Sbjct: 180 VGALELIGIGEKPVDWILELLDPSTPHGAPTAPPEGLML 218
>sp|Q3IMP6|TRUA_NATPD tRNA pseudouridine synthase A OS=Natronomonas pharaonis (strain DSM
2160 / ATCC 35678) GN=truA PE=3 SV=1
Length = 267
Score = 59.3 bits (142), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 51/154 (33%), Positives = 69/154 (44%), Gaps = 10/154 (6%)
Query: 63 AIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDKGV 122
A AY G G++G Q+ P +T+E L EAL G E G P Y A + RTD GV
Sbjct: 3 AFRIAYDGTGFRGFQRQPHGETVENALFEALSSLGVAFE--DGRPPGY--AAAGRTDAGV 58
Query: 123 SAVGQVVSGRFCIDPPGLVER-LNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYLLPV 181
SA Q V+ P L+ R LN LP +R + V +F+A R Y Y L
Sbjct: 59 SARAQTVA---FEAPAWLLPRALNGELPASVRAWAAADVGDAFHATHDATARAYRYFL-- 113
Query: 182 FALDSSSHRDRESVMASLGSGNELVKCLECSERG 215
+A + S+ R + SG+ +RG
Sbjct: 114 YAPEPSADTTRARAACARLSGSHDFHNFTPDDRG 147
>sp|B5RQJ5|TRUA_BORRA tRNA pseudouridine synthase A OS=Borrelia recurrentis (strain A1)
GN=truA PE=3 SV=1
Length = 245
Score = 58.5 bits (140), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 43/140 (30%), Positives = 65/140 (46%), Gaps = 15/140 (10%)
Query: 60 RKIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTD 119
+KI AY G Y G Q P TI+G++E+AL ++ N + + RTD
Sbjct: 2 KKILAEIAYDGSLYHGFQIQPTKPTIQGEIEKAL---------EKINKTKVKIQSAGRTD 52
Query: 120 KGVSAVGQVVSG--RFCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVY 177
KGV A Q++S + I+ L +NS L IRI K V+ F + +R+Y Y
Sbjct: 53 KGVHAKRQIISFYIKININLKNLKTAINSLLKNDIRIIKLKYVSNEFQPRFHAKKRKYTY 112
Query: 178 LLPVFALDSSSHRDRESVMA 197
+ L++ +H E A
Sbjct: 113 ----YILNNENHYPWEEYQA 128
Score = 40.0 bits (92), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 25/113 (22%), Positives = 50/113 (44%), Gaps = 9/113 (7%)
Query: 345 RFNRILKHYVGSHNFHNFT-TRTKAEDPSARRYIISFGADSVVNVEGIDFLKCEVVGQSF 403
R N + + +G H+F F+ R + Y+ F + F+ E++G SF
Sbjct: 139 RLNTMAEMLIGLHDFTTFSCIRDQTNSKLKEIYLAKFKKKN-------KFIVFEIIGSSF 191
Query: 404 MLHQIRKMIGLAVAV-VRNCAPQSLIETALQKDVNINVPTAPEVGLYLDECIF 455
+ +R ++G + + ++N + + I+ K+ TAP L+LD +
Sbjct: 192 LWKMVRSIVGTMIDIEIKNESVDTFIKILKSKNRKYARTTAPAKALFLDRVFY 244
>sp|B5RLM0|TRUA_BORDL tRNA pseudouridine synthase A OS=Borrelia duttonii (strain Ly)
GN=truA PE=3 SV=1
Length = 245
Score = 58.5 bits (140), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 43/140 (30%), Positives = 65/140 (46%), Gaps = 15/140 (10%)
Query: 60 RKIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTD 119
+KI AY G Y G Q P TI+G++E+AL ++ N + + RTD
Sbjct: 2 KKILAEIAYDGSLYHGFQIQPTKPTIQGEIEKAL---------EKINKTKVKIQSAGRTD 52
Query: 120 KGVSAVGQVVSG--RFCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVY 177
KGV A Q++S + I+ L +NS L IRI K V+ F + +R+Y Y
Sbjct: 53 KGVHAKRQIISFYIKININLKNLKTAINSLLKNDIRIIKLKYVSNEFQPRFHAKKRKYTY 112
Query: 178 LLPVFALDSSSHRDRESVMA 197
+ L++ +H E A
Sbjct: 113 ----YILNNENHYPWEEYQA 128
Score = 40.0 bits (92), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 25/113 (22%), Positives = 50/113 (44%), Gaps = 9/113 (7%)
Query: 345 RFNRILKHYVGSHNFHNFT-TRTKAEDPSARRYIISFGADSVVNVEGIDFLKCEVVGQSF 403
R N + + +G H+F F+ R + Y+ F + F+ E++G SF
Sbjct: 139 RLNTMAEMLIGLHDFTTFSCIRDQTNSKLKEIYLAKFKKKN-------KFIVFEIIGSSF 191
Query: 404 MLHQIRKMIGLAVAV-VRNCAPQSLIETALQKDVNINVPTAPEVGLYLDECIF 455
+ +R ++G + + ++N + + I+ K+ TAP L+LD +
Sbjct: 192 LWKMVRSIVGTMIDIEIKNESVDTFIKILKSKNRKYARTTAPAKALFLDRVFY 244
>sp|Q8KDR7|TRUA_CHLTE tRNA pseudouridine synthase A OS=Chlorobium tepidum (strain ATCC
49652 / DSM 12025 / TLS) GN=truA PE=3 SV=1
Length = 247
Score = 57.8 bits (138), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 45/124 (36%), Positives = 58/124 (46%), Gaps = 12/124 (9%)
Query: 59 RRKIAIFFAYCGVGYQGMQKNPG-AKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSAR 117
+R I + Y G GY G Q+ PG T++G++E L ER P D A R
Sbjct: 5 KRTIKMQIEYDGTGYSGWQRQPGDVVTVQGEIERVL-------ERIMQEPVSIDGA--GR 55
Query: 118 TDKGVSAVGQVVSGRFCIDPP--GLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRY 175
TD GV A QV S C P L+ NS LP+ IRI ++ SF+A+ R Y
Sbjct: 56 TDSGVHARRQVASFATCSPMPLGRLIYSANSLLPSTIRINAMRQAPESFHARFSATSREY 115
Query: 176 VYLL 179
Y L
Sbjct: 116 RYFL 119
>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 = 57.0 bits (136), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 40/128 (31%), Positives = 66/128 (51%), Gaps = 16/128 (12%)
Query: 61 KIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDK 120
K+A+ AY G + G Q+ P +T+EG++ +AL +SG + + ++RTDK
Sbjct: 2 KVALKIAYDGTKFHGFQRQPNVRTVEGEIIKALNNSGIMFNELKS---------ASRTDK 52
Query: 121 GVSAVGQVVSGRF---CIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVY 177
GVSA+G VV+ I P + LN+ L + + +V + F+ + + + Y Y
Sbjct: 53 GVSALGNVVAITTEDERITNPMI---LNAKL-KDVWVLSAVKVPSDFHPRFWARSKVYRY 108
Query: 178 LLPVFALD 185
LP F LD
Sbjct: 109 YLPSFDLD 116
>sp|Q01WL4|TRUA_SOLUE tRNA pseudouridine synthase A OS=Solibacter usitatus (strain
Ellin6076) GN=truA PE=3 SV=1
Length = 240
Score = 56.6 bits (135), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 46/122 (37%), Positives = 59/122 (48%), Gaps = 15/122 (12%)
Query: 60 RKIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTD 119
R+I I+ AY G + G Q PG TI+G LEE + G + G P A S RTD
Sbjct: 2 RRIRIYLAYDGGPFHGWQVQPGLATIQGILEEIV---GGME----GKPVHV--AGSGRTD 52
Query: 120 KGVSAVGQVVSGRFCIDPPGLVERL----NSNLPTQIRIFGYKRVTASFNAKKFCDQRRY 175
GV A+ QV + F I+ P VE L N LP IRI + V A F+ + + Y
Sbjct: 53 AGVHALAQVAA--FSIENPIPVENLRRAVNRLLPPAIRILCAEEVQADFHPRFDAVAKTY 110
Query: 176 VY 177
Y
Sbjct: 111 EY 112
>sp|Q820P8|TRUA_NITEU tRNA pseudouridine synthase A OS=Nitrosomonas europaea (strain ATCC
19718 / NBRC 14298) GN=truA PE=3 SV=1
Length = 272
Score = 56.6 bits (135), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 41/121 (33%), Positives = 56/121 (46%), Gaps = 11/121 (9%)
Query: 61 KIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDK 120
KI + Y G GY G QK PG +++ LE AL SG R+ + RTD
Sbjct: 13 KIVLALEYDGRGYCGWQKQPGCLSVQSRLESAL--SGVAG-------RQIQVVAAGRTDA 63
Query: 121 GVSAVGQVVSGRFCIDPP--GLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYL 178
GV A+ QVV C+ P + N+ LP I I V+ F+A+ +R Y+Y
Sbjct: 64 GVHALCQVVHLETCVRRPLNAWIRGTNALLPGDISILEASEVSDDFHARFSATERTYLYY 123
Query: 179 L 179
L
Sbjct: 124 L 124
>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 = 56.6 bits (135), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 54/180 (30%), Positives = 87/180 (48%), Gaps = 24/180 (13%)
Query: 61 KIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDK 120
K+A+ AY G + G Q+ PG +T+EG++ + L G + +P + D+ ++RTD+
Sbjct: 2 KLALRVAYDGSAFYGFQRQPGVRTVEGEIIKVLQKLGIIE-----SPEKNDFKGASRTDR 56
Query: 121 GVSAVGQVVSGRFCI-DPPGLV--ERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVY 177
GVSA VVS F + P L E LN +L + + + G V F+ + + + Y Y
Sbjct: 57 GVSAFFNVVS--FVPSERPDLARPEVLNHHL-SDVWVLGIAEVPDDFHPRFWAKFKTYRY 113
Query: 178 LLPVFALDSSSHRDRESV---------MASLGSGNELVKCLECSE----RGRKVIGVMGK 224
L D S+ R+ S+ A L G + ++ +E E +G VI V GK
Sbjct: 114 YLVNEGFDLSAMRECASLFVGRHDFSAFAKLEPGRDPIREVERVEVIERQGYLVIEVQGK 173
>sp|B8E1G5|TRUA_DICTD tRNA pseudouridine synthase A OS=Dictyoglomus turgidum (strain
Z-1310 / DSM 6724) GN=truA PE=3 SV=1
Length = 245
Score = 56.6 bits (135), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 42/119 (35%), Positives = 61/119 (51%), Gaps = 17/119 (14%)
Query: 67 AYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDKGVSAVG 126
+Y G + G QK PG +TI+G+LE+ L S E R + RTD GV A+G
Sbjct: 9 SYIGKDFYGFQKQPGKRTIQGELEKVL--SFLFDEEIRV-------IGAGRTDTGVHALG 59
Query: 127 QVVSGR------FCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYLL 179
QVV+ + F D L + LN LP I+I + V SF+A+ +R Y+Y++
Sbjct: 60 QVVNFKSRGHKGFSCDK--LHKVLNRLLPEDIKIKKVEIVDDSFHARYSAKRRWYIYVV 116
>sp|Q6MDE3|TRUA2_PARUW tRNA pseudouridine synthase A 2 OS=Protochlamydia amoebophila
(strain UWE25) GN=truA2 PE=3 SV=1
Length = 262
Score = 56.2 bits (134), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 42/141 (29%), Positives = 66/141 (46%), Gaps = 23/141 (16%)
Query: 49 DSTTKRQLC---KRRKIAIFFAYCGVGYQGMQKNPGA----KTIEGDLEEALFHSGAVSE 101
D TT+ L + I + AY G Y G QK P KT++ LE+ L H+ ++
Sbjct: 2 DYTTQSDLSLSKSMQNIKLKIAYDGQAYFGWQKTPAGPSVEKTLQNSLEQILQHTISLQA 61
Query: 102 RDRGNPRRYDWARSARTDKGVSAVGQVV---SGRFCIDPPGLVERLNSNLPTQIRIFGYK 158
++RTDKGV A GQ+V + + D + LNS LPT +RI +
Sbjct: 62 -------------ASRTDKGVHARGQIVNFLTTKSITDLQKFILSLNSLLPTDLRILSAE 108
Query: 159 RVTASFNAKKFCDQRRYVYLL 179
++ ++F+ C + Y Y +
Sbjct: 109 KMPSTFHPTLNCVAKEYCYYI 129
>sp|B2S1K1|TRUA_BORHD tRNA pseudouridine synthase A OS=Borrelia hermsii (strain DAH)
GN=truA PE=3 SV=1
Length = 245
Score = 55.5 bits (132), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 48/159 (30%), Positives = 71/159 (44%), Gaps = 22/159 (13%)
Query: 60 RKIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTD 119
+KI AY G Y G Q P TI+G++E+AL ++ + + + RTD
Sbjct: 2 KKILAEIAYDGSLYYGFQIQPTKPTIQGEIEKAL---------EKISKTKVKVHSAGRTD 52
Query: 120 KGVSAVGQVVSG--RFCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVY 177
KGV A GQ++S R I L +NS L IRI K V F + +R+Y Y
Sbjct: 53 KGVHARGQIISFYIRINIKLKNLKTAINSLLRKDIRIIKLKYVADEFQPRFNAKRRKYSY 112
Query: 178 LLPVFALDSSSHRDRESVMA-------SLGSGNELVKCL 209
+ L++ +H E A ++ NE+ K L
Sbjct: 113 ----YILNNENHYPWEGYQAYYVKKKLNINRLNEMAKML 147
Score = 35.0 bits (79), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 49/113 (43%), Gaps = 9/113 (7%)
Query: 345 RFNRILKHYVGSHNFHNFT-TRTKAEDPSARRYIISFGADSVVNVEGIDFLKCEVVGQSF 403
R N + K +G H+F F+ + + + Y F + + + E++G SF
Sbjct: 139 RLNEMAKMLIGIHDFTTFSCIKDQTNSKLKKIYFARFKKKNKLII-------FEIIGSSF 191
Query: 404 MLHQIRKMIGLAVAV-VRNCAPQSLIETALQKDVNINVPTAPEVGLYLDECIF 455
+ +R ++G + + ++N + + K+ TAP L+LD+ +
Sbjct: 192 LWKMVRSIVGTIIDIEIKNEPVYTFKKILNSKNRKFTRTTAPAKALFLDKVFY 244
>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 = 55.5 bits (132), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 44/131 (33%), Positives = 62/131 (47%), Gaps = 14/131 (10%)
Query: 61 KIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSA-RTD 119
K A AY G + G Q P +T+EG++ AL G NPR RSA RTD
Sbjct: 3 KFAFKIAYFGDNFHGSQFQPDQRTVEGEVINALRRLGV------ENPR----LRSAGRTD 52
Query: 120 KGVSAVGQVVSGRFCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYLL 179
GV A GQV+S F + LN+ LP I + + +V+ F+ ++ R Y Y++
Sbjct: 53 AGVHAYGQVIS--FYSEDKIFPRMLNAELPEDITAWAWAKVSEDFDPRR-AKSRVYTYVM 109
Query: 180 PVFALDSSSHR 190
D S+ R
Sbjct: 110 YGSDYDISAMR 120
>sp|Q8CY46|TRUA_BIFLO tRNA pseudouridine synthase A OS=Bifidobacterium longum (strain NCC
2705) GN=truA PE=3 SV=1
Length = 303
Score = 55.5 bits (132), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 42/130 (32%), Positives = 55/130 (42%), Gaps = 15/130 (11%)
Query: 61 KIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDK 120
++ I AY G G+ G K P +T++G +E+AL V D P R A RTD
Sbjct: 3 RLRIDLAYDGGGFYGWAKQPNLRTVQGTIEDALHKVLRVPTDDAAEPLRLTVA--GRTDT 60
Query: 121 GVSAVGQVVS------------GRFCID-PPGLVERLNSNLPTQIRIFGYKRVTASFNAK 167
GV A QV G I L RL + LP+ I I G F+A+
Sbjct: 61 GVHASHQVAHLDVSDEVLNRCVGHMTIPVTEALTRRLKAVLPSDIVIHGIAVAPVGFDAR 120
Query: 168 KFCDQRRYVY 177
+R YVY
Sbjct: 121 FSALERTYVY 130
>sp|B3DQE2|TRUA_BIFLD tRNA pseudouridine synthase A OS=Bifidobacterium longum (strain
DJO10A) GN=truA PE=3 SV=1
Length = 303
Score = 55.5 bits (132), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 42/130 (32%), Positives = 55/130 (42%), Gaps = 15/130 (11%)
Query: 61 KIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDK 120
++ I AY G G+ G K P +T++G +E+AL V D P R A RTD
Sbjct: 3 RLRIDLAYDGGGFYGWAKQPNLRTVQGTIEDALHKVLRVPTDDAAEPLRLTVA--GRTDT 60
Query: 121 GVSAVGQVVS------------GRFCID-PPGLVERLNSNLPTQIRIFGYKRVTASFNAK 167
GV A QV G I L RL + LP+ I I G F+A+
Sbjct: 61 GVHASHQVAHLDVSDEVLNRCVGHMTIPVTEALTRRLKAVLPSDIVIHGIAVAPVGFDAR 120
Query: 168 KFCDQRRYVY 177
+R YVY
Sbjct: 121 FSALERTYVY 130
>sp|Q5WLN0|TRUA_BACSK tRNA pseudouridine synthase A OS=Bacillus clausii (strain KSM-K16)
GN=truA PE=3 SV=1
Length = 261
Score = 55.1 bits (131), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 38/123 (30%), Positives = 55/123 (44%), Gaps = 14/123 (11%)
Query: 61 KIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEAL--FHSGAVSERDRGNPRRYDWARSART 118
++A +Y G + G Q PG +T++ ++E AL H GA R S RT
Sbjct: 3 RMACKLSYDGTAFAGYQVQPGKRTVQSEVERALQEIHKGA----------RVPVVASGRT 52
Query: 119 DKGVSAVGQVVS--GRFCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYV 176
D GV A GQV+ I P V LN++LP I + V F+A+ + Y
Sbjct: 53 DAGVHACGQVLHFDTELTIAPERWVSALNTHLPDDIVVTNAAMVEPDFHARYGAQAKEYR 112
Query: 177 YLL 179
Y +
Sbjct: 113 YYI 115
>sp|Q47HQ7|TRUA_DECAR tRNA pseudouridine synthase A OS=Dechloromonas aromatica (strain
RCB) GN=truA PE=3 SV=1
Length = 262
Score = 54.7 bits (130), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 40/121 (33%), Positives = 56/121 (46%), Gaps = 11/121 (9%)
Query: 61 KIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDK 120
++A+ YCG G+ G Q G T++ LE AL G V+ G + RTD
Sbjct: 2 RVALGIEYCGTGFHGWQSQAGGGTVQDALEAAL---GEVAGVPVGV------LCAGRTDA 52
Query: 121 GVSAVGQVVSGRFCIDPP--GLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYL 178
GV A QV +D P V +NS+LP + + + V F+A+ RRY YL
Sbjct: 53 GVHATHQVAHFDAPVDRPLTAWVRGVNSHLPEGVAVRWAQPVAEDFHARFSARGRRYRYL 112
Query: 179 L 179
L
Sbjct: 113 L 113
>sp|C6BW69|TRUA_DESAD tRNA pseudouridine synthase A OS=Desulfovibrio salexigens (strain
ATCC 14822 / DSM 2638 / NCIB 8403 / VKM B-1763) GN=truA
PE=3 SV=1
Length = 271
Score = 54.7 bits (130), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 11/122 (9%)
Query: 60 RKIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTD 119
++I + AY G + G Q P +T++GDLE+A+ + R G S RTD
Sbjct: 2 QRIKLIIAYDGTNFCGWQLQPKLRTVQGDLEKAITRITGTTVRVHG---------SGRTD 52
Query: 120 KGVSAVGQVVSGRF--CIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVY 177
GV A+GQV C LNS LP + I + V+ F+++ ++ Y Y
Sbjct: 53 SGVHALGQVAHFDVDSCFASVKWQRALNSLLPDDVTILDAQLVSPEFHSRYSAIRKTYTY 112
Query: 178 LL 179
L
Sbjct: 113 TL 114
>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 = 54.7 bits (130), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 40/141 (28%), Positives = 71/141 (50%), Gaps = 12/141 (8%)
Query: 61 KIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTDK 120
++A+ AY G + G Q+ P +TIEG++ AL +G E ++ ++RTD+
Sbjct: 2 RVALKIAYDGTKFHGFQRQPNVRTIEGEILRALKDAGIEFE---------NFKSASRTDR 52
Query: 121 GVSAVGQVVSGRFCIDPPGLVERLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYVYLLP 180
GVSA G V++ D LNS + + + I+G V F+ + + + + Y Y LP
Sbjct: 53 GVSARGNVIALSTEDDRIKNPMVLNSRM-SDVWIWGIAEVPEDFHPRFWANTKVYRYYLP 111
Query: 181 VFALDSSSHRDRESVMASLGS 201
+L + + +E + LG+
Sbjct: 112 --SLGMNIKKMKECSLLFLGT 130
>sp|A6LLJ7|TRUA_THEM4 tRNA pseudouridine synthase A OS=Thermosipho melanesiensis (strain
BI429 / DSM 12029) GN=truA PE=3 SV=1
Length = 244
Score = 54.3 bits (129), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 40/123 (32%), Positives = 60/123 (48%), Gaps = 12/123 (9%)
Query: 60 RKIAIFFAYCGVGYQGMQKNPGAKTIEGDLEEALFHSGAVSERDRGNPRRYDWARSARTD 119
++ AI F+Y G + G Q P +T++G+LE+AL +R R + RTD
Sbjct: 2 KRFAIEFSYDGTNFFGYQGQPNVRTVQGELEKAL---------ERIFKERIFTQGAGRTD 52
Query: 120 KGVSAVGQVVSGRFCIDPPGLVE---RLNSNLPTQIRIFGYKRVTASFNAKKFCDQRRYV 176
GV A GQV + ID ++ LN+NLP I + V +FN + +R Y
Sbjct: 53 AGVHANGQVAAFNCPIDRLAAIDIKNALNANLPEDIYVKKAWEVEKNFNPRFRAKKRIYH 112
Query: 177 YLL 179
YL+
Sbjct: 113 YLV 115
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
0.314 0.130 0.369
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 169,800,688
Number of Sequences: 539616
Number of extensions: 7133521
Number of successful extensions: 20490
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 68
Number of HSP's successfully gapped in prelim test: 612
Number of HSP's that attempted gapping in prelim test: 18708
Number of HSP's gapped (non-prelim): 1757
length of query: 468
length of database: 191,569,459
effective HSP length: 121
effective length of query: 347
effective length of database: 126,275,923
effective search space: 43817745281
effective search space used: 43817745281
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 63 (28.9 bits)