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= psy12402
(375 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q9Y606|TRUA_HUMAN tRNA pseudouridine synthase A, mitochondrial OS=Homo sapiens
GN=PUS1 PE=1 SV=3
Length = 427
Score = 320 bits (821), Expect = 8e-87, Method: Compositional matrix adjust.
Identities = 160/355 (45%), Positives = 232/355 (65%), Gaps = 19/355 (5%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQG---MKTIEGDIMEALFKAGFVTEDSFNTPQ 57
+ ++ AYSG GY G+Q RN G KTIE D++ AL ++G + E+ +
Sbjct: 86 IVLLMAYSGKGYHGMQ----------RNVGSSQFKTIEDDLVSALVRSGCIPENHGEDMR 135
Query: 58 NIQFQRAARTDKGVSALKQIVSLKLPE-EANKEAINEHLPEQIRILSIKRVTKGFNSKNN 116
+ FQR ARTDKGVSA Q+VSLK+ + E IN HLP IRIL +KRVT GFNSKN
Sbjct: 136 KMSFQRCARTDKGVSAAGQVVSLKVWLIDDILEKINSHLPSHIRILGLKRVTGGFNSKNR 195
Query: 117 CNARTYSYTCPTYAFA-TPQDTKDD-FRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPL 174
C+ARTY Y PT+AFA +D +D+ +RL+ + + LL Y+GTHNFHNFTS++ P
Sbjct: 196 CDARTYCYLLPTFAFAHKDRDVQDETYRLSAETLQQVNRLLACYKGTHNFHNFTSQKGPQ 255
Query: 175 DPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIE 234
DPS RYI+ CE+PFV++GLE +++KGQSFM+HQIRKMVG+ +AI +G+ + ++E
Sbjct: 256 DPSACRYILEMYCEEPFVREGLEFAVIRVKGQSFMMHQIRKMVGLVVAIVKGYAPESVLE 315
Query: 235 KTFGLDQFDLPMAPGLGLLLEQVHYDLYNQKYGQDGMHESLHFHEVDKEVNEFRHKFILP 294
+++G ++ D+P APGLGL+LE+VH++ YNQ++G DG+HE L + + + +V F+ + I P
Sbjct: 316 RSWGTEKVDVPKAPGLGLVLERVHFEKYNQRFGNDGLHEPLDWAQEEGKVAAFKEEHIYP 375
Query: 295 YLVKTEITEKPMLAWLELLADHSFETRAAKAALAAANGEELQEVTDGEEEEDEED 349
++ TE E+ M WL L H+F +A A A G ++ +G E + + D
Sbjct: 376 TIIGTERDERSMAQWLSTLPIHNF---SATALTAGGTGAKVPSPLEGSEGDGDTD 427
>sp|Q9WU56|TRUA_MOUSE tRNA pseudouridine synthase A, mitochondrial OS=Mus musculus
GN=Pus1 PE=1 SV=2
Length = 423
Score = 319 bits (818), Expect = 2e-86, Method: Compositional matrix adjust.
Identities = 160/352 (45%), Positives = 231/352 (65%), Gaps = 16/352 (4%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQG---MKTIEGDIMEALFKAGFVTEDSFNTPQ 57
+ ++ AYSG GY G+Q RN G +TIE D++ AL +AG + E+ +
Sbjct: 82 IVLLMAYSGKGYHGMQ----------RNLGSSQFRTIEDDLVSALVQAGCIPENHGTDMR 131
Query: 58 NIQFQRAARTDKGVSALKQIVSLKLPE-EANKEAINEHLPEQIRILSIKRVTKGFNSKNN 116
+ FQR ARTDKGVSA Q+VSLK+ + + IN HLP IRIL +KRVT GFNSKN
Sbjct: 132 KMSFQRCARTDKGVSAAGQVVSLKVWLIDDILDKINSHLPSHIRILGLKRVTGGFNSKNK 191
Query: 117 CNARTYSYTCPTYAFA-TPQDTKDD-FRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPL 174
C+ARTY Y PT+AFA +D +D+ +RL+ + + LL Y+GTHNFHNFTS++ P
Sbjct: 192 CDARTYCYMLPTFAFAHKDRDVQDESYRLSAETLQQVNRLLACYKGTHNFHNFTSQKGPR 251
Query: 175 DPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIE 234
+PS RYI+ CE+PFV++GLE +K+KGQSFM+HQIRKMVG+ +AI +G+ + ++E
Sbjct: 252 EPSARRYILEMYCEEPFVREGLEFAVIKVKGQSFMMHQIRKMVGLVVAIVKGYAPESVLE 311
Query: 235 KTFGLDQFDLPMAPGLGLLLEQVHYDLYNQKYGQDGMHESLHFHEVDKEVNEFRHKFILP 294
+++G ++ D+P APGLGL+LE+VH++ YNQ++G DG+HE L + + + +V F+ ++I P
Sbjct: 312 RSWGEEKVDVPKAPGLGLVLERVHFEKYNQRFGGDGLHEPLDWTQEEGKVTAFKEQYIYP 371
Query: 295 YLVKTEITEKPMLAWLELLADHSFETRAAKAALAAANGEELQEVTDGEEEED 346
+V TE E+ M WL L H+F A AA A E ++G+ + D
Sbjct: 372 TIVSTERDERSMAQWLNTLPIHNFSGTALGAADTGAKVPSSLEGSEGDGDTD 423
>sp|Q4KM92|TRUA_RAT tRNA pseudouridine synthase A, mitochondrial OS=Rattus norvegicus
GN=Pus1 PE=2 SV=2
Length = 423
Score = 317 bits (812), Expect = 9e-86, Method: Compositional matrix adjust.
Identities = 159/352 (45%), Positives = 230/352 (65%), Gaps = 16/352 (4%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQG---MKTIEGDIMEALFKAGFVTEDSFNTPQ 57
+ ++ AYSG GY G+Q RN G +TIE D++ AL +AG + E+ +
Sbjct: 82 IVLLMAYSGKGYHGMQ----------RNLGSSQFRTIEDDLVSALVQAGCIPENHGTDMR 131
Query: 58 NIQFQRAARTDKGVSALKQIVSLKLPE-EANKEAINEHLPEQIRILSIKRVTKGFNSKNN 116
+ FQR ARTDKGVSA Q+VSLK+ + + IN HLP IRIL +KRVT GFNSKN
Sbjct: 132 KMSFQRCARTDKGVSAAGQVVSLKVWLIDDILDKINSHLPSHIRILGLKRVTGGFNSKNK 191
Query: 117 CNARTYSYTCPTYAFA-TPQDTKDD-FRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPL 174
C+ARTY Y PT+AFA +D +D+ +RL+ + + LL Y+GTHNFHNFTS++ P
Sbjct: 192 CDARTYCYMLPTFAFAHKDRDVQDESYRLSAETLQQVNRLLGCYKGTHNFHNFTSQKGPR 251
Query: 175 DPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIE 234
+PS RYI+ CE+PFV++GLE +K+KGQSFM+HQIRKMVG+ +AI +G+ + ++E
Sbjct: 252 EPSARRYILEMYCEEPFVREGLEFAVIKVKGQSFMMHQIRKMVGLVVAIVKGYAPESVLE 311
Query: 235 KTFGLDQFDLPMAPGLGLLLEQVHYDLYNQKYGQDGMHESLHFHEVDKEVNEFRHKFILP 294
+++G ++ D+P APGLGL+LE+VH++ YNQ++G DG+HE L + + + +V F+ ++I P
Sbjct: 312 RSWGEEKVDVPKAPGLGLVLERVHFEKYNQRFGSDGLHEPLDWAQEEGKVTAFKEQYIYP 371
Query: 295 YLVKTEITEKPMLAWLELLADHSFETRAAKAALAAANGEELQEVTDGEEEED 346
+V TE E+ M WL L H+F A A A E ++G+ + D
Sbjct: 372 TIVSTERDERSMAQWLNTLPIHNFSGTALGADDTGAKVPSSLEGSEGDGDTD 423
>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 = 181 bits (458), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 142/459 (30%), Positives = 211/459 (45%), Gaps = 115/459 (25%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A+M Y G GY G+Q N TIE ++ EA +AG +++ + +
Sbjct: 101 VAVMIGYCGTGYHGMQY----------NPPNDTIEKELFEAFVRAGAISKANSTDLKKNG 150
Query: 61 FQRAARTDKGVSALKQIVSLKL----PEEANKEAINEHLPEQIRILSIKRVTKGFNSKNN 116
FQRAARTDKGV A ++SLKL PE KE IN LP+QIR+ I RV K F+ +
Sbjct: 151 FQRAARTDKGVHAGGNVISLKLIIEDPEV--KEKINNELPDQIRVWDISRVNKAFDCRKM 208
Query: 117 CNAR-------TYSYTCP---TY------------------------------------- 129
C++R TYS P TY
Sbjct: 209 CSSRWYEYLLPTYSLIGPKPSTYLYNEIEASKKEIPNVIQDDVESAQFWEAFSTEAESKF 268
Query: 130 ---------AFATPQDTKDD---------------------FRLTPDQFNFLQALLKQYE 159
AF P+D+ D+ +R++ ++ + ++ LKQYE
Sbjct: 269 TKEELEEIAAFVMPKDSFDENNETYQKSKAFKKLEAEHKRAYRISKERLDRFRSALKQYE 328
Query: 160 GTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFV--KDGLELITLKIKGQSFMLHQIRKMV 217
GT NFHNFT + DPS R++ +PFV + E +++KI GQSFMLHQIRKM+
Sbjct: 329 GTFNFHNFTLGKDFNDPSAKRFMKQITVSEPFVIGEAKTEWVSIKIHGQSFMLHQIRKMI 388
Query: 218 GVAMAIARGFTSKDLIEKTFGLDQFDLPMAPGLGLLLEQVHYDLYNQKYGQDGMHESLHF 277
+A I R F+ + I + +G ++ ++P AP LGLLLE YD YN + + G ++ + F
Sbjct: 389 SMATLITRCFSPLERIRQAYGQEKINIPKAPALGLLLEAPVYDGYNTRLQEFG-YDPIDF 447
Query: 278 HEVDKEVNEFRHKFILPYLVKTEITEKPMLAWLELLA--DHSFETRAAKAALAAANGEEL 335
+ E++ F+ K I + E+ E A+ + + S+ + L G+EL
Sbjct: 448 SKYQSEMDTFKMKHIYDKIYLEEVNENVFNAFFSYIDTFNPSYNISQEQQQL---KGQEL 504
Query: 336 QEVTDGEE--EEDEEDRGGVRHSNGTSLAPK-PTPAVEK 371
Q+ + E ED E + AP PTP+ EK
Sbjct: 505 QQPSQAVELVTEDLEQK-----------APSDPTPSDEK 532
>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 = 147 bits (371), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 105/329 (31%), Positives = 150/329 (45%), Gaps = 81/329 (24%)
Query: 3 MMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQ 62
M+ Y G GY+G+Q N KTIEG+I+ LF G ++E++ P+ F
Sbjct: 1 MLLGYCGSGYYGMQY----------NPPHKTIEGEILTKLFDVGAISEENSLAPKKNSFM 50
Query: 63 RAARTDKGVSALKQIVSLKLP-EEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNART 121
AARTDKGV A+ ++SLK+ E +N LP +IR+ I+ V K FN+++ C++R
Sbjct: 51 AAARTDKGVHAMLNLLSLKITLREDTVAKLNAALPPEIRVWGIQPVNKKFNARSACDSRW 110
Query: 122 YSYTCPTYAFATP-------------------QDTKDDF------RLTPDQFNFLQ---- 152
Y Y P + P Q+ D F R + D+ LQ
Sbjct: 111 YQYLIPEFILIGPPRSSLLHRNVGGCYREDGSQEVWDTFLEQTRGRFSGDELCRLQDTAQ 170
Query: 153 ----------------------------------ALLKQYEGTHNFHNFTSKRKPLDPSC 178
A +++Y GTHNFHNFT+ + DPS
Sbjct: 171 KLSESDPLVQDYVGLLSGTLSGYCLSPSKLDAFEAAMQEYVGTHNFHNFTTGKLWGDPSA 230
Query: 179 SRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTF- 237
R+I Q G I ++I GQSFMLHQIR+MV +A+ AR +++ F
Sbjct: 231 QRHIKKVVVSQ--ASPG--WICVRIHGQSFMLHQIRRMVALAVLAARCQLPPNIVRNYFN 286
Query: 238 -GLDQFDLPMAPGLGLLLEQVHYDLYNQK 265
G ++ +P AP GLLLE +D YN K
Sbjct: 287 AGPRKY-IPRAPAQGLLLEGPVFDGYNTK 314
>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 = 140 bits (353), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 69/162 (42%), Positives = 103/162 (63%), Gaps = 1/162 (0%)
Query: 132 ATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPF 191
A + +++FR++ ++ ++ +LK YEGTHNFHNFT + DPS R + S C PF
Sbjct: 292 AVERRHREEFRISGERLAKIREILKIYEGTHNFHNFTLGKAFKDPSAMRTMKSLTCSDPF 351
Query: 192 VKDGLELITLKIKGQSFMLHQIRKMVG-VAMAIARGFTSKDLIEKTFGLDQFDLPMAPGL 250
+ DG E +++KI GQSFMLHQIRKM+ VA+++ + LI +TF + ++P AP L
Sbjct: 352 LIDGTEWVSIKIHGQSFMLHQIRKMISMVALSVRCNADPQKLIPQTFEKARINIPKAPAL 411
Query: 251 GLLLEQVHYDLYNQKYGQDGMHESLHFHEVDKEVNEFRHKFI 292
GLLLE+ YD YN+K + E +HF + ++ F+HKFI
Sbjct: 412 GLLLERPVYDSYNKKLQGEFGREGVHFDNWNDQIEAFKHKFI 453
Score = 114 bits (286), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 57/137 (41%), Positives = 79/137 (57%), Gaps = 12/137 (8%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A M Y G GY G+Q N KTIEGDI +A KAG +++++ + P+
Sbjct: 87 VACMIGYCGTGYHGMQL----------NPPQKTIEGDIFQAFVKAGAISQNNADDPKKSA 136
Query: 61 FQRAARTDKGVSALKQIVSLKL--PEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCN 118
F RAARTDKGV A ++SLK+ +E E IN HLPEQ+R+ + R K F + C+
Sbjct: 137 FMRAARTDKGVHAAGNVISLKMIIEDENIVEKINSHLPEQLRVWGVSRTNKAFECRKLCS 196
Query: 119 ARTYSYTCPTYAFATPQ 135
+R Y Y PTY+F P+
Sbjct: 197 SRVYEYLMPTYSFLNPR 213
>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 = 133 bits (334), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 92/334 (27%), Positives = 155/334 (46%), Gaps = 58/334 (17%)
Query: 4 MFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQR 63
+ +Y G G+ GLQ N +KTI+ + +A + G V + + ++P+ I+
Sbjct: 42 VVSYRGTGFAGLQY----------NANVKTIQDTLFQAFARVGAVVQVNADSPKKIRMCS 91
Query: 64 AARTDKGVSALKQIVSLK------LPEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNC 117
AARTDKGV A+ ++ LK LP N +N+ LP IR+ + R F+ C
Sbjct: 92 AARTDKGVHAIVNVLGLKVLDNQPLPHVVN--LVNDILPPCIRVWKMARTFNSFSPHTVC 149
Query: 118 NARTYSYTCPTYAFATPQD----------------------------TKDD--------- 140
++R Y Y P + TP+ +K D
Sbjct: 150 DSRVYEYWLPVSSLLTPRPCTLEAYVIAKASEKAFPINETLSHLANLSKQDCVANSLSEP 209
Query: 141 FRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFV-KDGLELI 199
FRL+ + +FL+ + GTH FH++T+++ D S R+++ + + K + +
Sbjct: 210 FRLSKPKLDFLKHACTMFRGTHRFHSYTTEKGFSDASSRRFLLDVRVDNLHIDKLNRQWV 269
Query: 200 TLKIKGQSFMLHQIRKMVGVAMAIAR-GFTSKDLIEKTFGLDQFDLPMAPGLGLLLEQVH 258
L GQSFM HQIRKMVG+ + + R G+ ++ L+ + +P AP LLL Q
Sbjct: 270 KLIFHGQSFMKHQIRKMVGILIHLTRTGWNAQVLLNTFNNSYRIRIPRAPAEFLLLNQPI 329
Query: 259 YDLYNQKYGQDGMHESLHFHEVDKEVNEFRHKFI 292
+ +N+K + HE + + K +++F H F+
Sbjct: 330 FQAFNKKCSRFD-HEPVEWSCAQKGIDQFAHSFL 362
>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 = 123 bits (309), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 63/142 (44%), Positives = 89/142 (62%), Gaps = 1/142 (0%)
Query: 151 LQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFML 210
+ ++KQYEGTHNFHNFT + D S +R+++ PFV +G E I++KI GQSFML
Sbjct: 226 FREVMKQYEGTHNFHNFTVGKPFKDTSANRFMIKTIVSDPFVIEGTEWISIKIHGQSFML 285
Query: 211 HQIRKMVGVAMAIARGFTSKDLIEKTFGLDQFDLPMAPGLGLLLEQVHYDLYNQKYGQDG 270
HQIRKM+ +A + R +I F + ++P AP LGLLLE +D YN K +
Sbjct: 286 HQIRKMIAMAALVVRLSLPCGIINNFFQSTKINIPKAPALGLLLENPVFDGYNIKLTKSD 345
Query: 271 MHESLHFHEVDKEVNEFRHKFI 292
+E + F + DKE+NEF+ K+I
Sbjct: 346 -YEPIDFTKFDKEMNEFKMKYI 366
Score = 80.5 bits (197), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 40/79 (50%), Positives = 53/79 (67%), Gaps = 6/79 (7%)
Query: 61 FQRAARTDKGVSALKQIVSLKL----PEEANKEAINEHLPEQIRILSIKRVTKGFNSKNN 116
FQRAARTDKGV A ++SLK+ PE NK IN+ LP+QIRI I+R TKGF+ +
Sbjct: 41 FQRAARTDKGVHAAGNVISLKMIIEDPEIINK--INDLLPKQIRIWGIQRATKGFDCRKC 98
Query: 117 CNARTYSYTCPTYAFATPQ 135
C++R Y Y PT++ P+
Sbjct: 99 CSSRIYEYLLPTFSLLPPK 117
>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 = 117 bits (292), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 61/165 (36%), Positives = 98/165 (59%), Gaps = 3/165 (1%)
Query: 141 FRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFV--KDGLEL 198
+R++ + N +A + QY G HNFHNFT ++ DPS R++ PFV E
Sbjct: 299 YRISEMKLNKFRAAMNQYLGAHNFHNFTLGKEFKDPSAIRFMKEIKVSDPFVIGDAKAEW 358
Query: 199 ITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLDQFDLPMAPGLGLLLEQVH 258
+++KI GQSFMLHQIRKM+ +A IAR T + I + FG + ++P AP LGLLLE
Sbjct: 359 VSIKIHGQSFMLHQIRKMISMATLIARCGTPVERISQAFGPQKINIPKAPALGLLLEAPV 418
Query: 259 YDLYNQKYGQDGMHESLHFHEVDKEVNEFRHKFILPYLVKTEITE 303
++ YN++ + G ++ + F + ++V+ F+ K I + E+++
Sbjct: 419 FESYNKRLEKFG-YKPIDFSKYQEKVDAFKMKHIYDKIYAEEVSD 462
Score = 93.2 bits (230), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 54/139 (38%), Positives = 76/139 (54%), Gaps = 16/139 (11%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A+M Y G GY G+Q N TIE + +A AG +++ + N +
Sbjct: 89 VAVMIGYCGTGYHGMQ----------YNPPNPTIEAALFKAFVDAGAISKANSNDLKKNN 138
Query: 61 FQRAARTDKGVSALKQIVSLKL----PEEANKEAINEHLPEQIRILSIKRVTKGFNSKNN 116
F RAARTDKGV A ++SLK+ PE +K IN +LPE IRI I+RV K F+ +
Sbjct: 139 FMRAARTDKGVHAGGNLISLKMIIEDPEIMDK--INANLPEGIRIWDIERVNKAFDCRKM 196
Query: 117 CNARTYSYTCPTYAFATPQ 135
C++R Y Y PTY+ P+
Sbjct: 197 CSSRWYEYLLPTYSLIGPK 215
>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 = 115 bits (289), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 61/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 141 FRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGL--EL 198
+R++ + + +KQY G HNFHN+T + DPS R++ PFV + E
Sbjct: 279 YRVSSAKLARFREAMKQYLGPHNFHNYTLGKDFKDPSTVRFMKDITVSDPFVIGEMKTEW 338
Query: 199 ITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLDQFDLPMAPGLGLLLEQVH 258
+++KI GQSFMLHQIRKM+ +A +AR S + I +++G + ++P AP LGLLLE
Sbjct: 339 VSIKIHGQSFMLHQIRKMISMATLVARCNCSPERIAQSYGPQKINIPKAPALGLLLESPV 398
Query: 259 YDLYNQKYGQDGMHESLHFHEVDKEVNEFRHKFILPYLVKTEITE 303
Y+ YN++ + G +E + F KE++ F+ I + K E+ E
Sbjct: 399 YEGYNKRLLEFG-YEPIDFRNYQKEMDTFKMVHIYDKIYKEEVDE 442
Score = 102 bits (254), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 56/137 (40%), Positives = 76/137 (55%), Gaps = 12/137 (8%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A+M Y G GY G+Q N +TIE ++ EA KAG ++ + +
Sbjct: 69 VAVMVGYCGTGYHGMQY----------NPPNRTIEAELFEAFVKAGAISRANSTDLKKNG 118
Query: 61 FQRAARTDKGVSALKQIVSLKL--PEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCN 118
F RAARTDKGV A ++SLKL + A K+ INEHLP IR+ I RV K F+ + C
Sbjct: 119 FMRAARTDKGVHAGGNVISLKLIIEDPAIKDKINEHLPPGIRVWGISRVNKAFDCRKLCG 178
Query: 119 ARTYSYTCPTYAFATPQ 135
+R Y Y PTY+F P+
Sbjct: 179 SRWYEYLLPTYSFIGPK 195
>sp|O94295|PUS2_SCHPO tRNA pseudouridine synthase 2 OS=Schizosaccharomyces pombe (strain
972 / ATCC 24843) GN=pus2 PE=3 SV=1
Length = 451
Score = 115 bits (288), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 66/179 (36%), Positives = 98/179 (54%), Gaps = 3/179 (1%)
Query: 140 DFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELI 199
++R+ D+ LQ LLK+YEG HNFHNFT PS R+I S C PFV + E I
Sbjct: 266 NYRIKEDRLKVLQQLLKKYEGRHNFHNFTVTDDSTSPSNYRFIESVTCGTPFVYENWEWI 325
Query: 200 TLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLD-QFDLPMAPGLGLLLEQVH 258
+ IKG SFML+QIRKM+ + I R LI+K F + ++ +PG LLL+ +
Sbjct: 326 PVTIKGNSFMLNQIRKMMAHVLMIIRSCAPTGLIDKAFDPNITMNISKSPGHVLLLKDIK 385
Query: 259 YDLYNQKYGQDGMHESLHFHEVDKEVNEFRHKFILPYLVKTEITEKPMLAWLELLADHS 317
+ YN DG+ E + F ++++ + K I P ++K E EK ++L + H+
Sbjct: 386 FSSYNDSV-TDGL-EKIQFDCFEEDILSLKIKTIYPDIIKLEQKEKLFFSFLSYIDQHT 442
Score = 89.4 bits (220), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 51/148 (34%), Positives = 82/148 (55%), Gaps = 17/148 (11%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+ ++ YSG GY G+Q N +KTIEGD++ L K G++ ++ + +++
Sbjct: 41 IIILLGYSGYGYHGIQI----------NNPLKTIEGDVVAVLKKLGYLKTNNIDA-EHLC 89
Query: 61 FQRAARTDKGVSALKQIVSLKL----PEEAN--KEAINEHLPEQIRILSIKRVTKGFNSK 114
RAARTDKGV L+ ++SL L P + + K +NE L QIR+ S+ K FN +
Sbjct: 90 IARAARTDKGVHTLRNLISLNLFVDKPLDISLLKTELNEALCSQIRVWSVFPAPKYFNPR 149
Query: 115 NNCNARTYSYTCPTYAFATPQDTKDDFR 142
+C +RTY Y P++A P+ + F+
Sbjct: 150 ISCESRTYEYLIPSFALLPPKPSCPLFK 177
>sp|Q12211|PUS1_YEAST tRNA pseudouridine synthase 1 OS=Saccharomyces cerevisiae (strain
ATCC 204508 / S288c) GN=PUS1 PE=1 SV=1
Length = 544
Score = 113 bits (283), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 68/199 (34%), Positives = 106/199 (53%), Gaps = 3/199 (1%)
Query: 141 FRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFV--KDGLEL 198
+R++ + +A QY G HNFHNFT + +PS R++ PFV E
Sbjct: 287 YRISAAKLAKFRASTSQYLGAHNFHNFTLGKDFKEPSAIRFMKDIKVSDPFVIGDAQTEW 346
Query: 199 ITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLDQFDLPMAPGLGLLLEQVH 258
I++KI GQSFMLHQIRKMV +A I R + I + +G + ++P AP LGLLLE
Sbjct: 347 ISIKIHGQSFMLHQIRKMVSMATLITRCGCPVERISQAYGQQKINIPKAPALGLLLEAPV 406
Query: 259 YDLYNQKYGQDGMHESLHFHEVDKEVNEFRHKFILPYLVKTEITEKPMLAWLELLADHSF 318
++ YN++ Q G ++++ F + EV++F+ K I + K E+ E A+ + +
Sbjct: 407 FEGYNKRLEQFG-YKAIDFSKYQDEVDKFKMKHIYDKIYKEEVDENVFNAFFSYIDSFNK 465
Query: 319 ETRAAKAALAAANGEELQE 337
T A A +G +Q+
Sbjct: 466 VTGAQGEETADKSGPAVQK 484
Score = 97.1 bits (240), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 54/137 (39%), Positives = 77/137 (56%), Gaps = 12/137 (8%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A+M Y G GY G+Q N TIE + +A +AG +++D+ N +
Sbjct: 77 VAVMVGYCGTGYHGMQY----------NPPNPTIESALFKAFVEAGAISKDNSNDLKKNG 126
Query: 61 FQRAARTDKGVSALKQIVSLKLPEEAN--KEAINEHLPEQIRILSIKRVTKGFNSKNNCN 118
F RAARTDKGV A ++SLK+ E K+ INE LPE IR+ I+RV K F+ + C+
Sbjct: 127 FMRAARTDKGVHAGGNLISLKMIIEDPDIKQKINEKLPEGIRVWDIERVNKAFDCRKMCS 186
Query: 119 ARTYSYTCPTYAFATPQ 135
+R Y Y PTY+ P+
Sbjct: 187 SRWYEYLLPTYSLIGPK 203
>sp|O94396|PUS1_SCHPO tRNA pseudouridine synthase 1 OS=Schizosaccharomyces pombe (strain
972 / ATCC 24843) GN=pus1 PE=1 SV=1
Length = 534
Score = 113 bits (282), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 62/212 (29%), Positives = 106/212 (50%), Gaps = 5/212 (2%)
Query: 140 DFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELI 199
++R++ D+ + ++ L QY G HNFHNFT + + +R I SF PF+ E I
Sbjct: 313 NYRISADRLSVIRETLNQYVGVHNFHNFTVGQAFHQKNSNRVIRSFTASDPFMIGDTEWI 372
Query: 200 TLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLDQFDLPMAPGLGLLLEQVHY 259
+ K+ GQSFMLHQIRKM+ +A+ + R + I+ F + ++P PG GLLLE +
Sbjct: 373 SCKVHGQSFMLHQIRKMIALAILVVRTGCPVERIQDAFKKTKINIPKGPGFGLLLESPFF 432
Query: 260 DLYNQKYGQDGMHESLHFHEVDKEVNEFRHKFILPYLVKTEITEKPMLAWLELL-----A 314
YN+ + + + F + ++++ F+H I + E ++ +L +
Sbjct: 433 KGYNEHKAPENNRDPIDFTKYEQKITAFKHAHIYDKIFLEEARKQVFHCFLSFIDSYNEE 492
Query: 315 DHSFETRAAKAALAAANGEELQEVTDGEEEED 346
D S+ + +L +V +EEED
Sbjct: 493 DFSYLSDIGITEKTQEVSSKLPDVLSSDEEED 524
Score = 109 bits (272), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 57/137 (41%), Positives = 75/137 (54%), Gaps = 12/137 (8%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A + Y G GY G+Q N KTIEGD+ +A KAG V+ + + P+ +
Sbjct: 46 VACLVGYCGSGYHGMQ----------LNPPSKTIEGDLFDAFVKAGAVSSYNADDPKKVA 95
Query: 61 FQRAARTDKGVSALKQIVSLKLPEEANK--EAINEHLPEQIRILSIKRVTKGFNSKNNCN 118
RAARTDKGV A ++SLKL E K E +NEHLP IR+ + R FN + C
Sbjct: 96 LARAARTDKGVHAAGNVISLKLIMEDEKLIEKVNEHLPPSIRLWDVIRTINSFNPRTYCE 155
Query: 119 ARTYSYTCPTYAFATPQ 135
+R Y Y PTYAF P+
Sbjct: 156 SRIYEYMVPTYAFVPPK 172
>sp|O22928|PUSH_ARATH Putative tRNA pseudouridine synthase OS=Arabidopsis thaliana
GN=At2g30320 PE=3 SV=1
Length = 510
Score = 97.4 bits (241), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 59/184 (32%), Positives = 93/184 (50%), Gaps = 22/184 (11%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+ + Y G Y GLQ I + +KTIEG++ A++KAG + + ++ I
Sbjct: 65 VVIRIGYVGTDYRGLQ-------IQRDDPSIKTIEGELEVAIYKAGGIRDSNYGDLHKIG 117
Query: 61 FQRAARTDKGVSALKQIVSLKL--PEEANKE---------AINEHLPEQIRILSIKRVTK 109
+ R++RTDKGV +L +SLK+ PE A K+ I++HLPE IR+ S+ +
Sbjct: 118 WARSSRTDKGVHSLATSISLKMEIPETAWKDDPQGTVLAKCISKHLPENIRVFSVLPSNR 177
Query: 110 GFNSKNNCNARTYSYTCPTYAFATPQD-TKDDFRLTPDQFNFLQALLKQYEGTHNFHNFT 168
F+ + C R YSY P T D+ FN +LK++EG + FHN+T
Sbjct: 178 RFDPRRECTLRKYSYLLPVDVLGIKNSFTSDEIDYHITDFN---EILKEFEGEYPFHNYT 234
Query: 169 SKRK 172
+ +
Sbjct: 235 QRSR 238
Score = 54.7 bits (130), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/63 (42%), Positives = 39/63 (61%), Gaps = 5/63 (7%)
Query: 195 GLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLDQFD---LPMAPGLG 251
G + + I G+SFMLHQIRKM+G A+A+ R +D+I L++F LP+AP
Sbjct: 340 GFGFVEISIWGESFMLHQIRKMIGTAVAVKRELLPRDIIR--LSLNKFTRIVLPLAPSEV 397
Query: 252 LLL 254
L+L
Sbjct: 398 LIL 400
>sp|O66953|TRUA_AQUAE tRNA pseudouridine synthase A OS=Aquifex aeolicus (strain VF5)
GN=truA PE=3 SV=1
Length = 241
Score = 88.2 bits (217), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 65/260 (25%), Positives = 125/260 (48%), Gaps = 31/260 (11%)
Query: 3 MMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQ 62
+ A+ G ++G Q + ++T++G+I +AL + + ED ++
Sbjct: 6 LRLAFVGTNFYGWQVQ----------PNLRTVQGEIQKAL--SQILCED-------VKVT 46
Query: 63 RAARTDKGVSALKQIVSLK----LPEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCN 118
RTD GV AL I + K PEE +A+N LP+ + + ++K+V++ FN++ +
Sbjct: 47 GCCRTDSGVHALDYIANFKTQKDFPEEKLLKALNGILPKDVGVYAVKKVSEEFNARYSVK 106
Query: 119 ARTYSYTCPTYAFATPQDTKDDFRLTPD-QFNFLQALLKQYEGTHNFHNFTSKRKPLDPS 177
+ Y Y P +++ + L+ +LK++EGTH+F T + +
Sbjct: 107 GKVYLYKIWNSEVRNPFLYPFSWQVKREINTEVLRNILKKFEGTHDFRALTKLEEERNTV 166
Query: 178 CSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTF 237
+ +S + E P LI +++K F+ + +R++VG A+ I+ G S++++E+
Sbjct: 167 INLEEVSLNVEYP-------LIEIRLKASHFLRYMVRRIVGTAVKISLGLYSEEVLEELL 219
Query: 238 GLDQFDLPMAPGLGLLLEQV 257
AP GL LE+V
Sbjct: 220 QGKGNSPYTAPPQGLHLEKV 239
>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 = 87.0 bits (214), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 70/262 (26%), Positives = 114/262 (43%), Gaps = 33/262 (12%)
Query: 2 AMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQF 61
A AY G Y G Q R + T+EG + AL + G V E P ++
Sbjct: 3 AYRVAYDGQPYHGFQ----------RQPDVDTVEGRLRSALVRLG-VCERGEGLPD--RY 49
Query: 62 QRAARTDKGVSALKQIVSLKLPEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNART 121
A RTD GVSA Q V+ P + A N LP +R+ + V + F++ ++ RT
Sbjct: 50 AAAGRTDAGVSARTQTVAFDAPAWLSPAAFNGELPNDVRVWASADVPEDFHATHDAAERT 109
Query: 122 YSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRY 181
Y+Y Y +A P D D + A + GTH+FHN T+ D + +
Sbjct: 110 YTY----YLYA-PADADRPEHEPVDDGRWADA-VDALAGTHDFHNLTT-----DETGTER 158
Query: 182 IMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLDQ 241
++ D + +DG + + +++ F +R++V +A A+A G +++ +
Sbjct: 159 TVAID----WTRDG-QFLVVQLTAGGFCRQLVRRLVSLAAAVADGSAPLSKVDRILSPEP 213
Query: 242 FD----LPMAPGLGLLLEQVHY 259
+P AP L+L V Y
Sbjct: 214 VSGPDGVPPAPPEPLVLTDVRY 235
>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 = 86.3 bits (212), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 77/262 (29%), Positives = 111/262 (42%), Gaps = 49/262 (18%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A FAY G Y GL + + T+EG + EAL +A +T+ P +
Sbjct: 94 VAFKFAYCGWNYNGLAYQL-------EPTPLPTVEGKVFEALLRAHLITD-----PSSCS 141
Query: 61 FQRAARTDKGVSALKQIVSLKLPEEANK-----EAINEHLPEQIRILSIKRVTKGFNSKN 115
F R RTDKGVSA+ Q++SL + + + +N LP IRI +GF+++
Sbjct: 142 FSRCGRTDKGVSAMGQVISLNVRHSERRPIIYCDVLNRLLPADIRITGYAFPPEGFDARF 201
Query: 116 NCNARTYSYTCPTYAFATPQDTKD--DFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKP 173
+C R Y Y TKD L D+ N AL Y G H+F NF
Sbjct: 202 SCKQRHYKYLF----------TKDYPGGSLDIDRMNEAAAL---YLGEHDFRNFCK---- 244
Query: 174 LDPS-----CSRYIMS--FDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARG 226
+D S R I+S C P L ++G +F+ HQ+R M+ + I +
Sbjct: 245 IDASKQITNYHRRILSSKVICIDP----STGLYAFDLQGTAFLWHQVRCMMAILFLIGQK 300
Query: 227 FTSKDLIEKTFGLDQFDLPMAP 248
LI LD +P P
Sbjct: 301 LEPASLINDL--LDIKKVPTKP 320
>sp|Q2NHB4|TRUA_METST tRNA pseudouridine synthase A OS=Methanosphaera stadtmanae (strain
DSM 3091) GN=truA PE=3 SV=1
Length = 274
Score = 84.7 bits (208), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 78/263 (29%), Positives = 123/263 (46%), Gaps = 38/263 (14%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A+ AY G + G Q R +T+EG+++ +FK + ED++
Sbjct: 4 VALKIAYIGSNFHGYQ----------RQPNYRTVEGELLR-VFKETNIIEDTWTA----H 48
Query: 61 FQRAARTDKGVSALKQIVSLKLPEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNAR 120
+ A RTDKGV + ++S E+ + +N LP+ I+I+ RV GF + R
Sbjct: 49 YSVAGRTDKGVHSTGNVISFITDEDIHINQLNGLLPDDIKIIGEARVPYGFKVRFPL-TR 107
Query: 121 TYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSR 180
TY+Y P F K + +T + ++ + G HNF NF SKR +P +R
Sbjct: 108 TYTYIQPISPFE-----KKNLDITK-----MHVAMESFIGKHNFRNF-SKRNEKNP--NR 154
Query: 181 YIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARG-FTSKDLIE--KTF 237
I+ + E V + + + T I G+SF+ + +RKMV M + G D+ E K
Sbjct: 155 KIIDVNLE---VDEDVLIFT--IVGESFLWNMVRKMVTSIMEVGYGKLDINDINELLKPK 209
Query: 238 GLDQF-DLPMAPGLGLLLEQVHY 259
L QF L AP GL+L + Y
Sbjct: 210 ELRQFIRLQPAPANGLILSDMEY 232
>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 = 84.7 bits (208), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 75/257 (29%), Positives = 114/257 (44%), Gaps = 40/257 (15%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A+ AY G Y G Q R + T+EG ++EAL AG + + P+ +
Sbjct: 4 IALKVAYIGTNYHGFQ----------RQPDVPTVEGKLLEALEGAGIIED-----PKRAR 48
Query: 61 FQRAARTDKGVSALKQIVSLKLPEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNAR 120
FQ A RTD+GV AL VS E+ + IN+ LP IR+L+ V F + R
Sbjct: 49 FQIAGRTDRGVHALGNFVSFFTEEDIHVNQINDLLPRDIRVLAWASVMYPFKVRYPLE-R 107
Query: 121 TYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSR 180
Y Y +++ D + + +F GTH+F NF S+R DP R
Sbjct: 108 HYRYILHR------EESMDTYSMAEAAAHF--------RGTHDFSNF-SRRSDRDP--VR 150
Query: 181 YIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLD 240
I D V D I + + G+SF+ +RKMV + ++ G + D + D
Sbjct: 151 RIN--DVRISEVGDS---IIIDVYGESFLWQMVRKMVRALLMVSEGELAPDDMAGLLDTD 205
Query: 241 Q--FDLPMAPGLGLLLE 255
+ F PM P +L++
Sbjct: 206 RRVFLEPMPPENLILMD 222
>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 = 81.6 bits (200), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 64/263 (24%), Positives = 114/263 (43%), Gaps = 42/263 (15%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A+ AY G ++G Q R G++T+EG+I++ L K G + +P+
Sbjct: 3 LALRVAYDGSAFYGFQ----------RQPGVRTVEGEIIKVLQKLGII-----ESPEKND 47
Query: 61 FQRAARTDKGVSALKQIVSL---KLPEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNC 117
F+ A+RTD+GVSA +VS + P+ A E +N HL + + +L I V F+ +
Sbjct: 48 FKGASRTDRGVSAFFNVVSFVPSERPDLARPEVLNHHLSD-VWVLGIAEVPDDFHPRFWA 106
Query: 118 NARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPS 177
+TY Y F + ++ + G H+F F DP
Sbjct: 107 KFKTYRYYLVNEGF---------------DLSAMRECASLFVGRHDFSAFAKLEPGRDPI 151
Query: 178 CSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTF 237
+ E+ V + + ++++G+SF+ +R++V G + +E+
Sbjct: 152 R-------EVERVEVIERQGYLVIEVQGKSFLWEMVRRIVNALRFCGLGLLEAEEVERML 204
Query: 238 -GLDQFDLPMAPGLGLLLEQVHY 259
G +P AP GL+L + Y
Sbjct: 205 SGEYGKKIPPAPPEGLVLWHIEY 227
>sp|A8AVB3|TRUA_STRGC tRNA pseudouridine synthase A OS=Streptococcus gordonii (strain
Challis / ATCC 35105 / CH1 / DL1 / V288) GN=truA PE=3
SV=1
Length = 249
Score = 81.3 bits (199), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 64/252 (25%), Positives = 113/252 (44%), Gaps = 31/252 (12%)
Query: 22 FLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLK 81
F F R ++++ +I + L + N Q + A RTD GV AL Q++
Sbjct: 15 FAGFQRQPHARSVQEEIEKTLTR--------INKGQPVVIHGAGRTDSGVHALGQVLHFD 66
Query: 82 LPEEANKE----AINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDT 137
LPEE + E A++ PE I +S+++V+ F+S+ N +++TY + P++
Sbjct: 67 LPEERDGEKLRFALDTQTPEDIDFISVEQVSDDFHSRYNKHSKTYEFLV---DIGRPKNP 123
Query: 138 KDDFRLT----PDQFNFLQALLKQYEGTHNFHNFTSKRKPLDP---SCSRYIMSFDCEQP 190
T P + + L+ + Q EGTH+F FT+ ++ + + + +D E+
Sbjct: 124 MMRHYATHYPYPLELSLLEEAITQLEGTHDFTGFTASGTSVEDKVRTITEAKVRYDAERN 183
Query: 191 FVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLDQFDL--PMAP 248
F + G F+ QIR MVG + I + I++ L P A
Sbjct: 184 F-------LVFTFSGNGFLYKQIRNMVGTLLKIGNKRMPVEQIQRILAEKDRHLAGPTAG 236
Query: 249 GLGLLLEQVHYD 260
GL L+++ Y+
Sbjct: 237 PNGLYLKEIRYE 248
>sp|A3CQB8|TRUA_STRSV tRNA pseudouridine synthase A OS=Streptococcus sanguinis (strain
SK36) GN=truA PE=3 SV=1
Length = 249
Score = 81.3 bits (199), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 65/270 (24%), Positives = 119/270 (44%), Gaps = 41/270 (15%)
Query: 4 MFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQR 63
+ +Y G G+ G Q R ++++ +I + L + N + +
Sbjct: 7 IISYDGYGFAGFQ----------RQPHARSVQEEIEKTLTR--------INKGRPVVIHG 48
Query: 64 AARTDKGVSALKQIVSLKLPEEANKE----AINEHLPEQIRILSIKRVTKGFNSKNNCNA 119
A RTD GV AL Q++ LPE+ ++E A++ PE I +S+++V+ F+S+ N ++
Sbjct: 49 AGRTDSGVHALGQVLHFDLPEDRDEEKLRFALDTQTPEDIDFISVEQVSDDFHSRYNKHS 108
Query: 120 RTYSYTCPTYAFATPQDTKDDFRLT----PDQFNFLQALLKQYEGTHNFHNFTSKRKPLD 175
+TY + P++ T P + ++ + Q EGTH+F FT+ ++
Sbjct: 109 KTYEFLV---DIGRPKNPMMRHYATHYPYPLELGLIEEAIAQLEGTHDFTGFTASGTSVE 165
Query: 176 P---SCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDL 232
+ + + FD E+ F + G F+ QIR MVG + I +
Sbjct: 166 DKVRTITEAKVRFDAERNF-------LVFTFSGNGFLYKQIRNMVGTLLKIGNKRMPIEQ 218
Query: 233 IEKTFGLDQFDL--PMAPGLGLLLEQVHYD 260
I++ L P A GL L+++ Y+
Sbjct: 219 IQRILAEKDRHLAGPTAGPNGLYLKEIRYE 248
>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 = 79.7 bits (195), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 64/231 (27%), Positives = 98/231 (42%), Gaps = 28/231 (12%)
Query: 32 KTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLKLPE-EANKEA 90
+T+EG+ F AG + F+ + F+ A RTDKGVSA +Q+ S+ + E EA
Sbjct: 24 RTVEGE-----FVAGGIELGLFSDAKEAHFRTAGRTDKGVSARRQLFSITTEKPELAIEA 78
Query: 91 INEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNF 150
+N HLP+ I + V + F + R+Y Y P P +
Sbjct: 79 LNFHLPDDIWCIGAAEVDEEFYPRYAARERSYRYYFP----------------YPADVSR 122
Query: 151 LQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFML 210
+Q + GTHNF F DP R + + + KDG + ++ +SF+
Sbjct: 123 MQDAASRLIGTHNFSGFAKMEAGRDP--VRTVTRAEVFEG--KDGCPV--FEVAAKSFLW 176
Query: 211 HQIRKMVGVAMAIARGFTSKDLIEKTFGLDQFDLPMAPGLGLLLEQVHYDL 261
+ +R M G I G D+IE+ + AP GL+ V DL
Sbjct: 177 NMVRGMAGALQTIGLGLCEPDVIEELLSSPTARVHPAPAEGLVFWDVVCDL 227
>sp|Q3SX07|PUS3_BOVIN tRNA pseudouridine(38/39) synthase OS=Bos taurus GN=PUS3 PE=2 SV=1
Length = 481
Score = 78.2 bits (191), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 86/323 (26%), Positives = 127/323 (39%), Gaps = 80/323 (24%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A+ AY G GY G S+ TIE + EAL K V Q
Sbjct: 65 VALKIAYLGWGYQGFASQ---------ENTSNTIEEKLFEALTKTRLV-----ENRQTSN 110
Query: 61 FQRAARTDKGVSALKQIVSLKLPEEANKEAINEH-----------------------LPE 97
+ R RTDKGVSA Q++SL L K +EH LP
Sbjct: 111 YHRCGRTDKGVSAFGQVISLDLRSHIPKGRDSEHFNLKNEVNDVATEIRYTHILNRVLPP 170
Query: 98 QIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQ 157
IR+L+ V F+++ +C RTY Y P R D A K
Sbjct: 171 DIRVLAWAPVETSFSARFSCLERTYRYFFP--------------RANLDIVTMNYAAQK- 215
Query: 158 YEGTHNFHNFTS----------KRKPLDPSCSRYIMSFDCE---QPFVKDGLELITLKIK 204
Y GTH+F N +R L R + E +PF +L ++
Sbjct: 216 YVGTHDFRNLCKMDVANGVINFQRTILSAQVQRVGQNLGEEGWQEPF-----QLCQFEVT 270
Query: 205 GQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLDQFDLPMAPGLGLLLEQVHYDLYNQ 264
GQ+F+ HQ+R M+ V I +G ++I++ +++ P P + +E LY+
Sbjct: 271 GQAFLYHQVRCMMAVLFLIGQGMEKPEVIDELLNIEKN--PQKPQYSMAVE-FPLVLYDC 327
Query: 265 KYGQDGMHESLHFHEVDKEVNEF 287
K+ E++ + D+EV EF
Sbjct: 328 KF------ENIKWI-YDREVQEF 343
>sp|A2ADA5|PUSL1_MOUSE tRNA pseudouridine synthase-like 1 OS=Mus musculus GN=Pusl1 PE=2
SV=1
Length = 291
Score = 77.8 bits (190), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 75/278 (26%), Positives = 124/278 (44%), Gaps = 34/278 (12%)
Query: 15 LQSKYLFFLIFCRN--QGMKTIEGDIMEALFKAGFVTEDS--FNTPQNIQFQRAARTDKG 70
++++YL FL + G+ + G+ A+ F+ E + N+ ++F ++RTD G
Sbjct: 10 VRARYLVFLQYLGTDFNGVAAVRGN-PRAVGVLNFLEEAAKRLNSVDPVRFTISSRTDAG 68
Query: 71 VSALKQIVSLKL----------PEEANKEAINEHLPE-QIRILSIKRVTKGFNSKNNCNA 119
V AL L + PE K A+N HL IR+L RV F++++ +
Sbjct: 69 VHALSNAAHLDIQRRPGQSPFSPEVVAK-ALNTHLKHPAIRVLKAFRVPNDFHARHAATS 127
Query: 120 RTYSYTCPTYAFATPQ----DTKDDFRLTPDQFNF--LQALLKQYEGTHNFHNFTSKRKP 173
RTY Y T Q + + L + + +Q + GTH+F F S P
Sbjct: 128 RTYQYRLATGCSWPNQLPVFEQNVCWALQTEYLDMAAMQEAAQHLLGTHDFSAFQSAGSP 187
Query: 174 LDPSCS---RYIMSFDCEQPFV----KDGLELITLKIKGQSFMLHQIRKMVGVAMAIARG 226
+ + R +S PFV L+ TL+ + QSF+ Q+R+M V +A+ G
Sbjct: 188 VTNTVRTLRRVSVSPGPASPFVLPEGSRRLQFWTLEFESQSFLYRQVRRMTAVLVAVGLG 247
Query: 227 FTS----KDLIEKTFGLDQFDLPMAPGLGLLLEQVHYD 260
+ K ++E L ++ +AP GL L+ V YD
Sbjct: 248 ILAPTQVKVILESQDPLGKYQARVAPARGLFLKSVLYD 285
>sp|B2UNB6|TRUA_AKKM8 tRNA pseudouridine synthase A OS=Akkermansia muciniphila (strain
ATCC BAA-835) GN=truA PE=3 SV=1
Length = 265
Score = 77.0 bits (188), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 73/271 (26%), Positives = 111/271 (40%), Gaps = 43/271 (15%)
Query: 6 AYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAA 65
AY G Y G QS+ G +T++ D++E F F T + +
Sbjct: 9 AYDGRPYLGWQSQ----------PGGRTVQ-DVLERAFSGLFGT--------TCRIHGSG 49
Query: 66 RTDKGVSALKQIV------SLKLPEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNA 119
RTD GV AL Q+ + ++P + A+N LP IRI + V GF+++ +
Sbjct: 50 RTDAGVHALGQVFHADAPDTHRIPADKWPAALNTRLPRTIRITHAEYVPPGFHARFSATG 109
Query: 120 RTYSYTCPTYAFATPQDTKDDF-RLTPDQFNFLQALLKQYEGTHNFHNFTSKR----KPL 174
+TY Y P D + R + L+ + + GTH+F F + R +P+
Sbjct: 110 KTYRYCISRAPILNPFDAGLAWHRPLAWSVDILEQAVHLFRGTHDFTAFAALRGNEPRPI 169
Query: 175 DPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIE 234
R ++ Q V E + + G F+ +R M G A ARG K +E
Sbjct: 170 PEGYFRRTIT----QTQVAQTGEHVFITFTGTGFLYKMVRLMTGAAHEAARG---KITLE 222
Query: 235 KTFGLDQFDLP------MAPGLGLLLEQVHY 259
+ L LP AP GL L +VHY
Sbjct: 223 ELARLINAPLPDDKSPFCAPPDGLTLMRVHY 253
>sp|Q8DWH1|TRUA_STRMU tRNA pseudouridine synthase A OS=Streptococcus mutans serotype c
(strain ATCC 700610 / UA159) GN=truA PE=3 SV=1
Length = 249
Score = 76.6 bits (187), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 61/267 (22%), Positives = 115/267 (43%), Gaps = 35/267 (13%)
Query: 4 MFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQR 63
+ +Y G + G Q R ++T++ +I + L + N+ Q ++
Sbjct: 7 IISYDGTNFSGFQ----------RQPQVRTVQEEIEKTLLR--------LNSGQAVKIHG 48
Query: 64 AARTDKGVSALKQIVSLKLPEEANKE----AINEHLPEQIRILSIKRVTKGFNSKNNCNA 119
A RTD GV A Q++ LP++ + E ++ P+ I ++ +++V F+++ +
Sbjct: 49 AGRTDAGVHAYGQVIHFDLPQQRDLEKLRFGLDTQTPDDIDVIQVEQVADDFHARYQKHR 108
Query: 120 RTYSYTC----PTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLD 175
+TY + P T +++ F+ ++A +K+ GTH+F FT+ ++
Sbjct: 109 KTYEFLVDLGRPKNPLMRHYATHFPYKV---DFSVVKAAIKKLRGTHDFTGFTASGTSVE 165
Query: 176 PSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEK 235
R I E+ D + G F+ Q+R MVG + I G D I++
Sbjct: 166 NKV-RTISRATVEK---DDKTGFLIFTFTGSGFLYKQVRNMVGTLLKIGNGRMPIDQIDR 221
Query: 236 TF--GLDQFDLPMAPGLGLLLEQVHYD 260
G P A GL L+++ YD
Sbjct: 222 ILESGDRSLAGPTAASNGLYLKEIIYD 248
>sp|Q46CU8|TRUA_METBF tRNA pseudouridine synthase A OS=Methanosarcina barkeri (strain
Fusaro / DSM 804) GN=truA PE=3 SV=1
Length = 269
Score = 76.6 bits (187), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 77/303 (25%), Positives = 127/303 (41%), Gaps = 59/303 (19%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A+ AY G + G Q + ++T+EG++ +AL G + +P++
Sbjct: 3 VALKLAYIGTEFHGSQIQ----------PNVETVEGELFKALRNLGII-----ESPKSAN 47
Query: 61 FQRAARTDKGVSALKQIVS-------LKLPEEANKEAINEHLPEQIRILSIKRVTKGFNS 113
+ A RTD GV AL+Q+V+ L +P IN L I + + V F++
Sbjct: 48 YTCAGRTDAGVHALEQVVAFDTDKLNLAIPR-----VINSELTPGIWVWAHAEVPLSFDA 102
Query: 114 KNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKP 173
+ + +R Y Y + D + FL GTH+F NF+ R
Sbjct: 103 RRDAVSRHYRYVMSGKEY--------DISKIREASKFLL-------GTHDFENFS--RTN 145
Query: 174 LDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLI 233
+ S R I D DG ELI + + G SF+ + +RK+V I +G D +
Sbjct: 146 GEKSTVRTIERIDARI----DG-ELIKIDVVGNSFLWNMVRKIVTALSMIGKGVRDTDWL 200
Query: 234 EKTFGLDQFD--LPMAPGLGLLLEQVHY--------DLYNQKYGQDGMHESLHFHEVDKE 283
+ + ++ + AP GL L +V+Y D Y+ + D + + H V E
Sbjct: 201 LQMLNPEIYEEGIESAPAYGLTLLKVNYNEKIEWIEDNYSIRRAGDQNQKRILRHRVMAE 260
Query: 284 VNE 286
V E
Sbjct: 261 VLE 263
>sp|B6YTJ2|TRUA_THEON tRNA pseudouridine synthase A OS=Thermococcus onnurineus (strain
NA1) GN=truA PE=3 SV=1
Length = 267
Score = 76.6 bits (187), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 71/280 (25%), Positives = 127/280 (45%), Gaps = 42/280 (15%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A+ AY G ++G Q R G++T+EG+I+ AL K G + ED ++
Sbjct: 3 LALRIAYDGTAFYGFQ----------RQPGLRTVEGEIIRALTKLG-IIEDV----ESSN 47
Query: 61 FQRAARTDKGVSALKQIVSLKL---PEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNC 117
F+ A+RTD+GVSA +V+ + P+ E +N HL + + +L V + F+ +
Sbjct: 48 FKGASRTDRGVSAFFNVVAFDVASRPDLVRPEVLNFHL-KDVWVLGTAEVPEDFHPRFWA 106
Query: 118 NARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPS 177
++TY Y F D K ++ K + GTH+F F +P
Sbjct: 107 KSKTYRYYLIDAGF----DEKA-----------MRECAKLFIGTHDFSAFARLEPHKNP- 150
Query: 178 CSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTF 237
R ++ D + + G +I L +G+SF+ R++V G +++ +EK
Sbjct: 151 -VRELIRADIIK---RQGYYIIEL--EGKSFLWEMARRIVNALRFCGLGILTEEEVEKML 204
Query: 238 -GLDQFDLPMAPGLGLLLEQVHYDLYNQKYGQDGMHESLH 276
G +P A GL+L + Y+ + + G+ ++ H
Sbjct: 205 NGEYSRKIPPARPEGLVLWGIEYEGIEFRGNEKGIRKAKH 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 = 76.6 bits (187), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 59/231 (25%), Positives = 106/231 (45%), Gaps = 33/231 (14%)
Query: 32 KTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLKLPEEANKEAI 91
+T+EG+++ AL + G +N + + A RTD GV A Q++S ++ +
Sbjct: 25 RTVEGEVINALRRLGV---------ENPRLRSAGRTDAGVHAYGQVISFYSEDKIFPRML 75
Query: 92 NEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFL 151
N LPE I + +V++ F+ + +R Y+Y D+ ++ +
Sbjct: 76 NAELPEDITAWAWAKVSEDFDPR-RAKSRVYTYVM----------YGSDYDISA-----M 119
Query: 152 QALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLH 211
+ +K+ G H+F NFT K + SC R I+S D ++ E I +I+G +F +
Sbjct: 120 RKAVKELIGVHDFSNFTKKFGEGE-SCVREIISAD-----IRADREFIIFEIEGNAFTWN 173
Query: 212 QIRKMVGVAMAIARGFTSKDLIEKTFGLDQFD--LPMAPGLGLLLEQVHYD 260
+R +V M I + S + ++ + AP GL+L+ V YD
Sbjct: 174 MVRCIVTAIMEIGKQHRSIEWFRDLLNPEKHKERVEPAPPYGLILKDVKYD 224
>sp|A0B7V0|TRUA_METTP tRNA pseudouridine synthase A OS=Methanosaeta thermophila (strain
DSM 6194 / PT) GN=truA PE=3 SV=1
Length = 267
Score = 76.6 bits (187), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 69/270 (25%), Positives = 109/270 (40%), Gaps = 60/270 (22%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A+ AY G Y+G Q R G++T+E + +AL + G D
Sbjct: 3 IALKIAYLGDRYYGFQ----------RQPGLRTVESVMRDALLRIGVANGD--------- 43
Query: 61 FQRAARTDKGVSALKQIVSLKLPEE----ANKEAINEHLPEQIRILSIKRVTKGFNSKNN 116
F A RTD+GVSAL Q++ + E+ A IN LP + + GF+++ +
Sbjct: 44 FCYAGRTDRGVSALGQVIDFWIEEDRAYLAFPRVINSLLPSDVWAWARAVAPVGFSARWS 103
Query: 117 CNARTYSYTCPTYAFATPQDTKDDFRLTPD-QFNFLQALLKQYEGTHNFHNFTSKRKPLD 175
R Y Y F +PD + ++ GTH+F NF+ +
Sbjct: 104 ALWREYRY----------------FLFSPDIDLSAVREAAGHLVGTHDFRNFSMSKV--- 144
Query: 176 PSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEK 235
R I+S D V ++ ++ + F+ + +R++VG I G D I
Sbjct: 145 -DTVRRIISID-----VNAHCGIVVFDVRAEGFIWNMVRRIVGALELIGIGEKPVDWI-- 196
Query: 236 TFGLDQFD------LPMAPGLGLLLEQVHY 259
L+ D P AP GL+L V Y
Sbjct: 197 ---LELLDPSTPHGAPTAPPEGLMLMDVGY 223
>sp|Q9BZE2|PUS3_HUMAN tRNA pseudouridine(38/39) synthase OS=Homo sapiens GN=PUS3 PE=1
SV=3
Length = 481
Score = 76.3 bits (186), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 72/290 (24%), Positives = 118/290 (40%), Gaps = 70/290 (24%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A+ AY G GY G S+ TIE + EAL K V + Q
Sbjct: 65 VALRIAYMGWGYQGFASQ---------ENTNNTIEEKLFEALTKTRLV-----ESRQTSN 110
Query: 61 FQRAARTDKGVSALKQIVSLKL----PEEANKE-------------------AINEHLPE 97
+ R RTDKGVSA Q++SL L P + E +N LP
Sbjct: 111 YHRCGRTDKGVSAFGQVISLDLRSQFPRGRDSEDFNVKEEANAAAEEIRYTHILNRVLPP 170
Query: 98 QIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQ 157
IRIL+ V F+++ +C RTY Y P + D + + ++
Sbjct: 171 DIRILAWAPVEPSFSARFSCLERTYRYFFP----------RADLDIVT-----MDYAAQK 215
Query: 158 YEGTHNFHNFTSKRKPLDPSCS-----RYIMSFDCE-------QPFVKDGLELITLKIKG 205
Y GTH+F N +D + R I+S + + ++ +L ++ G
Sbjct: 216 YVGTHDFRNLCK----MDVANGVINFQRTILSAQVQLVGQSPGEGRWQEPFQLCQFEVTG 271
Query: 206 QSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLDQFDLPMAPGLGLLLE 255
Q+F+ HQ+R M+ + I +G ++I++ +++ P P + +E
Sbjct: 272 QAFLYHQVRCMMAILFLIGQGMEKPEIIDELLNIEKN--PQKPQYSMAVE 319
>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 = 76.3 bits (186), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 83/315 (26%), Positives = 138/315 (43%), Gaps = 59/315 (18%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A+ AY G ++G Q R ++T+EG++++ L K G + ED +
Sbjct: 3 IALKIAYDGTKFYGFQ----------RQPDLRTVEGELIKVLKKLG-IIEDV----KEAN 47
Query: 61 FQRAARTDKGVSALKQIVSLKL--PEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCN 118
F+ A+RTD+GVSAL +++ PE A +N HL I IL V + F+ +
Sbjct: 48 FKGASRTDRGVSALGNVIAFNTAKPELAEARILNHHL-RDIWILGKAEVPEDFHPRFWAK 106
Query: 119 ARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSK---RKPLD 175
+ Y Y Y F D L+A + + G H+F NF RKP+
Sbjct: 107 NKIYRY----YLFDEGIDVIK-----------LKACAEAFLGRHDFSNFARLEEFRKPV- 150
Query: 176 PSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEK 235
R I D F + +I ++I+G+SF+ R+++ G S +E
Sbjct: 151 ----REINRIDV---FSRG--RIIVVEIEGKSFLWEMTRRIITALKLCGLGVLSIGDVEL 201
Query: 236 TFGLDQFD--LPMAPGLGLLLEQVHYDLYNQKYGQDGMHESLHFHEVDKEVNEFRHKFIL 293
++ D LP AP L+L +V Y +G+ + + ++K EF +F
Sbjct: 202 MLK-EKVDKKLPPAPPENLVLWEVGY---------EGIKFEVDAYAIEKVKREFLERF-R 250
Query: 294 PYLVKTEITEKPMLA 308
YL K+ I E +++
Sbjct: 251 KYLTKSAILEDWLIS 265
>sp|Q8CXP1|TRUA_OCEIH tRNA pseudouridine synthase A OS=Oceanobacillus iheyensis (strain
DSM 14371 / JCM 11309 / KCTC 3954 / HTE831) GN=truA PE=3
SV=1
Length = 253
Score = 75.5 bits (184), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 61/243 (25%), Positives = 121/243 (49%), Gaps = 34/243 (13%)
Query: 32 KTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVS----LKLPEEAN 87
+T++G + +AL+ + + ++I+ Q + RTD GV A+ Q++ L++PE
Sbjct: 25 RTVQGVLEKALY--------NMHKGKSIRIQASGRTDTGVHAVGQVIHFDSPLEIPERNW 76
Query: 88 KEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRL---- 143
K+A+N LP+ +RI +++ T+ F+++ + + Y Y F ++ + F+
Sbjct: 77 KQALNTLLPDDVRIQKVEKKTEEFHARYSVKEKEYHY------FVLNEEDPNVFQRGYVY 130
Query: 144 -TPDQFNF--LQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELIT 200
P + + +Q + EGTH+F +F+S + + S R + C Q +E I
Sbjct: 131 HEPRKLDLERMQEACQYLEGTHDFTSFSSAKSSVKGSKVRTLYHVSCHQ--TGTNIEFI- 187
Query: 201 LKIKGQSFMLHQIRKMVGVAMAIARGFTS-KDLIE--KTFGLDQFDLPMAPGLGLLLEQV 257
+G F+ + +R M+ V + + +G + +D+I+ + Q MAP GL L +V
Sbjct: 188 --FRGSGFLYNMVRIMMSVLIDVGKGKRNPEDIIDLLASKNRQQIGKTMAPQ-GLYLWRV 244
Query: 258 HYD 260
Y+
Sbjct: 245 SYE 247
>sp|A4IJL9|TRUA_GEOTN tRNA pseudouridine synthase A OS=Geobacillus thermodenitrificans
(strain NG80-2) GN=truA PE=3 SV=1
Length = 253
Score = 75.5 bits (184), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 66/271 (24%), Positives = 115/271 (42%), Gaps = 45/271 (16%)
Query: 4 MFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQR 63
+ AY G + G Q + G +T++G+ E + K + +++
Sbjct: 8 VVAYDGTYFSGYQVQ----------PGKRTVQGE-FEGVLK-------RMHKGDDVRITA 49
Query: 64 AARTDKGVSALKQIV----SLKLPEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNA 119
+ RTD GV A Q++ L L E K+A+N LP+ I + S+ F+++ + A
Sbjct: 50 SGRTDAGVHAYGQVIHFDTPLALSPEQWKKALNAQLPDDIAVRSVDEADSTFHARFSAKA 109
Query: 120 RTYSYTCPTYAFATPQDTKDDFRL-------TPDQFNFLQALLKQYEGTHNFHNFTSKRK 172
+ Y Y T A +D FR P + + + L +GTH+F +F S +
Sbjct: 110 KEYRYNVWTAA------ERDVFRRHYCAWHPYPLRVDAMSEALGLLKGTHDFTSFCSAKT 163
Query: 173 PL-DPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKD 231
+ D + Y + + P ++ + G F+ + +R +VG + + +G D
Sbjct: 164 VIEDRVRTIYQAEMEVDGP-------MLQFRFVGSGFLYNMVRIIVGTVLEVGQGKRPPD 216
Query: 232 LIEKTFGLDQFDL--PMAPGLGLLLEQVHYD 260
IE L P AP GL L +V+YD
Sbjct: 217 DIEALLAAKDRRLAGPTAPAEGLYLWRVYYD 247
>sp|Q9JI38|PUS3_MOUSE tRNA pseudouridine(38/39) synthase OS=Mus musculus GN=Pus3 PE=1
SV=2
Length = 481
Score = 75.1 bits (183), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 69/288 (23%), Positives = 116/288 (40%), Gaps = 66/288 (22%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A+ AY G GY G S+ TIE + EAL K V + Q
Sbjct: 66 VALKIAYLGWGYQGFASQ---------ENTSNTIEEKLFEALTKTRLV-----ESRQTSN 111
Query: 61 FQRAARTDKGVSALKQIVSLKL---------PEEAN--------------KEAINEHLPE 97
+ R RTDKGVSA Q++SL L E++N +N LP
Sbjct: 112 YHRCGRTDKGVSAFGQVISLDLRSQFPTSRDSEDSNLKHEADDLAKEIRYTHILNRVLPA 171
Query: 98 QIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQ 157
IR+L+ V F+++ +C RTY Y P + D + + ++
Sbjct: 172 DIRVLAWAPVEPSFSARFSCLERTYRYFFP----------RADLDIAT-----MNYAAQK 216
Query: 158 YEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFV----------KDGLELITLKIKGQS 207
Y GTH+F N + + + + C Q + ++ +L ++ GQ+
Sbjct: 217 YVGTHDFRNLC--KMDVANGVINFQRTILCAQVQLVAQSPGEERRQEPFQLCQFEVIGQA 274
Query: 208 FMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLDQFDLPMAPGLGLLLE 255
F+ HQ+R M+ + I +G ++I++ + + P P + +E
Sbjct: 275 FLYHQVRCMMAILFLIGQGMEKPEIIDELLNIQKN--PQKPQYSMAVE 320
>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 = 74.7 bits (182), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 65/245 (26%), Positives = 108/245 (44%), Gaps = 45/245 (18%)
Query: 2 AMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQF 61
A+ Y G + G Q R ++T+E +++ L K G++ + + +F
Sbjct: 5 ALKIGYIGTNFHGFQ----------RQPDLRTVEEELIYHLRKLGYIDD-----LKKSRF 49
Query: 62 QRAARTDKGVSALKQIVSLKLPEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNART 121
+ A RTD GV +L ++S + +E IN LP+ I+IL+ V GF + R
Sbjct: 50 RIAGRTDAGVHSLGNVISFQSEKEVRVNEINNSLPDDIQILAKAPVRFGFKPR-YAEMRQ 108
Query: 122 YSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRY 181
Y Y FR D + L + + ++GTHNF NFT K + +R
Sbjct: 109 YRYVL--------------FRSDLDLYK-LNEVAEIFKGTHNFTNFT---KRFQKTTTRT 150
Query: 182 IMSFDC-----------EQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSK 230
I E P + D L + + I G+SF+ + +RKM+ V + +A G S
Sbjct: 151 IDDIKITKANLNDYHKKEFPNLHDTLSPVFVDIYGESFLWNMVRKMMRVFVDVAIGKLSL 210
Query: 231 DLIEK 235
+ +E+
Sbjct: 211 EKVEE 215
>sp|B1MVY3|TRUA_LEUCK tRNA pseudouridine synthase A OS=Leuconostoc citreum (strain KM20)
GN=truA PE=3 SV=1
Length = 260
Score = 73.9 bits (180), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 72/265 (27%), Positives = 121/265 (45%), Gaps = 26/265 (9%)
Query: 4 MFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQR 63
+ AY G +FG Q + + +T++G++ +A V + + I+
Sbjct: 7 IVAYDGSNFFGFQVQTK-----SGVEVQRTVQGELNKA------VNQMAKQPVTPIKVVG 55
Query: 64 AARTDKGVSALKQIVSLKLPEEAN----KEAINEHLPEQIRILSIKRVTKGFNSKNNCNA 119
A+RTD GV A Q+V LP + N + +N LP I I ++ +V+ F+++ + +A
Sbjct: 56 ASRTDTGVHAFGQVVHFDLPFDINPVGVSKGLNTLLPRDILIKAVTKVSDDFHARFSTHA 115
Query: 120 RTYSYTCPTYAFATP--QDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPS 177
+ Y Y T AF P + F D + +Q L G H+F +F + S
Sbjct: 116 KRYFYRVSTTAFTDPFKRHYTGHFHWHLDT-SRIQEALPDLIGEHDFASFAASGNQT-AS 173
Query: 178 CSRYIMSFD-CEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKT 236
R I S E+P D EL+ + +G +F+ +QIR MVGV + I G I++
Sbjct: 174 TVRTITSAQLIEKP---DEQELVFV-FEGNAFLYNQIRIMVGVLLEIGNGRREIHDIQRL 229
Query: 237 FGLDQFDLP--MAPGLGLLLEQVHY 259
+ + AP GL L+++ Y
Sbjct: 230 IAVKDREQARFTAPASGLYLDEIDY 254
>sp|Q97PL0|TRUA_STRPN tRNA pseudouridine synthase A OS=Streptococcus pneumoniae serotype
4 (strain ATCC BAA-334 / TIGR4) GN=truA PE=3 SV=1
Length = 249
Score = 73.9 bits (180), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 63/249 (25%), Positives = 106/249 (42%), Gaps = 25/249 (10%)
Query: 22 FLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLK 81
F F R ++++ +I + L + N Q I A RTD GV AL Q++
Sbjct: 15 FAGFQRQPHARSVQEEIEKTLTR--------LNKGQAITVHGAGRTDSGVHALGQVIHFD 66
Query: 82 LPEEANKE----AINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDT 137
LP + ++E A++ PE I ++SI+ V F+ + +++TY +T P++
Sbjct: 67 LPYQMDEEKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFTVDR---GRPKNP 123
Query: 138 KDDFRLT----PDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVK 193
T P +Q +K+ EGTH+F FT+ S + + V
Sbjct: 124 MRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFTAS----GTSVEDKVRTITEASLIVD 179
Query: 194 DGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLD--QFDLPMAPGLG 251
+ + +T G F+ QIR MVG + I + I+ Q P A G
Sbjct: 180 ETGQFLTFTFSGNGFLYKQIRNMVGTLLKIGNNRMPVEQIDLILEKKDRQLAGPTAAPNG 239
Query: 252 LLLEQVHYD 260
L L+++ Y+
Sbjct: 240 LYLKEIRYE 248
>sp|C1C8I7|TRUA_STRP7 tRNA pseudouridine synthase A OS=Streptococcus pneumoniae (strain
70585) GN=truA PE=3 SV=1
Length = 249
Score = 73.9 bits (180), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 63/249 (25%), Positives = 106/249 (42%), Gaps = 25/249 (10%)
Query: 22 FLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLK 81
F F R ++++ +I + L + N Q I A RTD GV AL Q++
Sbjct: 15 FAGFQRQPHARSVQEEIEKTLTR--------LNKGQAITVHGAGRTDSGVHALGQVIHFD 66
Query: 82 LPEEANKE----AINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDT 137
LP + ++E A++ PE I ++SI+ V F+ + +++TY +T P++
Sbjct: 67 LPYQMDEEKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFTVDR---GRPKNP 123
Query: 138 KDDFRLT----PDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVK 193
T P +Q +K+ EGTH+F FT+ S + + V
Sbjct: 124 MRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFTAS----GTSVEDKVRTITEASLIVD 179
Query: 194 DGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLD--QFDLPMAPGLG 251
+ + +T G F+ QIR MVG + I + I+ Q P A G
Sbjct: 180 ETGQFLTFTFSGNGFLYKQIRNMVGTLLKIGNNRMPVEQIDLILEKKDRQLAGPTAAPNG 239
Query: 252 LLLEQVHYD 260
L L+++ Y+
Sbjct: 240 LYLKEIRYE 248
>sp|C5D3U9|TRUA_GEOSW tRNA pseudouridine synthase A OS=Geobacillus sp. (strain WCH70)
GN=truA PE=3 SV=1
Length = 248
Score = 73.9 bits (180), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 66/272 (24%), Positives = 112/272 (41%), Gaps = 49/272 (18%)
Query: 5 FAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRA 64
+Y G +FG Q + G +T++G++ L + + + I+ +
Sbjct: 9 LSYDGTHFFGYQIQ----------PGKRTVQGELERVL--------EQMHKGKAIRVTAS 50
Query: 65 ARTDKGVSALKQIVS----LKLPEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNAR 120
RTD GV A Q++ L L + K+A+N LP+ I I ++ F+++ + A+
Sbjct: 51 GRTDAGVHAYGQVIHFDTFLSLSPDQWKKALNAQLPDDIVIKDVQEADPSFHARFSAKAK 110
Query: 121 TYSYTC----------PTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSK 170
Y Y Y + P P ++ L+ EGTH+F +F S
Sbjct: 111 EYRYKVRIAQERDVFLRNYCYHYP---------YPLDMEAMRHALRLIEGTHDFTSFCSA 161
Query: 171 RKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSK 230
+ +D R + + D LE + G F+ + +R +VG + + +G S
Sbjct: 162 KTDVD---DRVRTIYKADMAMHDDLLEFCFI---GNGFLYNMVRIIVGTILEVGQGKRSI 215
Query: 231 DLIEKTFGLD--QFDLPMAPGLGLLLEQVHYD 260
D I F QF AP GL L +V+YD
Sbjct: 216 DSISHAFEAKDRQFAGKTAPPQGLYLWKVYYD 247
>sp|Q72DL8|TRUA_DESVH tRNA pseudouridine synthase A OS=Desulfovibrio vulgaris (strain
Hildenborough / ATCC 29579 / NCIMB 8303) GN=truA PE=3
SV=1
Length = 297
Score = 73.9 bits (180), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 61/253 (24%), Positives = 103/253 (40%), Gaps = 42/253 (16%)
Query: 57 QNIQFQRAARTDKGVSALKQIVSLKLPEEA----NKEAINEHLPEQIRILSIKRVTKGFN 112
+ ++ A RTD GV A Q+ + +P+ ++AIN LP+ I IL ++R F+
Sbjct: 46 EQVRLHAAGRTDAGVHADGQVAHVDIPDHKLGVDWQKAINAQLPDDICILDVRRAADDFH 105
Query: 113 SKNNCNARTYSYTCP-TYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTS-- 169
++ + + Y+Y T F P+ + P + + GTH+F F +
Sbjct: 106 ARFDALGKRYTYRLWLTRRFIPPKLHGQVWATGPLDVYAMDRAARHLAGTHDFAAFQNQG 165
Query: 170 -------------KRKPLDP-------SCSRYIMSFDCE------------QPFVKDGLE 197
+R P +CS S+ C P GLE
Sbjct: 166 TDVTSTVRTVHAIRRCPSGTLPAGALLTCSEPYTSWRCTGTHPDQPPATAGHPLAGIGLE 225
Query: 198 LITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFG-LDQFDLP-MAPGLGLLLE 255
L+ +G F+ +R M+G+ +A+ RG + D + LD+ P AP GL L
Sbjct: 226 LV-WSFEGDGFLKQMVRNMMGLLVAVGRGALAADDVPGIMATLDRSRAPATAPACGLTLS 284
Query: 256 QVHYDLYNQKYGQ 268
+V+Y + Y +
Sbjct: 285 EVYYPPCDYPYAR 297
>sp|Q03ZL3|TRUA_LEUMM tRNA pseudouridine synthase A OS=Leuconostoc mesenteroides subsp.
mesenteroides (strain ATCC 8293 / NCDO 523) GN=truA PE=3
SV=1
Length = 255
Score = 72.8 bits (177), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 67/267 (25%), Positives = 119/267 (44%), Gaps = 28/267 (10%)
Query: 4 MFAYSGVGYFGLQSKYLFFLIFCRN--QGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQF 61
+ AY G +FG Q + +N + ++T++G++ + + K + N I+
Sbjct: 7 VIAYDGAEFFGFQLQ-------TKNGVESVRTVQGELNKVINKM------AKNPSPQIKV 53
Query: 62 QRAARTDKGVSALKQIVSLKLP----EEANKEAINEHLPEQIRILSIKRVTKGFNSKNNC 117
A+RTD GV A Q+V LP E ++ +N LP + + ++ V+ F+++ N
Sbjct: 54 VGASRTDTGVHAFGQVVHFDLPFNIDPEGVRKGMNTLLPFDVVVNHVEHVSDDFHARFNT 113
Query: 118 NARTYSYTCPTYAFATPQDTK--DDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLD 175
+++ Y Y T + P K F D N ++A L G H+F +F +
Sbjct: 114 HSKRYIYRVSTTDYKDPFKRKYTGHFHWKLD-INRIKAALPDLLGEHDFASFAASGNET- 171
Query: 176 PSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEK 235
+ R I D ++ K I +G +F+ +QIR MVGV + I G I +
Sbjct: 172 ATTIRLITRADVDE---KPEEHEIVFTFEGNAFLYNQIRIMVGVLLEIGTGKRPVHDIVR 228
Query: 236 TFGLDQFDLP--MAPGLGLLLEQVHYD 260
+ + AP GL L+++ Y+
Sbjct: 229 LIEVKDREQARYTAPASGLYLDEIDYN 255
>sp|C1CFH9|TRUA_STRZJ tRNA pseudouridine synthase A OS=Streptococcus pneumoniae (strain
JJA) GN=truA PE=3 SV=1
Length = 249
Score = 72.8 bits (177), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 62/249 (24%), Positives = 105/249 (42%), Gaps = 25/249 (10%)
Query: 22 FLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLK 81
F F R ++++ +I + L + N Q I A RTD GV AL Q++
Sbjct: 15 FAGFQRQSHARSVQEEIEKTLTR--------LNKGQTITVHGAGRTDSGVHALGQVIHFD 66
Query: 82 LPEEANKE----AINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDT 137
LP + ++E A++ PE I ++SI+ V F+ + +++TY + P++
Sbjct: 67 LPYQMDEEKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDR---GRPKNP 123
Query: 138 KDDFRLT----PDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVK 193
T P +Q +K+ EGTH+F FT+ S + + V
Sbjct: 124 MRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFTAS----GTSVEDKVRTITEASLIVD 179
Query: 194 DGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLD--QFDLPMAPGLG 251
+ + +T G F+ QIR MVG + I + I+ Q P A G
Sbjct: 180 ETGQFLTFTFSGNGFLYKQIRNMVGTLLKIGNNRMPVEQIDLILEKKDRQLAGPTAAPNG 239
Query: 252 LLLEQVHYD 260
L L+++ Y+
Sbjct: 240 LYLKEIRYE 248
>sp|Q8CWQ1|TRUA_STRR6 tRNA pseudouridine synthase A OS=Streptococcus pneumoniae (strain
ATCC BAA-255 / R6) GN=truA PE=3 SV=1
Length = 249
Score = 72.8 bits (177), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 62/249 (24%), Positives = 105/249 (42%), Gaps = 25/249 (10%)
Query: 22 FLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLK 81
F F R ++++ +I + L + N Q I A RTD GV AL Q++
Sbjct: 15 FAGFQRQSHARSVQEEIEKTLTR--------LNKGQTITVHGAGRTDSGVHALGQVIHFD 66
Query: 82 LPEEANKE----AINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDT 137
LP + ++E A++ PE I ++SI+ V F+ + +++TY + P++
Sbjct: 67 LPYQMDEEKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDR---GRPKNP 123
Query: 138 KDDFRLT----PDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVK 193
T P +Q +K+ EGTH+F FT+ S + + V
Sbjct: 124 MRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFTAS----GTSVEDKVRTITEASLIVD 179
Query: 194 DGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLD--QFDLPMAPGLG 251
+ + +T G F+ QIR MVG + I + I+ Q P A G
Sbjct: 180 ETGQFLTFTFSGNGFLYKQIRNMVGTLLKIGNNRMPVEQIDLILEKKDRQLAGPTAAPNG 239
Query: 252 LLLEQVHYD 260
L L+++ Y+
Sbjct: 240 LYLKEIRYE 248
>sp|B2IRB1|TRUA_STRPS tRNA pseudouridine synthase A OS=Streptococcus pneumoniae (strain
CGSP14) GN=truA PE=3 SV=1
Length = 249
Score = 72.8 bits (177), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 62/249 (24%), Positives = 105/249 (42%), Gaps = 25/249 (10%)
Query: 22 FLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLK 81
F F R ++++ +I + L + N Q I A RTD GV AL Q++
Sbjct: 15 FAGFQRQSHARSVQEEIEKTLTR--------LNKGQTITVHGAGRTDSGVHALGQVIHFD 66
Query: 82 LPEEANKE----AINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDT 137
LP + ++E A++ PE I ++SI+ V F+ + +++TY + P++
Sbjct: 67 LPYQMDEEKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDR---GRPKNP 123
Query: 138 KDDFRLT----PDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVK 193
T P +Q +K+ EGTH+F FT+ S + + V
Sbjct: 124 MRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFTAS----GTSVEDKVRTITEASLIVD 179
Query: 194 DGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLD--QFDLPMAPGLG 251
+ + +T G F+ QIR MVG + I + I+ Q P A G
Sbjct: 180 ETGQFLTFTFSGNGFLYKQIRNMVGTLLKIGNNRMPVEQIDLILEKKDRQLAGPTAAPNG 239
Query: 252 LLLEQVHYD 260
L L+++ Y+
Sbjct: 240 LYLKEIRYE 248
>sp|B8ZM12|TRUA_STRPJ tRNA pseudouridine synthase A OS=Streptococcus pneumoniae (strain
ATCC 700669 / Spain 23F-1) GN=truA PE=3 SV=1
Length = 249
Score = 72.8 bits (177), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 62/249 (24%), Positives = 105/249 (42%), Gaps = 25/249 (10%)
Query: 22 FLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLK 81
F F R ++++ +I + L + N Q I A RTD GV AL Q++
Sbjct: 15 FAGFQRQSHARSVQEEIEKTLTR--------LNKGQTITVHGAGRTDSGVHALGQVIHFD 66
Query: 82 LPEEANKE----AINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDT 137
LP + ++E A++ PE I ++SI+ V F+ + +++TY + P++
Sbjct: 67 LPYQMDEEKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDR---GRPKNP 123
Query: 138 KDDFRLT----PDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVK 193
T P +Q +K+ EGTH+F FT+ S + + V
Sbjct: 124 MRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFTAS----GTSVEDKVRTITEASLIVD 179
Query: 194 DGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLD--QFDLPMAPGLG 251
+ + +T G F+ QIR MVG + I + I+ Q P A G
Sbjct: 180 ETGQFLTFTFSGNGFLYKQIRNMVGTLLKIGNNRMPVEQIDLILEKKDRQLAGPTAAPNG 239
Query: 252 LLLEQVHYD 260
L L+++ Y+
Sbjct: 240 LYLKEIRYE 248
>sp|B1ID11|TRUA_STRPI tRNA pseudouridine synthase A OS=Streptococcus pneumoniae (strain
Hungary19A-6) GN=truA PE=3 SV=1
Length = 249
Score = 72.8 bits (177), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 62/249 (24%), Positives = 105/249 (42%), Gaps = 25/249 (10%)
Query: 22 FLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLK 81
F F R ++++ +I + L + N Q I A RTD GV AL Q++
Sbjct: 15 FAGFQRQSHARSVQEEIEKTLTR--------LNKGQTITVHGAGRTDSGVHALGQVIHFD 66
Query: 82 LPEEANKE----AINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDT 137
LP + ++E A++ PE I ++SI+ V F+ + +++TY + P++
Sbjct: 67 LPYQMDEEKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDR---GRPKNP 123
Query: 138 KDDFRLT----PDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVK 193
T P +Q +K+ EGTH+F FT+ S + + V
Sbjct: 124 MRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFTAS----GTSVEDKVRTITEASLIVD 179
Query: 194 DGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLD--QFDLPMAPGLG 251
+ + +T G F+ QIR MVG + I + I+ Q P A G
Sbjct: 180 ETGQFLTFTFSGNGFLYKQIRNMVGTLLKIGNNRMPVEQIDLILEKKDRQLAGPTAAPNG 239
Query: 252 LLLEQVHYD 260
L L+++ Y+
Sbjct: 240 LYLKEIRYE 248
>sp|Q04JF7|TRUA_STRP2 tRNA pseudouridine synthase A OS=Streptococcus pneumoniae serotype
2 (strain D39 / NCTC 7466) GN=truA PE=3 SV=1
Length = 249
Score = 72.8 bits (177), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 62/249 (24%), Positives = 105/249 (42%), Gaps = 25/249 (10%)
Query: 22 FLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAARTDKGVSALKQIVSLK 81
F F R ++++ +I + L + N Q I A RTD GV AL Q++
Sbjct: 15 FAGFQRQSHARSVQEEIEKTLTR--------LNKGQTITVHGAGRTDSGVHALGQVIHFD 66
Query: 82 LPEEANKE----AINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDT 137
LP + ++E A++ PE I ++SI+ V F+ + +++TY + P++
Sbjct: 67 LPYQMDEEKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDR---GRPKNP 123
Query: 138 KDDFRLT----PDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVK 193
T P +Q +K+ EGTH+F FT+ S + + V
Sbjct: 124 MRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFTAS----GTSVEDKVRTITEASLIVD 179
Query: 194 DGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLD--QFDLPMAPGLG 251
+ + +T G F+ QIR MVG + I + I+ Q P A G
Sbjct: 180 ETGQFLTFTFSGNGFLYKQIRNMVGTLLKIGNNRMPVEQIDLILEKKDRQLAGPTAAPNG 239
Query: 252 LLLEQVHYD 260
L L+++ Y+
Sbjct: 240 LYLKEIRYE 248
>sp|Q8N0Z8|PUSL1_HUMAN tRNA pseudouridine synthase-like 1 OS=Homo sapiens GN=PUSL1 PE=1
SV=1
Length = 303
Score = 72.4 bits (176), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 72/282 (25%), Positives = 120/282 (42%), Gaps = 44/282 (15%)
Query: 15 LQSKYLFFLIFCRN--QGMKTIEGDIMEALFKAGFVTE--DSFNTPQNIQFQRAARTDKG 70
++++YL + + G+ + G A+ ++ E + N+ + ++F ++RTD G
Sbjct: 10 VRARYLVYFQYVGTDFNGVAAVRG-TQRAVGVQNYLEEAAERLNSVEPVRFTISSRTDAG 68
Query: 71 VSALKQIVSLKL---------PEEANKEAINEHLPE-QIRILSIKRVTKGFNSKNNCNAR 120
V AL L + P E EA+N HL IR+L RV F++++ +R
Sbjct: 69 VHALSNAAHLDVQRRSGRPPFPPEVLAEALNTHLRHPAIRVLRAFRVPSDFHARHAATSR 128
Query: 121 TYSYTCPTYAFATPQDTKDD---------FRLTPDQFNF--LQALLKQYEGTHNFHNFTS 169
TY Y AT +D+ + L D + +Q + GTH+F F S
Sbjct: 129 TY-----LYRLATGCHRRDELPVFERNLCWTLPADCLDMVAMQEAAQHLLGTHDFSAFQS 183
Query: 170 KRKPLDPSCSRYIMSFDCE----QPFV----KDGLELITLKIKGQSFMLHQIRKMVGVAM 221
P+ PS R + P V L L+ + QSF+ Q+R+M V +
Sbjct: 184 AGSPV-PSPVRTLRRVSVSPGQASPLVTPEESRKLRFWNLEFESQSFLYRQVRRMTAVLV 242
Query: 222 AIARGFTS----KDLIEKTFGLDQFDLPMAPGLGLLLEQVHY 259
A+ G + K ++E L + +AP GL L+ V Y
Sbjct: 243 AVGLGALAPAQVKTILESQDPLGKHQTRVAPAHGLFLKSVLY 284
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
0.319 0.135 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 142,882,661
Number of Sequences: 539616
Number of extensions: 6065420
Number of successful extensions: 24207
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 86
Number of HSP's successfully gapped in prelim test: 531
Number of HSP's that attempted gapping in prelim test: 23358
Number of HSP's gapped (non-prelim): 767
length of query: 375
length of database: 191,569,459
effective HSP length: 119
effective length of query: 256
effective length of database: 127,355,155
effective search space: 32602919680
effective search space used: 32602919680
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)