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= psy3604
(496 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q9JI38|PUS3_MOUSE tRNA pseudouridine(38/39) synthase OS=Mus musculus GN=Pus3 PE=1
SV=2
Length = 481
Score = 135 bits (341), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 77/184 (41%), Positives = 104/184 (56%), Gaps = 29/184 (15%)
Query: 196 VVTLKIRSKLTSPGEESDDN----------ELPYLKMLNNNLPRDIKVVAWSPVPEKYSA 245
V++L +RS+ + + D N E+ Y +LN LP DI+V+AW+PV +SA
Sbjct: 128 VISLDLRSQFPTSRDSEDSNLKHEADDLAKEIRYTHILNRVLPADIRVLAWAPVEPSFSA 187
Query: 246 RFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFKRLVTHAGV 305
RF CL R Y+Y+FP+A LDI M+ AAQ VGTHDFRNLCKM+V NGV+NF+R + A V
Sbjct: 188 RFSCLERTYRYFFPRADLDIATMNYAAQKYVGTHDFRNLCKMDVANGVINFQRTILCAQV 247
Query: 306 ------------TSAWQNVQFNDIKEVVDSEPS-------FKKGQGNEKPEIIQQLVDIE 346
+Q QF I + F GQG EKPEII +L++I+
Sbjct: 248 QLVAQSPGEERRQEPFQLCQFEVIGQAFLYHQVRCMMAILFLIGQGMEKPEIIDELLNIQ 307
Query: 347 KYPR 350
K P+
Sbjct: 308 KNPQ 311
>sp|Q3SX07|PUS3_BOVIN tRNA pseudouridine(38/39) synthase OS=Bos taurus GN=PUS3 PE=2 SV=1
Length = 481
Score = 132 bits (333), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 71/154 (46%), Positives = 94/154 (61%), Gaps = 19/154 (12%)
Query: 216 ELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYL 275
E+ Y +LN LP DI+V+AW+PV +SARF CL R Y+Y+FP+A LDI M+ AAQ
Sbjct: 157 EIRYTHILNRVLPPDIRVLAWAPVETSFSARFSCLERTYRYFFPRANLDIVTMNYAAQKY 216
Query: 276 VGTHDFRNLCKMNVGNGVVNFKRLVTHAGVTSAWQNVQFNDIKE---VVDSEPS------ 326
VGTHDFRNLCKM+V NGV+NF+R + A V QN+ +E + E +
Sbjct: 217 VGTHDFRNLCKMDVANGVINFQRTILSAQVQRVGQNLGEEGWQEPFQLCQFEVTGQAFLY 276
Query: 327 ----------FKKGQGNEKPEIIQQLVDIEKYPR 350
F GQG EKPE+I +L++IEK P+
Sbjct: 277 HQVRCMMAVLFLIGQGMEKPEVIDELLNIEKNPQ 310
>sp|Q9BZE2|PUS3_HUMAN tRNA pseudouridine(38/39) synthase OS=Homo sapiens GN=PUS3 PE=1
SV=3
Length = 481
Score = 129 bits (324), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 77/184 (41%), Positives = 101/184 (54%), Gaps = 29/184 (15%)
Query: 196 VVTLKIRSKLTSPGEESDDN----------ELPYLKMLNNNLPRDIKVVAWSPVPEKYSA 245
V++L +RS+ + D N E+ Y +LN LP DI+++AW+PV +SA
Sbjct: 127 VISLDLRSQFPRGRDSEDFNVKEEANAAAEEIRYTHILNRVLPPDIRILAWAPVEPSFSA 186
Query: 246 RFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFKRLVTHAGV 305
RF CL R Y+Y+FP+A LDI M AAQ VGTHDFRNLCKM+V NGV+NF+R + A V
Sbjct: 187 RFSCLERTYRYFFPRADLDIVTMDYAAQKYVGTHDFRNLCKMDVANGVINFQRTILSAQV 246
Query: 306 T--------SAWQN----VQFNDIKEVVDSEPS-------FKKGQGNEKPEIIQQLVDIE 346
WQ QF + F GQG EKPEII +L++IE
Sbjct: 247 QLVGQSPGEGRWQEPFQLCQFEVTGQAFLYHQVRCMMAILFLIGQGMEKPEIIDELLNIE 306
Query: 347 KYPR 350
K P+
Sbjct: 307 KNPQ 310
>sp|Q9VWY6|TAF8_DROME Transcription initiation factor TFIID subunit 8 OS=Drosophila
melanogaster GN=Taf8 PE=1 SV=1
Length = 328
Score = 107 bits (266), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 50/110 (45%), Positives = 68/110 (61%)
Query: 87 NWYKRAVTSVIGLVIKEVGGLSHDFCELANRQQPMLADVLLALIELGIPIHGLDTYAKRP 146
N +T ++ +I E+G +H++CEL+ R P + DV LALI +GI I LD Y ++
Sbjct: 37 NHSLETLTQMLQALIWEIGNSAHNYCELSGRTMPTVGDVSLALINMGISISNLDPYMRKE 96
Query: 147 MRTVFPPVAPSTQPKPLSILQAGVKQPHPPHIPPYLPLFPDPHAYIRTPV 196
P TQ +PLS+LQAG+K PHP ++P Y P PDPHAYIRTP
Sbjct: 97 THVPIPLPPQQTQQRPLSLLQAGIKAPHPHYVPSYFPPMPDPHAYIRTPT 146
>sp|Q09524|TG124_CAEEL Probable tRNA pseudouridine synthase tag-124 OS=Caenorhabditis
elegans GN=tag-124 PE=3 SV=1
Length = 402
Score = 103 bits (258), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 68/194 (35%), Positives = 103/194 (53%), Gaps = 25/194 (12%)
Query: 216 ELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYL 275
ELPY+KMLN LP+ I+V AW+PV + ++ARFDC R YKY F +A L+++ M + A+ L
Sbjct: 129 ELPYVKMLNGVLPKTIRVFAWAPVAQTFNARFDCNRRTYKYSFAKADLNLEKMRQGAELL 188
Query: 276 VGTHDFRNLCK--MNVGNGVVNFKRLVTHAGVTSAWQNVQFNDIKEVVD---SEPSF--- 327
VG HDF N C+ MN + ++ R V V + + ND+ +V+ S F
Sbjct: 189 VGEHDFSNFCQIDMNEKRLLQSYVRKVYEVKVEQVSTHPE-NDMYSMVELTVSGSGFLWH 247
Query: 328 ----------KKGQGNEKPEIIQQLVDIEKYPRIKSAQFPWSSTGATTPNELFRRVFLLS 377
+ G+ NE+P +I QL+D++KYP P + + TP LF +
Sbjct: 248 MIRYIVTILQEIGRENEQPSLISQLLDLKKYP-----SRPQYTLASDTPLCLFDCGYKSE 302
Query: 378 FLAW-VDQYRIRQT 390
+ W V Y ++ T
Sbjct: 303 DVEWKVHDYTLKST 316
>sp|P31115|PUS3_YEAST tRNA pseudouridine(38/39) synthase OS=Saccharomyces cerevisiae
(strain ATCC 204508 / S288c) GN=DEG1 PE=1 SV=1
Length = 442
Score = 102 bits (253), Expect = 8e-21, Method: Compositional matrix adjust.
Identities = 64/173 (36%), Positives = 92/173 (53%), Gaps = 24/173 (13%)
Query: 196 VVTLKIRSKLTSPGEE---SDDNELPYLKMLNNNLPRDIKV--VAWSPVPEKYSARFDCL 250
V++L++RS LT + +D E+PY+ +LN LP DI++ V P P + ARF C+
Sbjct: 160 VISLEVRSNLTDEEQRDPTNDSREIPYVHVLNQLLPDDIRISAVCLRP-PPNFDARFSCV 218
Query: 251 FRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFKRLVTHAG------ 304
R+YKY F L+I+ M KAA Y VG DFRN CK++ + NFKR + +
Sbjct: 219 HRHYKYIFNGKNLNIEKMSKAASYFVGERDFRNFCKLDGSKQITNFKRTIISSKILPLSE 278
Query: 305 -------VTSAWQNVQFNDIKEVVDSEPSFKKGQGNEKPEIIQQLVDIEKYPR 350
V SA+ Q + ++ F GQ E PEI+ +L DIEK P+
Sbjct: 279 TFYCFDLVGSAFLWHQVRCMMAIL-----FLVGQSLEVPEIVLRLTDIEKTPQ 326
>sp|Q7Z7C8|TAF8_HUMAN Transcription initiation factor TFIID subunit 8 OS=Homo sapiens
GN=TAF8 PE=1 SV=1
Length = 310
Score = 95.9 bits (237), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 46/106 (43%), Positives = 63/106 (59%), Gaps = 4/106 (3%)
Query: 93 VTSVIGLVIKEVGGLSHDFCELANRQQPMLADVLLALIELGIPIHGLDTYAKRPMRTVF- 151
+T ++ I E+G + +CE R QP L+D+++ L+E+G + L YAKR R V
Sbjct: 61 LTEMLQSYISEIGRSAKSYCEHTARTQPTLSDIVVTLVEMGFNVDTLPAYAKRSQRMVIT 120
Query: 152 -PPVAPSTQPKPLSILQAGVKQPHPPHIPPYLPLFPDPHAYIRTPV 196
PPV + QP L AG +PHPPHIP + P FPDPH YI+TP
Sbjct: 121 APPV--TNQPVTPKALTAGQNRPHPPHIPSHFPEFPDPHTYIKTPT 164
>sp|Q9EQH4|TAF8_MOUSE Transcription initiation factor TFIID subunit 8 OS=Mus musculus
GN=Taf8 PE=2 SV=1
Length = 308
Score = 95.5 bits (236), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 46/106 (43%), Positives = 63/106 (59%), Gaps = 4/106 (3%)
Query: 93 VTSVIGLVIKEVGGLSHDFCELANRQQPMLADVLLALIELGIPIHGLDTYAKRPMRTVF- 151
+T ++ I E+G + +CE R QP L+D+++ L+E+G + L YAKR R V
Sbjct: 59 LTEMLQSYISEIGRSAKSYCEHTARTQPTLSDIVVTLVEMGFNVDTLPAYAKRSQRMVIT 118
Query: 152 -PPVAPSTQPKPLSILQAGVKQPHPPHIPPYLPLFPDPHAYIRTPV 196
PPV + QP L AG +PHPPHIP + P FPDPH YI+TP
Sbjct: 119 APPV--TNQPVTPKALTAGQNRPHPPHIPSHFPEFPDPHTYIKTPT 162
>sp|A7MAZ4|TAF8_BOVIN Transcription initiation factor TFIID subunit 8 OS=Bos taurus
GN=TAF8 PE=2 SV=1
Length = 310
Score = 95.5 bits (236), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 46/106 (43%), Positives = 63/106 (59%), Gaps = 4/106 (3%)
Query: 93 VTSVIGLVIKEVGGLSHDFCELANRQQPMLADVLLALIELGIPIHGLDTYAKRPMRTVF- 151
+T ++ I E+G + +CE R QP L+D+++ L+E+G + L YAKR R V
Sbjct: 61 LTEMLQSYISEIGRSAKSYCEHTARTQPTLSDIVVTLVEMGFNVDTLPAYAKRSQRMVIT 120
Query: 152 -PPVAPSTQPKPLSILQAGVKQPHPPHIPPYLPLFPDPHAYIRTPV 196
PPV + QP L AG +PHPPHIP + P FPDPH YI+TP
Sbjct: 121 APPV--TNQPVTPKALTAGQNRPHPPHIPSHFPEFPDPHTYIKTPT 164
>sp|Q5ZMS1|TAF8_CHICK Transcription initiation factor TFIID subunit 8 OS=Gallus gallus
GN=TAF8 PE=2 SV=1
Length = 244
Score = 92.0 bits (227), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 45/98 (45%), Positives = 58/98 (59%), Gaps = 4/98 (4%)
Query: 101 IKEVGGLSHDFCELANRQQPMLADVLLALIELGIPIHGLDTYAKRPMRTVF--PPVAPST 158
I E+G + +CE R QP L+D+++ L+E+G + L YAKR R V PPV +
Sbjct: 6 ISEIGRSAKSYCEHTARTQPTLSDIVVTLVEMGFNVETLPAYAKRSQRMVITAPPV--TN 63
Query: 159 QPKPLSILQAGVKQPHPPHIPPYLPLFPDPHAYIRTPV 196
QP L AG +PHP HIP Y P FPDPH YI+TP
Sbjct: 64 QPVTPKALTAGQNKPHPSHIPGYFPEFPDPHTYIKTPT 101
>sp|Q7ZYA2|TAF8_XENLA Transcription initiation factor TFIID subunit 8 OS=Xenopus laevis
GN=taf8 PE=2 SV=1
Length = 293
Score = 88.6 bits (218), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 44/107 (41%), Positives = 61/107 (57%), Gaps = 4/107 (3%)
Query: 92 AVTSVIGLVIKEVGGLSHDFCELANRQQPMLADVLLALIELGIPIHGLDTYAKRPMRTVF 151
++T ++ + E+G + +CE R QP L D+++ LIE+G + L YAKR R V
Sbjct: 50 SLTEMLQSYLSEIGRSAKSYCEHTARTQPTLPDIVVTLIEMGFNVDSLPAYAKRSQRMVI 109
Query: 152 --PPVAPSTQPKPLSILQAGVKQPHPPHIPPYLPLFPDPHAYIRTPV 196
PPV + P L AG +PHP HIP + P FPDPH YI+TP
Sbjct: 110 TAPPV--TNNPVVPKALSAGDNKPHPAHIPSHFPEFPDPHTYIKTPT 154
>sp|Q6P0T2|TAF8_DANRE Transcription initiation factor TFIID subunit 8 OS=Danio rerio
GN=taf8 PE=1 SV=1
Length = 308
Score = 86.7 bits (213), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 61/190 (32%), Positives = 79/190 (41%), Gaps = 61/190 (32%)
Query: 9 RSLLKSSVVALLAEVGFDAADNAALETLVEICQACKYTCLTVTAKVLSSHKEREKEDRIG 68
R L+ V ALL E GFD+A+ A +ETL E+ Q+
Sbjct: 36 RRTLQVVVSALLTECGFDSAEKAVVETLTEMMQSY------------------------- 70
Query: 69 ESEGTCAEVTSVEDCYQRNWYKRAVTSVIGLVIKEVGGLSHDFCELANRQQPMLADVLLA 128
+T V C + N CE R P L+DV++
Sbjct: 71 --------ITEVGRCAKAN------------------------CEHTARSTPTLSDVVIT 98
Query: 129 LIELGIPIHGLDTYAKRPMRTVF--PPVAPSTQPKPLSILQAGVKQPHPPHIPPYLPLFP 186
L+E+G + L YAKR R V PP+ + P L AG K+ HP HIP + P FP
Sbjct: 99 LVEMGFNVDTLPVYAKRSQRMVITAPPI--TNAPVVPKSLTAGQKRTHPAHIPSHFPDFP 156
Query: 187 DPHAYIRTPV 196
DPH YIRTP
Sbjct: 157 DPHTYIRTPT 166
>sp|Q28J24|TAF8_XENTR Transcription initiation factor TFIID subunit 8 OS=Xenopus
tropicalis GN=taf8 PE=2 SV=1
Length = 293
Score = 86.3 bits (212), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 43/107 (40%), Positives = 60/107 (56%), Gaps = 4/107 (3%)
Query: 92 AVTSVIGLVIKEVGGLSHDFCELANRQQPMLADVLLALIELGIPIHGLDTYAKRPMRTVF 151
++T ++ + E+G + +CE R QP L D+++ LIE+G + L YAKR R V
Sbjct: 50 SLTEMLQSYLSEIGRSAKSYCEHTARTQPTLPDIVVTLIEMGFNVESLPAYAKRSQRMVI 109
Query: 152 --PPVAPSTQPKPLSILQAGVKQPHPPHIPPYLPLFPDPHAYIRTPV 196
PPV + P L AG + HP HIP + P FPDPH YI+TP
Sbjct: 110 TAPPV--TNNPVVPKALSAGQNKQHPAHIPSHFPEFPDPHTYIKTPT 154
>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 = 81.3 bits (199), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 53/175 (30%), Positives = 80/175 (45%), Gaps = 36/175 (20%)
Query: 196 VVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYK 255
V++L +R P + Y +LN LP DI++ ++ PE + ARF C R+YK
Sbjct: 158 VISLNVRHSERRP--------IIYCDVLNRLLPADIRITGYAFPPEGFDARFSCKQRHYK 209
Query: 256 YWF----PQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFKRLVTHA-------- 303
Y F P LDID M++AA +G HDFRN CK++ + N+ R + +
Sbjct: 210 YLFTKDYPGGSLDIDRMNEAAALYLGEHDFRNFCKIDASKQITNYHRRILSSKVICIDPS 269
Query: 304 ---------GVTSAWQNVQFNDIKEVVDSEPSFKKGQGNEKPEIIQQLVDIEKYP 349
G W V+ + ++ F GQ E +I L+DI+K P
Sbjct: 270 TGLYAFDLQGTAFLWHQVRC--MMAIL-----FLIGQKLEPASLINDLLDIKKVP 317
>sp|A0B7V0|TRUA_METTP tRNA pseudouridine synthase A OS=Methanosaeta thermophila (strain
DSM 6194 / PT) GN=truA PE=3 SV=1
Length = 267
Score = 63.2 bits (152), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 30/79 (37%), Positives = 47/79 (59%)
Query: 211 ESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHK 270
E D L + +++N+ LP D+ A + P +SAR+ L+R Y+Y+ +D+ A+ +
Sbjct: 66 EEDRAYLAFPRVINSLLPSDVWAWARAVAPVGFSARWSALWREYRYFLFSPDIDLSAVRE 125
Query: 271 AAQYLVGTHDFRNLCKMNV 289
AA +LVGTHDFRN V
Sbjct: 126 AAGHLVGTHDFRNFSMSKV 144
>sp|Q82DM1|TRUA_STRAW tRNA pseudouridine synthase A OS=Streptomyces avermitilis (strain
ATCC 31267 / DSM 46492 / JCM 5070 / NCIMB 12804 / NRRL
8165 / MA-4680) GN=truA PE=3 SV=1
Length = 285
Score = 60.8 bits (146), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 34/101 (33%), Positives = 50/101 (49%), Gaps = 19/101 (18%)
Query: 208 PGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKY----------- 256
PGE +++ LK L LP+D++V + + P ++ARF ++R Y Y
Sbjct: 79 PGELWAEHQEKLLKRLAGRLPKDVRVWSLTEAPSGFNARFSAIWRRYAYRVTDNTGGVDP 138
Query: 257 -------WFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVG 290
W LD+DAM++AA+ LVG HDF CK G
Sbjct: 139 LLRSHVLWHDWP-LDVDAMNEAARRLVGEHDFAAYCKKREG 178
>sp|B8GFU5|TRUA_METPE tRNA pseudouridine synthase A OS=Methanosphaerula palustris (strain
ATCC BAA-1556 / DSM 19958 / E1-9c) GN=truA PE=3 SV=1
Length = 280
Score = 58.2 bits (139), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 27/69 (39%), Positives = 40/69 (57%)
Query: 220 LKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTH 279
++ LN L D+ ++ VP + RFD + R Y+Y+F LDI AM +AA L+GTH
Sbjct: 76 VEALNGQLSPDLWCNGFAEVPPSFHPRFDAISRTYRYFFADWPLDIRAMDQAAAALIGTH 135
Query: 280 DFRNLCKMN 288
DF L ++
Sbjct: 136 DFSRLARVR 144
>sp|O86776|TRUA_STRCO tRNA pseudouridine synthase A OS=Streptomyces coelicolor (strain
ATCC BAA-471 / A3(2) / M145) GN=truA PE=3 SV=1
Length = 284
Score = 57.8 bits (138), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/103 (33%), Positives = 49/103 (47%), Gaps = 23/103 (22%)
Query: 208 PGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKY----------- 256
P E ++ + LK L LPRD++V A P ++ARF ++R Y Y
Sbjct: 78 PREVWAEHHVKLLKRLAGRLPRDVRVWALREAPSGFNARFSAVWRRYAYRVTDNPGGVDP 137
Query: 257 -------W--FPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVG 290
W +P LD+DAM+ AA+ L+G HDF CK G
Sbjct: 138 LLRGHVLWHDWP---LDVDAMNAAARGLLGEHDFAAYCKKREG 177
>sp|A3CXX4|TRUA_METMJ tRNA pseudouridine synthase A OS=Methanoculleus marisnigri (strain
ATCC 35101 / DSM 1498 / JR1) GN=truA PE=3 SV=1
Length = 270
Score = 57.0 bits (136), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 38/72 (52%), Gaps = 1/72 (1%)
Query: 220 LKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTH 279
++ LN LP DI W+ P+ + R+ + R Y+Y+F G D AMH+AAQ +G H
Sbjct: 76 IEALNRVLPADIWCTGWAEAPDGFHPRYSAVSRTYRYYFSAPG-DAAAMHEAAQEFLGRH 134
Query: 280 DFRNLCKMNVGN 291
DF + N
Sbjct: 135 DFSAFARAGDRN 146
>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 = 57.0 bits (136), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 32/86 (37%), Positives = 46/86 (53%), Gaps = 4/86 (4%)
Query: 220 LKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTH 279
++ LN +LP DI + + V E++ R+ R+Y+Y+FP D+ M AA L+GTH
Sbjct: 76 IEALNFHLPDDIWCIGAAEVDEEFYPRYAARERSYRYYFPYPA-DVSRMQDAASRLIGTH 134
Query: 280 DFRNLCKMNVGNGVVNFKRLVTHAGV 305
+F KM G V R VT A V
Sbjct: 135 NFSGFAKMEAGRDPV---RTVTRAEV 157
>sp|B1W3X8|TRUA_STRGG tRNA pseudouridine synthase A OS=Streptomyces griseus subsp.
griseus (strain JCM 4626 / NBRC 13350) GN=truA PE=3 SV=1
Length = 284
Score = 56.6 bits (135), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 31/95 (32%), Positives = 46/95 (48%), Gaps = 19/95 (20%)
Query: 214 DNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKY----------------- 256
++E L+ L LP D+++ +P P ++ARF L+R Y Y
Sbjct: 83 EHEEKLLRRLAGRLPLDVRIWRAAPAPAGFNARFSALWRRYAYRVGDRPGGVDPLTRGHV 142
Query: 257 -WFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVG 290
W + LD+DAM++AA +VG HDF CK G
Sbjct: 143 LWHDRP-LDLDAMNEAAALMVGEHDFAAYCKKREG 176
>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 = 56.2 bits (134), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 44/78 (56%)
Query: 211 ESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHK 270
++D L +++N+ LP I V A + VP + AR + R+Y+Y G DI M +
Sbjct: 68 DTDRPNLAIPRIINSGLPPTIWVWAHAEVPYDFDARRHAVSRHYRYVISGEGYDISKMRE 127
Query: 271 AAQYLVGTHDFRNLCKMN 288
A++ L+GTHDF N + N
Sbjct: 128 ASKLLLGTHDFENFSRSN 145
>sp|A1RU12|TRUA_PYRIL tRNA pseudouridine synthase A OS=Pyrobaculum islandicum (strain DSM
4184 / JCM 9189) GN=truA PE=3 SV=1
Length = 255
Score = 55.5 bits (132), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 32/91 (35%), Positives = 50/91 (54%), Gaps = 8/91 (8%)
Query: 202 RSKLTSPGEESDDN------ELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYK 255
R T PG + N +LP + ++N+ LPR + A + VP+ ++ R FR+Y
Sbjct: 38 RGSRTDPGVSAVANTVMVSQKLP-IALVNSKLPRGVWAWAIAEVPQSFNPR-RAKFRHYL 95
Query: 256 YWFPQAGLDIDAMHKAAQYLVGTHDFRNLCK 286
Y P G D+ +MH+AA+ L GTHDF + +
Sbjct: 96 YVAPHWGEDLGSMHEAAEVLAGTHDFASFIQ 126
>sp|Q8XLQ0|TRUA1_CLOPE tRNA pseudouridine synthase A 1 OS=Clostridium perfringens (strain
13 / Type A) GN=truA1 PE=3 SV=1
Length = 248
Score = 55.5 bits (132), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 44/88 (50%), Gaps = 16/88 (18%)
Query: 220 LKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKY----------------WFPQAGL 263
++ +N LP DI+V E++ ARF+ + Y+Y W + L
Sbjct: 80 IEYINEYLPEDIRVTEIREASERFHARFNVKSKTYEYTIDNNKFKDVFLRKYAWHVEEKL 139
Query: 264 DIDAMHKAAQYLVGTHDFRNLCKMNVGN 291
D++AM + A+YL+GTHDF++ + N
Sbjct: 140 DLEAMEEGAKYLLGTHDFKSFTSLKSKN 167
>sp|P65846|TRUA_MYCTU tRNA pseudouridine synthase A OS=Mycobacterium tuberculosis GN=truA
PE=3 SV=1
Length = 297
Score = 54.7 bits (130), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 34/109 (31%), Positives = 50/109 (45%), Gaps = 18/109 (16%)
Query: 209 GEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWF--------PQ 260
G D LP L+ L LP D++++ + P + ARF L R+Y Y PQ
Sbjct: 99 GHVGDPEFLPLLRRLGRFLPADVRILDITRAPAGFDARFSALRRHYVYRLSTAPYGVEPQ 158
Query: 261 AG---------LDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVV-NFKRL 299
LD+DAM A++ L+G HDF C+ G + + +RL
Sbjct: 159 QARYITAWPRELDLDAMTAASRDLMGLHDFAAFCRHREGATTIRDLQRL 207
>sp|P65847|TRUA_MYCBO tRNA pseudouridine synthase A OS=Mycobacterium bovis (strain ATCC
BAA-935 / AF2122/97) GN=truA PE=3 SV=1
Length = 297
Score = 54.7 bits (130), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 34/109 (31%), Positives = 50/109 (45%), Gaps = 18/109 (16%)
Query: 209 GEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWF--------PQ 260
G D LP L+ L LP D++++ + P + ARF L R+Y Y PQ
Sbjct: 99 GHVGDPEFLPLLRRLGRFLPADVRILDITRAPAGFDARFSALRRHYVYRLSTAPYGVEPQ 158
Query: 261 AG---------LDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVV-NFKRL 299
LD+DAM A++ L+G HDF C+ G + + +RL
Sbjct: 159 QARYITAWPRELDLDAMTAASRDLMGLHDFAAFCRHREGATTIRDLQRL 207
>sp|B9K8Q0|TRUA_THENN tRNA pseudouridine synthase A OS=Thermotoga neapolitana (strain
ATCC 49049 / DSM 4359 / NS-E) GN=truA PE=3 SV=1
Length = 245
Score = 54.3 bits (129), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 38/76 (50%), Gaps = 18/76 (23%)
Query: 223 LNNNLPRDIKVVAWSPVPEKYSARFDC-----------------LFRNYKYWFPQAGLDI 265
+N NLP D+ V VP+ + RFD R Y +WFP LD+
Sbjct: 80 MNANLPDDVYVKKVFEVPKNFHPRFDVKKRIYHYFIHTSREKNVFLRKYAWWFPYE-LDL 138
Query: 266 DAMHKAAQYLVGTHDF 281
+AM KAA+YL GTHDF
Sbjct: 139 EAMRKAAKYLEGTHDF 154
>sp|Q2NHB4|TRUA_METST tRNA pseudouridine synthase A OS=Methanosphaera stadtmanae (strain
DSM 3091) GN=truA PE=3 SV=1
Length = 274
Score = 54.3 bits (129), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 30/78 (38%), Positives = 40/78 (51%), Gaps = 6/78 (7%)
Query: 219 YLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYW-----FPQAGLDIDAMHKAAQ 273
++ LN LP DIK++ + VP + RF L R Y Y F + LDI MH A +
Sbjct: 75 HINQLNGLLPDDIKIIGEARVPYGFKVRF-PLTRTYTYIQPISPFEKKNLDITKMHVAME 133
Query: 274 YLVGTHDFRNLCKMNVGN 291
+G H+FRN K N N
Sbjct: 134 SFIGKHNFRNFSKRNEKN 151
>sp|B6IPI0|TRUA_RHOCS tRNA pseudouridine synthase A OS=Rhodospirillum centenum (strain
ATCC 51521 / SW) GN=truA PE=3 SV=1
Length = 245
Score = 54.3 bits (129), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 32/79 (40%), Positives = 39/79 (49%), Gaps = 17/79 (21%)
Query: 223 LNNNL-PRDIKVVAWSPVPEKYSARFDCLFRNYKY----------------WFPQAGLDI 265
LN +L P + V+ PV + ARF CL R Y Y W Q GLD
Sbjct: 79 LNFHLKPHPVAVLRVEPVAPDFHARFSCLGRAYLYRILNRRAPAALEAGRVWHVQGGLDA 138
Query: 266 DAMHKAAQYLVGTHDFRNL 284
+AMH+AAQ LVG HDF +
Sbjct: 139 EAMHEAAQRLVGQHDFSSF 157
>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 = 54.3 bits (129), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 33/81 (40%), Positives = 40/81 (49%), Gaps = 4/81 (4%)
Query: 212 SDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKA 271
S+D P +MLN LP DI AW+ V E + R R Y Y + DI AM KA
Sbjct: 66 SEDKIFP--RMLNAELPEDITAWAWAKVSEDFDPR-RAKSRVYTYVMYGSDYDISAMRKA 122
Query: 272 AQYLVGTHDFRNLCKMNVGNG 292
+ L+G HDF N K G G
Sbjct: 123 VKELIGVHDFSNFTK-KFGEG 142
>sp|A8F9B7|TRUA_BACP2 tRNA pseudouridine synthase A OS=Bacillus pumilus (strain SAFR-032)
GN=truA PE=3 SV=1
Length = 247
Score = 54.3 bits (129), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 31/83 (37%), Positives = 41/83 (49%), Gaps = 18/83 (21%)
Query: 223 LNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKY-----------------WFPQAGLDI 265
LN+ LP DI+V+ V E + ARF + + Y+Y FP LD
Sbjct: 80 LNSLLPDDIRVLKAEEVDESFHARFSVVSKEYRYKVSTETHQNVFTRQYACHFPYR-LDA 138
Query: 266 DAMHKAAQYLVGTHDFRNLCKMN 288
D M +AA YL+GTHDF + C N
Sbjct: 139 DKMREAAGYLIGTHDFTSFCAAN 161
>sp|Q49ZD7|TRUA_STAS1 tRNA pseudouridine synthase A OS=Staphylococcus saprophyticus
subsp. saprophyticus (strain ATCC 15305 / DSM 20229)
GN=truA PE=3 SV=1
Length = 267
Score = 53.9 bits (128), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 49/182 (26%), Positives = 76/182 (41%), Gaps = 42/182 (23%)
Query: 223 LNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAG----------------LDID 266
+N LP DI V S V + + R+DC+ ++Y+Y Q+ LDI+
Sbjct: 78 MNRALPDDIYVNDVSFVNDDFHCRYDCVGKSYRYKIYQSAHKDPFLCGLKTYVPEQLDIE 137
Query: 267 AMHKAAQYLVGTHDFRNLC--KMNVGNGV------------VNFKRLVTHAGVTSAWQNV 312
M+ AAQ+ +GTHDF C K V + + F +VT +G V
Sbjct: 138 KMNMAAQHFIGTHDFTGFCSQKTEVESKIRTLYESRIEKTESGFDYIVTGSGFLYNMVRV 197
Query: 313 QFNDIKEVVDSEPSFKKGQGNEKPEIIQQLV---DIEKYPRIKSAQFPWSSTGATTPNEL 369
+ EV G+G +P+ + QL+ D + P A+ + TPNEL
Sbjct: 198 LIAFLIEV---------GKGKREPQEVPQLLEARDRNQVPFTAPAEGLYLEKIYLTPNEL 248
Query: 370 FR 371
+
Sbjct: 249 IQ 250
>sp|Q8XHV5|TRUA2_CLOPE tRNA pseudouridine synthase A 2 OS=Clostridium perfringens (strain
13 / Type A) GN=truA2 PE=3 SV=1
Length = 244
Score = 53.9 bits (128), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 39/148 (26%), Positives = 69/148 (46%), Gaps = 31/148 (20%)
Query: 223 LNNNLPRDIKVVAWSPVPEKYSARF-----------------DCLFRNYKYWFPQAGLDI 265
LN+ LP+DI ++ V E + AR+ L RNY Y + LD+
Sbjct: 79 LNSKLPKDIVIINSEEVAEDFHARYMTTGKTYCYTILNREEPPALERNYVYHVKKQ-LDV 137
Query: 266 DAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFKRLVTHAGVTSAWQNVQ---------FND 316
++M +A +Y +G HDF+ + G V R +T + + ++ +N
Sbjct: 138 ESMKEACKYFLGKHDFKAFQRP--GGTVKTSVRTITDIHIETEGNKIKIYVSADGFLYNM 195
Query: 317 IKEVVDSEPSFKKGQGNEKPEIIQQLVD 344
++ +V + K G+G EKPE I++++D
Sbjct: 196 VRLIVGT--LLKVGRGKEKPEYIKEVID 221
>sp|Q890R5|TRUA2_CLOTE tRNA pseudouridine synthase A 2 OS=Clostridium tetani (strain
Massachusetts / E88) GN=truA2 PE=3 SV=1
Length = 248
Score = 53.5 bits (127), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 41/138 (29%), Positives = 64/138 (46%), Gaps = 31/138 (22%)
Query: 206 TSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKY--------- 256
T PGE+ + LN LP DI ++ VP ++ +RFDC+ + Y Y
Sbjct: 72 TIPGEK-------FKHALNRFLPEDIVILESEEVPMEFHSRFDCIGKTYVYKILNRPLFS 124
Query: 257 -------WFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFKRLVTHAGVTSAW 309
+ + LDI++M +A+++L+GTHDF N K + GN L T +
Sbjct: 125 PIQRNYIYHVKDELDINSMIEASKFLIGTHDF-NAFKKSGGN-------LKTTVRTITNI 176
Query: 310 QNVQFNDIKEVVDSEPSF 327
++ NDI E+ S F
Sbjct: 177 NILKSNDIVEIHVSGDGF 194
>sp|B1HMV0|TRUA_LYSSC tRNA pseudouridine synthase A OS=Lysinibacillus sphaericus (strain
C3-41) GN=truA PE=3 SV=1
Length = 246
Score = 53.1 bits (126), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 31/87 (35%), Positives = 42/87 (48%), Gaps = 17/87 (19%)
Query: 219 YLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKY-W--------------FPQAGL 263
Y K LN LPRDI+V++ V + AR+ + Y+Y W G+
Sbjct: 76 YRKALNVQLPRDIRVLSVEEVAHDFHARYSVTGKRYRYIWSCEPIQNPFRRHYTVDTNGV 135
Query: 264 --DIDAMHKAAQYLVGTHDFRNLCKMN 288
D+ AM KAAQ ++GTHDF C N
Sbjct: 136 KPDVVAMQKAAQAIIGTHDFSCFCAAN 162
>sp|Q46CU8|TRUA_METBF tRNA pseudouridine synthase A OS=Methanosarcina barkeri (strain
Fusaro / DSM 804) GN=truA PE=3 SV=1
Length = 269
Score = 53.1 bits (126), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 44/78 (56%)
Query: 211 ESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHK 270
++D L +++N+ L I V A + VP + AR D + R+Y+Y DI + +
Sbjct: 68 DTDKLNLAIPRVINSELTPGIWVWAHAEVPLSFDARRDAVSRHYRYVMSGKEYDISKIRE 127
Query: 271 AAQYLVGTHDFRNLCKMN 288
A+++L+GTHDF N + N
Sbjct: 128 ASKFLLGTHDFENFSRTN 145
>sp|B9MKC1|TRUA_CALBD tRNA pseudouridine synthase A OS=Caldicellulosiruptor bescii
(strain ATCC BAA-1888 / DSM 6725 / Z-1320) GN=truA PE=3
SV=1
Length = 244
Score = 53.1 bits (126), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 40/80 (50%), Gaps = 18/80 (22%)
Query: 223 LNNNLPRDIKVVAWSPVPEKYSARFDC-----------------LFRNYKYWFPQAGLDI 265
LN+ LP DI + P +SAR+ L RNY Y++P LD+
Sbjct: 79 LNSVLPGDISIKDAVEAPLDFSARYSARQKTYKYLIYNKKSRPALLRNYAYYYPYQ-LDV 137
Query: 266 DAMHKAAQYLVGTHDFRNLC 285
DAM +A +Y +G +DF++ C
Sbjct: 138 DAMQRACEYFIGEYDFKSFC 157
>sp|Q1H0L9|TRUA_METFK tRNA pseudouridine synthase A OS=Methylobacillus flagellatus
(strain KT / ATCC 51484 / DSM 6875) GN=truA PE=3 SV=1
Length = 261
Score = 53.1 bits (126), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 46/87 (52%), Gaps = 16/87 (18%)
Query: 211 ESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWF-----------P 259
E+ ++ +++ +N LPR ++V+ V ++ ARFD R+Y+YW
Sbjct: 66 EAVRSQTAWVRGVNTKLPRGVRVLWAKEVDPRFHARFDAYQRSYQYWLINQPVAPAVMAG 125
Query: 260 QAG-----LDIDAMHKAAQYLVGTHDF 281
+AG LD+ AM +A YL+G HDF
Sbjct: 126 KAGWFHQPLDLQAMQEAMAYLLGQHDF 152
>sp|Q1GWK1|TRUA_SPHAL tRNA pseudouridine synthase A OS=Sphingopyxis alaskensis (strain
DSM 13593 / LMG 18877 / RB2256) GN=truA PE=3 SV=1
Length = 246
Score = 53.1 bits (126), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 30/78 (38%), Positives = 40/78 (51%), Gaps = 17/78 (21%)
Query: 221 KMLNNNL-PRDIKVVAWSPVPEKYSARFDCLFRNYKY----------------WFPQAGL 263
+ LN L P I V+ VP+ + ARF C+ R+Y+Y W L
Sbjct: 77 EALNAQLRPAPIAVIGCEVVPDDWHARFACIGRSYEYRIVNRRAPLTWDKGLAWQVARPL 136
Query: 264 DIDAMHKAAQYLVGTHDF 281
D+DAMH+AAQ L+G HDF
Sbjct: 137 DVDAMHEAAQQLIGLHDF 154
>sp|Q2JFE6|TRUA_FRASC tRNA pseudouridine synthase A OS=Frankia sp. (strain CcI3) GN=truA
PE=3 SV=1
Length = 274
Score = 52.8 bits (125), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 33/101 (32%), Positives = 43/101 (42%), Gaps = 18/101 (17%)
Query: 213 DDNELPYL-KMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQA---------- 261
DD L L + LN L R ++++ +P P + ARF L R Y Y A
Sbjct: 73 DDVPLGGLARRLNGVLDRAVRIIGLAPAPPGFDARFSALSRRYVYRITDAPYGAEPLRRF 132
Query: 262 -------GLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVN 295
LD+ AM AA +LVG HDF C+ G V
Sbjct: 133 DTLAWPRPLDVPAMAAAALFLVGEHDFAAFCRRREGATTVR 173
>sp|Q5WLN0|TRUA_BACSK tRNA pseudouridine synthase A OS=Bacillus clausii (strain KSM-K16)
GN=truA PE=3 SV=1
Length = 261
Score = 52.8 bits (125), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 31/103 (30%), Positives = 47/103 (45%), Gaps = 18/103 (17%)
Query: 219 YLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFP----------------QAG 262
++ LN +LP DI V + V + AR+ + Y+Y+ +
Sbjct: 76 WVSALNTHLPDDIVVTNAAMVEPDFHARYGAQAKEYRYYIQCGPFENVFRRHFAVHIKQA 135
Query: 263 LDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFKRLVTHAGV 305
LD+ AM AA++L+GTHDF C N V + R +TH V
Sbjct: 136 LDVPAMQTAAKHLLGTHDFSAFCAAN--TTVTDKVRTITHVAV 176
>sp|B1LB83|TRUA_THESQ tRNA pseudouridine synthase A OS=Thermotoga sp. (strain RQ2)
GN=truA PE=3 SV=1
Length = 245
Score = 52.8 bits (125), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 37/76 (48%), Gaps = 18/76 (23%)
Query: 223 LNNNLPRDIKVVAWSPVPEKYSARFDC-----------------LFRNYKYWFPQAGLDI 265
+N NLP D+ V V + + RFD R Y +WFP LD+
Sbjct: 80 MNANLPDDVYVKEVFEVSKNFHPRFDVKKRIYHYFILTSKQKNVFLRKYVWWFPYE-LDL 138
Query: 266 DAMHKAAQYLVGTHDF 281
DAM KAA+YL GTHDF
Sbjct: 139 DAMRKAAKYLEGTHDF 154
>sp|Q9X1R0|TRUA_THEMA tRNA pseudouridine synthase A OS=Thermotoga maritima (strain ATCC
43589 / MSB8 / DSM 3109 / JCM 10099) GN=truA PE=3 SV=1
Length = 245
Score = 52.4 bits (124), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 36/76 (47%), Gaps = 18/76 (23%)
Query: 223 LNNNLPRDIKVVAWSPVPEKYSARFDC-----------------LFRNYKYWFPQAGLDI 265
+N NLP D+ V VP + RFD R Y +WFP LD+
Sbjct: 80 MNANLPDDVYVKEVFEVPVNFHPRFDVTKRIYHYFILTSRQKNVFLRKYVWWFPYE-LDL 138
Query: 266 DAMHKAAQYLVGTHDF 281
DAM KA +YL GTHDF
Sbjct: 139 DAMRKAVKYLEGTHDF 154
>sp|A5IM09|TRUA_THEP1 tRNA pseudouridine synthase A OS=Thermotoga petrophila (strain
RKU-1 / ATCC BAA-488 / DSM 13995) GN=truA PE=3 SV=1
Length = 245
Score = 52.4 bits (124), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 36/76 (47%), Gaps = 18/76 (23%)
Query: 223 LNNNLPRDIKVVAWSPVPEKYSARFDC-----------------LFRNYKYWFPQAGLDI 265
+N NLP D+ V VP + RFD R Y +WFP LD+
Sbjct: 80 MNANLPDDVYVKEVFEVPVNFHPRFDVTKRIYHYFILTSRQKNVFLRKYVWWFPYE-LDL 138
Query: 266 DAMHKAAQYLVGTHDF 281
DAM KA +YL GTHDF
Sbjct: 139 DAMRKAVKYLEGTHDF 154
>sp|Q8NVB7|TRUA_STAAW tRNA pseudouridine synthase A OS=Staphylococcus aureus (strain MW2)
GN=truA PE=3 SV=1
Length = 267
Score = 52.4 bits (124), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 38/79 (48%), Gaps = 16/79 (20%)
Query: 223 LNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAG----------------LDID 266
+N LP DI V V + + R+DC+ + Y+Y QA LD+D
Sbjct: 78 MNRTLPDDIYVNNVVTVDDDFHCRYDCVGKRYRYKVYQAQHRDPFQSGLKTFIPETLDLD 137
Query: 267 AMHKAAQYLVGTHDFRNLC 285
M++AAQ +GTHDF C
Sbjct: 138 KMNRAAQQFIGTHDFTGFC 156
>sp|Q6G7A2|TRUA_STAAS tRNA pseudouridine synthase A OS=Staphylococcus aureus (strain
MSSA476) GN=truA PE=3 SV=1
Length = 267
Score = 52.4 bits (124), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 38/79 (48%), Gaps = 16/79 (20%)
Query: 223 LNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAG----------------LDID 266
+N LP DI V V + + R+DC+ + Y+Y QA LD+D
Sbjct: 78 MNRTLPDDIYVNNVVTVDDDFHCRYDCVGKRYRYKVYQAQHRDPFQSGLKTFIPETLDLD 137
Query: 267 AMHKAAQYLVGTHDFRNLC 285
M++AAQ +GTHDF C
Sbjct: 138 KMNRAAQQFIGTHDFTGFC 156
>sp|P65849|TRUA_STAAN tRNA pseudouridine synthase A OS=Staphylococcus aureus (strain
N315) GN=truA PE=3 SV=1
Length = 267
Score = 52.4 bits (124), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 38/79 (48%), Gaps = 16/79 (20%)
Query: 223 LNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAG----------------LDID 266
+N LP DI V V + + R+DC+ + Y+Y QA LD+D
Sbjct: 78 MNRTLPDDIYVNNVVTVDDDFHCRYDCVGKRYRYKVYQAQHRDPFQSGLKTFIPETLDLD 137
Query: 267 AMHKAAQYLVGTHDFRNLC 285
M++AAQ +GTHDF C
Sbjct: 138 KMNRAAQQFIGTHDFTGFC 156
>sp|P65848|TRUA_STAAM tRNA pseudouridine synthase A OS=Staphylococcus aureus (strain Mu50
/ ATCC 700699) GN=truA PE=3 SV=1
Length = 267
Score = 52.4 bits (124), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 38/79 (48%), Gaps = 16/79 (20%)
Query: 223 LNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAG----------------LDID 266
+N LP DI V V + + R+DC+ + Y+Y QA LD+D
Sbjct: 78 MNRTLPDDIYVNNVVTVDDDFHCRYDCVGKRYRYKVYQAQHRDPFQSGLKTFIPETLDLD 137
Query: 267 AMHKAAQYLVGTHDFRNLC 285
M++AAQ +GTHDF C
Sbjct: 138 KMNRAAQQFIGTHDFTGFC 156
>sp|A5IV03|TRUA_STAA9 tRNA pseudouridine synthase A OS=Staphylococcus aureus (strain JH9)
GN=truA PE=3 SV=1
Length = 267
Score = 52.4 bits (124), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 38/79 (48%), Gaps = 16/79 (20%)
Query: 223 LNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAG----------------LDID 266
+N LP DI V V + + R+DC+ + Y+Y QA LD+D
Sbjct: 78 MNRTLPDDIYVNNVVTVDDDFHCRYDCVGKRYRYKVYQAQHRDPFQSGLKTFIPETLDLD 137
Query: 267 AMHKAAQYLVGTHDFRNLC 285
M++AAQ +GTHDF C
Sbjct: 138 KMNRAAQQFIGTHDFTGFC 156
>sp|A6U3U4|TRUA_STAA2 tRNA pseudouridine synthase A OS=Staphylococcus aureus (strain JH1)
GN=truA PE=3 SV=1
Length = 267
Score = 52.4 bits (124), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 38/79 (48%), Gaps = 16/79 (20%)
Query: 223 LNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAG----------------LDID 266
+N LP DI V V + + R+DC+ + Y+Y QA LD+D
Sbjct: 78 MNRTLPDDIYVNNVVTVDDDFHCRYDCVGKRYRYKVYQAQHRDPFQSGLKTFIPETLDLD 137
Query: 267 AMHKAAQYLVGTHDFRNLC 285
M++AAQ +GTHDF C
Sbjct: 138 KMNRAAQQFIGTHDFTGFC 156
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
Lambda K H
0.320 0.135 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 187,736,510
Number of Sequences: 539616
Number of extensions: 8319804
Number of successful extensions: 23375
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 203
Number of HSP's successfully gapped in prelim test: 360
Number of HSP's that attempted gapping in prelim test: 22641
Number of HSP's gapped (non-prelim): 628
length of query: 496
length of database: 191,569,459
effective HSP length: 122
effective length of query: 374
effective length of database: 125,736,307
effective search space: 47025378818
effective search space used: 47025378818
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: 63 (28.9 bits)