Psyllid ID: psy13081

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-----
MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMIKDTVRESKCTMGDLDINHLIEGEFSRPGRILSETGEVRSRND
cccEEEEEEEcccccccccccccccccHHHHHHHHHHHccccccccEEEEEEcccccccccccccEEEEEEccccccccccccccHHHHHHHHHccccccEEEEEEEEccccccccccccccEEEEEEccccccHHHHHHHHHHccccccccccccccccccccccEEEEEEEEEEEcccccccccccccEEEEEEEEccHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHccccccccccccccccEEEEcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccc
ccEEEEEEEEccccccccEEccccccHHHHHHHHHHHHcEEEcccccEEEEEEcccccccccccEEEEEEcccccccccccccccHHHHHHHHHHHccccEEEEEEccccccccEEEEcEEEEEEEEEccccccHHHHHHHHHHHHcccccHHHHHHcccccccccEEEEEEEEEEEcccccccccccccEEEEEEEHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccccccccccccEEEEEEcccccEEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccEEEcccccEcccccEEEEEEHHccccc
MRPIALKILYQGFnyhgfqiqtssdNTIAHHLLKALQKTCliedkekssfaccgrtdsgvsAFCQVVTLKIRSkltspgeesddnelpyLKMLnnnlprdikvvawspvpekysaRFDCLFRNykywfpqagldIDAMHKAAQYLVgthdfrnlckmnvgngvvNFRRLVTHAgvtsawqnvqfndshhnicefnirsqgFLWHQIRCIMSVLFLvgqgnekpEIIQQLVdiekyprkpvypmvrgeplnlyhtefdnltwhydeiEVSHVLRDLHEDWSLLSIKATMLGEMIKDTVREskctmgdldinhliegefsrpgrilsetgevrsrnd
MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIrskltspgeesddnelPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLvdiekyprKPVYPMVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMIKDTVRESKCTMGDLDINhliegefsrpgrilsetgevrsrnd
MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMIKDTVRESKCTMGDLDINHLIEGEFSRPGRILSETGEVRSRND
***IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIR***************PYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMIKDTVRESKCTMGDLDINHLIEGEF******************
MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMIKDTVR*************************************
MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSK*********DNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMIKDTVRESKCTMGDLDINHLIEGEFSRPGRILSET********
*RPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMIKDTVRESKCTMGDLDINHLIEGEFSRPGRILSETGEVR****
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MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMIKDTVRESKCTMGDLDINHLIEGEFSRPGRILSETGEVRSRND
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query335 2.2.26 [Sep-21-2011]
Q3SX07481 tRNA pseudouridine(38/39) yes N/A 0.859 0.598 0.461 9e-74
Q9JI38481 tRNA pseudouridine(38/39) yes N/A 0.862 0.600 0.456 2e-73
Q9BZE2481 tRNA pseudouridine(38/39) yes N/A 0.880 0.613 0.453 2e-72
Q09524402 Probable tRNA pseudouridi yes N/A 0.904 0.753 0.338 2e-53
P31115442 tRNA pseudouridine(38/39) yes N/A 0.749 0.567 0.403 2e-50
Q9UTB3450 Putative tRNA pseudouridi yes N/A 0.820 0.611 0.349 1e-49
A0B7V0267 tRNA pseudouridine syntha yes N/A 0.773 0.970 0.305 2e-28
Q5JI92267 tRNA pseudouridine syntha yes N/A 0.782 0.981 0.289 8e-28
C5A7E9267 tRNA pseudouridine syntha yes N/A 0.776 0.973 0.298 9e-27
B6YTJ2267 tRNA pseudouridine syntha yes N/A 0.776 0.973 0.297 1e-25
>sp|Q3SX07|PUS3_BOVIN tRNA pseudouridine(38/39) synthase OS=Bos taurus GN=PUS3 PE=2 SV=1 Back     alignment and function desciption
 Score =  277 bits (708), Expect = 9e-74,   Method: Compositional matrix adjust.
 Identities = 143/310 (46%), Positives = 198/310 (63%), Gaps = 22/310 (7%)

Query: 2   RPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVS 61
           R +ALKI Y G+ Y GF  Q ++ NTI   L +AL KT L+E+++ S++  CGRTD GVS
Sbjct: 63  RHVALKIAYLGWGYQGFASQENTSNTIEEKLFEALTKTRLVENRQTSNYHRCGRTDKGVS 122

Query: 62  AFCQVVTLKIRSKLTSPGEESD-----------DNELPYLKMLNNNLPRDIKVVAWSPVP 110
           AF QV++L +RS +   G +S+             E+ Y  +LN  LP DI+V+AW+PV 
Sbjct: 123 AFGQVISLDLRSHIPK-GRDSEHFNLKNEVNDVATEIRYTHILNRVLPPDIRVLAWAPVE 181

Query: 111 EKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLV 170
             +SARF CL R Y+Y+FP+A LDI  M+ AAQ  VGTHDFRNLCKM+V NGV+NF+R +
Sbjct: 182 TSFSARFSCLERTYRYFFPRANLDIVTMNYAAQKYVGTHDFRNLCKMDVANGVINFQRTI 241

Query: 171 THAGVTSAWQNVQFN--DSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQ 228
             A V    QN+          +C+F +  Q FL+HQ+RC+M+VLFL+GQG EKPE+I +
Sbjct: 242 LSAQVQRVGQNLGEEGWQEPFQLCQFEVTGQAFLYHQVRCMMAVLFLIGQGMEKPEVIDE 301

Query: 229 LVDIEKYPRKPVYPMVRGEPLNLYHTEFDNLTWHYD----EIEVSHVLRDLHEDWSLLSI 284
           L++IEK P+KP Y M    PL LY  +F+N+ W YD    E  V+H    L + W+  ++
Sbjct: 302 LLNIEKNPQKPQYSMAVEFPLVLYDCKFENIKWIYDREVQEFNVTH----LQQLWANHAV 357

Query: 285 KATMLGEMIK 294
           K  ML  M++
Sbjct: 358 KTQMLYSMLQ 367
Formation of pseudouridine at position 39 in the anticodon stem and loop of transfer RNAs.
Bos taurus (taxid: 9913)
EC: 5EC: .EC: 4EC: .EC: 9EC: 9EC: .EC: 4EC: 5
>sp|Q9JI38|PUS3_MOUSE tRNA pseudouridine(38/39) synthase OS=Mus musculus GN=Pus3 PE=1 SV=2 Back     alignment and function description
>sp|Q9BZE2|PUS3_HUMAN tRNA pseudouridine(38/39) synthase OS=Homo sapiens GN=PUS3 PE=1 SV=3 Back     alignment and function description
>sp|Q09524|TG124_CAEEL Probable tRNA pseudouridine synthase tag-124 OS=Caenorhabditis elegans GN=tag-124 PE=3 SV=1 Back     alignment and function description
>sp|P31115|PUS3_YEAST tRNA pseudouridine(38/39) synthase OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=DEG1 PE=1 SV=1 Back     alignment and function description
>sp|Q9UTB3|YL85_SCHPO Putative tRNA pseudouridine synthase C25B8.05 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC25B8.05 PE=3 SV=1 Back     alignment and function description
>sp|A0B7V0|TRUA_METTP tRNA pseudouridine synthase A OS=Methanosaeta thermophila (strain DSM 6194 / PT) GN=truA PE=3 SV=1 Back     alignment and function description
>sp|Q5JI92|TRUA_PYRKO tRNA pseudouridine synthase A OS=Pyrococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) GN=truA PE=3 SV=1 Back     alignment and function description
>sp|C5A7E9|TRUA_THEGJ tRNA pseudouridine synthase A OS=Thermococcus gammatolerans (strain DSM 15229 / JCM 11827 / EJ3) GN=truA PE=3 SV=1 Back     alignment and function description
>sp|B6YTJ2|TRUA_THEON tRNA pseudouridine synthase A OS=Thermococcus onnurineus (strain NA1) GN=truA PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query335
322786132 444 hypothetical protein SINV_14818 [Solenop 0.937 0.707 0.487 2e-88
340724310424 PREDICTED: tRNA pseudouridine synthase 3 0.895 0.707 0.495 3e-86
307177137345 tRNA pseudouridine synthase 3 [Camponotu 0.946 0.918 0.468 5e-85
350420811424 PREDICTED: tRNA pseudouridine synthase 3 0.895 0.707 0.488 8e-85
332024452 443 tRNA pseudouridine synthase 3 [Acromyrme 0.868 0.656 0.498 2e-84
307212020368 tRNA pseudouridine synthase 3 [Harpegnat 0.946 0.861 0.471 6e-84
156537085421 PREDICTED: tRNA pseudouridine synthase 3 0.877 0.698 0.5 1e-82
193666867402 PREDICTED: tRNA pseudouridine synthase 3 0.862 0.718 0.506 7e-82
383863340420 PREDICTED: tRNA pseudouridine(38/39) syn 0.868 0.692 0.493 2e-81
380027544400 PREDICTED: tRNA pseudouridine(38/39) syn 0.868 0.727 0.489 4e-81
>gi|322786132|gb|EFZ12740.1| hypothetical protein SINV_14818 [Solenopsis invicta] Back     alignment and taxonomy information
 Score =  332 bits (850), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 153/314 (48%), Positives = 212/314 (67%)

Query: 2   RPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVS 61
           R I LK  Y G++YHGF +Q  + NTI HHL  AL K+C IE +E +++  CGRTD GVS
Sbjct: 92  RHILLKFYYLGWDYHGFTVQEDNCNTIEHHLFAALLKSCCIESRESANYHRCGRTDKGVS 151

Query: 62  AFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLF 121
           +F QV++L IRSKL    + +  NELPY KMLN  LP +I+ VAW PV   +SARFDC +
Sbjct: 152 SFSQVISLDIRSKLAPEDQGNLSNELPYCKMLNRLLPTNIRCVAWCPVASNFSARFDCKY 211

Query: 122 RNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQN 181
           R YKY+FP+  LDIDAM+KAA+Y+VG HDFRN+CKM+V NG++NF+R V  A V+   + 
Sbjct: 212 RRYKYFFPRGNLDIDAMNKAAKYVVGDHDFRNICKMDVANGIINFKRTVIDAKVSFVNEQ 271

Query: 182 VQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYPRKPVY 241
                + +++CE  I SQ FLWHQIRC+M +L LVGQ  E+PE+I +L+D E  P+KP Y
Sbjct: 272 SMEKSTGYDMCELEITSQAFLWHQIRCLMGILLLVGQRKEEPEVILKLLDTETCPQKPQY 331

Query: 242 PMVRGEPLNLYHTEFDNLTWHYDEIEVSHVLRDLHEDWSLLSIKATMLGEMIKDTVRESK 301
            M    PLNL+H +++N+ W  DE E+ + ++ L +DW+L +IK+TM+  M+ +      
Sbjct: 332 NMAHQVPLNLWHCDYENIKWFVDENELLYTIKILQQDWALNTIKSTMIKNMLMELKNSVN 391

Query: 302 CTMGDLDINHLIEG 315
           C   D   + L+ G
Sbjct: 392 CVNTDFQSDCLLLG 405

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|340724310|ref|XP_003400525.1| PREDICTED: tRNA pseudouridine synthase 3-like [Bombus terrestris] Back     alignment and taxonomy information
>gi|307177137|gb|EFN66370.1| tRNA pseudouridine synthase 3 [Camponotus floridanus] Back     alignment and taxonomy information
>gi|350420811|ref|XP_003492633.1| PREDICTED: tRNA pseudouridine synthase 3-like [Bombus impatiens] Back     alignment and taxonomy information
>gi|332024452|gb|EGI64650.1| tRNA pseudouridine synthase 3 [Acromyrmex echinatior] Back     alignment and taxonomy information
>gi|307212020|gb|EFN87913.1| tRNA pseudouridine synthase 3 [Harpegnathos saltator] Back     alignment and taxonomy information
>gi|156537085|ref|XP_001602396.1| PREDICTED: tRNA pseudouridine synthase 3-like [Nasonia vitripennis] Back     alignment and taxonomy information
>gi|193666867|ref|XP_001946781.1| PREDICTED: tRNA pseudouridine synthase 3-like isoform 1 [Acyrthosiphon pisum] gi|328702018|ref|XP_003241780.1| PREDICTED: tRNA pseudouridine synthase 3-like isoform 2 [Acyrthosiphon pisum] Back     alignment and taxonomy information
>gi|383863340|ref|XP_003707139.1| PREDICTED: tRNA pseudouridine(38/39) synthase-like [Megachile rotundata] Back     alignment and taxonomy information
>gi|380027544|ref|XP_003697482.1| PREDICTED: tRNA pseudouridine(38/39) synthase-like [Apis florea] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query335
UNIPROTKB|F1P3X5379 PUS3 "tRNA pseudouridine synth 0.871 0.770 0.469 7e-70
UNIPROTKB|F1N5P3481 PUS3 "tRNA pseudouridine synth 0.940 0.654 0.444 4.4e-68
UNIPROTKB|Q3SX07481 PUS3 "tRNA pseudouridine(38/39 0.940 0.654 0.444 4.4e-68
UNIPROTKB|F1S759479 LOC100739830 "tRNA pseudouridi 0.961 0.672 0.436 1.2e-67
UNIPROTKB|E2RGS6480 PUS3 "tRNA pseudouridine synth 0.868 0.606 0.465 1.5e-67
MGI|MGI:1914299481 Pus3 "pseudouridine synthase 3 0.901 0.627 0.451 1.5e-67
UNIPROTKB|Q9BZE2481 PUS3 "tRNA pseudouridine(38/39 0.901 0.627 0.448 1.9e-67
UNIPROTKB|F1RVF1479 LOC100739830 "tRNA pseudouridi 0.961 0.672 0.434 1.1e-66
ZFIN|ZDB-GENE-030131-9433460 pus3 "pseudouridylate synthase 0.931 0.678 0.415 1.1e-66
RGD|1310757479 Pus3 "pseudouridylate synthase 0.901 0.630 0.451 1.3e-66
UNIPROTKB|F1P3X5 PUS3 "tRNA pseudouridine synthase" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
 Score = 708 (254.3 bits), Expect = 7.0e-70, P = 7.0e-70
 Identities = 144/307 (46%), Positives = 200/307 (65%)

Query:     2 RPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVS 61
             R +AL+I Y G+ Y GF  Q ++ NTI   L +AL+KT L++D++ S++  CGRTD GVS
Sbjct:    59 RHVALRIAYLGWGYQGFASQENTSNTIEEKLFEALKKTRLVDDRQTSNYHRCGRTDKGVS 118

Query:    62 AFCQVVTLKIRSKLT-----------SPGEES-DDNELPYLKMLNNNLPRDIKVVAWSPV 109
             AF QV++L +RS L+           S G+ S  + EL Y  +LN  LP DI+V+AW+PV
Sbjct:   119 AFGQVISLDLRSNLSEEKKLNGCTGDSEGKSSKSEEELRYTHILNRVLPPDIRVLAWAPV 178

Query:   110 PEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRL 169
                +SARF CL R Y+Y+FP A LD+  MH AAQ  VGTHDFRNLCKM+V NGV+NF+R 
Sbjct:   179 EPDFSARFSCLKRTYRYFFPCADLDVALMHTAAQRYVGTHDFRNLCKMDVANGVINFQRT 238

Query:   170 VTHAGVTSAWQNVQFN-DSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQ 228
             +  A VT A    +        +C+F +  Q FL+HQ+RC+M++LFL+GQ  E PEII +
Sbjct:   239 ILSAQVTWADGGAESGLRDPFRLCQFEVTGQAFLYHQVRCMMAILFLIGQRMEGPEIIDE 298

Query:   229 LVDIEKYPRKPVYPMVRGEPLNLYHTEFDNLTWHYD-EIEVSHVLRDLHEDWSLLSIKAT 287
             L+D+EK PRKP Y M    PL LY  EF+N+ WHYD E++  +V   L + W+  ++K  
Sbjct:   299 LLDVEKNPRKPQYSMAVEFPLVLYDCEFENIQWHYDREVQEFNVTH-LQQLWASYAVKTQ 357

Query:   288 MLGEMIK 294
             +L  M++
Sbjct:   358 VLHSMLR 364
GO:0003723 "RNA binding" evidence=IEA
GO:0009982 "pseudouridine synthase activity" evidence=IEA
GO:0031119 "tRNA pseudouridine synthesis" evidence=IEA
UNIPROTKB|F1N5P3 PUS3 "tRNA pseudouridine synthase" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|Q3SX07 PUS3 "tRNA pseudouridine(38/39) synthase" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F1S759 LOC100739830 "tRNA pseudouridine synthase" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|E2RGS6 PUS3 "tRNA pseudouridine synthase" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
MGI|MGI:1914299 Pus3 "pseudouridine synthase 3" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|Q9BZE2 PUS3 "tRNA pseudouridine(38/39) synthase" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F1RVF1 LOC100739830 "tRNA pseudouridine synthase" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-030131-9433 pus3 "pseudouridylate synthase 3" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
RGD|1310757 Pus3 "pseudouridylate synthase 3" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q12VJ7TRUA_METBU5, ., 4, ., 9, 9, ., 1, 20.30600.61790.7527yesN/A
B8GFU5TRUA_METPE5, ., 4, ., 9, 9, ., 1, 20.30960.63280.7571yesN/A
A5ULI2TRUA_METS35, ., 4, ., 9, 9, ., 1, 20.28230.81790.9448yesN/A
O26928TRUA_METTH5, ., 4, ., 9, 9, ., 1, 20.30630.61190.7454yesN/A
A4J151TRUA_DESRM5, ., 4, ., 9, 9, ., 1, 20.30240.61790.8380yesN/A
Q8PWT1TRUA_METMA5, ., 4, ., 9, 9, ., 1, 20.30170.61790.7695yesN/A
B8I814TRUA_CLOCE5, ., 4, ., 9, 9, ., 1, 20.30920.60890.8326yesN/A
A0B7V0TRUA_METTP5, ., 4, ., 9, 9, ., 1, 20.30580.77310.9700yesN/A
Q890R5TRUA2_CLOTE5, ., 4, ., 9, 9, ., 1, 20.30080.60890.8225yesN/A
Q9UTB3YL85_SCHPO5, ., 4, ., 9, 9, ., -0.34980.82080.6111yesN/A
Q09524TG124_CAEEL5, ., 4, ., 9, 9, ., -0.33840.90440.7537yesN/A
Q9BZE2PUS3_HUMAN5, ., 4, ., 9, 9, ., 4, 50.45330.88050.6133yesN/A
Q9JI38PUS3_MOUSE5, ., 4, ., 9, 9, ., 4, 50.45630.86260.6008yesN/A

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
4th Layer5.4.99.120.737
3rd Layer5.4.990.691

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query335
cd02569256 cd02569, PseudoU_synth_ScPus3, Pseudouridine synth 1e-124
COG0101266 COG0101, TruA, Pseudouridylate synthase [Translati 6e-64
TIGR00071227 TIGR00071, hisT_truA, tRNA pseudouridine(38-40) sy 5e-55
PRK00021244 PRK00021, truA, tRNA pseudouridine synthase A; Val 1e-54
cd00497215 cd00497, PseudoU_synth_TruA_like, Pseudouridine sy 1e-51
cd02570239 cd02570, PseudoU_synth_EcTruA, Eukaryotic and bact 2e-44
PRK14589265 PRK14589, PRK14589, tRNA pseudouridine synthase AC 8e-43
cd02866219 cd02866, PseudoU_synth_TruA_Archea, Archeal pseudo 1e-37
cd02568245 cd02568, PseudoU_synth_PUS1_PUS2, Pseudouridine sy 1e-29
PRK12434245 PRK12434, PRK12434, tRNA pseudouridine synthase A; 6e-25
PRK14586245 PRK14586, PRK14586, tRNA pseudouridine synthase AC 3e-23
pfam01416103 pfam01416, PseudoU_synth_1, tRNA pseudouridine syn 3e-18
PRK14588272 PRK14588, PRK14588, tRNA pseudouridine synthase AC 2e-15
PRK14587256 PRK14587, PRK14587, tRNA pseudouridine synthase AC 3e-12
PLN03078 513 PLN03078, PLN03078, Putative tRNA pseudouridine sy 1e-11
pfam01416103 pfam01416, PseudoU_synth_1, tRNA pseudouridine syn 0.001
>gnl|CDD|211336 cd02569, PseudoU_synth_ScPus3, Pseudouridine synthase, Saccharomyces cerevisiae Pus3 like Back     alignment and domain information 
 Score =  357 bits (919), Expect = e-124
 Identities = 125/260 (48%), Positives = 168/260 (64%), Gaps = 13/260 (5%)

Query: 6   LKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQ 65
           L+  Y G+NY+GF +Q  + NT+   L +AL+KT LIED++ S+++ CGRTD GVSAF Q
Sbjct: 1   LRFAYLGWNYNGFAVQEETTNTVEETLFEALEKTRLIEDRQTSNYSRCGRTDKGVSAFGQ 60

Query: 66  VVTLKIRSKLTSPGEES---------DDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSAR 116
           V++L +RS L                D+ ELPY K+LN  LP DI+++AW+PVP  +SAR
Sbjct: 61  VISLDVRSNLKPEDGLDPSTDVKSTADEEELPYCKILNRVLPPDIRILAWAPVPPDFSAR 120

Query: 117 FDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVT 176
           F C+ R Y+Y+FP+  LDI+ M KAA+ L+G HDFRN CKM+V N V N+ R V  A V 
Sbjct: 121 FSCVSRTYRYFFPKGDLDIELMRKAAKLLLGEHDFRNFCKMDVANQVTNYVRRVLSAEV- 179

Query: 177 SAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYP 236
              + V  +     +  F +R   FLWHQ+RC+M+VLFL+GQG E P +I QL+D+EK P
Sbjct: 180 ---EPVDQHPDGDGLYYFEVRGSAFLWHQVRCMMAVLFLIGQGLEPPSVISQLLDVEKNP 236

Query: 237 RKPVYPMVRGEPLNLYHTEF 256
           RKP Y M    PL LY   F
Sbjct: 237 RKPQYTMASEVPLVLYDCGF 256

This group consists of eukaryotic pseudouridine synthases similar to S. cerevisiae Pus3p, mouse Pus3p and, human PUS2. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. S. cerevisiae Pus3p makes psi38 and psi39 in tRNAs. Mouse Pus3p has been shown to makes psi38 and, possibly also psi 39, in tRNAs. Psi38 and psi39 are highly conserved in tRNAs from eubacteria, archea and eukarya. Length = 256
>gnl|CDD|223179 COG0101, TruA, Pseudouridylate synthase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|232810 TIGR00071, hisT_truA, tRNA pseudouridine(38-40) synthase Back     alignment and domain information
>gnl|CDD|234577 PRK00021, truA, tRNA pseudouridine synthase A; Validated Back     alignment and domain information
>gnl|CDD|211322 cd00497, PseudoU_synth_TruA_like, Pseudouridine synthase, TruA family Back     alignment and domain information
>gnl|CDD|211337 cd02570, PseudoU_synth_EcTruA, Eukaryotic and bacterial pseudouridine synthases similar to E Back     alignment and domain information
>gnl|CDD|237759 PRK14589, PRK14589, tRNA pseudouridine synthase ACD; Provisional Back     alignment and domain information
>gnl|CDD|211343 cd02866, PseudoU_synth_TruA_Archea, Archeal pseudouridine synthases Back     alignment and domain information
>gnl|CDD|211335 cd02568, PseudoU_synth_PUS1_PUS2, Pseudouridine synthase, PUS1/ PUS2 like Back     alignment and domain information
>gnl|CDD|171495 PRK12434, PRK12434, tRNA pseudouridine synthase A; Reviewed Back     alignment and domain information
>gnl|CDD|173050 PRK14586, PRK14586, tRNA pseudouridine synthase ACD; Provisional Back     alignment and domain information
>gnl|CDD|216487 pfam01416, PseudoU_synth_1, tRNA pseudouridine synthase Back     alignment and domain information
>gnl|CDD|173052 PRK14588, PRK14588, tRNA pseudouridine synthase ACD; Provisional Back     alignment and domain information
>gnl|CDD|173051 PRK14587, PRK14587, tRNA pseudouridine synthase ACD; Provisional Back     alignment and domain information
>gnl|CDD|215562 PLN03078, PLN03078, Putative tRNA pseudouridine synthase; Provisional Back     alignment and domain information
>gnl|CDD|216487 pfam01416, PseudoU_synth_1, tRNA pseudouridine synthase Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 335
KOG2554|consensus425 100.0
PRK14589265 tRNA pseudouridine synthase ACD; Provisional 100.0
cd02569256 PseudoU_synth_ScPus3 PseudoU_synth_ScPus3-like: Ps 100.0
COG0101266 TruA Pseudouridylate synthase [Translation, riboso 100.0
PRK12434245 tRNA pseudouridine synthase A; Reviewed 100.0
PRK00021244 truA tRNA pseudouridine synthase A; Validated 100.0
PRK14588272 tRNA pseudouridine synthase ACD; Provisional 100.0
PRK14587256 tRNA pseudouridine synthase ACD; Provisional 100.0
PRK14586245 tRNA pseudouridine synthase ACD; Provisional 100.0
TIGR00071227 hisT_truA pseudouridylate synthase I. universal so 100.0
cd00497224 PseudoU_synth_TruA_like PseudoU_synth_TruA: Pseudo 100.0
cd02866221 PseudoU_synth_TruA_Archea PseudoU_synth_archea: Ps 100.0
cd02570239 PseudoU_synth_EcTruA PseudoU_synth_EcTruA: Pseudou 100.0
cd02568245 PseudoU_synth_PUS1_PUS2 PseudoU_synth_PUS1_PUS2: P 100.0
PLN03078513 Putative tRNA pseudouridine synthase; Provisional 100.0
KOG2553|consensus416 100.0
KOG4393|consensus295 100.0
PF01416105 PseudoU_synth_1: tRNA pseudouridine synthase; Inte 99.89
PF01416105 PseudoU_synth_1: tRNA pseudouridine synthase; Inte 98.32
PF10105187 DUF2344: Uncharacterized protein conserved in bact 96.69
TIGR01213388 conserved hypothetical protein TIGR01213. Members 93.71
PRK14554422 putative pseudouridylate synthase; Provisional 91.29
cd0129187 PseudoU_synth PseudoU_synth: Pseudouridine synthas 91.12
COG1258398 Predicted pseudouridylate synthase [Translation, r 83.41
>KOG2554|consensus Back     alignment and domain information 
Probab=100.00  E-value=3.6e-88  Score=640.21  Aligned_cols=310  Identities=44%  Similarity=0.796  Sum_probs=275.4

Q ss_pred             ccEEEEEEEeCCCcccceecCCCC-CcHHHHHHHHHHHcccccCCCceeeeeeccCcccccccccEEEEEEccCCCCCC-
Q psy13081          2 RPIALKILYQGFNYHGFQIQTSSD-NTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPG-   79 (335)
Q Consensus         2 r~~al~iaY~G~~y~G~q~Q~~~~-~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~-   79 (335)
                      |+|||+|+|+||+|.|++.|+++. +|||+.|++||.++.||+++++++|+|||||||||||+|||+|++++|.+|.++ 
T Consensus        66 R~IAlkiaY~GW~Y~Gla~Qe~T~~~TIEg~l~eAL~kt~Lies~~~~~ysRCGRTDKGVSAfgQviSl~lRS~~p~~~s  145 (425)
T KOG2554|consen   66 RHIALKIAYLGWNYQGLAPQEHTNNPTIEGKLFEALKKTRLIESRQTCNYSRCGRTDKGVSAFGQVISLVLRSRIPMPDS  145 (425)
T ss_pred             eEEEEEEEEeccccCceecCCCCCCcchHHHHHHHHHhhhcccCcccccccccCCcccchhhhhheeeeeeeccCCCchh
Confidence            789999999999999999997765 499999999999999999999999999999999999999999999999998752 


Q ss_pred             C-----CCCCCchhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCCCCCcHHHHHHHHHhcccccccccc
Q psy13081         80 E-----ESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFRNL  154 (335)
Q Consensus        80 ~-----~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~~~lDie~m~~A~~~~~G~HDF~nF  154 (335)
                      +     +.+.+|++|+.+||++||+||||.||+|||+.|+|||+|..|||+|+|+..+|||++|++||++|+|+|||+||
T Consensus       146 ~~~~~~~a~~~Ei~Y~~mLN~vLP~dIRi~awapvp~~FsARFsC~~RtYrY~F~k~dLdI~~M~kAA~l~vGe~DFrNF  225 (425)
T KOG2554|consen  146 QRDAVATADSEEIPYVHMLNRVLPPDIRIVAWAPVPPTFSARFSCVQRTYRYYFPKKDLDIDRMSKAASLLVGEHDFRNF  225 (425)
T ss_pred             hhccccccccccccHHHHHhccCCCcceEEEEecCCCCccceeehhhceeeEeccCCCcCHHHHHHHHHHHhcchhhhhh
Confidence            1     23447899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccCCcccceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCHHHHHHHHhcCC
Q psy13081        155 CKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEK  234 (335)
Q Consensus       155 ~k~~~~~~~~~~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~~~i~~lL~~~~  234 (335)
                      ||.|..++.+||.|+|.+++|..+...       .++|+|+|.|++||||||||||++|++||+|.+.|+.|.+|||+++
T Consensus       226 CK~D~~n~vtny~Rti~s~kV~~~~~~-------~~my~ldi~g~AFLwHqVRcimaiL~liGq~~E~p~lI~dLldIek  298 (425)
T KOG2554|consen  226 CKIDVSNGVTNYERTILSAKVEDVGQT-------PGMYYLDIQGSAFLWHQVRCIMAILFLIGQGLEQPSLISDLLDIEK  298 (425)
T ss_pred             hhhcchhhhHHHHhhhheeeEEEcCCC-------CceEEEEeechhhHHHHHHHHHHHHHHhccccCCchHHHHHHhccc
Confidence            999999999999999999999987432       2599999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCCCcCCCCceeeeccc--CCcccccChHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHhhhhcccCCccc
Q psy13081        235 YPRKPVYPMVRGEPLNLYHTEF--DNLTWHYDEIEVSHVLRDLHEDW----SLLSIKATMLGEMIKDTVRESKCTMGDLD  308 (335)
Q Consensus       235 ~~~~p~~~~Ap~~gL~L~~v~Y--~~~~~~~d~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  308 (335)
                      +|.+|+|.||...||+|++|.|  ++++|.++.++...+.+.++..|    ..++.+++| ..|...+.........+.+
T Consensus       299 ~P~kPqY~mA~~~PL~LydC~f~~e~~ew~~~~~sd~~a~~~l~~t~~~L~~~~q~~~~~-~~i~~~~~~~~e~~n~~~~  377 (425)
T KOG2554|consen  299 NPQKPQYTMASDYPLELYDCDFHRENVEWRHDTESDQIAPKILKITWENLVEHLQNGSAM-ENIHEEVLGMAEFSNFKPS  377 (425)
T ss_pred             CCCCceeeeccCCceEEEecCCCCccccccccccccccchhHHHHHHHHHHHHHHhHHHH-HhhHHhhhhhcccccCCcc
Confidence            9999999999999999999999  99999999999888888888887    444445554 5555555555555555544


Q ss_pred             cceeeeeccCC
Q psy13081        309 INHLIEGEFSR  319 (335)
Q Consensus       309 ~~~~~~~~~~~  319 (335)
                      .-.+.+|..-.
T Consensus       378 ~~~~~~~~~~~  388 (425)
T KOG2554|consen  378 VINQGEGLQDI  388 (425)
T ss_pred             hhhhhhhhhhc
Confidence            43344444443

>PRK14589 tRNA pseudouridine synthase ACD; Provisional Back     alignment and domain information
>cd02569 PseudoU_synth_ScPus3 PseudoU_synth_ScPus3-like: Pseudouridine synthase, Saccharomyces cerevisiae Pus3 like Back     alignment and domain information
>COG0101 TruA Pseudouridylate synthase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK12434 tRNA pseudouridine synthase A; Reviewed Back     alignment and domain information
>PRK00021 truA tRNA pseudouridine synthase A; Validated Back     alignment and domain information
>PRK14588 tRNA pseudouridine synthase ACD; Provisional Back     alignment and domain information
>PRK14587 tRNA pseudouridine synthase ACD; Provisional Back     alignment and domain information
>PRK14586 tRNA pseudouridine synthase ACD; Provisional Back     alignment and domain information
>TIGR00071 hisT_truA pseudouridylate synthase I Back     alignment and domain information
>cd00497 PseudoU_synth_TruA_like PseudoU_synth_TruA: Pseudouridine synthase, TruA family Back     alignment and domain information
>cd02866 PseudoU_synth_TruA_Archea PseudoU_synth_archea: Pseudouridine synthase, Back     alignment and domain information
>cd02570 PseudoU_synth_EcTruA PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like Back     alignment and domain information
>cd02568 PseudoU_synth_PUS1_PUS2 PseudoU_synth_PUS1_PUS2: Pseudouridine synthase, PUS1/ PUS2 like Back     alignment and domain information
>PLN03078 Putative tRNA pseudouridine synthase; Provisional Back     alignment and domain information
>KOG2553|consensus Back     alignment and domain information
>KOG4393|consensus Back     alignment and domain information
>PF01416 PseudoU_synth_1: tRNA pseudouridine synthase; InterPro: IPR020097 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones Back     alignment and domain information
>PF01416 PseudoU_synth_1: tRNA pseudouridine synthase; InterPro: IPR020097 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones Back     alignment and domain information
>PF10105 DUF2344: Uncharacterized protein conserved in bacteria (DUF2344); InterPro: IPR018768 This domain, found in various hypothetical bacterial proteins and Radical Sam domain proteins, has no known function Back     alignment and domain information
>TIGR01213 conserved hypothetical protein TIGR01213 Back     alignment and domain information
>PRK14554 putative pseudouridylate synthase; Provisional Back     alignment and domain information
>cd01291 PseudoU_synth PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi) Back     alignment and domain information
>COG1258 Predicted pseudouridylate synthase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query335
2nqp_A270 Crystal Structure Of Pseudoudirinde Synthase Trua I 2e-14
1dj0_A264 The Crystal Structure Of E. Coli Pseudouridine Synt 2e-14
1vs3_A249 Crystal Structure Of The Trna Pseudouridine Synthas 8e-13
>pdb|2NQP|A Chain A, Crystal Structure Of Pseudoudirinde Synthase Trua In Complex With Leucyl Trna Length = 270 Back     alignment and structure 
Iteration: 1

 Score = 76.3 bits (186), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 70/245 (28%), Positives = 104/245 (42%), Gaps = 46/245 (18%)
Query: 4   IALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAF 63
           IAL I Y G  Y+G+Q Q     ++   L KAL +       E  +  C GRTD+GV   
Sbjct: 12  IALGIEYDGSKYYGWQRQNEV-RSVQEKLEKALSQVA----NEPITVFCAGRTDAGVHGT 66
Query: 64  CQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRN 123
            QVV  +  +            +  +   +N NLP DI V     VP+ + ARF    R 
Sbjct: 67  GQVVHFETTAL---------RKDAAWTLGVNANLPGDIAVRWVKTVPDDFHARFSATARR 117
Query: 124 YKYWF------PQA----------GLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGVVNFR 167
           Y+Y        P             LD + MH+AAQ L+G +DF             +FR
Sbjct: 118 YRYIIYNHRLRPAVLSKGVTHFYEPLDAERMHRAAQCLLGENDF------------TSFR 165
Query: 168 RLVTHAGVTSAWQNV-QFNDSHHN-ICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEI 225
            +   +   + W+NV   N + H      +I++  F+ H +R I+  L  VG  N+    
Sbjct: 166 AVQCQS--RTPWRNVMHINVTRHGPYVVVDIKANAFVHHMVRNIVGSLMEVGAHNQPESW 223
Query: 226 IQQLV 230
           I +L+
Sbjct: 224 IAELL 228
>pdb|1DJ0|A Chain A, The Crystal Structure Of E. Coli Pseudouridine Synthase I At 1.5 Angstrom Resolution Length = 264 Back     alignment and structure
>pdb|1VS3|A Chain A, Crystal Structure Of The Trna Pseudouridine Synthase Trua From Thermus Thermophilus Hb8 Length = 249 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query335
1vs3_A249 TRNA pseudouridine synthase A; TRUA, tRNA modifica 7e-47
1dj0_A264 Pseudouridine synthase I; alpha/beta fold, RNA-bin 3e-45
>1vs3_A TRNA pseudouridine synthase A; TRUA, tRNA modification, structural NPPSFA, national project on protein structural and function analyses; 2.25A {Thermus thermophilus} Length = 249 Back     alignment and structure
 Score =  158 bits (401), Expect = 7e-47
 Identities = 62/246 (25%), Positives = 89/246 (36%), Gaps = 42/246 (17%)

Query: 1   MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGV 60
           MR + L   Y G  + G Q Q     T+   L +AL                 GRTD+GV
Sbjct: 1   MRRLLLLCEYDGTLFAGLQRQGRGLRTVQGELERALPGIG-----ALPKAVAAGRTDAGV 55

Query: 61  SAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCL 120
            A      + + S +  P E+         + LN  LP D+KVV    V   + AR D L
Sbjct: 56  HALAMPFHVDVESAI--PVEK-------VPEALNRLLPEDLKVVGAREVAPDFHARKDAL 106

Query: 121 FRNYKY-----------------WFPQAGLDIDAMHKAAQYLVGTHDFRNLCKMNVGNGV 163
           +R Y+Y                 W  +  LD++AM +A   L+G H+F    K       
Sbjct: 107 WRAYRYRILVRPHPSPLLRHRALWVRRP-LDLEAMEEALSLLLGRHNFLGFAK--EETRP 163

Query: 164 VNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKP 223
                L     V                     R + FL  Q+R ++  L  VG G   P
Sbjct: 164 GERELLEARLQVAEGEAG--------LEVRLYFRGKSFLRGQVRGMVGTLLEVGLGKRPP 215

Query: 224 EIIQQL 229
           E ++ +
Sbjct: 216 ESLKAI 221
>1dj0_A Pseudouridine synthase I; alpha/beta fold, RNA-binding motif, RNA-modifying enzyme, lyase; 1.50A {Escherichia coli} SCOP: d.265.1.1 PDB: 2nqp_A 2nr0_A 2nre_A Length = 264 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query335
1vs3_A249 TRNA pseudouridine synthase A; TRUA, tRNA modifica 100.0
1dj0_A264 Pseudouridine synthase I; alpha/beta fold, RNA-bin 100.0
2v9k_A530 Uncharacterized protein FLJ32312; pseudouridine sy 90.93
>1vs3_A TRNA pseudouridine synthase A; TRUA, tRNA modification, structural NPPSFA, national project on protein structural and function analyses; 2.25A {Thermus thermophilus} Back     alignment and structure
Probab=100.00  E-value=2.2e-76  Score=551.38  Aligned_cols=231  Identities=27%  Similarity=0.378  Sum_probs=209.1

Q ss_pred             CccEEEEEEEeCCCcccceecCCCCCcHHHHHHHHHHHcccccCCCceeeeeeccCcccccccccEEEEEEccCCCCCCC
Q psy13081          1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGE   80 (335)
Q Consensus         1 Mr~~al~iaY~G~~y~G~q~Q~~~~~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~~   80 (335)
                      |+||+|.|+||||+|+|||+||+..+|||++|++||.+++     +++++.+||||||||||+|||++|++++.+++   
T Consensus         1 M~r~~l~i~YdGt~y~GwQ~Q~~~~~TVq~~Le~AL~~~~-----~~v~~~~agRTDaGVHA~gqv~~f~~~~~~~~---   72 (249)
T 1vs3_A            1 MRRLLLLCEYDGTLFAGLQRQGRGLRTVQGELERALPGIG-----ALPKAVAAGRTDAGVHALAMPFHVDVESAIPV---   72 (249)
T ss_dssp             CEEEEEEEEECGGGCSBSSCCCTTCCCHHHHHHHHGGGGT-----BCSCCEESSCCBTTCEEEEEEEEEEECSCCCG---
T ss_pred             CcEEEEEEEEECCCceeEeECCCCCCCHHHHHHHHHHHcC-----CcceEEEeccCcCCcCccccEEEEEECCCCCH---
Confidence            8999999999999999999999833899999999999983     57899999999999999999999999876542   


Q ss_pred             CCCCCchhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCC----------------CCCcHHHHHHHHHh
Q psy13081         81 ESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQ----------------AGLDIDAMHKAAQY  144 (335)
Q Consensus        81 ~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~----------------~~lDie~m~~A~~~  144 (335)
                            ..++..||+.||+||+|+++.+||++|||||+|++|+|+|+|+.                .+||+++|++||+.
T Consensus        73 ------~~~~~~lN~~LP~dI~V~~~~~v~~~FhARf~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~ldi~~m~~aa~~  146 (249)
T 1vs3_A           73 ------EKVPEALNRLLPEDLKVVGAREVAPDFHARKDALWRAYRYRILVRPHPSPLLRHRALWVRRPLDLEAMEEALSL  146 (249)
T ss_dssp             ------GGHHHHHHHHSCTTEEEEEEEEECTTCCTTTTCSEEEEEEEEEECSSCCTTTTTTSEEECSCCCHHHHHHHHHH
T ss_pred             ------HHHHHHHHhcCCcCEEEEEEEECCCCCCcccccccEEEEEEEccCCCCChhhCCeeEEeCCCCCHHHHHHHHHH
Confidence                  36899999999999999999999999999999999999999862                46999999999999


Q ss_pred             ccccccccccccccccCCcccceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCHH
Q psy13081        145 LVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPE  224 (335)
Q Consensus       145 ~~G~HDF~nF~k~~~~~~~~~~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~~  224 (335)
                      |+|+|||+|||+.+.    ++++|+|++++|.+...      ..++++.|+|+|+||||||||+|||+|++||+|+++++
T Consensus       147 l~G~HDF~~F~~~~~----~~~vR~I~~~~v~~~~~------~~~~~i~~~i~g~~FL~~mVR~mvG~l~~vg~g~~~~~  216 (249)
T 1vs3_A          147 LLGRHNFLGFAKEET----RPGERELLEARLQVAEG------EAGLEVRLYFRGKSFLRGQVRGMVGTLLEVGLGKRPPE  216 (249)
T ss_dssp             HSEEEEGGGGCSSCC----SCCEEEEEEEEEEEEEC------SSSEEEEEEEEESCCCTTHHHHHHHHHHHHHHSSSCGG
T ss_pred             hcCceeHHheecCCC----CCCCcEEEEEEEEeccc------cCCCEEEEEEEEChHHHHHHHHHHHHHHHHHCCCCCHH
Confidence            999999999998653    58999999999985311      12378999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCCCCCCCCCCcCCCCceeeecccC
Q psy13081        225 IIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEFD  257 (335)
Q Consensus       225 ~i~~lL~~~~~~~~p~~~~Ap~~gL~L~~v~Y~  257 (335)
                      +|+++|+.+++  ....++|||+||+|++|.|+
T Consensus       217 ~i~~~L~~~~r--~~~~~~APa~GL~L~~v~Y~  247 (249)
T 1vs3_A          217 SLKAILKTADR--RLAGPTAPAHGLYFVEAAYP  247 (249)
T ss_dssp             GHHHHHHHCCG--GGSCCCCCGGGEEEEEEECC
T ss_pred             HHHHHHhCCCc--ccCcCccCCCCcEEeeeeCC
Confidence            99999998753  34578999999999999996
>1dj0_A Pseudouridine synthase I; alpha/beta fold, RNA-binding motif, RNA-modifying enzyme, lyase; 1.50A {Escherichia coli} SCOP: d.265.1.1 PDB: 2nqp_A 2nr0_A 2nre_A Back     alignment and structure
>2v9k_A Uncharacterized protein FLJ32312; pseudouridine synthase, PUS10, RNA modification, thump domai; HET: EPE; 2.0A {Homo sapiens} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 335
d1dj0a_264 d.265.1.1 (A:) Pseudouridine synthase I TruA {Esch 1e-26
>d1dj0a_ d.265.1.1 (A:) Pseudouridine synthase I TruA {Escherichia coli [TaxId: 562]} Length = 264 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Pseudouridine synthase
superfamily: Pseudouridine synthase
family: Pseudouridine synthase I TruA
domain: Pseudouridine synthase I TruA
species: Escherichia coli [TaxId: 562]

 Score =  103 bits (258), Expect = 1e-26
 Identities = 58/262 (22%), Positives = 93/262 (35%), Gaps = 20/262 (7%)

Query: 1   MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGV 60
           +  IAL I Y G  Y+G+Q Q +   ++   L KAL +       E  +  C GRTD+GV
Sbjct: 3   VYKIALGIEYDGSKYYGWQRQ-NEVRSVQEKLEKALSQVA----NEPITVFCAGRTDAGV 57

Query: 61  SAFCQVVTLKIRSKLTSPGEESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCL 120
               QVV  +  +           N      +                VP+ + ARF   
Sbjct: 58  HGTGQVVHFETTALRKDAAWTLGVNANLPGDIAVRW---------VKTVPDDFHARFSAT 108

Query: 121 FRNYKYWFPQAGLDIDAMHKAAQYLVGTHDFR---NLCKMNVGNGVVNFRRLVTHAGVTS 177
            R Y+Y      L    + K   +     D        +  +G       R V     T 
Sbjct: 109 ARRYRYIIYNHRLRPAVLSKGVTHFYEPLDAERMHRAAQCLLGENDFTSFRAVQCQSRTP 168

Query: 178 AWQNVQFNDSHHNIC-EFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPEIIQQLVDIEKYP 236
               +  N + H      +I++  F+ H +R I+  L  VG  N+    I +L+  +   
Sbjct: 169 WRNVMHINVTRHGPYVVVDIKANAFVHHMVRNIVGSLMEVGAHNQPESWIAELLAAKD-- 226

Query: 237 RKPVYPMVRGEPLNLYHTEFDN 258
           R       + E L L   ++ +
Sbjct: 227 RTLAAATAKAEGLYLVAVDYPD 248

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query335
d1dj0a_264 Pseudouridine synthase I TruA {Escherichia coli [T 100.0
>d1dj0a_ d.265.1.1 (A:) Pseudouridine synthase I TruA {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Pseudouridine synthase
superfamily: Pseudouridine synthase
family: Pseudouridine synthase I TruA
domain: Pseudouridine synthase I TruA
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=4.6e-71  Score=516.75  Aligned_cols=229  Identities=31%  Similarity=0.449  Sum_probs=207.7

Q ss_pred             CccEEEEEEEeCCCcccceecCCCCCcHHHHHHHHHHHcccccCCCceeeeeeccCcccccccccEEEEEEccCCCCCCC
Q psy13081          1 MRPIALKILYQGFNYHGFQIQTSSDNTIAHHLLKALQKTCLIEDKEKSSFACCGRTDSGVSAFCQVVTLKIRSKLTSPGE   80 (335)
Q Consensus         1 Mr~~al~iaY~G~~y~G~q~Q~~~~~TVE~~L~~AL~k~~~i~~~~~~~~~~agRTDkGVsA~~qVvs~~~~s~~~~~~~   80 (335)
                      |+||||+|+|+||+|+|||.|++ .+|||++|++||.+++    .+++.+.+||||||||||++|||+|+++...+    
T Consensus         3 ~~r~al~i~Y~Gt~f~G~Q~Q~~-~~TVq~~Le~aL~~~~----~~~~~~~~agRTD~GVhA~~qv~~~~~~~~~~----   73 (264)
T d1dj0a_           3 VYKIALGIEYDGSKYYGWQRQNE-VRSVQEKLEKALSQVA----NEPITVFCAGRTDAGVHGTGQVVHFETTALRK----   73 (264)
T ss_dssp             CEEEEEEEEECCTTSSCSCCTTC-SSCHHHHHHHHHHHHH----TSCCCEEESSCCCTTCEEEEEEEEEEESCCCC----
T ss_pred             cEEEEEEEEEECCCeeeEeECcC-CCCHHHHHHHHHHHhh----CCCeEEEEeecccCCcceeeEEEEEeeccchh----
Confidence            88999999999999999999998 5999999999999986    46789999999999999999999999976442    


Q ss_pred             CCCCCchhHHHHHhcCCCCCEEEEEEEecCCCCCccccCCceEEEEEcCC----------------CCCcHHHHHHHHHh
Q psy13081         81 ESDDNELPYLKMLNNNLPRDIKVVAWSPVPEKYSARFDCLFRNYKYWFPQ----------------AGLDIDAMHKAAQY  144 (335)
Q Consensus        81 ~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~AR~~~~~R~Y~Y~~~~----------------~~lDie~m~~A~~~  144 (335)
                           ...+...||+.||+||+|+++.+||++|||||+|++|+|+|++..                ..+|+++|++|++.
T Consensus        74 -----~~~~~~~lN~~Lp~dI~i~~~~~v~~~F~aR~~a~~r~Y~Y~i~~~~~~~~~~~~~~~~~~~~ld~~~m~~a~~~  148 (264)
T d1dj0a_          74 -----DAAWTLGVNANLPGDIAVRWVKTVPDDFHARFSATARRYRYIIYNHRLRPAVLSKGVTHFYEPLDAERMHRAAQC  148 (264)
T ss_dssp             -----HHHHHHHHHHTSCTTEEEEEEEECCTTCCTTTTCCEEEEEEEEECSSSCCCTTTTSSEECCSCCCHHHHHHHHGG
T ss_pred             -----hhhhhcccccccccccccccceeccccccchhhhhhcccceeeccccccccccccccccccCCcchHHHHHHHhh
Confidence                 357889999999999999999999999999999999999999852                45899999999999


Q ss_pred             ccccccccccccccccCCcccceEEEEEEEEEEcccccccCCCCCcEEEEEEEeCccchhhHHHHHHHHHHHhcCCCCHH
Q psy13081        145 LVGTHDFRNLCKMNVGNGVVNFRRLVTHAGVTSAWQNVQFNDSHHNICEFNIRSQGFLWHQIRCIMSVLFLVGQGNEKPE  224 (335)
Q Consensus       145 ~~G~HDF~nF~k~~~~~~~~~~vR~I~~~~i~~~~~~~~~~~~~~~~~~i~I~G~sFL~~qVR~mVg~L~~vg~G~~~~~  224 (335)
                      |+|+|||+|||+.+..  ..+++|+|.++++...          .++++|+|+|+||||||||+|||+|++||+|+++++
T Consensus       149 ~~G~hdF~~F~~~~~~--~~~~~r~i~~~~~~~~----------~~~i~i~i~g~sFL~~qVR~mvg~ll~vg~g~~~~~  216 (264)
T d1dj0a_         149 LLGENDFTSFRAVQCQ--SRTPWRNVMHINVTRH----------GPYVVVDIKANAFVHHMVRNIVGSLMEVGAHNQPES  216 (264)
T ss_dssp             GCEEEECGGGCCTTCC--CSCCEEEEEEEEEEEE----------TTEEEEEEEESCCCTTHHHHHHHHHHHHHTTSSCTT
T ss_pred             ccCccccccccccccc--CCCcccccccccceec----------CcEEEEEechhHHHHHHHHHHHHHHHHHHcCCCCHH
Confidence            9999999999987643  3578999999998753          268999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCCCCCCCCCCcCCCCceeeecccC
Q psy13081        225 IIQQLVDIEKYPRKPVYPMVRGEPLNLYHTEFD  257 (335)
Q Consensus       225 ~i~~lL~~~~~~~~p~~~~Ap~~gL~L~~v~Y~  257 (335)
                      .|+++|+.+++  ....++|||+||+|++|.|+
T Consensus       217 ~i~~~L~~~~r--~~~~~~APa~GL~L~~V~Y~  247 (264)
T d1dj0a_         217 WIAELLAAKDR--TLAAATAKAEGLYLVAVDYP  247 (264)
T ss_dssp             HHHHHHHHCCG--GGSCCCCCSTTEEEEEEECC
T ss_pred             HHHHHHhcCCc--ccCccccCCCCCEEcccccC
Confidence            99999997643  34578999999999999995