Citrus Sinensis ID: 016811

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-------340-------350-------360-------370-------380--
MTEFAKRISECSEQASKIPEEKEEDHQNDSVEEEEEYPEEVPETRTVTEVMSTNKRIQRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPPHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKYDLPEDDQTDAAESLETCPDPVSRKRRLQ
ccccccHHHHccccccccHHHHHHccccccccccccccccccccccccccccccccccEEEEEEEEcccccccEEEccccccHHHHHHHHHHHHccccEEEEEcccccHHHcccccEEEEEcccccccccccccccccHHHHHHHHHccccccccEEEEEEEEccccccccccccccEEEEEEEccccccccccccEEEEEcccccHHHHHHHHHHcccccccccccccccccccccEEEEEEEEEEEccccccccccccccccccccccccccccccccccccccccccEEEEEEEEccHHHHHHHHHHHHHHHHccccccHHHHHHHHHccccccccccccccccEEEEccccccccccccccccccccccccHHHHccc
cccHcccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccEEEEEEEEcccccccccccccccHHHHHHHHHHHHHccccEEEEEEcccccccEEccEEEEEEcccccccccccccccccHHHHHHHHHHcccccccEEEEEEEEccccccccccccEEEEEEEEEccccccHHHHcccEEEEcccccHHHHHHHHHHHHcccccHHEHHcccccccccEEEEEEEEEEEcccccccccccccccccccccccEEcccccccccccccccccEEEEEEEEccccccHHHHHHHHHHHHHcccccccHHHHHHHHccHHHcccccccccEEEEEEEcccccccccccccccccccccccHccccc
MTEFAKRISECSEqaskipeekeedhqndsveeeeeypeevpetrtVTEVMSTNKRIQRYLIAVEYIGtrfsgsqkqlncrTVVGVLEEAFHKfigqpvsislssrtdagvhaasnvchvdveriskrkpgevlpphdssVVRRAVNHFLQsegdimvtdvrcvpsdfhARFRAQERTYFYRIlsgpeplsvfekdRAWHVTEELDLRAMQEACKVLVgchdfssfrasgcqanspirtldelhVSEVVSTALFSsinqdspvlssidnssklgmpnggsnvfgirkKHRSYEVIARARSFLYHQVRLIVGVLKavgtgeltVSDVERILKAKtvtaaspmapacglslgfvkydlpeddqtdaaesletcpdpvsrkrrlq
mtefakrisecseqaskipeekeedhqndsveeeeeypeevpetrtvtevmstnkrIQRYLIAVEYIGtrfsgsqkqlnCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASnvchvdveriskrkpgevlpphdssvVRRAVNHFLqsegdimvtdvRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFssinqdspvLSSIdnssklgmpngGSNVFGIRKKHRSYEVIARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKtvtaaspmapaCGLSLGFVKYDLPEDDQTDAaesletcpdpvsrkrrlq
MTEFAKRISECSEQASKIPEEKEEDHQNDSveeeeeypeevpetrtvtevMSTNKRIQRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPPHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKYDLPEDDQTDAAESLETCPDPVSRKRRLQ
****************************************************TNKRIQRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERI***************VVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSS************************NVFGIRKKHRSYEVIARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKYDL**************************
**********************************************************RYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPPHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKYDLPEDDQTDAAESLETCPDPV*******
************************************************EVMSTNKRIQRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPPHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKYDLPEDD**********************
******************************************************KRIQRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPPHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFS************************SNVFGIRKKHRSYEVIARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKYDLPEDDQTDAAESLETCPDP********
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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MTEFAKRISECSEQASKIPEEKEEDHQNDSVEEEEEYPEEVPETRTVTEVMSTNKRIQRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLPPHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKYDLPEDDQTDAAESLETCPDPVSRKRRLQ
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 ?
Query382 2.2.26 [Sep-21-2011]
A7IKI9245 tRNA pseudouridine syntha yes no 0.636 0.991 0.388 2e-46
Q2WAT0256 tRNA pseudouridine syntha yes no 0.641 0.957 0.379 3e-46
A8GU17245 tRNA pseudouridine syntha yes no 0.633 0.987 0.370 2e-44
B0BVL0245 tRNA pseudouridine syntha yes no 0.633 0.987 0.370 2e-44
Q92FZ9245 tRNA pseudouridine syntha yes no 0.633 0.987 0.373 4e-44
C4K2W2245 tRNA pseudouridine syntha yes no 0.633 0.987 0.373 6e-44
C3PLZ3245 tRNA pseudouridine syntha yes no 0.633 0.987 0.373 1e-43
Q6G547247 tRNA pseudouridine syntha yes no 0.638 0.987 0.363 1e-43
A9ILJ7247 tRNA pseudouridine syntha yes no 0.643 0.995 0.354 4e-43
B0T1S6249 tRNA pseudouridine syntha yes no 0.638 0.979 0.387 5e-43
>sp|A7IKI9|TRUA_XANP2 tRNA pseudouridine synthase A OS=Xanthobacter autotrophicus (strain ATCC BAA-1158 / Py2) GN=truA PE=3 SV=1 Back     alignment and function desciption
 Score =  186 bits (473), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 115/296 (38%), Positives = 152/296 (51%), Gaps = 53/296 (17%)

Query: 59  RYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVC 118
           RY + +EY GT ++G Q Q + +TV G L +AF +F G+ V ++ + RTDAGVHA   V 
Sbjct: 3   RYKLTIEYDGTPYAGWQIQADQQTVQGALAQAFKRFCGEDVHVAGAGRTDAGVHATGQVA 62

Query: 119 HVDVERISKRKPGEVLPPHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERT 178
           HVD+ R  +           S  VR A+   L+    I V     VP  F ARF A +R 
Sbjct: 63  HVDLSRHWR-----------SDTVRDAMTAQLRPH-PIAVLSAEEVPDSFDARFSATKRH 110

Query: 179 YFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGCHDFSSFRASGCQANSPIR 238
           Y YRI++   P    ++DRAW + ++LD +AM EA + L+G HDFS+FRA+ CQA SP++
Sbjct: 111 YLYRIIN-RRPDLALDRDRAWRIPQKLDAQAMHEAAQRLLGKHDFSTFRAAECQAASPLK 169

Query: 239 TLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIARA 298
           TLD+L VS                                G  +           VI  A
Sbjct: 170 TLDQLDVS------------------------------RSGDEI----------RVITSA 189

Query: 299 RSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKY 354
           RSFL+HQVR +VG L  VG G  +  D+E  LKA   T   PMAPA GL L  V Y
Sbjct: 190 RSFLHHQVRSMVGSLMRVGEGRWSADDLEAALKAADRTRCGPMAPAAGLYLAAVSY 245
Formation of pseudouridine at positions 38, 39 and 40 in the anticodon stem and loop of transfer RNAs.
Xanthobacter autotrophicus (strain ATCC BAA-1158 / Py2) (taxid: 78245)
EC: 5EC: .EC: 4EC: .EC: 9EC: 9EC: .EC: 1EC: 2
>sp|Q2WAT0|TRUA_MAGSA tRNA pseudouridine synthase A OS=Magnetospirillum magneticum (strain AMB-1 / ATCC 700264) GN=truA PE=3 SV=1 Back     alignment and function description
>sp|A8GU17|TRUA_RICRS tRNA pseudouridine synthase A OS=Rickettsia rickettsii (strain Sheila Smith) GN=truA PE=3 SV=1 Back     alignment and function description
>sp|B0BVL0|TRUA_RICRO tRNA pseudouridine synthase A OS=Rickettsia rickettsii (strain Iowa) GN=truA PE=3 SV=1 Back     alignment and function description
>sp|Q92FZ9|TRUA_RICCN tRNA pseudouridine synthase A OS=Rickettsia conorii (strain ATCC VR-613 / Malish 7) GN=truA PE=3 SV=1 Back     alignment and function description
>sp|C4K2W2|TRUA_RICPU tRNA pseudouridine synthase A OS=Rickettsia peacockii (strain Rustic) GN=truA PE=3 SV=1 Back     alignment and function description
>sp|C3PLZ3|TRUA_RICAE tRNA pseudouridine synthase A OS=Rickettsia africae (strain ESF-5) GN=truA PE=3 SV=1 Back     alignment and function description
>sp|Q6G547|TRUA_BARHE tRNA pseudouridine synthase A OS=Bartonella henselae (strain ATCC 49882 / Houston 1) GN=truA PE=3 SV=1 Back     alignment and function description
>sp|A9ILJ7|TRUA_BART1 tRNA pseudouridine synthase A OS=Bartonella tribocorum (strain CIP 105476 / IBS 506) GN=truA PE=3 SV=1 Back     alignment and function description
>sp|B0T1S6|TRUA_CAUSK tRNA pseudouridine synthase A OS=Caulobacter sp. (strain K31) 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 ?
Query382
225448126380 PREDICTED: tRNA pseudouridine synthase A 0.882 0.886 0.662 1e-135
255571004372 pseudouridylate synthase, putative [Rici 0.814 0.836 0.736 1e-132
356543399369 PREDICTED: tRNA pseudouridine synthase A 0.876 0.907 0.650 1e-128
224119986326 predicted protein [Populus trichocarpa] 0.777 0.911 0.723 1e-126
363807780370 uncharacterized protein LOC100799818 [Gl 0.808 0.835 0.693 1e-124
46931324372 At1g09800 [Arabidopsis thaliana] 0.840 0.862 0.641 1e-122
51971559368 unnamed protein product [Arabidopsis tha 0.790 0.820 0.672 1e-122
42561874372 tRNA pseudouridine synthase A [Arabidops 0.790 0.811 0.675 1e-122
449503291352 PREDICTED: tRNA pseudouridine synthase A 0.808 0.877 0.703 1e-121
140053519361 tRNA pseudouridine synthase [Medicago tr 0.795 0.842 0.687 1e-120
>gi|225448126|ref|XP_002263416.1| PREDICTED: tRNA pseudouridine synthase A [Vitis vinifera] gi|297739525|emb|CBI29707.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  488 bits (1255), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 247/373 (66%), Positives = 281/373 (75%), Gaps = 36/373 (9%)

Query: 6   KRISECSEQASKIP--EEKEEDHQNDSVEEEEEYPEEVPETRTVTEVMSTNKRIQRYLIA 63
            R SE  ++ SKI   ++  +  Q DSV                ++ M+ N R+QRYL+A
Sbjct: 23  NRRSESPQRPSKIARTDDLSDGEQQDSV---------------ASKTMTQNPRVQRYLVA 67

Query: 64  VEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVE 123
           VEYIGTRFSGSQ+QLNCRTV G L+EAFHKFIGQPVSI  SSRTDAGVHA SNVCHVDVE
Sbjct: 68  VEYIGTRFSGSQQQLNCRTVAGALQEAFHKFIGQPVSIFCSSRTDAGVHALSNVCHVDVE 127

Query: 124 RISKRKPGEVLPPHDSSVVRRAVNHFLQ-SEGDIMVTDVRCVPSDFHARFRAQERTYFYR 182
           RISKRKPGEVLPPH+ +VVRRAVNHFLQ +EGD+MV DVRCVP DFHAR++A+ERTYFYR
Sbjct: 128 RISKRKPGEVLPPHEPAVVRRAVNHFLQKNEGDVMVIDVRCVPPDFHARYKARERTYFYR 187

Query: 183 ILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGCHDFSSFRASGCQANSPIRTLDE 242
           +LSGPEPLS FEKDRAWHV E+LDL AMQ+AC+VLVGCHDFSSFRA+GCQA SPIRTLDE
Sbjct: 188 LLSGPEPLSSFEKDRAWHVPEDLDLLAMQKACRVLVGCHDFSSFRAAGCQAKSPIRTLDE 247

Query: 243 LHVSEVVSTALFSSI------------------NQDSPVLSSIDNSSKLGMPNGGSNVFG 284
           L VSEV+ T  F SI                  N + P   S  N  +L   NG    FG
Sbjct: 248 LCVSEVLPTPYFPSITERAQNNFTEENPLACSNNAEVPDSPSTANHDRLDGFNGAGQGFG 307

Query: 285 IRKKHRSYEVIARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPA 344
           +R++HR + V ARARSFLYHQVRL+VGV+K VGTG+LTVSDVERIL AKTVTAASPMAPA
Sbjct: 308 VRRRHRCFLVTARARSFLYHQVRLLVGVIKCVGTGDLTVSDVERILNAKTVTAASPMAPA 367

Query: 345 CGLSLGFVKYDLP 357
           CGL LG V YDLP
Sbjct: 368 CGLYLGNVNYDLP 380

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255571004|ref|XP_002526453.1| pseudouridylate synthase, putative [Ricinus communis] gi|223534233|gb|EEF35948.1| pseudouridylate synthase, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|356543399|ref|XP_003540148.1| PREDICTED: tRNA pseudouridine synthase A-like [Glycine max] Back     alignment and taxonomy information
>gi|224119986|ref|XP_002331109.1| predicted protein [Populus trichocarpa] gi|222872837|gb|EEF09968.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|363807780|ref|NP_001242177.1| uncharacterized protein LOC100799818 [Glycine max] gi|255637177|gb|ACU18919.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|46931324|gb|AAT06466.1| At1g09800 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|51971559|dbj|BAD44444.1| unnamed protein product [Arabidopsis thaliana] gi|51971573|dbj|BAD44451.1| unnamed protein product [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|42561874|ref|NP_172451.2| tRNA pseudouridine synthase A [Arabidopsis thaliana] gi|332190374|gb|AEE28495.1| tRNA pseudouridine synthase A [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|449503291|ref|XP_004161929.1| PREDICTED: tRNA pseudouridine synthase A-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|140053519|gb|ABE79574.2| tRNA pseudouridine synthase [Medicago truncatula] 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 ?
Query382
TAIR|locus:2024397372 AT1G09800 [Arabidopsis thalian 0.581 0.596 0.72 1.4e-112
UNIPROTKB|F1RJE9302 PUSL1 "tRNA pseudouridine synt 0.492 0.622 0.438 1.1e-42
TIGR_CMR|NSE_0020243 NSE_0020 "tRNA pseudouridine s 0.463 0.728 0.407 2e-41
TIGR_CMR|SPO_3143262 SPO_3143 "tRNA pseudouridine s 0.468 0.683 0.395 4.6e-40
TIGR_CMR|ECH_0622245 ECH_0622 "tRNA pseudouridine s 0.455 0.710 0.377 5.1e-37
TIGR_CMR|APH_0502246 APH_0502 "tRNA pseudouridine s 0.455 0.707 0.370 1.5e-35
DICTYBASE|DDB_G0283061343 DDB_G0283061 "tRNA pseudouridi 0.767 0.854 0.329 8.5e-33
UNIPROTKB|A6QP68312 PUSL1 "tRNA pseudouridine synt 0.473 0.580 0.438 8.5e-33
TIGR_CMR|DET_0504248 DET_0504 "tRNA pseudouridine s 0.437 0.673 0.362 1.4e-32
UNIPROTKB|Q8N0Z8303 PUSL1 "tRNA pseudouridine synt 0.473 0.597 0.438 9.8e-32
TAIR|locus:2024397 AT1G09800 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 854 (305.7 bits), Expect = 1.4e-112, Sum P(2) = 1.4e-112
 Identities = 162/225 (72%), Positives = 191/225 (84%)

Query:    54 NKRIQRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHA 113
             N R+QRYL+A+EYIGTRFSGSQ+Q   RTVVGVL+EAFHKFIGQPV I  SSRTDAGVHA
Sbjct:    51 NPRVQRYLVAIEYIGTRFSGSQQQAKDRTVVGVLQEAFHKFIGQPVKIFCSSRTDAGVHA 110

Query:   114 ASNVCHVDVERISKRKPGEVLPPHDSSVVRRAVNHFLQ-SEGDIMVTDVRCVPSDFHARF 172
              SNVCHVDVERISKRKPGEVLPPH+  VV+RAVNHFLQ  +GD+MV DVRCVPS++HAR+
Sbjct:   111 LSNVCHVDVERISKRKPGEVLPPHEPGVVQRAVNHFLQRKDGDVMVIDVRCVPSNYHARY 170

Query:   173 RAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGCHDFSSFRASGCQ 232
             +AQERTYFYR+LSG +PLS+ EKDR WHV EEL+LR MQEAC+VLVG HDFSSFRA+GCQ
Sbjct:   171 KAQERTYFYRLLSGSDPLSILEKDRCWHVPEELNLRFMQEACRVLVGSHDFSSFRAAGCQ 230

Query:   233 ANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPN 277
             A SP+R+LDEL+++EV ST  F SI + +  LS+++N   L   N
Sbjct:   231 AKSPMRSLDELNITEVPSTPYFPSITERT--LSNLNNGDPLACSN 273
GO:0001522 "pseudouridine synthesis" evidence=IEA
GO:0003723 "RNA binding" evidence=IEA
GO:0005634 "nucleus" evidence=ISM
GO:0009451 "RNA modification" evidence=IEA
GO:0009982 "pseudouridine synthase activity" evidence=IEA;TAS
GO:0019243 "methylglyoxal catabolic process to D-lactate" evidence=RCA
UNIPROTKB|F1RJE9 PUSL1 "tRNA pseudouridine synthase" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
TIGR_CMR|NSE_0020 NSE_0020 "tRNA pseudouridine synthase A" [Neorickettsia sennetsu str. Miyayama (taxid:222891)] Back     alignment and assigned GO terms
TIGR_CMR|SPO_3143 SPO_3143 "tRNA pseudouridine synthase A" [Ruegeria pomeroyi DSS-3 (taxid:246200)] Back     alignment and assigned GO terms
TIGR_CMR|ECH_0622 ECH_0622 "tRNA pseudouridine synthase A" [Ehrlichia chaffeensis str. Arkansas (taxid:205920)] Back     alignment and assigned GO terms
TIGR_CMR|APH_0502 APH_0502 "tRNA pseudouridine synthase A" [Anaplasma phagocytophilum HZ (taxid:212042)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0283061 DDB_G0283061 "tRNA pseudouridine synthase truA family" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
UNIPROTKB|A6QP68 PUSL1 "tRNA pseudouridine synthase" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
TIGR_CMR|DET_0504 DET_0504 "tRNA pseudouridine synthase A" [Dehalococcoides ethenogenes 195 (taxid:243164)] Back     alignment and assigned GO terms
UNIPROTKB|Q8N0Z8 PUSL1 "tRNA pseudouridine synthase-like 1" [Homo sapiens (taxid:9606)] 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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
4th Layer5.4.99.120.824
3rd Layer5.4.990.766

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00035388001
RecName- Full=Pseudouridylate synthase; EC=5.4.99.-; (380 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00027910001
SubName- Full=Chromosome chr19 scaffold_4, whole genome shotgun sequence; (235 aa)
• •     0.448
GSVIVG00015655001
SubName- Full=Chromosome chr2 scaffold_11, whole genome shotgun sequence; (370 aa)
  •     0.448
GSVIVG00026904001
SubName- Full=Chromosome chr15 scaffold_40, whole genome shotgun sequence; (363 aa)
      • 0.433
GSVIVG00001276001
SubName- Full=Chromosome undetermined scaffold_114, whole genome shotgun sequence; (290 aa)
      • 0.431

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query382
cd02570239 cd02570, PseudoU_synth_EcTruA, Eukaryotic and bact 1e-98
PRK00021244 PRK00021, truA, tRNA pseudouridine synthase A; Val 2e-92
COG0101266 COG0101, TruA, Pseudouridylate synthase [Translati 5e-85
TIGR00071227 TIGR00071, hisT_truA, tRNA pseudouridine(38-40) sy 4e-48
PRK12434245 PRK12434, PRK12434, tRNA pseudouridine synthase A; 1e-45
PRK14586245 PRK14586, PRK14586, tRNA pseudouridine synthase AC 2e-44
PRK14588272 PRK14588, PRK14588, tRNA pseudouridine synthase AC 1e-42
cd00497215 cd00497, PseudoU_synth_TruA_like, Pseudouridine sy 3e-35
PRK14589265 PRK14589, PRK14589, tRNA pseudouridine synthase AC 1e-28
cd02866219 cd02866, PseudoU_synth_TruA_Archea, Archeal pseudo 7e-27
cd02568245 cd02568, PseudoU_synth_PUS1_PUS2, Pseudouridine sy 2e-21
cd02569256 cd02569, PseudoU_synth_ScPus3, Pseudouridine synth 3e-20
pfam01416103 pfam01416, PseudoU_synth_1, tRNA pseudouridine syn 2e-16
PRK14587256 PRK14587, PRK14587, tRNA pseudouridine synthase AC 3e-10
pfam01416103 pfam01416, PseudoU_synth_1, tRNA pseudouridine syn 4e-06
PLN03078 513 PLN03078, PLN03078, Putative tRNA pseudouridine sy 0.002
>gnl|CDD|211337 cd02570, PseudoU_synth_EcTruA, Eukaryotic and bacterial pseudouridine synthases similar to E Back     alignment and domain information 
 Score =  292 bits (751), Expect = 1e-98
 Identities = 120/293 (40%), Positives = 149/293 (50%), Gaps = 54/293 (18%)

Query: 62  IAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVD 121
           + +EY GT FSG Q+Q N RTV G LE+A  K  G+PV +  + RTDAGVHA   V H D
Sbjct: 1   LTIEYDGTNFSGWQRQPNGRTVQGELEKALSKIAGEPVRVIGAGRTDAGVHALGQVAHFD 60

Query: 122 VERISKRKPGEVLPPHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFY 181
                       +P      + +A+N  L    DI V     VP DFHARF A+ RTY Y
Sbjct: 61  TPS--------EIPLEK---LIKALNSLLPP--DIRVLSAEEVPDDFHARFSAKSRTYRY 107

Query: 182 RILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGCHDFSSFRASGCQANSPIRTLD 241
           RIL+ P P S F +   WHV   LD+ AMQEA K+L+G HDFSSFRA+GCQ+ S +RT+ 
Sbjct: 108 RILNRPVP-SPFLRRYVWHVPRPLDIEAMQEAAKLLLGTHDFSSFRAAGCQSKSTVRTIY 166

Query: 242 ELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIARARSF 301
              V                                         ++        RA  F
Sbjct: 167 RADV----------------------------------------YREGDLIVFEIRANGF 186

Query: 302 LYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKY 354
           LYH VR IVG L  VG G+L+  D++ IL+AK  TAA P APA GL L  V+Y
Sbjct: 187 LYHMVRNIVGTLLEVGRGKLSPEDIKEILEAKDRTAAGPTAPAHGLYLVKVEY 239

coli TruA. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1). Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E. coli TruA makes psi38/39 and/or 40 in tRNA. psi38 and psi39 in tRNAs are highly phylogenetically conserved. P. aeruginosa truA is required for induction of type III secretory genes and may act through modifying tRNAs critical for the expression of type III genes or their regulators. Length = 239
>gnl|CDD|234577 PRK00021, truA, tRNA pseudouridine synthase A; Validated Back     alignment and domain information
>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|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|173052 PRK14588, PRK14588, tRNA pseudouridine synthase ACD; Provisional Back     alignment and domain information
>gnl|CDD|211322 cd00497, PseudoU_synth_TruA_like, Pseudouridine synthase, TruA family 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|211336 cd02569, PseudoU_synth_ScPus3, Pseudouridine synthase, Saccharomyces cerevisiae Pus3 like Back     alignment and domain information
>gnl|CDD|216487 pfam01416, PseudoU_synth_1, tRNA pseudouridine synthase Back     alignment and domain information
>gnl|CDD|173051 PRK14587, PRK14587, 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|215562 PLN03078, PLN03078, Putative tRNA pseudouridine synthase; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 382
PRK12434245 tRNA pseudouridine synthase A; Reviewed 100.0
COG0101266 TruA Pseudouridylate synthase [Translation, riboso 100.0
PRK00021244 truA tRNA pseudouridine synthase A; Validated 100.0
PRK14586245 tRNA pseudouridine synthase ACD; Provisional 100.0
PRK14588272 tRNA pseudouridine synthase ACD; Provisional 100.0
cd02570239 PseudoU_synth_EcTruA PseudoU_synth_EcTruA: Pseudou 100.0
TIGR00071227 hisT_truA pseudouridylate synthase I. universal so 100.0
PRK14589265 tRNA pseudouridine synthase ACD; Provisional 100.0
cd02866221 PseudoU_synth_TruA_Archea PseudoU_synth_archea: Ps 100.0
cd00497224 PseudoU_synth_TruA_like PseudoU_synth_TruA: Pseudo 100.0
cd02569256 PseudoU_synth_ScPus3 PseudoU_synth_ScPus3-like: Ps 100.0
cd02568245 PseudoU_synth_PUS1_PUS2 PseudoU_synth_PUS1_PUS2: P 100.0
PLN03078513 Putative tRNA pseudouridine synthase; Provisional 100.0
PRK14587256 tRNA pseudouridine synthase ACD; Provisional 100.0
KOG2553416 consensus Pseudouridylate synthase [Translation, r 100.0
KOG2554425 consensus Pseudouridylate synthase [Translation, r 100.0
KOG4393295 consensus Predicted pseudouridylate synthase [RNA 100.0
PF01416105 PseudoU_synth_1: tRNA pseudouridine synthase; Inte 99.86
PF01416105 PseudoU_synth_1: tRNA pseudouridine synthase; Inte 97.81
PF10105187 DUF2344: Uncharacterized protein conserved in bact 94.89
TIGR01213388 conserved hypothetical protein TIGR01213. Members 93.1
>PRK12434 tRNA pseudouridine synthase A; Reviewed Back     alignment and domain information 
Probab=100.00  E-value=1.2e-75  Score=557.51  Aligned_cols=244  Identities=35%  Similarity=0.583  Sum_probs=227.9

Q ss_pred             cceEEEEEEEeCCCceeeeecCC-CCCHHHHHHHHHHHhhCCCeeeeeeccCCccccccccEEEEEEcccccCCCCCCCC
Q 016811           57 IQRYLIAVEYIGTRFSGSQKQLN-CRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLP  135 (382)
Q Consensus        57 ~~r~~l~i~Y~Gt~Y~G~Q~Q~~-~~TVqg~Le~AL~k~~~~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~~l~  135 (382)
                      |+||+|.|+|+||+|+|||+|++ .+|||++||+||.++.++++.+.+|||||+||||++||+||+++..          
T Consensus         1 m~~~~l~i~YdGt~y~G~Q~Q~~~~~TVq~~le~aL~~~~~~~~~~~~agRTD~GVHA~~qv~~f~~~~~----------   70 (245)
T PRK12434          1 MRNIKLTIQYDGSRYKGWQKLGNNDNTIQGKIESVLSEMTGEEIEIIGCGRTDAGVHALNQVANFQTDEK----------   70 (245)
T ss_pred             CceEEEEEEECCCccceEeeCCCCCCCHHHHHHHHHHHHhCCCeEEEEeccCCCCcCccCcEEEEEcCCC----------
Confidence            57899999999999999999996 8999999999999999999999999999999999999999999742          


Q ss_pred             CCChHHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHHH
Q 016811          136 PHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACK  215 (382)
Q Consensus       136 ~~~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~~  215 (382)
                       .+++.+..+||++||  +||+|+++.+|+++|||||+|++|+|+|+|+.++.+ +||.++++|++...+|+++|++||+
T Consensus        71 -~~~~~l~~~lN~~LP--~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~-~~f~~~~~~~~~~~ld~~~m~~a~~  146 (245)
T PRK12434         71 -LSEDKIKKYLNEYLP--NDIVVTNVEEVDERFHARYNVKSKTYLYKIWNEKFH-NVFMRKYSMHVNEKLDVKAMKEAAK  146 (245)
T ss_pred             -CCHHHHHHHHHccCC--CCeEEEEEEECCCCcccccCCCcEEEEEEEccCCCC-ChhhCCeEEEeCCCCCHHHHHHHHH
Confidence             346789999999998  899999999999999999999999999999988775 8999999999999999999999999


Q ss_pred             HcccccccccccccCCCCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccccccEEEEE
Q 016811          216 VLVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVI  295 (382)
Q Consensus       216 ~f~GtHDF~nFt~~~~~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~i~  295 (382)
                      .|+|+|||++|++.+++.++++|+|.++++.+.                                        .+++.|+
T Consensus       147 ~~~G~HDF~~F~~~~~~~~~~~R~I~~~~v~~~----------------------------------------~~~~~i~  186 (245)
T PRK12434        147 YLVGSHDFTSFTNAKSKKKSTVREIYSIDIMEE----------------------------------------DGFVQIR  186 (245)
T ss_pred             HccCCcCHHhhcCCCCCCCCCEEEEEEEEEEEe----------------------------------------CCEEEEE
Confidence            999999999999877667899999999998642                                        1468999


Q ss_pred             EEeCcchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCCCCceeeeccC
Q 016811          296 ARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKY  354 (382)
Q Consensus       296 I~G~sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~~p~APa~GL~L~~V~Y  354 (382)
                      |+|+||||||||+|||+|++||+|++++++|+++|+.+++....|+|||+||+|++|.|
T Consensus       187 i~g~~FL~~mVR~mvg~ll~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y  245 (245)
T PRK12434        187 VSGNGFLHNMVRIIVGALIEVGLGQLKAEDIKQILEAKDRNQANCTAPASGLYLENVEY  245 (245)
T ss_pred             EEecHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhcCCcccCCCccCCCCCEEeEeEC
Confidence            99999999999999999999999999999999999998877778999999999999988

>COG0101 TruA Pseudouridylate synthase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK00021 truA tRNA pseudouridine synthase A; Validated Back     alignment and domain information
>PRK14586 tRNA pseudouridine synthase ACD; Provisional Back     alignment and domain information
>PRK14588 tRNA pseudouridine synthase ACD; Provisional Back     alignment and domain information
>cd02570 PseudoU_synth_EcTruA PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like Back     alignment and domain information
>TIGR00071 hisT_truA pseudouridylate synthase I Back     alignment and domain information
>PRK14589 tRNA pseudouridine synthase ACD; Provisional Back     alignment and domain information
>cd02866 PseudoU_synth_TruA_Archea PseudoU_synth_archea: Pseudouridine synthase, Back     alignment and domain information
>cd00497 PseudoU_synth_TruA_like PseudoU_synth_TruA: Pseudouridine synthase, TruA family Back     alignment and domain information
>cd02569 PseudoU_synth_ScPus3 PseudoU_synth_ScPus3-like: Pseudouridine synthase, Saccharomyces cerevisiae Pus3 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
>PRK14587 tRNA pseudouridine synthase ACD; Provisional Back     alignment and domain information
>KOG2553 consensus Pseudouridylate synthase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2554 consensus Pseudouridylate synthase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG4393 consensus Predicted pseudouridylate synthase [RNA processing and modification; Translation, ribosomal structure and biogenesis] 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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query382
2nqp_A270 Crystal Structure Of Pseudoudirinde Synthase Trua I 2e-28
1dj0_A264 The Crystal Structure Of E. Coli Pseudouridine Synt 3e-28
1vs3_A249 Crystal Structure Of The Trna Pseudouridine Synthas 1e-25
>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 =  123 bits (308), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 99/315 (31%), Positives = 141/315 (44%), Gaps = 62/315 (19%)
Query: 51  MSTNKRIQRYLIA--VEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTD 108
           MS  ++   Y IA  +EY G+++ G Q+Q   R+V   LE+A  +   +P+++  + RTD
Sbjct: 1   MSDQQQPPVYKIALGIEYDGSKYYGWQRQNEVRSVQEKLEKALSQVANEPITVFCAGRTD 60
Query: 109 AGVHAASNVCHVDVERISKRKPGEVLPPHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDF 168
           AGVH    V H +   + K            +     VN  L   GDI V  V+ VP DF
Sbjct: 61  AGVHGTGQVVHFETTALRK-----------DAAWTLGVNANL--PGDIAVRWVKTVPDDF 107
Query: 169 HARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGCHDFSSFRA 228
           HARF A  R Y Y I +     +V  K    H  E LD   M  A + L+G +DF+SFRA
Sbjct: 108 HARFSATARRYRYIIYNHRLRPAVLSKGVT-HFYEPLDAERMHRAAQCLLGENDFTSFRA 166
Query: 229 SGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKK 288
             CQ+ +P R +  ++V+                                         +
Sbjct: 167 VQCQSRTPWRNVMHINVT-----------------------------------------R 185
Query: 289 HRSYEVI-ARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGL 347
           H  Y V+  +A +F++H VR IVG L  VG      S +  +L AK  T A+  A A GL
Sbjct: 186 HGPYVVVDIKANAFVHHMVRNIVGSLMEVGAHNQPESWIAELLAAKDRTLAAATAKAEGL 245
Query: 348 SLGFV----KYDLPE 358
            L  V    +YDLP+
Sbjct: 246 YLVAVDYPDRYDLPK 260
>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 ?
Query382
1dj0_A264 Pseudouridine synthase I; alpha/beta fold, RNA-bin 3e-99
1vs3_A249 TRNA pseudouridine synthase A; TRUA, tRNA modifica 1e-93
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-10
>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
 Score =  294 bits (755), Expect = 3e-99
 Identities = 87/298 (29%), Positives = 123/298 (41%), Gaps = 54/298 (18%)

Query: 58  QRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNV 117
            +  + +EY G+++ G Q+Q   R+V   LE+A  +   +P+++  + RTDAGVH    V
Sbjct: 4   YKIALGIEYDGSKYYGWQRQNEVRSVQEKLEKALSQVANEPITVFCAGRTDAGVHGTGQV 63

Query: 118 CHVDVERISKRKPGEVLPPHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQER 177
            H +                  +     VN  L    DI V  V+ VP DFHARF A  R
Sbjct: 64  VHFETTA-----------LRKDAAWTLGVNANLPG--DIAVRWVKTVPDDFHARFSATAR 110

Query: 178 TYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGCHDFSSFRASGCQANSPI 237
            Y Y I +              H  E LD   M  A + L+G +DF+SFRA  CQ+ +P 
Sbjct: 111 RYRYIIYNHRLR-PAVLSKGVTHFYEPLDAERMHRAAQCLLGENDFTSFRAVQCQSRTPW 169

Query: 238 RTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIAR 297
           R +  ++V+                                G  V           V  +
Sbjct: 170 RNVMHINVTRH------------------------------GPYV----------VVDIK 189

Query: 298 ARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKYD 355
           A +F++H VR IVG L  VG      S +  +L AK  T A+  A A GL L  V Y 
Sbjct: 190 ANAFVHHMVRNIVGSLMEVGAHNQPESWIAELLAAKDRTLAAATAKAEGLYLVAVDYP 247
>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
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query382
1dj0_A264 Pseudouridine synthase I; alpha/beta fold, RNA-bin 100.0
1vs3_A249 TRNA pseudouridine synthase A; TRUA, tRNA modifica 100.0
2v9k_A530 Uncharacterized protein FLJ32312; pseudouridine sy 88.99
>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
Probab=100.00  E-value=2.9e-77  Score=572.62  Aligned_cols=247  Identities=35%  Similarity=0.488  Sum_probs=232.3

Q ss_pred             ccceEEEEEEEeCCCceeeeecCCCCCHHHHHHHHHHHhhCCCeeeeeeccCCccccccccEEEEEEcccccCCCCCCCC
Q 016811           56 RIQRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVLP  135 (382)
Q Consensus        56 ~~~r~~l~i~Y~Gt~Y~G~Q~Q~~~~TVqg~Le~AL~k~~~~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~~l~  135 (382)
                      .|+||+|.|+|+||+|+|||+||+.+|||++||+||.+++++++.+.+|||||+||||++||+||+++..          
T Consensus         2 Pm~r~~l~i~YdGt~y~GwQ~Q~~~~TVq~~Le~AL~~~~~~~v~~~~agRTDaGVHA~gqv~~f~~~~~----------   71 (264)
T 1dj0_A            2 PVYKIALGIEYDGSKYYGWQRQNEVRSVQEKLEKALSQVANEPITVFCAGRTDAGVHGTGQVVHFETTAL----------   71 (264)
T ss_dssp             CCEEEEEEEEECCTTSSCSCCTTCSSCHHHHHHHHHHHHHTSCCCEEESSCCCTTCEEEEEEEEEEESCC----------
T ss_pred             CccEEEEEEEEeCCCceeEEECcCCCCHHHHHHHHHHHHhCCCeEEEEeccCCCCCchhhEEEEEEECCC----------
Confidence            3678999999999999999999999999999999999999999999999999999999999999999752          


Q ss_pred             CCChHHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHHH
Q 016811          136 PHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACK  215 (382)
Q Consensus       136 ~~~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~~  215 (382)
                       .+++.+..+||.+||  +||+|+++.+|+++|||||+|++|+|+|+|+..+.+ ++|.++++|++..++|+++|++|++
T Consensus        72 -~~~~~~~~~lN~~LP--~dI~V~~~~~V~~~FhARf~a~~R~Y~Y~i~~~~~~-~~~~~~~~~~~~~~lD~~~M~~aa~  147 (264)
T 1dj0_A           72 -RKDAAWTLGVNANLP--GDIAVRWVKTVPDDFHARFSATARRYRYIIYNHRLR-PAVLSKGVTHFYEPLDAERMHRAAQ  147 (264)
T ss_dssp             -CCHHHHHHHHHHTSC--TTEEEEEEEECCTTCCTTTTCCEEEEEEEEECSSSC-CCTTTTSSEECCSCCCHHHHHHHHG
T ss_pred             -CCHHHHHHHHHhhCC--cCeEEEEEEeCCCCCCcccccccEEEEEEEccCCCC-ChhHcCceEeeCCCCCHHHHHHHHH
Confidence             346789999999998  899999999999999999999999999999988766 7899999999999999999999999


Q ss_pred             HcccccccccccccCCCCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccccccEEEEE
Q 016811          216 VLVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVI  295 (382)
Q Consensus       216 ~f~GtHDF~nFt~~~~~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~i~  295 (382)
                      .|+|+|||+|||+.+++.++++|+|++++|.+.                                        .+++.|+
T Consensus       148 ~l~G~HDF~~F~~~~~~~~s~vR~I~~~~v~~~----------------------------------------~~~i~~~  187 (264)
T 1dj0_A          148 CLLGENDFTSFRAVQCQSRTPWRNVMHINVTRH----------------------------------------GPYVVVD  187 (264)
T ss_dssp             GGCEEEECGGGCCTTCCCSCCEEEEEEEEEEEE----------------------------------------TTEEEEE
T ss_pred             HhcCcccHHHhccCCCCCCCcEEEEEEEEEEEC----------------------------------------CCEEEEE
Confidence            999999999999988888999999999998752                                        1569999


Q ss_pred             EEeCcchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCCCCceeeeccCCC
Q 016811          296 ARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKYDL  356 (382)
Q Consensus       296 I~G~sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~~p~APa~GL~L~~V~Y~~  356 (382)
                      |+|+||||||||+|||+|++||+|++++++|+++|+.+++....|+|||+||+|++|.|+.
T Consensus       188 i~g~~FL~~mVR~mvG~L~~vG~G~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y~~  248 (264)
T 1dj0_A          188 IKANAFVHHMVRNIVGSLMEVGAHNQPESWIAELLAAKDRTLAAATAKAEGLYLVAVDYPD  248 (264)
T ss_dssp             EEESCCCTTHHHHHHHHHHHHHTTSSCTTHHHHHHHHCCGGGSCCCCCSTTEEEEEEECCG
T ss_pred             EEEchHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHhCCCcccCcCccCCCCcEEeeeccCc
Confidence            9999999999999999999999999999999999999988788999999999999999964
>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
>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 382
d1dj0a_264 d.265.1.1 (A:) Pseudouridine synthase I TruA {Esch 2e-41
>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 =  144 bits (364), Expect = 2e-41
 Identities = 85/309 (27%), Positives = 124/309 (40%), Gaps = 58/309 (18%)

Query: 57  IQRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASN 116
           + +  + +EY G+++ G Q+Q   R+V   LE+A  +   +P+++  + RTDAGVH    
Sbjct: 3   VYKIALGIEYDGSKYYGWQRQNEVRSVQEKLEKALSQVANEPITVFCAGRTDAGVHGTGQ 62

Query: 117 VCHVDVERISKRKPGEVLPPHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQE 176
           V H +                        +       GDI V  V+ VP DFHARF A  
Sbjct: 63  VVHFE-------------TTALRKDAAWTLGVNANLPGDIAVRWVKTVPDDFHARFSATA 109

Query: 177 RTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEACKVLVGCHDFSSFRASGCQANSP 236
           R Y Y I +              H  E LD   M  A + L+G +DF+SFRA  CQ+ +P
Sbjct: 110 RRYRYIIYNHRLR-PAVLSKGVTHFYEPLDAERMHRAAQCLLGENDFTSFRAVQCQSRTP 168

Query: 237 IRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEVIA 296
            R +  ++                                        + +      V  
Sbjct: 169 WRNVMHIN----------------------------------------VTRHGPYVVVDI 188

Query: 297 RARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKY-- 354
           +A +F++H VR IVG L  VG      S +  +L AK  T A+  A A GL L  V Y  
Sbjct: 189 KANAFVHHMVRNIVGSLMEVGAHNQPESWIAELLAAKDRTLAAATAKAEGLYLVAVDYPD 248

Query: 355 --DLPEDDQ 361
             DLP+   
Sbjct: 249 RYDLPKPPM 257

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query382
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=1e-72  Score=538.86  Aligned_cols=248  Identities=35%  Similarity=0.485  Sum_probs=230.6

Q ss_pred             cccceEEEEEEEeCCCceeeeecCCCCCHHHHHHHHHHHhhCCCeeeeeeccCCccccccccEEEEEEcccccCCCCCCC
Q 016811           55 KRIQRYLIAVEYIGTRFSGSQKQLNCRTVVGVLEEAFHKFIGQPVSISLSSRTDAGVHAASNVCHVDVERISKRKPGEVL  134 (382)
Q Consensus        55 ~~~~r~~l~i~Y~Gt~Y~G~Q~Q~~~~TVqg~Le~AL~k~~~~~i~~~~asRTDkGVHA~~qvvs~~l~~~~~~~~~~~l  134 (382)
                      |.|+||+|.|+|+||+|+|||+|++.+||||+|++||.+++++++.+.+||||||||||++|||||+++..         
T Consensus         1 p~~~r~al~i~Y~Gt~f~G~Q~Q~~~~TVq~~Le~aL~~~~~~~~~~~~agRTD~GVhA~~qv~~~~~~~~---------   71 (264)
T d1dj0a_           1 PPVYKIALGIEYDGSKYYGWQRQNEVRSVQEKLEKALSQVANEPITVFCAGRTDAGVHGTGQVVHFETTAL---------   71 (264)
T ss_dssp             CCCEEEEEEEEECCTTSSCSCCTTCSSCHHHHHHHHHHHHHTSCCCEEESSCCCTTCEEEEEEEEEEESCC---------
T ss_pred             CCcEEEEEEEEEECCCeeeEeECcCCCCHHHHHHHHHHHhhCCCeEEEEeecccCCcceeeEEEEEeeccc---------
Confidence            56888999999999999999999999999999999999999999999999999999999999999999753         


Q ss_pred             CCCChHHHHHHHHhcCCCCCCeEEEEEEEcCCCCcccccccceEEEEEcccCCCCCCccccCceeecCCcCCHHHHHHHH
Q 016811          135 PPHDSSVVRRAVNHFLQSEGDIMVTDVRCVPSDFHARFRAQERTYFYRILSGPEPLSVFEKDRAWHVTEELDLRAMQEAC  214 (382)
Q Consensus       135 ~~~~~~~l~~~LN~~Lp~p~dIrV~~i~~V~~~F~aR~~~~~R~Y~Y~l~~~~~~~~~f~~~~~~~~~~~lDi~~m~ea~  214 (382)
                        .+.+.+...||.+||  +||+|+++.+|+.+||||++|.+|+|+|+|..+..+ +++.+.+.|++...+|+++|++|+
T Consensus        72 --~~~~~~~~~lN~~Lp--~dI~i~~~~~v~~~F~aR~~a~~r~Y~Y~i~~~~~~-~~~~~~~~~~~~~~ld~~~m~~a~  146 (264)
T d1dj0a_          72 --RKDAAWTLGVNANLP--GDIAVRWVKTVPDDFHARFSATARRYRYIIYNHRLR-PAVLSKGVTHFYEPLDAERMHRAA  146 (264)
T ss_dssp             --CCHHHHHHHHHHTSC--TTEEEEEEEECCTTCCTTTTCCEEEEEEEEECSSSC-CCTTTTSSEECCSCCCHHHHHHHH
T ss_pred             --hhhhhhhcccccccc--cccccccceeccccccchhhhhhcccceeecccccc-ccccccccccccCCcchHHHHHHH
Confidence              346789999999998  899999999999999999999999999999988765 677888899999999999999999


Q ss_pred             HHcccccccccccccCCCCCCCeEEEEEEEEEeeecccccccccCCCCccccccCCcCCCCCCCCCCcccccccccEEEE
Q 016811          215 KVLVGCHDFSSFRASGCQANSPIRTLDELHVSEVVSTALFSSINQDSPVLSSIDNSSKLGMPNGGSNVFGIRKKHRSYEV  294 (382)
Q Consensus       215 ~~f~GtHDF~nFt~~~~~~~s~~R~I~~~~i~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~i  294 (382)
                      +.|+|+|||+||++.+....++.|+|..+.+.+.                                        .+++.|
T Consensus       147 ~~~~G~hdF~~F~~~~~~~~~~~r~i~~~~~~~~----------------------------------------~~~i~i  186 (264)
T d1dj0a_         147 QCLLGENDFTSFRAVQCQSRTPWRNVMHINVTRH----------------------------------------GPYVVV  186 (264)
T ss_dssp             GGGCEEEECGGGCCTTCCCSCCEEEEEEEEEEEE----------------------------------------TTEEEE
T ss_pred             hhccCcccccccccccccCCCcccccccccceec----------------------------------------CcEEEE
Confidence            9999999999999988777889999999888652                                        256899


Q ss_pred             EEEeCcchhhHHHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCCCCCCCCCCCceeeeccCCC
Q 016811          295 IARARSFLYHQVRLIVGVLKAVGTGELTVSDVERILKAKTVTAASPMAPACGLSLGFVKYDL  356 (382)
Q Consensus       295 ~I~G~sFL~~QIR~MVg~lv~vg~G~~~~~~i~~~L~~~~~~~~~p~APa~GL~L~~V~Y~~  356 (382)
                      +|+|+||||||||+|||+|++||+|+++++.|+++|+.+++....++|||+||+|++|.|+.
T Consensus       187 ~i~g~sFL~~qVR~mvg~ll~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y~~  248 (264)
T d1dj0a_         187 DIKANAFVHHMVRNIVGSLMEVGAHNQPESWIAELLAAKDRTLAAATAKAEGLYLVAVDYPD  248 (264)
T ss_dssp             EEEESCCCTTHHHHHHHHHHHHHTTSSCTTHHHHHHHHCCGGGSCCCCCSTTEEEEEEECCG
T ss_pred             EechhHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHhcCCcccCccccCCCCCEEcccccCc
Confidence            99999999999999999999999999999999999998877778999999999999999964