Citrus Sinensis ID: 002904

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-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820-------830-------840-------850-------860-------87
MLRIFSCNNNSVKLLQMCINCNFGTLIFVRNWCHIHANIVSGGIMAVEASSKPSRVYDFDDDEDGPAVFKRNTAASRQNLANPEVKRPSSSTANGQNSNAPKDKTTVSSSKVLPVKSPPPSQKATTSSAKASPSKSPMRSPVKSPVRSPVKSPVANSKESSPLDDRLKQSPQHNALAVVKKEEIKDGNGLKSDDNDSEDDKPLSARLKGNSKNVNQGIGASKADAAISEVNVKTDPEDSDDEVPLSSRFPKSNAGTSGAKPIDSDEKKPLASKVQQNGSTSRETQQKSSSVPVKRPLQKASSSGASSAKKPKVSDTSKEVKVKQVTVKVEKKADDDDHIPISQRMKNSAPSVKKSVTNTAKATKSVSSSSNKINKKTKKVIKNSQYSKSTKMLPGSGDGQKKWTTLVHNGVIFPPPYLPHGVKMLYKGKEVNLTPEQEEVATMFAVMLDTDYMQKPKFRENFWNDWRKLLGKNHVIQNLEGCDFKPIYDWHQEQKEKKKQMSSEEKKALKEEKNKQEEKYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKKRIQPSDITINIGKDVPIPECPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFLAASSSLKGQSDREKYEKARKLKDYIHSIRAAYTKDFVSRDGTRRQIAVATYLIDKLALRAGNEKDDDEADTVGCCTLKVGNVECIPPNKLKFDFLGKDSIQYVNTVEVELPVYKAIGQFQTGKKQNDDLFDKLDTAKLNAHLKELMPGLTAKVFRTYNASITLDGMLNKGTGDGDVAVKIDVYQRANKEVAIICNHQRTVSKTHSAQMSRLTEKIEDLKGVLKDLRVDLDRAKKGKPPLMKDSDGKRKRNLAPEA
cccEEEEcccHHHHHHHHHccccccEEEEcccEEEEEccccccEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccccccEEcccccccccccccccccEEEEccEEccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccEEEEccEEEEEcccEEccccccccccccccccccccccccccEEEEcccccccccccccccccccEEEccccEEEEEEcccccccccEEEEEcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccEEEEEEEEHHHHHccccccccccccccccccEEEEEEEccccEEEEEccccccccEEEEEEccHHHHHHHHHHHccccccccccccccHHHHHHHHHHHccccccEEEHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHccccc
ccEEEEcccccHHHHHHHEcccccHHEEEHcHHHHHHHHHcccEEEEEccccccccccccccccccEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccccccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccHHHHHHHccHHHHHHccccccccccccccccccccccHHccccccccccccHcccccccccccccccccccHHHHcccccccHHcccHHcccccccccccHHHHHHHHHHHcccHHHHcccccccccccccEEEEEEEcccccccccccccccccEEccEEccccHHHHHHHHHHHHccccHHHHcHHHHHHHHHHHHHHHcHHHHccccccEEcHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHcEEEEccEEEEEcccEccccEEccccccccccccEEccccHHHcEEEccccccccccccccccccEEEccccccccEEEEcccccccEEEEcEccccHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHcccccHHHHHHHHHHHHHHHccccccccccccccccccEEEEEEEEEEEccccEEEEEEEcHHHcEEEEEEEccHHHHHHHHHHccccccccEccccccHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHcccEccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccc
mlrifscnnnSVKLLQMCINCNFGTLIFVRNWCHIHANIVSGGIMAVeasskpsrvydfdddedgpavfkrntaasrqnlanpevkrpssstangqnsnapkdkttvssskvlpvkspppsqkattssakaspskspmrspvkspvrspvkspvanskessplddrlkqspqhnALAVVKKeeikdgnglksddndseddkplsarlkgnsknvnqgigaskadAAISEvnvktdpedsddevplssrfpksnagtsgakpidsdekkplaskvqqngstsretqqksssvpvkrplqkasssgassakkpkvsdtskevkVKQVTVKVekkaddddhipisqrmknsapsvkksVTNTAKATKSVSSSSNKINKKTKKVIKnsqyskstkmlpgsgdgqkkwTTLVhngvifpppylphgvkmlykgkevnltpeqEEVATMFAVMLdtdymqkpkfrENFWNDWRKLLGKNHviqnlegcdfkpiydWHQEQKEKKKQMSSEEKKALKEEKNKQEEKYMWAIVDGVKekvgnfrveppglfrgrgehpkmgklkkriqpsditinigkdvpipecpipgeswkevkhdnTVTWLAfwndpinpkefKYVFLAASsslkgqsdrEKYEKARKLKDYIHSIRAAYtkdfvsrdgtRRQIAVATYLIDKLALragnekdddeadtvgcctlkvgnvecippnklkfdflgkdsiqyVNTVEVELPVYKAIgqfqtgkkqnddLFDKLDTAKLNAHLKELMPGLTAKVFRTYNASITLdgmlnkgtgdgdvAVKIDVYQRANKEVAIICNhqrtvsktHSAQMSRLTEKIEDLKGVLKDLRVDLdrakkgkpplmkdsdgkrkrnlapea
MLRIFSCNNNSVKLLQMCINCNFGTLIFVRNWCHIHANIVSGGIMAVEASSKPSRVYDFDDDEDGPAVFKRntaasrqnlanpevkrpssstangqnsnapkdkttvssskvlpvkspppsqkattssakaspskspmrspvkspvrspvkspvanskessplddrlkqspqhnalavvkkeeikdgnglksddndseddkplsarlkgnsknvnqgigaskadaaiSEVNVktdpedsddevplssrfpksnagtsgakpidsdekkpLASKvqqngstsretqqksssvpvkrplqkasssgassakkpkvsdtskevkvkqvtvkvekkaddddhipisqrmknsapsvkksvtntakatksvssssnkinkktkkviknsqyskstkmlpgsgdGQKKWTTLVHNGVIFPPPYLPHGVKMLYKGKEVNLTPEQEEVATMFAVMLDTDYMQKPKFRENFWNDWRKLLGKNHVIQNLEGCDFKPIYDWHQEQKEKKKQMSSEEKKALKeeknkqeeKYMWAIVDgvkekvgnfrveppglfrgrgehpkmgklkkriqpsditinigkdvpipeCPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFLAAssslkgqsdrekYEKARKLKDYIHSIRaaytkdfvsrdgtrrQIAVATYLIDKLALragnekdddeaDTVGCCTLkvgnvecippnkLKFDFLGKDSIQYVNTVEVELPVYKAIGQfqtgkkqndDLFDKLDTAKLNAHLKELMPGLTAKVFRTYNASITLDGMLNKGTGDGDVAVKIDVYQRANKEVAIicnhqrtvskthsaqmsRLTEKIEDLKGVLKDLrvdldrakkgkpplmkdsdgkrkrnlapea
MLRIFSCNNNSVKLLQMCINCNFGTLIFVRNWCHIHANIVSGGIMAVEASSKPSRVYDFDDDEDGPAVFKRNTAASRQNLANPEVKRPSSSTANGQNSNAPKDkttvssskvlpvkspppsqkattssakaspskspMRSPVKSPVRSPVKSPVANSKESSPLDDRLKQSPQHNALAVVKKEEIKDGNGLKSDDNDSEDDKPLSARLKGNSKNVNQGIGASKADAAISEVNVKTDPEDSDDEVPLSSRFPKSNAGTSGAKPIDSDEKKPLASKVQQNGSTSRETQQKSSSVPVKRPLQkasssgassakkpkvsDTSkevkvkqvtvkvekkADDDDHIPISQRMKNSAPSVKKSVtntakatksvssssnkinkktkkviknsQYSKSTKMLPGSGDGQKKWTTLVHNGVIFPPPYLPHGVKMLYKGKEVNLTPEQEEVATMFAVMLDTDYMQKPKFRENFWNDWRKLLGKNHVIQNLEGCDFKPIYDWHqeqkekkkqmsseekkalkeeknkqeekYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKKRIQPSDITINIGKDVPIPECPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFLAASSSLKGQSDREKYEKARKLKDYIHSIRAAYTKDFVSRDGTRRQIAVATYLIDKLALRAGNEKDDDEADTVGCCTLKVGNVECIPPNKLKFDFLGKDSIQYVNTVEVELPVYKAIGQFQTGKKQNDDLFDKLDTAKLNAHLKELMPGLTAKVFRTYNASITLDGMLNKGTGDGDVAVKIDVYQRANKEVAIICNHQRTVSKTHSAQMSRLTEKIEDLKGVLKDLRVDLDRAKKGKPPLMKDSDGKRKRNLAPEA
***IFSCNNNSVKLLQMCINCNFGTLIFVRNWCHIHANIVSGGIMAV******************************************************************************************************************************************************************************************************************************************************************************************************************************************************************KWTTLVHNGVIFPPPYLPHGVKMLYKGKEVNLTPEQEEVATMFAVMLDTDYMQKPKFRENFWNDWRKLLGKNHVIQNLEGCDFKPIYDWH****************************YMWAIVDGVKEKVGNFRVEP*GL********************DITINIGKDVPIPECPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFLAA*****************KLKDYIHSIRAAYTKDFVSRDGTRRQIAVATYLIDKLALRAGNE***DEADTVGCCTLKVGNVECIPPNKLKFDFLGKDSIQYVNTVEVELPVYKAIGQFQTGKKQNDDLFDKLDTAKLNAHLKELMPGLTAKVFRTYNASITLDGMLNKGTGDGDVAVKIDVYQRANKEVAIICNHQRTV********************VL*********************************
*LRI***NNNSVKLLQMCINCNFGTLIFVRNWCHI*****************************************************************************************************************************************************************************************************************************************************************************************************************************************************************STKMLPGSGDGQKKWTTLVHNGVIFPPPYLPHGVKMLYKGKEVNLTPEQEEVATMFAVMLDTDYMQKPKFRENFWNDWRKLLGKNHVIQNLEGCDFKPIYDWH************************QEEKYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKKRIQPSDITINIGKDVPIPECPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFLA****************ARKLKDYIHSIRAAYTK********RRQIAVATYLIDKLALR************VGCCTLKVGNVECIPPNKLKFDFLGKDSIQYVNTVEVELPVYKAIGQFQTGKKQNDDLFDKLDTAKLNAHLKELMPGLTAKVFRTYNASITLDGMLNKGTGDGDVAVKIDVYQRANKEVAIICNHQRT********************************************************
MLRIFSCNNNSVKLLQMCINCNFGTLIFVRNWCHIHANIVSGGIMAVEASSKPSRVYDFDDDEDGPAVFKRNTAASRQN****************************************************************************************KQSPQHNALAVVKKEEIKDG***************LSARLKGNSKNVNQGIGASKADAAISE****************SSRFPK**********************************************************************VKQVTVKVEKKADDDDHIPISQRM************************************KNSQYSKSTKMLPGSGDGQKKWTTLVHNGVIFPPPYLPHGVKMLYKGKEVNLTPEQEEVATMFAVMLDTDYMQKPKFRENFWNDWRKLLGKNHVIQNLEGCDFKPIYDWHQ************************EEKYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKKRIQPSDITINIGKDVPIPECPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFLAASS*************ARKLKDYIHSIRAAYTKDFVSRDGTRRQIAVATYLIDKLALRAG********DTVGCCTLKVGNVECIPPNKLKFDFLGKDSIQYVNTVEVELPVYKAIGQFQTGKKQNDDLFDKLDTAKLNAHLKELMPGLTAKVFRTYNASITLDGMLNKGTGDGDVAVKIDVYQRANKEVAIICNHQRT********MSRLTEKIEDLKGVLKDLRVDLDRAKKGKPPLMK**************
MLRIFSCNNNSVKLLQMCINCNFGTLIFVRNWCHIHANIVSGGIMAVEASSKPSRVYDFDDDEDGPAVFKRN*************************************************************************************************************************************************************************************************************************************************************************************************************************************DGQKKWTTLVHNGVIFPPPYLPHGVKMLYKGKEVNLTPEQEEVATMFAVMLDTDYMQKPKFRENFWNDWRKLLGKNHVIQNLEGCDFKPIYDWHQEQKEKKKQMSSEEKKALKEEKNKQEEKYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKKRIQPSDITINIGKDVPIPECPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFLAASSSLKGQSDREKYEKARKLKDYIHSIRAAYTKDFVSRDGTRRQIAVATYLIDKLALRA******DEADTVGCCTLKVGNVECIPPNKLKFDFLGKDSIQYVNTVEVELPVYKAIGQFQTGKKQNDDLFDKLDTAKLNAHLKELMPGLTAKVFRTYNASITLDGMLNKGTGDGDVAVKIDVYQRANKEVAIICNHQRTVSKTHSAQMSRLTEKIEDLKGVLKDLRVDLDRAKK*********************
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MLRIFSCNNNSVKLLQMCINCNFGTLIFVRNWCHIHANIVSGGIMAVEASSKPSRVYDFDDDEDGPAVFKRNTAASRQNLANPEVKRPSSSTANGQNSNAPKDKTTVSSSKVLPVKSPPPSQKATTSSAKASPSKSPMRSPVKSPVRSPVKSPVANSKESSPLDDRLKQSPQHNALAVVKKEEIKDGNGLKSDDNDSEDDKPLSARLKGNSKNVNQGIGASKADAAISEVNVKTDPEDSDDEVPLSSRFPKSNAGTSGAKPIDSDEKKPLASKVQQNGSTSRETQQKSSSVPVKRPLQKASSSGASSAKKPKVSDTSKEVKVKQVTVKVEKKADDDDHIPISQRMKNSAPSVKKSVTNTAKATKSVSSSSNKINKKTKKVIKNSQYSKSTKMLPGSGDGQKKWTTLVHNGVIFPPPYLPHGVKMLYKGKEVNLTPEQEEVATMFAVMLDTDYMQKPKFRENFWNDWRKLLGKNHVIQNLEGCDFKPIYDWxxxxxxxxxxxxxxxxxxxxxxxxxxxxxYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKKRIQPSDITINIGKDVPIPECPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFLAASSSLKGQSDREKYEKARKLKDYIHSIRAAYTKDFVSRDGTRRQIAVATYLIDKLALRAGNEKDDDEADTVGCCTLKVGNVECIPPNKLKFDFLGKDSIQYVNTVEVELPVYKAIGQFQTGKKQNDDLFDKLDTAKLNAHLKELMPGLTAKVFRTYNASITLDGMLNKGTGDGDVAVKIDVYQRANKEVAIICNHQRTVSKTHSAQxxxxxxxxxxxxxxxxxxxxxxxxxxxxKPPLMKDSDGKRKRNLAPEA
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 ?
Query868 2.2.26 [Sep-21-2011]
P30181916 DNA topoisomerase 1 OS=Ar no no 0.846 0.802 0.623 0.0
P93119790 DNA topoisomerase 1 OS=Da N/A no 0.758 0.832 0.599 0.0
P07799 814 DNA topoisomerase 1 OS=Sc yes no 0.528 0.563 0.541 1e-136
Q54RC3 893 DNA topoisomerase 1 OS=Di yes no 0.518 0.503 0.517 1e-133
P04786 769 DNA topoisomerase 1 OS=Sa yes no 0.498 0.563 0.520 1e-128
Q969P6601 DNA topoisomerase I, mito yes no 0.490 0.708 0.507 1e-121
P30189972 DNA topoisomerase 1 OS=Dr yes no 0.489 0.437 0.512 1e-120
A9Q1D5601 DNA topoisomerase I, mito yes no 0.490 0.708 0.507 1e-120
P11387765 DNA topoisomerase 1 OS=Ho no no 0.525 0.596 0.506 1e-118
Q7YR26767 DNA topoisomerase 1 OS=Ch N/A no 0.525 0.594 0.506 1e-118
>sp|P30181|TOP1_ARATH DNA topoisomerase 1 OS=Arabidopsis thaliana GN=TOP1 PE=1 SV=1 Back     alignment and function desciption
 Score =  862 bits (2227), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 496/795 (62%), Positives = 580/795 (72%), Gaps = 60/795 (7%)

Query: 129 AKASPSK--SPMRSPVKSP---VRSPVKSPVANSKESSPLDDRLKQSPQHNALAVVKKEE 183
           +KA P+   SPMRSPV SP     S   S V +S  SS       +SP  N +    K+ 
Sbjct: 46  SKAVPTTKVSPMRSPVTSPNGTTPSNKTSIVKSSMPSSSSKASPAKSPLRNDMPSTVKDR 105

Query: 184 I---KDGNGLKSDDNDSEDDKPLSARLKGN-----SKNVN--QGIGASKADAAISEVNVK 233
               KD +  K +  DSEDD+PLS+ L GN     S+ V+  Q    +  D  +   + +
Sbjct: 106 SQLQKDQSECKIEHEDSEDDRPLSSILSGNKGPTSSRQVSSPQPEKKNNGDRPLDRAS-R 164

Query: 234 TDPEDSDDEVPLSSRFPKS-NAGTSGAKPIDSDEKKPLASKVQQNGSTSRETQQKSSSVP 292
              ++SDDE P+SS F K  ++G SG   + +DEKKPL  K+ QNGST +  +  +  V 
Sbjct: 165 IIKDESDDETPISSMFRKKIDSGMSGGNQLSNDEKKPLVQKLHQNGSTVK-NEVPNGKVL 223

Query: 293 VKRPLQKASSSGASSAKKPKVSDTSKEVKVKQVTVKVEKKADDDDHI------------- 339
            KRPL+K SS+  SS KK K+S +   VK+KQ +VK  K+ DD   +             
Sbjct: 224 GKRPLEKNSSADQSSLKKAKISASPTSVKMKQDSVK--KEIDDKGRVLVSPKMKAKQLST 281

Query: 340 -------------PISQRMKNSAP----------SVKKSVTNTA---KATKSVSSSSNKI 373
                        PIS+R K+ +           +VK + T++A   KA   VS  S  +
Sbjct: 282 REDGTDDDDDDDVPISKRFKSDSSNSNTSSAKPKAVKLNSTSSAAKPKARNVVSPRSRAM 341

Query: 374 NKKTKKVIKNSQYSKSTKMLPGSGDGQKKWTTLVHNGVIFPPPYLPHGVKMLYKGKEVNL 433
            K TKKV K+S+YS S+K  P SGDGQKKWTTLVHNGVIFPPPY PHG+K+LYKGK V+L
Sbjct: 342 TKNTKKVTKDSKYSTSSKSSPSSGDGQKKWTTLVHNGVIFPPPYKPHGIKILYKGKPVDL 401

Query: 434 TPEQEEVATMFAVMLDTDYMQKPKFRENFWNDWRKLLGKNHVIQNLEGCDFKPIYDWHQE 493
           T EQEEVATMFAVM +TDY  KP+FRENFWNDWR+LLGK HVIQ L+ CDF PIY+WH E
Sbjct: 402 TIEQEEVATMFAVMRETDYYTKPQFRENFWNDWRRLLGKKHVIQKLDDCDFTPIYEWHLE 461

Query: 494 QKEKKKQMSSEEKKALKEEKNKQEEKYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHPKMG 553
           +KEKKKQMS+EEKKALKEEK KQEEKYMWA+VDGVKEK+GNFRVEPPGLFRGRGEHPKMG
Sbjct: 462 EKEKKKQMSTEEKKALKEEKMKQEEKYMWAVVDGVKEKIGNFRVEPPGLFRGRGEHPKMG 521

Query: 554 KLKKRIQPSDITINIGKDVPIPECPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFL 613
           KLKKRI P +IT+NIGK  PIPECPI GE WKEVKHDNTVTWLAFW DPINPKEFKYVFL
Sbjct: 522 KLKKRIHPCEITLNIGKGAPIPECPIAGERWKEVKHDNTVTWLAFWADPINPKEFKYVFL 581

Query: 614 AASSSLKGQSDREKYEKARKLKDYIHSIRAAYTKDFVSRDGTRRQIAVATYLIDKLALRA 673
            A SSLKG SD+EKYEKAR L D+I +IR  YTK+F ++D   RQIAVATYLIDKLALRA
Sbjct: 582 GAGSSLKGLSDKEKYEKARNLTDHIDNIRTTYTKNFTAKDVKMRQIAVATYLIDKLALRA 641

Query: 674 GNEKDDDEADTVGCCTLKVGNVECIPPNKLKFDFLGKDSIQYVNTVEVELPVYKAIGQFQ 733
           GNEKDDDEADTVGCCTLKVGNVECIPPNK+KFDFLGKDSIQYVNTVEVE  VYKAIGQFQ
Sbjct: 642 GNEKDDDEADTVGCCTLKVGNVECIPPNKIKFDFLGKDSIQYVNTVEVEPLVYKAIGQFQ 701

Query: 734 TGKKQNDDLFDKLDTAKLNAHLKELMPGLTAKVFRTYNASITLDGMLNKGTGDGDVAVKI 793
            GK + DDLFD+LDT+KLNAHLKEL+PGLTAKVFRTYNASITLD ML++ T DGDV  KI
Sbjct: 702 AGKSKTDDLFDELDTSKLNAHLKELVPGLTAKVFRTYNASITLDEMLSQETKDGDVTQKI 761

Query: 794 DVYQRANKEVAIICNHQRTVSKTHSAQMSRLTEKIEDLKGVLKDLRVDLDRAKKGKPPLM 853
            VYQ+ANKEVAIICNHQRTVSKTH AQ+ +LT +IE+LK VLK+L+ +LDRAKKGKPPL 
Sbjct: 762 VVYQKANKEVAIICNHQRTVSKTHGAQIEKLTARIEELKEVLKELKTNLDRAKKGKPPL- 820

Query: 854 KDSDGKRKRNLAPEA 868
           + SDGK+ R+L P A
Sbjct: 821 EGSDGKKIRSLEPNA 835
Releases the supercoiling and torsional tension of DNA introduced during the DNA replication and transcription by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(3'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 5'-OH DNA strand. The free DNA strand than undergoes passage around the unbroken strand thus removing DNA supercoils. Finally, in the religation step, the DNA 5'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone.
Arabidopsis thaliana (taxid: 3702)
EC: 5EC: .EC: 9EC: 9EC: .EC: 1EC: .EC: 2
>sp|P93119|TOP1_DAUCA DNA topoisomerase 1 OS=Daucus carota GN=TOP1 PE=2 SV=1 Back     alignment and function description
>sp|P07799|TOP1_SCHPO DNA topoisomerase 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=top1 PE=1 SV=2 Back     alignment and function description
>sp|Q54RC3|TOP1_DICDI DNA topoisomerase 1 OS=Dictyostelium discoideum GN=top1 PE=3 SV=1 Back     alignment and function description
>sp|P04786|TOP1_YEAST DNA topoisomerase 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TOP1 PE=1 SV=2 Back     alignment and function description
>sp|Q969P6|TOP1M_HUMAN DNA topoisomerase I, mitochondrial OS=Homo sapiens GN=TOP1MT PE=2 SV=1 Back     alignment and function description
>sp|P30189|TOP1_DROME DNA topoisomerase 1 OS=Drosophila melanogaster GN=Top1 PE=1 SV=1 Back     alignment and function description
>sp|A9Q1D5|TOP1M_PANTR DNA topoisomerase I, mitochondrial OS=Pan troglodytes GN=TOP1MT PE=2 SV=1 Back     alignment and function description
>sp|P11387|TOP1_HUMAN DNA topoisomerase 1 OS=Homo sapiens GN=TOP1 PE=1 SV=2 Back     alignment and function description
>sp|Q7YR26|TOP1_CHLAE DNA topoisomerase 1 OS=Chlorocebus aethiops GN=TOP1 PE=2 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 ?
Query868
255576254891 DNA topoisomerase type I, putative [Rici 0.910 0.886 0.702 0.0
224061073877 predicted protein [Populus trichocarpa] 0.890 0.881 0.701 0.0
187369231894 topoisomerase I [Camptotheca acuminata] 0.913 0.887 0.663 0.0
224116648860 predicted protein [Populus trichocarpa] 0.895 0.903 0.677 0.0
449463731889 PREDICTED: DNA topoisomerase 1-like [Cuc 0.913 0.892 0.647 0.0
187369229927 topoisomerase I [Ophiorrhiza japonica] 0.920 0.861 0.615 0.0
187369225926 topoisomerase I [Ophiorrhiza pumila] 0.926 0.868 0.611 0.0
334683313920 topoisomerase I [Ophiorrhiza pedunculata 0.921 0.869 0.622 0.0
334683315920 topoisomerase I [Ophiorrhiza plumbea] 0.926 0.873 0.611 0.0
334683321920 topoisomerase I [Ophiorrhiza trichocarpo 0.921 0.869 0.621 0.0
>gi|255576254|ref|XP_002529020.1| DNA topoisomerase type I, putative [Ricinus communis] gi|223531500|gb|EEF33331.1| DNA topoisomerase type I, putative [Ricinus communis] Back     alignment and taxonomy information
 Score = 1067 bits (2759), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 592/843 (70%), Positives = 665/843 (78%), Gaps = 53/843 (6%)

Query: 45  MAVEASSKPSRVYDFDDDEDGPAVFKR-NTAASRQNLANPEVKRP--SSSTANGQNSNAP 101
           MA  A++KP+     +DD+D P VFKR N + ++QN +NPEVK+P  SS  +NGQ+SNA 
Sbjct: 3   MAAPATAKPNIYEYDEDDDDMPLVFKRGNNSTTKQNQSNPEVKKPLLSSQNSNGQSSNAQ 62

Query: 102 KDKTTVSSSKVLPVKSPPPSQKATTSSAKASPSKSPMRSPVKSPVRSPVKSPVANSKESS 161
           K K+TV S K  PVKSP  S KA+TSSAKASP                ++SPVANSK SS
Sbjct: 63  KGKSTVPSLKASPVKSPIGSPKASTSSAKASP----------------LRSPVANSKGSS 106

Query: 162 PLDDRLKQSPQHNALAVVK-----KEEIKDGNGLKS---------DDNDSEDDKPLSARL 207
            LD++LKQ+ + NA  VVK     K EI    GLKS         DD DSEDD PLSAR 
Sbjct: 107 SLDEQLKQASKQNASNVVKDVSSAKPEI----GLKSVKHETKSNGDDEDSEDDLPLSARR 162

Query: 208 KGNSKNVNQGIGASKADAAISEVNVKTDPEDSDDE-VPLSSRFP-KSNAGTSGAKPIDSD 265
           KGN+ NV++ + A K          +   EDSDD+ VPL SRFP KS AGTSG KP +  
Sbjct: 163 KGNTNNVSKVVTAPK----------RVKDEDSDDDKVPLCSRFPMKSTAGTSGNKPNNIS 212

Query: 266 EKKPLASKVQQNGSTSRETQQKSSSVPVKRPLQKASSSGASSAKKPKVSDTSKEVKVKQV 325
           EKKPL SKVQQNGSTS++ QQK+  +P KRPL KA+SS  SS KKPK+S  S   KVKQ 
Sbjct: 213 EKKPLPSKVQQNGSTSKDKQQKAPLIPTKRPLDKANSSEQSSIKKPKLSAGSTITKVKQA 272

Query: 326 TVKVEKKADDDDHIPISQRMKNSAPSVKKSVTNTAKATKSVSSSSNKINKKTKKVIKNSQ 385
           TVK E+  DD D IPI+QR K+   S  K  +   KA K VSSS  K  KK KK +KN++
Sbjct: 273 TVKAEE--DDPDDIPIAQRKKSLGSSESKLSSAKQKAIKVVSSSFKKPIKKNKKQMKNTK 330

Query: 386 YSKSTKMLPGSGDGQKKWTTLVHNGVIFPPPYLPHGVKMLYKGKEVNLTPEQEEVATMFA 445
           YSKSTK+ P S DGQKKWTTL+HNGVIFPPPY PHG+K+LYKG+ V+L PEQEEVATMFA
Sbjct: 331 YSKSTKVQPSSTDGQKKWTTLIHNGVIFPPPYKPHGIKILYKGRPVDLAPEQEEVATMFA 390

Query: 446 VMLDTDYMQKPKFRENFWNDWRKLLGKNHVIQNLEGCDFKPIYDWHQEQKEKKKQMSSEE 505
           VM DTDYMQKPKF ENFWNDWRKLLG+NHVIQ LE CDF PIY+WH+ +KEKKKQMS+EE
Sbjct: 391 VMKDTDYMQKPKFLENFWNDWRKLLGRNHVIQKLEDCDFTPIYEWHEREKEKKKQMSTEE 450

Query: 506 KKALKEEKNKQEEKYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKKRIQPSDIT 565
           KKA KEEK +QEEKYMWAIVDGVKEKVGNFRVEPP LFRGRGEHPKMGKLKKRIQPSDIT
Sbjct: 451 KKAQKEEKLRQEEKYMWAIVDGVKEKVGNFRVEPPALFRGRGEHPKMGKLKKRIQPSDIT 510

Query: 566 INIGKDVPIPECPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFLAASSSLKGQSDR 625
           INIGKD PIPECPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFLAASSSLKGQSD+
Sbjct: 511 INIGKDAPIPECPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFLAASSSLKGQSDK 570

Query: 626 EKYEKARKLKDYIHSIRAAYTKDFVSRDGTRRQIAVATYLIDKLALRAGNEKDDDEADTV 685
           EKYEKARKLKDYIH+IRAAY KD  S+D T++QIAVATYLIDKLALRAGNEKDDDEADTV
Sbjct: 571 EKYEKARKLKDYIHNIRAAYQKDLRSKDITKKQIAVATYLIDKLALRAGNEKDDDEADTV 630

Query: 686 GCCTLKVGNVECIPPN-KLKFDFLGKDSIQYVNTVEVELPVYKAIGQFQTGKKQNDDLFD 744
           GCCTLKV NVECIP +  LKFDFLGKDSI+Y NTVEV+  VY+AIG FQ GKKQ DDLFD
Sbjct: 631 GCCTLKVANVECIPGSFNLKFDFLGKDSIRYENTVEVKPEVYEAIGTFQKGKKQTDDLFD 690

Query: 745 KLDTAKLNAHLKELMPGLTAKVFRTYNASITLDGMLNKGTGDGDVAVKIDVYQRANKEVA 804
           KLDT KLNAHLKELMPGLTAKVFRTYNASITLD  L + T DGDVA K+ +YQRANKEVA
Sbjct: 691 KLDTTKLNAHLKELMPGLTAKVFRTYNASITLDEKLYEETEDGDVAEKVVIYQRANKEVA 750

Query: 805 IICNHQRTVSKTHSAQMSRLTEKIEDLKGVLKDLRVDLDRAKKGKPPLMKDSDGKRKRNL 864
           IICNHQRT+SK+H AQMS+L EKIE+LK  LK+L+ DLDRAKKGKPPL KD+DGK+KRNL
Sbjct: 751 IICNHQRTISKSHGAQMSKLIEKIEELKATLKELKTDLDRAKKGKPPL-KDADGKQKRNL 809

Query: 865 APE 867
           +PE
Sbjct: 810 SPE 812

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224061073|ref|XP_002300344.1| predicted protein [Populus trichocarpa] gi|222847602|gb|EEE85149.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|187369231|dbj|BAG31376.1| topoisomerase I [Camptotheca acuminata] Back     alignment and taxonomy information
>gi|224116648|ref|XP_002317355.1| predicted protein [Populus trichocarpa] gi|222860420|gb|EEE97967.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449463731|ref|XP_004149585.1| PREDICTED: DNA topoisomerase 1-like [Cucumis sativus] gi|449503189|ref|XP_004161878.1| PREDICTED: DNA topoisomerase 1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|187369229|dbj|BAG31375.1| topoisomerase I [Ophiorrhiza japonica] Back     alignment and taxonomy information
>gi|187369225|dbj|BAG31373.1| topoisomerase I [Ophiorrhiza pumila] Back     alignment and taxonomy information
>gi|334683313|dbj|BAK32958.1| topoisomerase I [Ophiorrhiza pedunculata] Back     alignment and taxonomy information
>gi|334683315|dbj|BAK32959.1| topoisomerase I [Ophiorrhiza plumbea] Back     alignment and taxonomy information
>gi|334683321|dbj|BAK32962.1| topoisomerase I [Ophiorrhiza trichocarpon var. glabra] 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 ?
Query868
TAIR|locus:2173862917 TOP1BETA "DNA topoisomerase 1 0.935 0.885 0.525 2.3e-213
UNIPROTKB|Q84ZL5916 OJ1066_B03.125 "Os08g0154600 p 0.716 0.679 0.604 1.4e-212
UNIPROTKB|A8IDM1586 TOP1 "DNA topoisomerase I" [Ch 0.533 0.790 0.559 3.1e-138
POMBASE|SPBC1703.14c 814 top1 "DNA topoisomerase I" [Sc 0.528 0.563 0.513 5.1e-128
DICTYBASE|DDB_G0283205 893 top1 "DNA topoisomerase I" [Di 0.521 0.507 0.491 8.4e-121
ASPGD|ASPL0000055668 871 top1 [Emericella nidulans (tax 0.532 0.530 0.487 4.7e-118
UNIPROTKB|Q5BGS7 871 AN0253.2 "Topoisomerase I [Sou 0.532 0.530 0.487 4.7e-118
CGD|CAL0000708 780 TOP1 [Candida albicans (taxid: 0.536 0.597 0.465 7.3e-115
UNIPROTKB|Q59XR0 780 TOP1 "Likely DNA topoisomerase 0.536 0.597 0.465 7.3e-115
FB|FBgn0004924972 Top1 "Topoisomerase 1" [Drosop 0.517 0.461 0.474 8.2e-114
TAIR|locus:2173862 TOP1BETA "DNA topoisomerase 1 beta" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 2062 (730.9 bits), Expect = 2.3e-213, P = 2.3e-213
 Identities = 444/845 (52%), Positives = 536/845 (63%)

Query:    45 MAVEASSKP-----SRVYDFDDDEDGPAVFKRNT-AASRQNLANPEVKRPSSSTANGQNS 98
             MA EA  KP        Y+ +D++D P VFKRN+  A+  N  +P +     ++A G   
Sbjct:     1 MATEAFVKPVVPNGHDGYEDEDEDDIPLVFKRNSNTAATTNRPSP-INNAMRNSAIGSTK 59

Query:    99 NAPKDXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXMRSPVKSPVRSPV-------- 150
             ++P                                    ++SP++   RS V        
Sbjct:    60 SSPPMRSPLTSPNRSASSSTRSSMMKPALPSSSSVQRSTLKSPLRDD-RSVVAKERNGFG 118

Query:   151 KSP-VANSKESSPLDDRLKQSPQHNALAVVKKEEIKDGNGLKSDDNDSEDDKPLSARLKG 209
             K+P V+ S +    DD+    P    L +  KE  K  +            K  + R +G
Sbjct:   119 KAPSVSKSDDEDSEDDK----PLSARLKLDSKEVTKQPSSSGRGSTQQAVQKS-NMRPQG 173

Query:   210 NSKNVNQGIGASKADAAISEVNVKTDPEDSDDE-VPLSSRFPK-SNAGTSGAKP-IDSDE 266
              S    + +   +A  + S V  KT    S  + V +  + P  +N   +G KP  +   
Sbjct:   174 LSDYTKKKVLDERAPMS-STVQTKTSVGTSSSKPVHIEQKRPLVNNIDRNGLKPKTEGHS 232

Query:   267 KKPLASKVQQNGSTSRETQQKSS--SVPVKRPLQXXXXXXXXXXXXXXXXDTSXXX-XXX 323
              +  A +  + GS+S ++  K    S P  RP++                +         
Sbjct:   233 SQAPAKRPLEKGSSSNQSSVKRPKLSEPA-RPVKVEQGSHISATQDAKGKNLDASKPLRA 291

Query:   324 XXXXXXXXXADDDDHIPISQRMKNSAPSVKKSVXXXXXXXXXXXXXXXXXXXXXXXXXXX 383
                      +D DDH+PI+ RMK+ + S  KS                            
Sbjct:   292 NQATVKEDNSDGDDHVPIASRMKSDS-SNNKSSSAKPSSSKMIASSSRTIAQKPNKWVKD 350

Query:   384 XQYSKSTKMLPGSGDGQKKWTTLVHNGVIFPPPYLPHGVKMLYKGKEVNLTPEQEEVATM 443
              +YSKS+K LP SGDGQKKW TL HNGVIFPPPY  HGVK+L++GK V+LTPEQEEVATM
Sbjct:   351 SKYSKSSKSLP-SGDGQKKWKTLQHNGVIFPPPYKRHGVKILFQGKPVDLTPEQEEVATM 409

Query:   444 FAVMLDTDYMQKPKFRENFWNDWRKLLGKNHVIQNLEGCDFKPIYDWHXXXXXXXXXXXX 503
             FAVM +T+Y +KPKFRENFWNDWRKLLGKNH+I++L+ CDF PIY+W+            
Sbjct:   410 FAVMRETEYYKKPKFRENFWNDWRKLLGKNHMIKSLDDCDFTPIYEWYMQEKETKKQMTA 469

Query:   504 XXXXXXXXXXXXXXXXYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKKRIQPSD 563
                             YMWA++DGV+E++GNFRVEPPGLFRGRGEHPKMGKLKKRI+P D
Sbjct:   470 EEKRIVKEEKLKQEEKYMWAVLDGVRERIGNFRVEPPGLFRGRGEHPKMGKLKKRIRPCD 529

Query:   564 ITINIGKDVPIPECPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFLAASSSLKGQS 623
             ITINIGK+ PIPECPIPGE WKEVKHDNTVTWLAFW+DPINPKEFKYVFLAASSSLKGQS
Sbjct:   530 ITINIGKEAPIPECPIPGERWKEVKHDNTVTWLAFWSDPINPKEFKYVFLAASSSLKGQS 589

Query:   624 DREKYEKARKLKDYIHSIRAAYTKDFVSRDGTRRQIAVATYLIDKLALRAGNEKDDDEAD 683
             D+EKYEKARKL ++I SIRAAYTKDF ++D T+RQIAVATYLIDKLALRAGNEKDDDEAD
Sbjct:   590 DKEKYEKARKLHNHIGSIRAAYTKDFNNKDVTKRQIAVATYLIDKLALRAGNEKDDDEAD 649

Query:   684 TVGCCTLKVGNVECIPPNKLKFDFLGKDSIQYVNTVEVELPVYKAIGQFQTGKKQNDDLF 743
             TVGCCTLKVGNVECIPPNKLKFDFLGKDSIQYVNTVEVE  VYKAIGQFQ GK + DDLF
Sbjct:   650 TVGCCTLKVGNVECIPPNKLKFDFLGKDSIQYVNTVEVEPLVYKAIGQFQAGKSKTDDLF 709

Query:   744 DKLDTAKLNAHLKELMPGLTAKVFRTYNASITLDGMLNKGTGDGDVAVKIDVYQRANKEV 803
             D+LDT+KLN HLKELM GLTAKVFRTYNASITLD ML+K T DGDV  K+ VYQ+ANKEV
Sbjct:   710 DELDTSKLNTHLKELMAGLTAKVFRTYNASITLDLMLSKETRDGDVPEKVVVYQQANKEV 769

Query:   804 AIICNHQRTVSKTHSAQMSRLTEKIEDLKGVLKDLRVDLDRAKKGKPPLMKDSDGKRKRN 863
             AIICNHQRTVSK+H AQ+ +L  KIE+L+  +K+L +DLDRAKKG+ PLM  SDGKRKRN
Sbjct:   770 AIICNHQRTVSKSHGAQVEKLAVKIEELREQIKELNIDLDRAKKGRTPLM-GSDGKRKRN 828

Query:   864 LAPEA 868
             L PEA
Sbjct:   829 LTPEA 833
GO:0003677 "DNA binding" evidence=IEA
GO:0003917 "DNA topoisomerase type I activity" evidence=IEA;ISS;IBA
GO:0003918 "DNA topoisomerase type II (ATP-hydrolyzing) activity" evidence=IEA
GO:0005634 "nucleus" evidence=ISM
GO:0005694 "chromosome" evidence=IEA
GO:0006265 "DNA topological change" evidence=IEA;IC;IBA
GO:0031490 "chromatin DNA binding" evidence=IBA
GO:0016020 "membrane" evidence=IDA
GO:0001676 "long-chain fatty acid metabolic process" evidence=RCA
GO:0002213 "defense response to insect" evidence=RCA
GO:0006633 "fatty acid biosynthetic process" evidence=RCA
UNIPROTKB|Q84ZL5 OJ1066_B03.125 "Os08g0154600 protein" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
UNIPROTKB|A8IDM1 TOP1 "DNA topoisomerase I" [Chlamydomonas reinhardtii (taxid:3055)] Back     alignment and assigned GO terms
POMBASE|SPBC1703.14c top1 "DNA topoisomerase I" [Schizosaccharomyces pombe (taxid:4896)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0283205 top1 "DNA topoisomerase I" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
ASPGD|ASPL0000055668 top1 [Emericella nidulans (taxid:162425)] Back     alignment and assigned GO terms
UNIPROTKB|Q5BGS7 AN0253.2 "Topoisomerase I [Source:UniProtKB/TrEMBL;Acc:Q875K2]" [Aspergillus nidulans FGSC A4 (taxid:227321)] Back     alignment and assigned GO terms
CGD|CAL0000708 TOP1 [Candida albicans (taxid:5476)] Back     alignment and assigned GO terms
UNIPROTKB|Q59XR0 TOP1 "Likely DNA topoisomerase I" [Candida albicans SC5314 (taxid:237561)] Back     alignment and assigned GO terms
FB|FBgn0004924 Top1 "Topoisomerase 1" [Drosophila melanogaster (taxid:7227)] 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 Layer5.99.1.20.946
3rd Layer5.99.10.963

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

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 ?
Query868
smart00435391 smart00435, TOPEUc, DNA Topoisomerase I (eukaryota 1e-180
pfam02919215 pfam02919, Topoisom_I_N, Eukaryotic DNA topoisomer 1e-139
cd03489212 cd03489, Topoisomer_IB_N_LdtopoI_like, Topoisomer_ 1e-133
cd00660215 cd00660, Topoisomer_IB_N, Topoisomer_IB_N: N-termi 1e-130
cd03488215 cd03488, Topoisomer_IB_N_htopoI_like, Topoisomer_I 1e-111
pfam01028243 pfam01028, Topoisom_I, Eukaryotic DNA topoisomeras 1e-76
cd00659218 cd00659, Topo_IB_C, DNA topoisomerase IB, C-termin 5e-73
cd03490217 cd03490, Topoisomer_IB_N_1, Topoisomer_IB_N_1: A s 9e-73
COG3569354 COG3569, COG3569, Topoisomerase IB [DNA replicatio 6e-55
pfam06070777 pfam06070, Herpes_UL32, Herpesvirus large structur 1e-04
PHA03101314 PHA03101, PHA03101, DNA topoisomerase type I; Prov 0.001
pfam051101154 pfam05110, AF-4, AF-4 proto-oncoprotein 0.004
>gnl|CDD|214661 smart00435, TOPEUc, DNA Topoisomerase I (eukaryota) Back     alignment and domain information 
 Score =  523 bits (1350), Expect = e-180
 Identities = 210/330 (63%), Positives = 239/330 (72%), Gaps = 7/330 (2%)

Query: 542 LFRGRGEHPKMGKLKKRIQPSDITINIGKDVPIPECPIPGESWKEVKHDNTVTWLAFWND 601
           LFRGRGEHPK GKLK+RI P DITINIGKD P+PE P PG  WKEV+HDNTVTWLA W +
Sbjct: 1   LFRGRGEHPKTGKLKRRIMPEDITINIGKDAPVPE-PPPGHKWKEVRHDNTVTWLASWKE 59

Query: 602 PINPKEFKYVFLAASSSLKGQSDREKYEKARKLKDYIHSIRAAYTKDFVSRDGTRRQIAV 661
            IN    KYVFLAASSSLKGQSDR+KYEKARKLK +I  IR  YTKD  S++   RQ A 
Sbjct: 60  NINGS-IKYVFLAASSSLKGQSDRKKYEKARKLKKHIDKIRKDYTKDLKSKEMKVRQRAT 118

Query: 662 ATYLIDKLALRAGNEKDDDEADTVGCCTLKVGNVECIPPNKLKFDFLGKDSIQYVNTVEV 721
           A YLIDKLALRAGNEK +DEADTVGCC+L+V +V   PPNK+ FDFLGKDSI+Y N VEV
Sbjct: 119 ALYLIDKLALRAGNEKGEDEADTVGCCSLRVEHVTLKPPNKVIFDFLGKDSIRYYNEVEV 178

Query: 722 ELPVYKAIGQFQTGKKQNDDLFDKLDTAKLNAHLKELMPGLTAKVFRTYNASITLDGMLN 781
           +  V+K +  F   KK  DDLFD+L+T+KLN HLKELMPGLTAKVFRTYNASITL   L 
Sbjct: 179 DKQVFKNLKIFMKPKKPGDDLFDRLNTSKLNKHLKELMPGLTAKVFRTYNASITLQEQLK 238

Query: 782 KGTG-DGDVAVKIDVYQRANKEVAIICNHQRTVSKTHSAQMSRLTEKIEDLKGVLKDLRV 840
           + T  DG+VA KI  Y RAN+EVAI+CNHQRTVSKTH   M +L EKI+ LK  LK L+ 
Sbjct: 239 ELTAKDGNVAEKILAYNRANREVAILCNHQRTVSKTHEKSMEKLQEKIKALKYQLKRLKK 298

Query: 841 DLD---RAKKGKPPLMKDSDGKRKRNLAPE 867
            +         K  L K    +    L  E
Sbjct: 299 MILLFEMISDLKRKL-KSKFERDNEKLDAE 327

DNA Topoisomerase I (eukaryota), DNA topoisomerase V, Vaccina virus topoisomerase, Variola virus topoisomerase, Shope fibroma virus topoisomeras. Length = 391
>gnl|CDD|217286 pfam02919, Topoisom_I_N, Eukaryotic DNA topoisomerase I, DNA binding fragment Back     alignment and domain information
>gnl|CDD|239571 cd03489, Topoisomer_IB_N_LdtopoI_like, Topoisomer_IB_N_LdtopoI_like: N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the heterodimeric topo I from Leishmania donvanni Back     alignment and domain information
>gnl|CDD|238356 cd00660, Topoisomer_IB_N, Topoisomer_IB_N: N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the monomeric yeast and human topo I and heterodimeric topo I from Leishmania donvanni Back     alignment and domain information
>gnl|CDD|239570 cd03488, Topoisomer_IB_N_htopoI_like, Topoisomer_IB_N_htopoI_like : N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the monomeric yeast and human topo I Back     alignment and domain information
>gnl|CDD|216252 pfam01028, Topoisom_I, Eukaryotic DNA topoisomerase I, catalytic core Back     alignment and domain information
>gnl|CDD|238355 cd00659, Topo_IB_C, DNA topoisomerase IB, C-terminal catalytic domain Back     alignment and domain information
>gnl|CDD|239572 cd03490, Topoisomer_IB_N_1, Topoisomer_IB_N_1: A subgroup of the N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB Back     alignment and domain information
>gnl|CDD|226099 COG3569, COG3569, Topoisomerase IB [DNA replication, recombination, and repair] Back     alignment and domain information
>gnl|CDD|218881 pfam06070, Herpes_UL32, Herpesvirus large structural phosphoprotein UL32 Back     alignment and domain information
>gnl|CDD|222985 PHA03101, PHA03101, DNA topoisomerase type I; Provisional Back     alignment and domain information
>gnl|CDD|218440 pfam05110, AF-4, AF-4 proto-oncoprotein Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 868
KOG0981759 consensus DNA topoisomerase I [Replication, recomb 100.0
smart00435391 TOPEUc DNA Topoisomerase I (eukaryota). DNA Topois 100.0
cd03489212 Topoisomer_IB_N_LdtopoI_like Topoisomer_IB_N_Ldtop 100.0
cd03490217 Topoisomer_IB_N_1 Topoisomer_IB_N_1: A subgroup of 100.0
cd00660215 Topoisomer_IB_N Topoisomer_IB_N: N-terminal DNA bi 100.0
cd03488215 Topoisomer_IB_N_htopoI_like Topoisomer_IB_N_htopoI 100.0
PF02919215 Topoisom_I_N: Eukaryotic DNA topoisomerase I, DNA 100.0
PHA03101314 DNA topoisomerase type I; Provisional 100.0
PF01028234 Topoisom_I: Eukaryotic DNA topoisomerase I, cataly 100.0
cd00659218 Topo_IB_C DNA topoisomerase IB, C-terminal catalyt 100.0
COG3569354 Topoisomerase IB [DNA replication, recombination, 100.0
COG3569354 Topoisomerase IB [DNA replication, recombination, 100.0
cd00397164 DNA_BRE_C DNA breaking-rejoining enzymes, C-termin 96.44
PF00589173 Phage_integrase: Phage integrase family; InterPro: 95.32
cd01193242 INT_IntI IntI (E2) integrases, site-specific tyros 94.77
PRK02436245 xerD site-specific tyrosine recombinase XerD-like 94.75
TIGR02224295 recomb_XerC tyrosine recombinase XerC. The phage i 94.74
cd01187299 INT_SG4 INT_SG4, DNA breaking-rejoining enzymes, i 94.46
cd01188188 INT_pAE1 pAE1 and related integrases, DNA breaking 94.43
cd00801357 INT_P4 Bacteriophage P4 integrase. P4-like integra 94.39
cd01182162 INT_REC_C DNA breaking-rejoining enzymes, intergra 93.54
cd01192177 INT_P22_C P22-like integrases, site-specific recom 93.53
cd01186180 INT_SG3_C INT_SG3, DNA breaking-rejoining enzymes, 92.94
cd01194186 INT_Tn554A_C Tn544A and related transposases, DNA 92.92
PRK00283299 xerD site-specific tyrosine recombinase XerD; Revi 92.9
PRK01287358 xerC site-specific tyrosine recombinase XerC; Revi 92.84
cd01190260 INT_SG5 INT_SG5, DNA breaking-rejoining enzymes, i 92.58
cd01189191 INT_phiLC3_C phiLC3 phage and phage-related integr 91.93
PRK09692413 integrase; Provisional 91.74
TIGR02225291 recomb_XerD tyrosine recombinase XerD. The phage i 91.62
cd00799287 INT_Cre Cre recombinase, C-terminal catalytic doma 90.91
PRK00236297 xerC site-specific tyrosine recombinase XerC; Revi 90.84
cd01185299 INT_Tn4399 Tn4399 and related integrases, DNA brea 90.8
cd00800162 INT_Lambda_C Lambda integrase, C-terminal catalyti 90.4
cd00796206 INT_Rci Rci recombinase, C-terminal catalytic doma 90.13
cd01199205 INT_Tn1545_C Tn1545-related conjugative transposon 90.08
cd01197180 INT_FimBE_C FimB and FimE and related proteins, DN 89.94
cd01183196 INT_SG1_C INT_SG1, DNA breaking-rejoining enzymes, 89.39
PRK05084357 xerS site-specific tyrosine recombinase XerS; Revi 89.3
PRK09870200 tyrosine recombinase; Provisional 89.29
cd00798284 INT_XerDC XerD and XerC integrases, DNA breaking-r 88.65
cd01184181 INT_SG2_C INT_SG2, DNA breaking-rejoining enzymes, 86.14
PHA03397363 vlf-1 very late expression factor 1; Provisional 85.76
PRK09871198 tyrosine recombinase; Provisional 84.8
TIGR02249315 integrase_gron integron integrase. Members of this 84.51
cd01195195 INT_Tn544B_C Tn544B and related transposases, DNA 81.41
>KOG0981 consensus DNA topoisomerase I [Replication, recombination and repair] Back     alignment and domain information 
Probab=100.00  E-value=1.6e-188  Score=1537.93  Aligned_cols=649  Identities=53%  Similarity=0.813  Sum_probs=557.1

Q ss_pred             CCCCcccccccccccccCcccccCCCcchhhhhcc----ccCCCCCCCCCCcccccccc-CCCCCCCCCCCCCCCCCCcc
Q 002904          196 DSEDDKPLSARLKGNSKNVNQGIGASKADAAISEV----NVKTDPEDSDDEVPLSSRFP-KSNAGTSGAKPIDSDEKKPL  270 (868)
Q Consensus       196 DSDDDkPLSsRlk~nSn~~nk~~~~~~~~~~~~~~----~~~~k~dDSDDekPLSSrf~-k~gsg~S~~~~~~~~~~~~~  270 (868)
                      ||+|+.|||..+..++.++..+. .....-.-..+    .-.....+||++.|+|+.+. +.-+ +|.......++.+|+
T Consensus         1 ~sed~~~~s~~~~~~~~~~~~~~-~~~~~~~~~~k~~~~se~~~~~~s~~~~p~s~~~~kk~~s-~s~~~~~~~ek~k~~   78 (759)
T KOG0981|consen    1 DSEDSNPLSNFNGNSTSSGVNSS-DQREKKVKDEKPESDSEVPKKSDSDDDKPESKTKKKKKES-GSDEDDLSIEKRKPS   78 (759)
T ss_pred             CcccccchhccccCCcccccccc-cchhhhhcccccchhcccccccccccccchHHHhhhcccc-cCCcccCchhhcccc
Confidence            68899999988733332222200 00000000000    01123488999999999999 4444 666777778888888


Q ss_pred             ccccccCCCCccccccCCCCCCcCCCCCCCCCCCCCCCCCCCCCCCcccchhceeeeeccccCC----------CCCCCc
Q 002904          271 ASKVQQNGSTSRETQQKSSSVPVKRPLQKASSSGASSAKKPKVSDTSKEVKVKQVTVKVEKKAD----------DDDHIP  340 (868)
Q Consensus       271 ~~~~~~~~~~~~~~~~~~~~~~~kr~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~k~~----------~d~~~p  340 (868)
                        +..++|.....+ ...+..+.+|++.+.+.+.+++.+....+++..+++.++.+.-.-.+.+          +|+|  
T Consensus        79 --~~~~~~~~~~s~-~~~~~~~~~r~~kk~~~~~~~~~~e~~~~~~~~~~~~k~~~~~~~~~d~~~~~~~~vk~e~sd--  153 (759)
T KOG0981|consen   79 --NDSDKGKDVKSD-KEDDKVPGKRKLKKNSKSKQSSSKEDDDSESEPSVKEKDVKPVKPKKDEKGKALKKVKEEDSD--  153 (759)
T ss_pred             --cccccccccccc-ccccccccccccccccccCcccccCCcccccCCCCchhhccccccccchhhhhhhhhhhcccc--
Confidence              777777766443 3567899999999999999999999999999999999988733322211          1111  


Q ss_pred             hhhhcccCCCCCCCcccccccccccccCcchhh-hhhhhhhhcccCcccccccCCCCCCcccccceeeeccccCCCCCC-
Q 002904          341 ISQRMKNSAPSVKKSVTNTAKATKSVSSSSNKI-NKKTKKVIKNSQYSKSTKMLPGSGDGQKKWTTLVHNGVIFPPPYL-  418 (868)
Q Consensus       341 ~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~-~~~~k~~~~~~~~~kww~~~~~~~~g~~kW~tLeHnGv~Fpp~Y~-  418 (868)
                        .+.++. .+..+..+.+..+.+..+++..-. +++.+..++++..|+||+.+. .++|+ ||+||+||||+|||||+ 
T Consensus       154 --k~~k~~-~~~~~~~s~k~~~sk~~~~~~~~~~~~~~~~k~e~e~~~kww~~e~-~d~~~-KW~tLeH~G~iFaPPYep  228 (759)
T KOG0981|consen  154 --KDKKSD-LSNVKTKSAKPSASKLPAGARTEPKKKKKKAKDEEEDKWKWWEEEK-GDDGV-KWTTLEHNGPIFAPPYEP  228 (759)
T ss_pred             --hhhhcc-ccccCccccCcccccCcccCcCCccccccccchhhhhhhhhccccc-CCCcc-ceeeeeecCcccCCCCcC
Confidence              111111 111111111111111111111111 233344455667799999644 56777 99999999999999999 


Q ss_pred             -CCcceEEEcCEeccCChhhHHHHHHHHHhcCCCCCchhhHHhhhHHHHHHHhC--cCCCcccCCCCCchHHHHHHHHHH
Q 002904          419 -PHGVKMLYKGKEVNLTPEQEEVATMFAVMLDTDYMQKPKFRENFWNDWRKLLG--KNHVIQNLEGCDFKPIYDWHQEQK  495 (868)
Q Consensus       419 -P~~V~~~YdGkpv~L~p~~EEvAtf~a~ml~t~y~~~~~F~~NFf~d~~~~l~--~~~~I~~~~kcDF~~i~~~~~~~k  495 (868)
                       |+||+|||||+||+|||+|||||||||+||+|+|+++++||+|||+|||++|+  +.++|++|++||||+||+||++++
T Consensus       229 lP~~Vk~~YdGkpv~L~~eaEEvAtfyA~mle~ey~tk~vF~~NFf~Dwrk~m~~~~~~~Ik~l~kCDFt~i~~yf~~~~  308 (759)
T KOG0981|consen  229 LPSGVKFYYDGKPVDLTPEAEEVATFYAAMLEHEYATKEVFRKNFFNDWRKVMTVEEREVIKDLSKCDFTPIFEYFKEQK  308 (759)
T ss_pred             CCCCceEEeCCccccCCHHHHHHHHHHHHHHhcchhccHHHHHHHHHHHHHHhhhhhhhhhccccccCCHHHHHHHHHHH
Confidence             69999999999999999999999999999999999999999999999999999  568999999999999999999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHHhhhcCeEEEcCceeeecccccCCCccccCCCCCCCCCccccccCCChhHHhccCCCCCC
Q 002904          496 EKKKQMSSEEKKALKEEKNKQEEKYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKKRIQPSDITINIGKDVPIP  575 (868)
Q Consensus       496 e~kk~~s~eEKk~~K~e~~~~~~~yg~~~vDg~~ekvgNfrvEpPGLfRGRGfhpk~GklK~RI~PdditInrik~l~IP  575 (868)
                      |+||+||+|||+++|+|+++++++||||+||||+|+||||||||||||||||.||+||+||+||+|+||||||+++++||
T Consensus       309 E~rK~mskEEK~~iKeEkek~ee~y~~cilDG~kEkigNFriEPPgLFRGRG~HPKmG~lKrRI~Pedi~iN~gkda~iP  388 (759)
T KOG0981|consen  309 EKRKQMSKEEKLKIKEEKEKLEEKYGWCILDGHKEKIGNFRIEPPGLFRGRGEHPKMGKLKRRIMPEDITINCGKDAPIP  388 (759)
T ss_pred             HHHhhcCHHHHHHHHHHHHHHHHHcCeEEecCcHhhhcccccCCCccccCCCCCCcccchhcccchhheEEecCCCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCCcceeecCCCCcEEEEeecCCCCceeeeeeccCCchhhcCccHHHHHHHHHHHHHHHHHHHHHHHhccCCCCC
Q 002904          576 ECPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFLAASSSLKGQSDREKYEKARKLKDYIHSIRAAYTKDFVSRDGT  655 (868)
Q Consensus       576 P~P~~GhaWkeV~hD~~vhwlAtw~D~igrkQyKYvyl~ahs~wk~~rD~~Kyerar~Lk~~Lp~IR~~y~kDLksk~~~  655 (868)
                      + |||||.|++|+|||+|||||+|+|+|++. ++||||+|+|+++|++|++|||+||+|+.+|+.||++|++||++++|+
T Consensus       389 ~-pppGhkWkEVrHDNTVTWLa~W~e~i~~~-~KYi~L~~~SslKGesD~~KyE~ARrLk~~Id~IR~~Y~~d~ksk~m~  466 (759)
T KOG0981|consen  389 E-PPPGHKWKEVRHDNTVTWLASWTENINGS-FKYIMLNPSSSLKGESDKEKYETARRLKKYIDKIRATYTKDFKSKEMK  466 (759)
T ss_pred             C-CCCCCcccccccCCeeeeeeecccccCCc-eeEEEecCcccccCchhHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHH
Confidence            9 89999999999999999999999999995 999999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHhcccccCCCCCccCCCceeeccCCCCceEEcCCCe-----EEEEeeCCCCeEEEEEEeeChHHHHHHH
Q 002904          656 RRQIAVATYLIDKLALRAGNEKDDDEADTVGCCTLKVGNVECIPPNK-----LKFDFLGKDSIQYVNTVEVELPVYKAIG  730 (868)
Q Consensus       656 ~RqlAvAlyLIDklALRvGNEKy~deadTvG~cTLR~eHV~l~~~~~-----V~FdFlGKdgir~~~tV~VD~~V~knLk  730 (868)
                      .||+||||||||+||||+|||+++++||||||||||++||+|+|++.     |.|||||||||||+|+|+|+++||+||.
T Consensus       467 ~RQravAlY~IDklALRAGnEKdedeADTVGCCsLrvehV~l~p~~~~~e~vv~FDFLGKDSIrYyN~VeVek~VyKnl~  546 (759)
T KOG0981|consen  467 VRQRAVALYFIDKLALRAGNEKDEDEADTVGCCSLRVEHVTLHPPNKGKEFVVEFDFLGKDSIRYYNEVEVEKRVYKNLK  546 (759)
T ss_pred             HHHHHHHHHHHHHHHHhccCcccccccccccceeeeeeeeEeeCccccccceEEeeccCccceeeeeeccccHHHHHHHH
Confidence            99999999999999999999999999999999999999999998754     5999999999999999999999999999


Q ss_pred             hhhcCCCCCCcccccCChhHHHHHHHhhCCCCcceeeccccchHHHHHHHhcCCC-CCCHHHHHHHHHHHHHHHHHHcCC
Q 002904          731 QFQTGKKQNDDLFDKLDTAKLNAHLKELMPGLTAKVFRTYNASITLDGMLNKGTG-DGDVAVKIDVYQRANKEVAIICNH  809 (868)
Q Consensus       731 ~f~k~K~PGd~LFd~L~ss~LN~yLkelM~glTAKdFRTynASvta~~~L~~~~~-~~s~~eK~~~yn~Anr~VAilCNH  809 (868)
                      .|++++.|||+|||+|+|+.||+||++||+|||||||||||||+|||++|..++. .+++++|++.||+|||+|||||||
T Consensus       547 ~F~~~K~~~ddLFDrLdt~~LN~hL~~lM~GLTAKVFRTYNASiTlqeqL~~lt~p~~~v~~KIl~YnrANr~VAIlCNH  626 (759)
T KOG0981|consen  547 IFMEGKKPGDDLFDRLDTSSLNKHLQELMDGLTAKVFRTYNASITLQEQLDKLTNPDGNVAAKILSYNRANRTVAILCNH  626 (759)
T ss_pred             HHhcCCCccchhhhhhchHHHHHHHHHHhccchhhhhhhcchhhHHHHHHHhccCCCccHHHHHHHHhhccceeeeeecc
Confidence            9999999999999999999999999999999999999999999999999999998 569999999999999999999999


Q ss_pred             CcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCcc
Q 002904          810 QRTVSKTHSAQMSRLTEKIEDLKGVLKDLRVDLDRAKKGKPPLMKDSDGK  859 (868)
Q Consensus       810 qR~V~K~~~~sm~kl~~ki~~lk~q~~~~~~~l~~~k~~~~~~~~~~~~~  859 (868)
                      ||+|+|+|+.||++|+++|+++++||.+++.+|..++++.++. .+++++
T Consensus       627 QR~v~K~h~~smekl~~kI~~~keql~e~~~~l~~ak~~~~~~-~~~~~~  675 (759)
T KOG0981|consen  627 QRAVSKTHEKSMEKLAEKIKAKKEQLKEAEAELKSAKADEKKQ-EGSKEK  675 (759)
T ss_pred             cccCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccc-cccccc
Confidence            9999999999999999999999999999999999999999888 555554

>smart00435 TOPEUc DNA Topoisomerase I (eukaryota) Back     alignment and domain information
>cd03489 Topoisomer_IB_N_LdtopoI_like Topoisomer_IB_N_LdtopoI_like: N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the heterodimeric topo I from Leishmania donvanni Back     alignment and domain information
>cd03490 Topoisomer_IB_N_1 Topoisomer_IB_N_1: A subgroup of the N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB Back     alignment and domain information
>cd00660 Topoisomer_IB_N Topoisomer_IB_N: N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the monomeric yeast and human topo I and heterodimeric topo I from Leishmania donvanni Back     alignment and domain information
>cd03488 Topoisomer_IB_N_htopoI_like Topoisomer_IB_N_htopoI_like : N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the monomeric yeast and human topo I Back     alignment and domain information
>PF02919 Topoisom_I_N: Eukaryotic DNA topoisomerase I, DNA binding fragment; InterPro: IPR008336 DNA topoisomerases regulate the number of topological links between two DNA strands (i Back     alignment and domain information
>PHA03101 DNA topoisomerase type I; Provisional Back     alignment and domain information
>PF01028 Topoisom_I: Eukaryotic DNA topoisomerase I, catalytic core; InterPro: IPR013500 DNA topoisomerases regulate the number of topological links between two DNA strands (i Back     alignment and domain information
>cd00659 Topo_IB_C DNA topoisomerase IB, C-terminal catalytic domain Back     alignment and domain information
>COG3569 Topoisomerase IB [DNA replication, recombination, and repair] Back     alignment and domain information
>COG3569 Topoisomerase IB [DNA replication, recombination, and repair] Back     alignment and domain information
>cd00397 DNA_BRE_C DNA breaking-rejoining enzymes, C-terminal catalytic domain Back     alignment and domain information
>PF00589 Phage_integrase: Phage integrase family; InterPro: IPR002104 Phage integrase proteins cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment [, ] Back     alignment and domain information
>cd01193 INT_IntI IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains Back     alignment and domain information
>PRK02436 xerD site-specific tyrosine recombinase XerD-like protein; Reviewed Back     alignment and domain information
>TIGR02224 recomb_XerC tyrosine recombinase XerC Back     alignment and domain information
>cd01187 INT_SG4 INT_SG4, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 4, N- and C-terminal domains Back     alignment and domain information
>cd01188 INT_pAE1 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain Back     alignment and domain information
>cd00801 INT_P4 Bacteriophage P4 integrase Back     alignment and domain information
>cd01182 INT_REC_C DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain Back     alignment and domain information
>cd01192 INT_P22_C P22-like integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain Back     alignment and domain information
>cd01186 INT_SG3_C INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain Back     alignment and domain information
>cd01194 INT_Tn554A_C Tn544A and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal catalytic domain Back     alignment and domain information
>PRK00283 xerD site-specific tyrosine recombinase XerD; Reviewed Back     alignment and domain information
>PRK01287 xerC site-specific tyrosine recombinase XerC; Reviewed Back     alignment and domain information
>cd01190 INT_SG5 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains Back     alignment and domain information
>cd01189 INT_phiLC3_C phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain Back     alignment and domain information
>PRK09692 integrase; Provisional Back     alignment and domain information
>TIGR02225 recomb_XerD tyrosine recombinase XerD Back     alignment and domain information
>cd00799 INT_Cre Cre recombinase, C-terminal catalytic domain Back     alignment and domain information
>PRK00236 xerC site-specific tyrosine recombinase XerC; Reviewed Back     alignment and domain information
>cd01185 INT_Tn4399 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains Back     alignment and domain information
>cd00800 INT_Lambda_C Lambda integrase, C-terminal catalytic domain Back     alignment and domain information
>cd00796 INT_Rci Rci recombinase, C-terminal catalytic domain Back     alignment and domain information
>cd01199 INT_Tn1545_C Tn1545-related conjugative transposon integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain Back     alignment and domain information
>cd01197 INT_FimBE_C FimB and FimE and related proteins, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain Back     alignment and domain information
>cd01183 INT_SG1_C INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain Back     alignment and domain information
>PRK05084 xerS site-specific tyrosine recombinase XerS; Reviewed Back     alignment and domain information
>PRK09870 tyrosine recombinase; Provisional Back     alignment and domain information
>cd00798 INT_XerDC XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains Back     alignment and domain information
>cd01184 INT_SG2_C INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain Back     alignment and domain information
>PHA03397 vlf-1 very late expression factor 1; Provisional Back     alignment and domain information
>PRK09871 tyrosine recombinase; Provisional Back     alignment and domain information
>TIGR02249 integrase_gron integron integrase Back     alignment and domain information
>cd01195 INT_Tn544B_C Tn544B and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain 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 ?
Query868
2b9s_A432 Crystal Structure Of Heterodimeric L. Donovani Topo 1e-123
1seu_A592 Human Dna Topoisomerase I (70 Kda) In Complex With 1e-114
1k4s_A592 Human Dna Topoisomerase I In Covalent Complex With 1e-114
1a31_A591 Human Reconstituted Dna Topoisomerase I In Covalent 1e-114
1rrj_A565 Structural Mechanisms Of Camptothecin Resistance By 1e-114
1a35_A591 Human Topoisomerase IDNA COMPLEX Length = 591 1e-114
1nh3_A563 Human Topoisomerase I Ara-C Complex Length = 563 1e-114
1lpq_A564 Human Dna Topoisomerase I (70 Kda) In Non-Covalent 1e-114
1r49_A592 Human Topoisomerase I (Topo70) Double Mutant K532rY 1e-114
1ej9_A563 Crystal Structure Of Human Topoisomerase I Dna Comp 1e-113
1rr8_C565 Structural Mechanisms Of Camptothecin Resistance By 1e-112
1ois_A223 Yeast Dna Topoisomerase I, N-Terminal Fragment Leng 4e-49
2h7f_X314 Structure Of Variola Topoisomerase Covalently Bound 4e-06
2h7g_X314 Structure Of Variola Topoisomerase Non-Covalently B 4e-06
1a41_A234 Type 1-Topoisomerase Catalytic Fragment From Vaccin 3e-05
>pdb|2B9S|A Chain A, Crystal Structure Of Heterodimeric L. Donovani Topoisomerase I-Vanadate-Dna Complex Length = 432 Back     alignment and structure 
Iteration: 1

 Score =  439 bits (1128), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 218/417 (52%), Positives = 275/417 (65%), Gaps = 5/417 (1%)
Query: 399 GQKKWTTLVHNGVIFPPPYLPHGVKMLYKGKEVNLTPEQEEVATMFAVMLDTDYMQKPKF 458
           G+++W TL HNGV+FPP Y PHG+ + Y G+E  +TPE+EEVATMFAVM + DY +   F
Sbjct: 18  GERRWETLAHNGVLFPPEYEPHGIPIFYDGREFKMTPEEEEVATMFAVMKEHDYYRMEVF 77
Query: 459 RENFWNDWRKLLGK-NHVIQNLEGCDFKPIYDWHXXXXXXXXXXXXXXXXXXXXXXXXXX 517
           R NF+  WR++L K  H I+ LE CDF+PIY WH                          
Sbjct: 78  RRNFFESWREILDKRQHPIRRLELCDFEPIYQWHLVQREKKLSRTKEEKKAIKEKQDAEA 137
Query: 518 XXYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKKRIQPSDITINIGKDVPIPEC 577
             Y + + DG +E+V NFRVEPPGLFRGRG+HP MGKLK R+QP DITINIG+   +P  
Sbjct: 138 EPYRYCVWDGRREQVANFRVEPPGLFRGRGKHPLMGKLKVRVQPEDITINIGETAEVP-V 196
Query: 578 PIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFLAASSSLKGQSDREKYEKARKLKDY 637
           P  G  W  V+HD+TVTWLA W D +     KYV LA SSS+KGQSD  K+EKARKLKD 
Sbjct: 197 PPAGHKWAAVQHDHTVTWLAMWRDSV-AGNMKYVMLAPSSSVKGQSDMVKFEKARKLKDK 255
Query: 638 IHSIRAAYTKDFVSRDGTRRQIAVATYLIDKLALRAGNEKDDDEADTVGCCTLKVGNVEC 697
           +  IRA+Y +DF S D    Q AVA Y ID+LALR GNEK +DEADTVGCC+L+V +++ 
Sbjct: 256 VDDIRASYMEDFKSNDLHVAQRAVAMYFIDRLALRVGNEKGEDEADTVGCCSLRVEHIQL 315
Query: 698 IPPNKLKFDFLGKDSIQYVNTVEVELPVYKAIGQFQTGKKQNDDLFDKLDTAKLNAHLKE 757
           +P N ++FDFLGKDSI+Y N V V   VY  + +F   K    D+FD+L+  +LN HLK 
Sbjct: 316 MPDNIVRFDFLGKDSIRYQNDVAVLPEVYALLQRFTRRKSPGMDIFDQLNPTQLNDHLKS 375
Query: 758 LMPGLTAKVFRTYNASITLDGMLNKGTGD--GDVAVKIDVYQRANKEVAIICNHQRT 812
            M GL+AKVFRTYNASITLD    +   D     A K+  + +AN EVAI+CNHQ++
Sbjct: 376 FMDGLSAKVFRTYNASITLDRWFKEKPVDPKWSTADKLAYFNKANTEVAILCNHQKS 432
>pdb|1SEU|A Chain A, Human Dna Topoisomerase I (70 Kda) In Complex With The Indolocarbazole Sa315f And Covalent Complex With A 22 Base Pair Dna Duplex Length = 592 Back     alignment and structure
>pdb|1K4S|A Chain A, Human Dna Topoisomerase I In Covalent Complex With A 22 Base Pair Dna Duplex Length = 592 Back     alignment and structure
>pdb|1A31|A Chain A, Human Reconstituted Dna Topoisomerase I In Covalent Complex With A 22 Base Pair Dna Duplex Length = 591 Back     alignment and structure
>pdb|1RRJ|A Chain A, Structural Mechanisms Of Camptothecin Resistance By Mutations In Human Topoisomerase I Length = 565 Back     alignment and structure
>pdb|1A35|A Chain A, Human Topoisomerase IDNA COMPLEX Length = 591 Back     alignment and structure
>pdb|1NH3|A Chain A, Human Topoisomerase I Ara-C Complex Length = 563 Back     alignment and structure
>pdb|1LPQ|A Chain A, Human Dna Topoisomerase I (70 Kda) In Non-Covalent Complex With A 22 Base Pair Dna Duplex Containing An 8-Oxog Lesion Length = 564 Back     alignment and structure
>pdb|1R49|A Chain A, Human Topoisomerase I (Topo70) Double Mutant K532rY723F Length = 592 Back     alignment and structure
>pdb|1EJ9|A Chain A, Crystal Structure Of Human Topoisomerase I Dna Complex Length = 563 Back     alignment and structure
>pdb|1RR8|C Chain C, Structural Mechanisms Of Camptothecin Resistance By Mutations In Human Topoisomerase I Length = 565 Back     alignment and structure
>pdb|1OIS|A Chain A, Yeast Dna Topoisomerase I, N-Terminal Fragment Length = 223 Back     alignment and structure
>pdb|2H7F|X Chain X, Structure Of Variola Topoisomerase Covalently Bound To Dna Length = 314 Back     alignment and structure
>pdb|2H7G|X Chain X, Structure Of Variola Topoisomerase Non-Covalently Bound To Dna Length = 314 Back     alignment and structure
>pdb|1A41|A Chain A, Type 1-Topoisomerase Catalytic Fragment From Vaccinia Virus Length = 234 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 ?
Query868
2b9s_A432 Topoisomerase I-like protein; vanadate complex, is 0.0
1a31_A591 Protein (topoisomerase I); topoisomerase I/DNA, DN 1e-174
1ois_A223 DNA topoisomerase I; DNA-binding protein; HET: DNA 1e-114
2h7g_X314 DNA topoisomerase 1; type IB topoisomerase, DNA bi 1e-62
3m4a_A346 Putative type I topoisomerase; type IB, topib, pro 5e-54
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-13
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-08
>2b9s_A Topoisomerase I-like protein; vanadate complex, isomerase/DNA complex; HET: DNA; 2.27A {Leishmania donovani} Length = 432 Back     alignment and structure
 Score =  542 bits (1398), Expect = 0.0
 Identities = 231/423 (54%), Positives = 296/423 (69%), Gaps = 5/423 (1%)

Query: 393 LPGSGDGQKKWTTLVHNGVIFPPPYLPHGVKMLYKGKEVNLTPEQEEVATMFAVMLDTDY 452
           L  +  G+++W TL HNGV+FPP Y PHG+ + Y G+E  +TPE+EEVATMFAVM + DY
Sbjct: 12  LRIAMKGERRWETLAHNGVLFPPEYEPHGIPIFYDGREFKMTPEEEEVATMFAVMKEHDY 71

Query: 453 MQKPKFRENFWNDWRKLLGKN-HVIQNLEGCDFKPIYDWHQEQKEKKKQMSSEEKKALKE 511
            +   FR NF+  WR++L K  H I+ LE CDF+PIY WH  Q+EKK   + EEKKA+KE
Sbjct: 72  YRMEVFRRNFFESWREILDKRQHPIRRLELCDFEPIYQWHLVQREKKLSRTKEEKKAIKE 131

Query: 512 EKNKQEEKYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKKRIQPSDITINIGKD 571
           +++ + E Y + + DG +E+V NFRVEPPGLFRGRG+HP MGKLK R+QP DITINIG+ 
Sbjct: 132 KQDAEAEPYRYCVWDGRREQVANFRVEPPGLFRGRGKHPLMGKLKVRVQPEDITINIGET 191

Query: 572 VPIPECPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFLAASSSLKGQSDREKYEKA 631
             +P  P  G  W  V+HD+TVTWLA W D +     KYV LA SSS+KGQSD  K+EKA
Sbjct: 192 AEVP-VPPAGHKWAAVQHDHTVTWLAMWRDSV-AGNMKYVMLAPSSSVKGQSDMVKFEKA 249

Query: 632 RKLKDYIHSIRAAYTKDFVSRDGTRRQIAVATYLIDKLALRAGNEKDDDEADTVGCCTLK 691
           RKLKD +  IRA+Y +DF S D    Q AVA Y ID+LALR GNEK +DEADTVGCC+L+
Sbjct: 250 RKLKDKVDDIRASYMEDFKSNDLHVAQRAVAMYFIDRLALRVGNEKGEDEADTVGCCSLR 309

Query: 692 VGNVECIPPNKLKFDFLGKDSIQYVNTVEVELPVYKAIGQFQTGKKQNDDLFDKLDTAKL 751
           V +++ +P N ++FDFLGKDSI+Y N V V   VY  + +F   K    D+FD+L+  +L
Sbjct: 310 VEHIQLMPDNIVRFDFLGKDSIRYQNDVAVLPEVYALLQRFTRRKSPGMDIFDQLNPTQL 369

Query: 752 NAHLKELMPGLTAKVFRTYNASITLDGMLNKGTGDGD--VAVKIDVYQRANKEVAIICNH 809
           N HLK  M GL+AKVFRTYNASITLD    +   D     A K+  + +AN EVAI+CNH
Sbjct: 370 NDHLKSFMDGLSAKVFRTYNASITLDRWFKEKPVDPKWSTADKLAYFNKANTEVAILCNH 429

Query: 810 QRT 812
           Q++
Sbjct: 430 QKS 432
>1a31_A Protein (topoisomerase I); topoisomerase I/DNA, DNA, isomerase/DNA complex; HET: DNA 5IU PTR; 2.10A {Homo sapiens} SCOP: d.163.1.2 e.15.1.1 PDB: 1k4t_A* 1k4s_A* 1sc7_A* 1t8i_A* 1tl8_A* 1seu_A* 1a35_A* 1a36_A* 1r49_A* 1rrj_A* 1nh3_A* 1lpq_A* 1rr8_C* 1ej9_A* Length = 591 Back     alignment and structure
>1ois_A DNA topoisomerase I; DNA-binding protein; HET: DNA; 1.90A {Saccharomyces cerevisiae} SCOP: e.15.1.1 Length = 223 Back     alignment and structure
>2h7g_X DNA topoisomerase 1; type IB topoisomerase, DNA binding, protein-DNA complex, isomerase/DNA complex; HET: DNA; 1.90A {Variola virus} PDB: 2h7f_X* 3igc_A* 1a41_A Length = 314 Back     alignment and structure
>3m4a_A Putative type I topoisomerase; type IB, topib, protein-DNA complex, isomerase-DNA complex; HET: DNA; 1.65A {Deinococcus radiodurans} PDB: 2f4q_A* Length = 346 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
>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 ?
Query868
1a31_A591 Protein (topoisomerase I); topoisomerase I/DNA, DN 100.0
2b9s_A432 Topoisomerase I-like protein; vanadate complex, is 100.0
1ois_A223 DNA topoisomerase I; DNA-binding protein; HET: DNA 100.0
3m4a_A346 Putative type I topoisomerase; type IB, topib, pro 100.0
2h7g_X314 DNA topoisomerase 1; type IB topoisomerase, DNA bi 100.0
1vcc_A77 DNA topoisomerase I; DNA binding; HET: DNA; 1.60A 97.43
4a8e_A292 XER A, probable tyrosine recombinase XERC-like; ce 95.51
1a0p_A290 Site-specific recombinase XERD; DNA binding, DNA r 94.62
1z1b_A356 Integrase; protein-DNA complex, DNA binding protei 94.22
1ae9_A179 Lambda integrase; DNA recombination, site-specific 94.09
3nkh_A244 Integrase; alpha-fold, MRSA protein, structural ge 93.58
1xo0_A324 Recombinase CRE; CRE recombinase, holliday junctio 92.89
1z19_A283 Integrase; protein-DNA complex, DNA binding protei 92.25
1aih_A170 HP1 integrase; DNA integration, recombination; 2.5 87.69
2a3v_A320 Site-specific recombinase INTI4; protein-DNA compl 86.54
>1a31_A Protein (topoisomerase I); topoisomerase I/DNA, DNA, isomerase/DNA complex; HET: DNA 5IU PTR; 2.10A {Homo sapiens} SCOP: d.163.1.2 e.15.1.1 PDB: 1k4t_A* 1k4s_A* 1sc7_A* 1t8i_A* 1tl8_A* 1seu_A* 1a35_A* 1a36_A* 1r49_A* 1rrj_A* 1nh3_A* 1lpq_A* 1rr8_C* 1ej9_A* Back     alignment and structure
Probab=100.00  E-value=4.3e-168  Score=1401.19  Aligned_cols=477  Identities=50%  Similarity=0.822  Sum_probs=393.7

Q ss_pred             hhhhhcccCcccccccCCCCCCcccccceeeeccccCCCCCC--CCcceEEEcCEeccCChhhHHHHHHHHHhcCCCCCc
Q 002904          377 TKKVIKNSQYSKSTKMLPGSGDGQKKWTTLVHNGVIFPPPYL--PHGVKMLYKGKEVNLTPEQEEVATMFAVMLDTDYMQ  454 (868)
Q Consensus       377 ~k~~~~~~~~~kww~~~~~~~~g~~kW~tLeHnGv~Fpp~Y~--P~~V~~~YdGkpv~L~p~~EEvAtf~a~ml~t~y~~  454 (868)
                      .++++++++.|+||+++. .++|+ ||+|||||||+|||||+  ||||+|||||+||+|||+|||||||||+||+|+|++
T Consensus        19 ~~~~~~~~~~~~wwe~~~-~~~~~-kW~tLeHnG~~Fpp~YeplP~~V~~~Ydg~pv~L~~~~EEvAtf~a~ml~t~~~~   96 (591)
T 1a31_A           19 KKPKKEEEQKWKWWEEER-YPEGI-KWKFLEHKGPVFAPPYEPLPENVKFYYDGKVMKLSPKAEEVATFFAKMLDHEYTT   96 (591)
T ss_dssp             -----------------------C-CCSCEEECCCBCCCCCCCCCTTCCCEETTEECCCCHHHHHHHHHHHTTTTSGGGG
T ss_pred             cccccchhhhhhcccccC-CCCCc-ceeEeeecceecCCcccCCCCCCceeECCEeccCCHHHHHHHHHHHHhcCCcccc
Confidence            345667788999999644 67888 99999999999999999  799999999999999999999999999999999999


Q ss_pred             hhhHHhhhHHHHHHHhCc--CCCcccCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhcCeEEEcCceeee
Q 002904          455 KPKFRENFWNDWRKLLGK--NHVIQNLEGCDFKPIYDWHQEQKEKKKQMSSEEKKALKEEKNKQEEKYMWAIVDGVKEKV  532 (868)
Q Consensus       455 ~~~F~~NFf~d~~~~l~~--~~~I~~~~kcDF~~i~~~~~~~ke~kk~~s~eEKk~~K~e~~~~~~~yg~~~vDg~~ekv  532 (868)
                      +++||+|||+||+++|++  ++.|++|++|||++||+||++++|+||+||+|||+++|+++++++++||||+|||++|+|
T Consensus        97 ~~~F~~NFf~df~~~l~~~~~~~i~~~~kcDF~~i~~~~~~~~e~kk~~s~eEK~~~k~~~~~~~~~y~~~~~DG~~ekv  176 (591)
T 1a31_A           97 KEIFRKNFFKDWRKEMTNEEKNIITNLSKCDFTQMSQYFKAQTEARKQMSKEEKLKIKEENEKLLKEYGFCIMDNHKERI  176 (591)
T ss_dssp             CHHHHHHHHHHHHHHSCHHHHHHCCCGGGEECHHHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHHHSEEEETTEEEEB
T ss_pred             cHHHHHHHHHHHHHHhhhcCCcccCchhhCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcCEEEECCeEEec
Confidence            999999999999999964  589999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccCCCccccCCCCCCCCCccccccCCChhHHhccCCCCCCCCCCCCCCcceeecCCCCcEEEEeecCCCCceeeeee
Q 002904          533 GNFRVEPPGLFRGRGEHPKMGKLKKRIQPSDITINIGKDVPIPECPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVF  612 (868)
Q Consensus       533 gNfrvEpPGLfRGRGfhpk~GklK~RI~PdditInrik~l~IPP~P~~GhaWkeV~hD~~vhwlAtw~D~igrkQyKYvy  612 (868)
                      |||||||||||||||+||+||+||+||+|+||||||+++++||+ |||||+|++|+||++|+|||+|.|.++++ .||+|
T Consensus       177 gnfriEPPgLFrGRG~HPk~G~lK~RV~pedvtiNi~k~a~iP~-pp~GhaWkdV~hd~tvtWia~w~~hIqGR-kQY~Y  254 (591)
T 1a31_A          177 ANFKIEPPGLFRGRGNHPKMGMLKRRIMPEDIIINCSKDAKVPS-PPPGHKWKEVRHDNKVTWLVSWTENIQGS-IKYIM  254 (591)
T ss_dssp             SCCBCCCSEECCCSSSCTTTTCEECCCCGGGCEEECCTTSCCCC-CSTTCCCSEEECCTTSCCSEEEECTTTCC-EEEEC
T ss_pred             CCcccCCCccccCCCCCCCCCccccccChhhhhhhhccCCCCCc-CCCCCCcceeccCCceEEEEeChHHhcCC-eeEEE
Confidence            99999999999999999999999999999999999999999999 88999999999999999999999999876 89999


Q ss_pred             ccCCchhhcCccHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHhcccccCCCCCccC-CCceeeccCC
Q 002904          613 LAASSSLKGQSDREKYEKARKLKDYIHSIRAAYTKDFVSRDGTRRQIAVATYLIDKLALRAGNEKDDDE-ADTVGCCTLK  691 (868)
Q Consensus       613 l~ahs~wk~~rD~~Kyerar~Lk~~Lp~IR~~y~kDLksk~~~~RqlAvAlyLIDklALRvGNEKy~de-adTvG~cTLR  691 (868)
                      ++++|+|++++|+.||++|++|+.+||+||++|++||++++|++||+||||||||++|||||||+|+++ |+||||||||
T Consensus       255 h~~~s~wk~~rD~~Kfe~ar~l~~~Lp~IR~~~~~dL~s~~~r~rqlAval~LID~~alRvGnekya~e~ndTvGl~TLR  334 (591)
T 1a31_A          255 LNPSSRIKGEKDWQKYETARRLKKCVDKIRNQYREDWKSKEMKVRQRAVALYFIDKLALRAGNEKEEGETADTVGCCSLR  334 (591)
T ss_dssp             BCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHHHHHHCCCCCCCCCTTTSCCCCCGGGCB
T ss_pred             ecCchHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHHhhhhcCCcccccccCCCeeeeccc
Confidence            999999999999999999999999999999999999999999999999999999999999999999999 9999999999


Q ss_pred             CCceEEcC-----CCeEEEEeeCCCCeEEEEEEeeChHHHHHHHhhhcCCCCCCcccccCChhHHHHHHHhhCCCCccee
Q 002904          692 VGNVECIP-----PNKLKFDFLGKDSIQYVNTVEVELPVYKAIGQFQTGKKQNDDLFDKLDTAKLNAHLKELMPGLTAKV  766 (868)
Q Consensus       692 ~eHV~l~~-----~~~V~FdFlGKdgir~~~tV~VD~~V~knLk~f~k~K~PGd~LFd~L~ss~LN~yLkelM~glTAKd  766 (868)
                      ++||+|++     +++|+|+|+|||||+|+++|.||++||++|+.|++++.||++||+.|++++||+||+++|+||||||
T Consensus       335 ~eHV~l~~~~~g~~~~V~FdF~GKdgir~~~~V~vD~~v~k~L~~f~~~K~Pg~~LF~~l~s~~lN~yLkelmgglTAKd  414 (591)
T 1a31_A          335 VEHINLHPELDGQEYVVEFDFLGKDSIRYYNKVPVEKRVFKNLQLFMENKQPEDDLFDRLNTGILNKHLQDLMEGLTAKV  414 (591)
T ss_dssp             GGGCCEEEEETTEEEEEEEEEECGGGCEEEEEEECCHHHHHHHHHTTTTCCTTSBTTTTCCHHHHHHHHHHHSTTCCHHH
T ss_pred             ccceEEeccccCCCCeEEEEEecCCceEEEEEEccCHHHHHHHHHHHhCCCCchHhhccCCHHHHHHHHHHHcCCCceee
Confidence            99999995     3899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eccccchHHHHHHHhcCCCCC-CHHHHHHHHHHHHHHHHHHcCCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002904          767 FRTYNASITLDGMLNKGTGDG-DVAVKIDVYQRANKEVAIICNHQRTVSKTHSAQMSRLTEKIEDLKGVLKDLRVDLDRA  845 (868)
Q Consensus       767 FRTynASvta~~~L~~~~~~~-s~~eK~~~yn~Anr~VAilCNHqR~V~K~~~~sm~kl~~ki~~lk~q~~~~~~~l~~~  845 (868)
                      |||||||+||+++|.+++..+ ++++++++||+|||+|||||||||+|||+|+.||++|+++|+++++|+.+|+.+|+++
T Consensus       415 FRTwnASvta~~~L~~~~~~~~s~~ek~~~yn~Anr~VAiLCNHqR~vpK~~~~~m~kl~~ki~~~~~~~~~~~~~l~~~  494 (591)
T 1a31_A          415 FRTYNASITLQQQLKELTAPDENIPAKILSYNRANRAVAILCNHQRAPPKTFEKSMMNLQTKIDAKKEQLADARRDLKSA  494 (591)
T ss_dssp             HHHHHHHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHC------------------------------------------
T ss_pred             eccCchHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999988777 9999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCCCCCCCCc
Q 002904          846 KKGKPPLMKDSDG  858 (868)
Q Consensus       846 k~~~~~~~~~~~~  858 (868)
                      +++++.. .+.++
T Consensus       495 ~~~~~~~-~~~~~  506 (591)
T 1a31_A          495 KADAKVM-KDAKT  506 (591)
T ss_dssp             -------------
T ss_pred             hhccccc-ccccc
Confidence            9988765 44443
>2b9s_A Topoisomerase I-like protein; vanadate complex, isomerase/DNA complex; HET: DNA; 2.27A {Leishmania donovani} Back     alignment and structure
>1ois_A DNA topoisomerase I; DNA-binding protein; HET: DNA; 1.90A {Saccharomyces cerevisiae} SCOP: e.15.1.1 Back     alignment and structure
>3m4a_A Putative type I topoisomerase; type IB, topib, protein-DNA complex, isomerase-DNA complex; HET: DNA; 1.65A {Deinococcus radiodurans} PDB: 2f4q_A* Back     alignment and structure
>2h7g_X DNA topoisomerase 1; type IB topoisomerase, DNA binding, protein-DNA complex, isomerase/DNA complex; HET: DNA; 1.90A {Variola virus} PDB: 2h7f_X* 3igc_A* 1a41_A Back     alignment and structure
>1vcc_A DNA topoisomerase I; DNA binding; HET: DNA; 1.60A {Vaccinia virus} SCOP: d.121.1.1 Back     alignment and structure
>4a8e_A XER A, probable tyrosine recombinase XERC-like; cell cycle, chromosome dimer resolution, PAB0255; 2.99A {Pyrococcus abyssi} Back     alignment and structure
>1a0p_A Site-specific recombinase XERD; DNA binding, DNA recombination; 2.50A {Escherichia coli} SCOP: a.60.9.1 d.163.1.1 Back     alignment and structure
>1z1b_A Integrase; protein-DNA complex, DNA binding protein/DNA complex; HET: PTR; 3.80A {Enterobacteria phage lambda} SCOP: d.10.1.4 d.163.1.1 PDB: 1z1g_A 1kjk_A 2wcc_3* Back     alignment and structure
>1ae9_A Lambda integrase; DNA recombination, site-specific recombination; 1.90A {Enterobacteria phage lambda} SCOP: d.163.1.1 Back     alignment and structure
>3nkh_A Integrase; alpha-fold, MRSA protein, structural genomics, PSI-2, protei structure initiative; 2.50A {Staphylococcus aureus subsp} Back     alignment and structure
>1xo0_A Recombinase CRE; CRE recombinase, holliday junction, recombination,complex (recombinase/DNA), hydrolase, ligase/DNA complex; 2.00A {Enterobacteria phage P1} SCOP: a.60.9.1 d.163.1.1 PDB: 3crx_A* 1kbu_A 1ma7_A 1q3u_A* 1q3v_A* 3mgv_A* 1ouq_A* 1nzb_A* 2crx_A* 1xns_A 5crx_A* 1f44_A* 2hof_A 2hoi_A 4crx_A* 1drg_A 3c29_A* 3c28_A 1crx_A* 1pvr_A ... Back     alignment and structure
>1z19_A Integrase; protein-DNA complex, DNA binding protein/DNA complex; HET: PTR; 2.80A {Enterobacteria phage lambda} PDB: 1p7d_A* Back     alignment and structure
>1aih_A HP1 integrase; DNA integration, recombination; 2.50A {Haemophilus phage HP1} SCOP: d.163.1.1 Back     alignment and structure
>2a3v_A Site-specific recombinase INTI4; protein-DNA complex, recombination; HET: DNA; 2.80A {Vibrio cholerae o1 biovar eltor str} 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 868
d1oisa_223 e.15.1.1 (A:) Eukaryotic DNA topoisomerase I, N-te 1e-123
d1k4ta3230 e.15.1.1 (A:201-430) Eukaryotic DNA topoisomerase 1e-121
d1k4ta2263 d.163.1.2 (A:431-640,A:713-765) Eukaryotic DNA top 5e-71
d1a41a_230 d.163.1.2 (A:) Eukaryotic DNA topoisomerase I, cat 1e-45
>d1oisa_ e.15.1.1 (A:) Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 223 Back     information, alignment and structure

class: Multi-domain proteins (alpha and beta)
fold: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
superfamily: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
family: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
domain: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  369 bits (948), Expect = e-123
 Identities = 113/222 (50%), Positives = 154/222 (69%), Gaps = 10/222 (4%)

Query: 402 KWTTLVHNGVIFPPPY--LPHGVKMLYKGKEVNLTPEQEEVATMFAVMLDTDYMQKPKFR 459
           KW TL HNGVIFPPPY  LP  +K+ Y GK V+L P+ EEVA  FA +L++D+ + P F+
Sbjct: 4   KWVTLKHNGVIFPPPYQPLPSHIKLYYDGKPVDLPPQAEEVAGFFAALLESDHAKNPVFQ 63

Query: 460 ENFWNDWRKLLGKNH------VIQNLEGCDFKPIYDWHQEQKEKKKQMSSEEKKALKEEK 513
           +NF+ND+ ++L ++        I+    CDF  ++D+ Q QKE+KKQ++S+EKK ++ E+
Sbjct: 64  KNFFNDFLQVLKESGGPLNGIEIKEFSRCDFTKMFDYFQLQKEQKKQLTSQEKKQIRLER 123

Query: 514 NKQEEKYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKKRIQPSDITINIGKDVP 573
            K EE Y +  +DG +E+VGNF+VEPP LFRGRG HPK GKLK+R+ P DI +N+ KD P
Sbjct: 124 EKFEEDYKFCELDGRREQVGNFKVEPPDLFRGRGAHPKTGKLKRRVNPEDIVLNLSKDAP 183

Query: 574 IPECPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFLAA 615
           +P  P  G  W E++HDNTV WLA W + I    FKYV LAA
Sbjct: 184 VPPAP-EGHKWGEIRHDNTVQWLAMWRENIF-NSFKYVRLAA 223
>d1k4ta3 e.15.1.1 (A:201-430) Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment {Human (Homo sapiens) [TaxId: 9606]} Length = 230 Back     information, alignment and structure
>d1k4ta2 d.163.1.2 (A:431-640,A:713-765) Eukaryotic DNA topoisomerase I, catalytic core {Human (Homo sapiens) [TaxId: 9606]} Length = 263 Back     information, alignment and structure
>d1a41a_ d.163.1.2 (A:) Eukaryotic DNA topoisomerase I, catalytic core {Vaccinia virus [TaxId: 10245]} Length = 230 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query868
d1k4ta3230 Eukaryotic DNA topoisomerase I, N-terminal DNA-bin 100.0
d1oisa_223 Eukaryotic DNA topoisomerase I, N-terminal DNA-bin 100.0
d1k4ta2263 Eukaryotic DNA topoisomerase I, catalytic core {Hu 100.0
d1a41a_230 Eukaryotic DNA topoisomerase I, catalytic core {Va 100.0
d1vcca_77 Vaccinia DNA topoisomerase I, 9 kDa N-terminal fra 97.43
d1k4ta172 Eukaryotic DNA topoisomerase I, dispensable insert 92.01
>d1k4ta3 e.15.1.1 (A:201-430) Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Multi-domain proteins (alpha and beta)
fold: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
superfamily: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
family: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
domain: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.1e-96  Score=742.23  Aligned_cols=226  Identities=50%  Similarity=0.900  Sum_probs=218.2

Q ss_pred             CcccccccCCCCCCcccccceeeeccccCCCCCC--CCcceEEEcCEeccCChhhHHHHHHHHHhcCCCCCchhhHHhhh
Q 002904          385 QYSKSTKMLPGSGDGQKKWTTLVHNGVIFPPPYL--PHGVKMLYKGKEVNLTPEQEEVATMFAVMLDTDYMQKPKFRENF  462 (868)
Q Consensus       385 ~~~kww~~~~~~~~g~~kW~tLeHnGv~Fpp~Y~--P~~V~~~YdGkpv~L~p~~EEvAtf~a~ml~t~y~~~~~F~~NF  462 (868)
                      +.|+|||++. .++|+ ||+|||||||+|||+|+  ||||+|+|||+||+|+|+|||||||||+||+|+|+++++||+||
T Consensus         1 ~~~kWWe~~~-~~~~~-KW~tLeHnGv~FpP~Ye~lP~~Vk~~YdG~pv~L~p~~EEvAtf~a~~l~t~y~~~~~F~kNF   78 (230)
T d1k4ta3           1 QKWKWWEEER-YPEGI-KWKFLEHKGPVFAPPYEPLPENVKFYYDGKVMKLSPKAEEVATFFAKMLDHEYTTKEIFRKNF   78 (230)
T ss_dssp             CCCCGGGSCC-CCSSC-CCSCEEECCCBCCCCCCCCCTTCCCEETTEECCCCHHHHHHHHHHHHTTTSGGGGCHHHHHHH
T ss_pred             CCcccccCCC-CCCCc-ceeeeeeCCcccCCCccCCCCCccEEECCEEccCCHHHHHHHHHHHHHhCCccccChHHHHHH
Confidence            3589999755 57888 99999999999999999  69999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCc--CCCcccCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhcCeEEEcCceeeecccccCCC
Q 002904          463 WNDWRKLLGK--NHVIQNLEGCDFKPIYDWHQEQKEKKKQMSSEEKKALKEEKNKQEEKYMWAIVDGVKEKVGNFRVEPP  540 (868)
Q Consensus       463 f~d~~~~l~~--~~~I~~~~kcDF~~i~~~~~~~ke~kk~~s~eEKk~~K~e~~~~~~~yg~~~vDg~~ekvgNfrvEpP  540 (868)
                      |+||+++|+.  ++.|++|++|||++||+||++++|+||+||+|||+++|+++++++++||||+|||++|+|||||||||
T Consensus        79 f~Df~~~l~~~~~~~i~~f~kcDF~~i~~~~~~~ke~kK~~skeEKk~~Keek~~~~~~Y~~~~vDG~kekVGNfriEPP  158 (230)
T d1k4ta3          79 FKDWRKEMTNEEKNIITNLSKCDFTQMSQYFKAQTEARKQMSKEEKLKIKEENEKLLKEYGFCIMDNHKERIANFKIEPP  158 (230)
T ss_dssp             HHHHHHHSCHHHHHHCCCSTTEECHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHSEEEETTEEEEBSCCBCCCC
T ss_pred             HHHHHHHhCcccccccCchhhCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhccccEEEECCcEEEeccccccCC
Confidence            9999999974  47899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccCCCCCCCCCccccccCCChhHHhccCCCCCCCCCCCCCCcceeecCCCCcEEEEeecCCCCceeeeeecc
Q 002904          541 GLFRGRGEHPKMGKLKKRIQPSDITINIGKDVPIPECPIPGESWKEVKHDNTVTWLAFWNDPINPKEFKYVFLA  614 (868)
Q Consensus       541 GLfRGRGfhpk~GklK~RI~PdditInrik~l~IPP~P~~GhaWkeV~hD~~vhwlAtw~D~igrkQyKYvyl~  614 (868)
                      |||||||.||+||+||+||+|+||||||+++++||+ |||||+|++|+||++|||||+|+|+++++ ++||||+
T Consensus       159 GLFrGRG~HPK~G~lK~RI~PeDVtiNi~kda~vP~-pp~Gh~WkeV~HDntVtWLA~W~dnI~~~-~KYV~L~  230 (230)
T d1k4ta3         159 GLFRGRGNHPKMGMLKRRIMPEDIIINCSKDAKVPS-PPPGHKWKEVRHDNKVTWLVSWTENIQGS-IKYIMLN  230 (230)
T ss_dssp             EECCCSSSCTTTTCEECCCCGGGCEEECCTTSCCCC-CSTTCCCSEEECCTTSCCSEEEECTTTCC-EEEECBC
T ss_pred             cccccCCCCCCCCccccccChhheEEEcCCCCCCCc-cCCCCCcceeEeCCCceEEEEeeeccCCc-eEEEEeC
Confidence            999999999999999999999999999999999997 78999999999999999999999999986 9999985
>d1oisa_ e.15.1.1 (A:) Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1k4ta2 d.163.1.2 (A:431-640,A:713-765) Eukaryotic DNA topoisomerase I, catalytic core {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1a41a_ d.163.1.2 (A:) Eukaryotic DNA topoisomerase I, catalytic core {Vaccinia virus [TaxId: 10245]} Back     information, alignment and structure
>d1vcca_ d.121.1.1 (A:) Vaccinia DNA topoisomerase I, 9 kDa N-terminal fragment {Vaccinia virus, strain WR [TaxId: 10245]} Back     information, alignment and structure
>d1k4ta1 a.2.8.1 (A:641-712) Eukaryotic DNA topoisomerase I, dispensable insert domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure