Psyllid ID: psy14859

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-------870-------880-------890-------900-------910-------920-------930-------940-------950-------960-------970-------980-------990------1000------1010------1020------1030------1040------1050------1060------1070------1080------1090------110
MASNPKRDTSDPQPEAKRLCHLEEKTEKIERCLAQLVQAITARKSSTLDQSPAVSDPGMASGVSDQSPPLSSAPANPVQASAPVQAAHQPSATVQAAPGSSASVLAAPLPSSSGQPFISPPAQSAAFLAQPASTASLPPSAAHHLYPLPFFCDPSYYGHYLQSAMKASRGQVAQPPPPSESVTPIPLSPVSSDQEDFSEEDEVVDCNPPALFSFAPSTKEREPSIPDPDSELASQGVVCQKLGSPAWNRVRYTESQRALQAGGVFQPLAIPSEFPHSNSSTGENLVRQELFLGTLTHGLLLQRRAFSSTMNTLVEKYPEVREELGSLFSDESVFKNVSDHLLQYVCGKRAECLESRRRLVEPRDPHLASLLLRARRGKKSSSPQNLEPPGRVSLKVQTLQKPQRCSSPVNPPADSRIGAELVGGRLRRFVDAWIRLGAPAPLVRIVSGYAIPFSAKPPLVPLCSLQHLATPVSSAMSLHIQEMLETGVLKRLDSTTGFLSRLFLVPKGNGGTRPVLNLKGLNQFLSPKKFSLINHFRIPSFLQKGDYMISIDLSQAYFHVPIKTTHQRFLALSYNGDVLAMTCLPFGLATAPQAFASLSNWVASLLRSRGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNLQKSSLSPAPVLQFLGIMWDPHLDRMWLPEDKQLTLGNILRTLLASKTWNLDSARSLLGYLSFASFVIPMGRLHSRRIQRQASLLRLGAPHLTPINPAVLPKLEWWLNALPLSSPIFPRQVQHFISTDASDLGWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLRRQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGAYNSVADSLSRSKSLPDWHLSRSATEQIFLKWGVPCIDLFASRVSAVVPNHFQVSRHVAILLLLSSGRRVHDLTLLSLDPDHFQELDDFVVFWPVFGSKTDSSSHLQSGWKIKENSSDPLFCIPTWIRHLSTLSQRRMGSRPLTSLFITTRGIVQPASRSVIAGWVKTALRGANIIASPGSMRSAVATFRYNSDLPLDSILRQGNWRGGQNFFNYKNMG
cccccccccccccHHHHHHcHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHccHHHHHHHHHHHcccccccccccccHHccccccccccccccccccEEEEEccccHHHHHHccccccccccHHHHHHHHHHccccccccccccccccccccEEcccccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHcccEEcccccccccccEEEEEcccccccEEEccccccccccccccccccHHHHHHHcccccEEEEEcccccccccccccccccccEEEEcccEEEEEEcccccccHHHHHHHHHHHHHHHHHHcccEEEEEEccEEEEcccHHHHHHHHHHHHHHHHHcccEEEccccEEcccccEEEEcEEEccccccccccccccccHHHHHHHHcccccccHHHHHHHHccHHHHHHHccccHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHcccccccccccccEEEEEcccccccEEEEccccccccccHHHHcccHHHHHHHHHHHHHHHHccccccccEEEEcccHHHHHHHHHcccccccHHHHHHHHHHHHccccccEEEEEEccccccccccccccccccccccccHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHcccccccccccccccccHHcccccEEEEEEcccccccccccccccEEccccccccEEEcccHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHccccccccccHHHHHHHHcccccccccHHHcccccccccccccccccc
cccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccEHccccccEEEcccccccEEEcccccccccccccccHHHHHHHHccccccccccccHHHccccccccccccHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccEcccccccHEcccccccccccccccccHHHHHcccEEEcccccccccEEEcHHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHcccccHHHHHHHHcHHHHHHHHcccHHHHHHHHHHccccccccHHHccccHccccccccEcccccccccEEEEEcccccEEEccccccccccccHHcccHHHHccccccccccccccccccccccEEEEEEccccccccccccccHHHHHHHHHHHHHHHHcccEEEccccccccccEEEEEcccccEEEEEEHHHHHHcEEccccccccHHHHHHHHcccEEEEEEEccccccEEEEcccccccccEEccccEEEEEEEccccccHHHHHHHHHHHHHHHHHHHccEEEEEEccEEEEEccHHHHHHHHHHHHHHHHHHccEEEEcccccccccHEEEEEEEEcccccEEcHHHEEEEccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHccccEEEccccccccEEEEEccccccHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHccccEEEEEccHHHHHHHcccHHcHHHHHHHHHHHHHHHHHHHccccEEEEccccHHHHHHHHHcccccccccccccHHHHHHHHHcccEcccccccccccccccccHHHHHHHHcccccccEccccEEEcccHHHHHHHHHHEEEcccEcEEEcccccccccccccccccccccccHHHHHHHHHHHHHccccccccEEEEEcccccccccHHHHHHHHHHHHHcccEEEccccccHEEEEEEEcccccHHHHHHccccccccccccccccc
masnpkrdtsdpqpeakrlchleEKTEKIERCLAQLVQAITARksstldqspavsdpgmasgvsdqspplssapanpvqasapvqaahqpsatvqaapgssasvlaaplpsssgqpfisppaqsaaflaqpastaslppsaahhlyplpffcdpsyyghYLQSAMkasrgqvaqppppsesvtpiplspvssdqedfseedevvdcnppalfsfapstkerepsipdpdselasqgvvcqklgspawnrvRYTESQRAlqaggvfqplaipsefphsnsstgenlVRQELFLGTLTHGLLLQRRAFSSTMNTLVEKYPEVREELgslfsdesvfKNVSDHLLQYVCGKRAECLEsrrrlveprdpHLASLLLRArrgkkssspqnleppgrvslkvqtlqkpqrcsspvnppadsrigaelVGGRLRRFVDAWIrlgapaplvrivsgyaipfsakpplvplcslqhlatpvssAMSLHIQEMLETGVLkrldsttgFLSRLFlvpkgnggtrpvlnlkglnqflspkkfslinhfripsflqkgdymisIDLSqayfhvpiktTHQRFLALSyngdvlamtclpfglatapQAFASLSNWVASLLRSRGMRVVVYLDdfllvnqdprILEIQGKLAVSILGSLGWIVNLqksslspapvlqflgimwdphldrmwlpedkqlTLGNILRTLLASKTWNLDSARSLLGYlsfasfvipmgrlhSRRIQRQASLLrlgaphltpinpavlpKLEWWLnalplsspifprqvqhfistdasdlgwgsqvdssfLSGLWSREQQNWHINKKEMFAVHQALSlnlpllqsSVVMVQSDNQTVVSYLRrqggtkslsLLSEVEKIFLLSQDWRIHILAQFIPGAYNSVADslsrskslpdwhlsrSATEQIFLKWGVPCIDLFAsrvsavvpnhfQVSRHVAILLLLSsgrrvhdltllsldpdhfqelddfvvfwpvfgsktdssshlqsgwkikenssdplfciptWIRHLSTLSqrrmgsrpltslfittrgivqpasrSVIAGWVKTALRganiiaspgsmrSAVATFrynsdlpldsilrqgnwrggqnffnyknmg
masnpkrdtsdpqpeakrlcHLEEKTEKIERCLAQLVQAITArksstldqspaVSDPGMASGVSDQSPPLSSAPANPVQASAPVQAAHQPSATVQAAPGSSASVLAAPLPSSSGQPFISPPAQSAAFLAQPASTASLPPSAAHHLYPLPFFCDPSYYGHYLQSAMKASRGQVAQPPPPSESVTPIPLSPVSSDQEDFSEEDEVVDCNPPALFSFAPSTKEREPSIPDPDSELASQGVVCQKLGSPAWNRVRYTESQRALQAGGVFQPLAIPSEFPHSNSSTGENLVRQELFLGTLTHGLLLQRRAFSSTMNTLVEKYPEVREELGSLFSDESVFKNVSDHLLQYVCGKRAECLesrrrlveprdphLASLLlrarrgkkssspqnleppgrvslkvqtlqkpqrcsspvnppadsrigAELVGGRLRRFVDAWIRLGAPAPLVRIVSGYAIPFSAKPPLVPLCSLQHLATPVSSAMSLHIQEMLETGVLKRLDSTTGFLSRLFLVPKGNGGTRPVLNLKGLNQFLSPKKFSLINHFRIPSFLQKGDYMISIDLSQAYFHVPIKTTHQRFLALSYNGDVLAMTCLPFGLATAPQAFASLSNWVASLLRSRGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNLQKSSLSPAPVLQFLGIMWDPHLDRMWLPEDKQLTLGNILRTLLASKTWNLDSARSLLGYLSFASFVIPMGRLHSRRIQRQASLLRLGAPHLTPINPAVLPKLEWWLNALPLSSPIFPRQVQHFISTDASDLGWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLRRQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGAYNSVADSLSRSKSLPDWHLSRSATEQIFLKWGVPCIDLFASRVSAVVPNHFQVSRHVAILLLLSSGRRVHDLTLLSLDPDHFQELDDFVVFWPVFGSKTDSSSHLQSGWKIKENSSDPLFCIPTWIRHLSTLSQRRMGSRPLTSLFittrgivqpasRSVIAGWVKTALRGaniiaspgsmRSAVATFRYNSDLPLDSIlrqgnwrggqnffnyknmg
MASNPKRDTSDPQPEAKRLCHLEEKTEKIERCLAQLVQAITARKSSTLDQSPAVSDPGMASGVSDQSPPLSSAPANPVQASAPVQAAHQPSATVQaapgssasvlaaplpsssgQPFISPPAQSAAFLaqpastaslppsaaHHLYPLPFFCDPSYYGHYLQSAMKASRGQVAQppppsesvtpipLSPvssdqedfseedevvdCNPPALFSFAPSTKEREPSIPDPDSELASQGVVCQKLGSPAWNRVRYTESQRALQAGGVFQPLAIPSEFPHSNSSTGENLVRQElflgtlthglllQRRAFSSTMNTLVEKYPEVREELGSLFSDESVFKNVSDHLLQYVCGKRAECLESRRRLVEPRDPHLASLLLRARRGKKSSSPQNLEPPGRVSLKVQTLQKPQRCSSPVNPPADSRIGAELVGGRLRRFVDAWIRLGAPAPLVRIVSGYAIPFSAKPPLVPLCSLQHLATPVSSAMSLHIQEMLETGVLKRLDSTTGFLSRLFLVPKGNGGTRPVLNLKGLNQFLSPKKFSLINHFRIPSFLQKGDYMISIDLSQAYFHVPIKTTHQRFLALSYNGDVLAMTCLPFGLATAPQAFASLSNWVASLLRSRGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNLQKSSLSPAPVLQFLGIMWDPHLDRMWLPEDKQLTLGNILRTLLASKTWNLDSARSLLGYLSFASFVIPMGRLHSRRIQRQASLLRLGAPHLTPINPAVLPKLEWWLNALPLSSPIFPRQVQHFISTDASDLGWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLRRQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGAYNSVADSLSRSKSLPDWHLSRSATEQIFLKWGVPCIDLFASRVSAVVPNHFQVSRHVAILLLLSSGRRVHDLTLLSLDPDHFQELDDFVVFWPVFGSKTDSSSHLQSGWKIKENSSDPLFCIPTWIRHLSTLSQRRMGSRPLTSLFITTRGIVQPASRSVIAGWVKTALRGANIIASPGSMRSAVATFRYNSDLPLDSILRQGNWRGGQNFFNYKNMG
***************************KIERCLAQLVQAI*****************************************************************************************************AHHLYPLPFFCDPSYYGHYLQ**************************************************************************VVCQKLGSPAWNRVRYTESQRALQAGGVFQPLAI*************NLVRQELFLGTLTHGLLLQRRAFSSTMNTLVEKYPEVREELGSLFSDESVFKNVSDHLLQYVCGKRAECLES*************************************************************IGAELVGGRLRRFVDAWIRLGAPAPLVRIVSGYAIPFSAKPPLVPLCSLQHLATPVSSAMSLHIQEMLETGVLKRLDSTTGFLSRLFLVPKGNGGTRPVLNLKGLNQFLSPKKFSLINHFRIPSFLQKGDYMISIDLSQAYFHVPIKTTHQRFLALSYNGDVLAMTCLPFGLATAPQAFASLSNWVASLLRSRGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNLQKSSLSPAPVLQFLGIMWDPHLDRMWLPEDKQLTLGNILRTLLASKTWNLDSARSLLGYLSFASFVIPMGRLHSRRIQRQASLLRLGAPHLTPINPAVLPKLEWWLNALPLSSPIFPRQVQHFISTDASDLGWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLRRQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGAYNSVADSL*****LPDWHLSRSATEQIFLKWGVPCIDLFASRVSAVVPNHFQVSRHVAILLLLSSGRRVHDLTLLSLDPDHFQELDDFVVFWPVFGS***********WKIK***SDPLFCIPTWIRHLSTLSQRRMGSRPLTSLFITTRGIVQPASRSVIAGWVKTALRGANIIASPGSMRSAVATFRYNSDLPLDSILRQGNWRGGQNFFNY****
***********************EKTEKIERCLAQL****************************************************************************************************************************************************************************************************************************************AIPSEF****************FLGTLTHGLLLQRRAFSSTMNTLVEKYPEVRE**G**FSDESVFKNVSDHLLQYVCGK**************************************************************************GGRLRRFVDAWIRLGAPAPLVRIVSGYAIPFSAKPPL***********P*SSAMSLHIQEMLETGVLKRLDSTTGFLSRLFLVPKGNGGTRPVLNLKGLNQFLSPKKFSLINHFRIPSFLQKGDYMISIDLSQAYFHVPIKTTHQRFLALSYNGDVLAMTCLPFGLATAPQAFASLSNWVASLLRSRGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNLQKSSLSPAPVLQFLGIMWDPHLDRMWLPEDKQLTLGNILRTLLASKTWNLDSARSLLGYLSFASFVIPMGRLHSRRIQRQASLLRLGAPHLTPINPAVLPKLEWWLNALPLSSPIFPRQVQHFISTDASDLGWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLRRQGG***LSLLSEVEKIFLLSQDWRIHILAQFIPGAYNSVADSLSRSKSLPDWHLSRSATEQIFLKWGVPCIDLFASRVSAVVPNHFQVSRHVAILLLLSSGRRVHDLTLLSLDPDHFQELDDFVVFWPVFGSKTDSSSHLQSGWKIKENSSDPLFCIPTWIRHLSTLSQ********TSLFITTRGIVQPASRSVIAGWVKTALRGANIIASP*SM****ATFRYNSDLPLDSILRQGNWRGGQNFFNYKNMG
***************AKRLCHLEEKTEKIERCLAQLVQAITAR***********************************************************SVLAAPLPSSSGQPFISPPAQSAAFLAQPASTASLPPSAAHHLYPLPFFCDPSYYGHYLQSAM**************************************VDCNPPALFSFAP******************QGVVCQKLGSPAWNRVRYTESQRALQAGGVFQPLAIPSEFPHSNSSTGENLVRQELFLGTLTHGLLLQRRAFSSTMNTLVEKYPEVREELGSLFSDESVFKNVSDHLLQYVCGKRAECLESRRRLVEPRDPHLASLLLRA*************PPGRVSLKV****************ADSRIGAELVGGRLRRFVDAWIRLGAPAPLVRIVSGYAIPFSAKPPLVPLCSLQHLATPVSSAMSLHIQEMLETGVLKRLDSTTGFLSRLFLVPKGNGGTRPVLNLKGLNQFLSPKKFSLINHFRIPSFLQKGDYMISIDLSQAYFHVPIKTTHQRFLALSYNGDVLAMTCLPFGLATAPQAFASLSNWVASLLRSRGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNLQKSSLSPAPVLQFLGIMWDPHLDRMWLPEDKQLTLGNILRTLLASKTWNLDSARSLLGYLSFASFVIPMGRLHSRRIQRQASLLRLGAPHLTPINPAVLPKLEWWLNALPLSSPIFPRQVQHFISTDASDLGWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLRRQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGAYNSVADSLSRSKSLPDWHLSRSATEQIFLKWGVPCIDLFASRVSAVVPNHFQVSRHVAILLLLSSGRRVHDLTLLSLDPDHFQELDDFVVFWPVFGS***********WKIKENSSDPLFCIPTWIRHLSTLSQRRMGSRPLTSLFITTRGIVQPASRSVIAGWVKTALRGANIIASPGSMRSAVATFRYNSDLPLDSILRQGNWRGGQNFFNYKNMG
*********SDPQPEAKRLCHLEEKTEKIERCLAQLVQAITARK*******************************************************************************************SLPPSAAHHLYPLPFFCDPSYYGHYLQSAMK**********************************DEVVDCNPPALFSFAP******PSIPDPDSELASQGVVCQKLGSPAWNRVRYTESQRALQAGGVFQPLAIPSEFPHSNSSTGENLVRQELFLGTLTHGLLLQRRAFSSTMNTLVEKYPEVREELGSLFSDESVFKNVSDHLLQYVCGKRAECLESRRRLVEPRDPHLASLLLRA*R*KKSSSPQNLEPPGRVSLKVQTLQKPQRCSSPVNPPADSRIGAELVGGRLRRFVDAWIRLGAPAPLVRIVSGYAIPFSAKPPLVPLCSLQHLATPVSSAMSLHIQEMLETGVLKRLDSTTGFLSRLFLVPKGNGGTRPVLNLKGLNQFLSPKKFSLINHFRIPSFLQKGDYMISIDLSQAYFHVPIKTTHQRFLALSYNGDVLAMTCLPFGLATAPQAFASLSNWVASLLRSRGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNLQKSSLSPAPVLQFLGIMWDPHLDRMWLPEDKQLTLGNILRTLLASKTWNLDSARSLLGYLSFASFVIPMGRLHSRRIQRQASLLRLGAPHLTPINPAVLPKLEWWLNALPLSSPIFPRQVQHFISTDASDLGWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLRRQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGAYNSVADSLSRSKSLPDWHLSRSATEQIFLKWGVPCIDLFASRVSAVVPNHFQVSRHVAILLLLSSGRRVHDLTLLSLDPDHFQELDDFVVFWPVFGSKTDSSSHLQSGWKIKENSSDPLFCIPTWIRHLSTLS*RRMGSRPLTSLFITTRGIVQPASRSVIAGWVKTALRGANIIASPGSMRSAVATFRYNSDLPLDSILRQGNWRGGQNFFNYKN**
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MASNPKRDTSDPQPEAKRLCHLEEKTEKIERCLAQLVQAITARKSSTLDQSPAVSDPGMASGVSDQSPPLSSAPANPVQASAPVQAAHQPSATVQAAPGSSASVLAAPLPSSSGQPFISPPAQSAAFLAQPASTASLPPSAAHHLYPLPFFCDPSYYGHYLQSAMKASRGQVAQPPPPSESVTPIPLSPVSSDQEDFSEEDEVVDCNPPALFSFAPSTKEREPSIPDPDSELASQGVVCQKLGSPAWNRVRYTESQRALQAGGVFQPLAIPSEFPHSNSSTGENLVRQELFLGTLTHGLLLQRRAFSSTMNTLVEKYPEVREELGSLFSDESVFKNVSDHLLQYVCGKRAECLESRRRLVEPRDPHLASLLLRARRGKKSSSPQNLEPPGRVSLKVQTLQKPQRCSSPVNPPADSRIGAELVGGRLRRFVDAWIRLGAPAPLVRIVSGYAIPFSAKPPLVPLCSLQHLATPVSSAMSLHIQEMLETGVLKRLDSTTGFLSRLFLVPKGNGGTRPVLNLKGLNQFLSPKKFSLINHFRIPSFLQKGDYMISIDLSQAYFHVPIKTTHQRFLALSYNGDVLAMTCLPFGLATAPQAFASLSNWVASLLRSRGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNLQKSSLSPAPVLQFLGIMWDPHLDRMWLPEDKQLTLGNILRTLLASKTWNLDSARSLLGYLSFASFVIPMGRLHSRRIQRQASLLRLGAPHLTPINPAVLPKLEWWLNALPLSSPIFPRQVQHFISTDASDLGWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLRRQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGAYNSVADSLSRSKSLPDWHLSRSATEQIFLKWGVPCIDLFASRVSAVVPNHFQVSRHVAILLLLSSGRRVHDLTLLSLDPDHFQELDDFVVFWPVFGSKTDSSSHLQSGWKIKENSSDPLFCIPTWIRHLSTLSQRRMGSRPLTSLFITTRGIVQPASRSVIAGWVKTALRGANIIASPGSMRSAVATFRYNSDLPLDSILRQGNWRGGQNFFNYKNMG
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 ?
Query1097 2.2.26 [Sep-21-2011]
Q89703652 Putative enzymatic polypr N/A N/A 0.369 0.621 0.218 3e-15
Q05654 1333 Retrotransposable element yes N/A 0.355 0.292 0.227 1e-13
P09523666 Enzymatic polyprotein OS= N/A N/A 0.352 0.581 0.232 4e-13
Q9UR07 1333 Retrotransposable element yes N/A 0.355 0.292 0.223 3e-12
Q9C0R2 1333 Retrotransposable element yes N/A 0.355 0.292 0.223 3e-12
P0C691786 Protein P OS=Duck hepatit N/A N/A 0.191 0.267 0.276 5e-12
P03162836 Protein P OS=Duck hepatit N/A N/A 0.187 0.246 0.257 1e-11
P30028787 Protein P OS=Duck hepatit N/A N/A 0.190 0.265 0.272 2e-11
Q66403788 Protein P OS=Duck hepatit N/A N/A 0.190 0.265 0.272 3e-11
P17193788 Protein P OS=Duck hepatit N/A N/A 0.191 0.266 0.271 1e-10
>sp|Q89703|POL_CSVMV Putative enzymatic polyprotein OS=Cassava vein mosaic virus GN=ORF 3 PE=3 SV=1 Back     alignment and function desciption
 Score = 85.1 bits (209), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 102/467 (21%), Positives = 191/467 (40%), Gaps = 62/467 (13%)

Query: 456 KPPLVPLCSLQHLATPVSSAMSLHIQEMLETGVLKRLDSTTGFLSR-----LFLVPK--- 507
           KPP++     Q    P      +HI+EM++ G +   +  T F  +      F+V K   
Sbjct: 206 KPPML----YQETDLP---EFKMHIEEMIKEGFI---EEKTNFEDKKYSSPAFIVNKHSE 255

Query: 508 -GNGGTRPVLNLKGLNQFLSPKKFSLINHFRIPSFLQKGDYMISIDLSQAYFHVPIKTTH 566
              G TR V++ K LN+     K+ + N   +     +  Y    D    ++H+ ++   
Sbjct: 256 QKRGKTRMVIDYKDLNKKAKVVKYPIPNKDTLIHRSIQARYYSKFDCKSGFYHIKLEEDS 315

Query: 567 QRFLALSYNGDVLAMTCLPFGLATAPQAFASLSNWVASLLRSRGMRVVVYLDDFLLVNQD 626
           +++ A +          LPFG   +P  F     ++  + R     ++VY+DD L+ ++ 
Sbjct: 316 KKYTAFTVPQGYYQWKVLPFGYHNSPSIFQQ---FMDRIFRPYYDFIIVYIDDILVFSKT 372

Query: 627 PRILEIQGKLAVSILGSLGWIVNLQKSSLSPAPVLQFLGIMWD-------PHLDRMWLPE 679
               +I       I  + G I++ +K+ L    +  FLG+  +       PH+    L +
Sbjct: 373 IEEHKIHIAKFRDITLANGLIISKKKTELCKEKI-DFLGVQIEQGGIELQPHIINKILEK 431

Query: 680 DKQLTLGNILRTLLASKTWNLDSARSLLGYLSFASFVIPMGRLHSRRIQRQASLLRLGAP 739
             ++     L+++L      L+  R  + +L  A  ++P        IQ++  +      
Sbjct: 432 HTKIKNKTELQSILGL----LNQIRHFIPHL--AQILLP--------IQKKLKIKDEEIW 477

Query: 740 HLTPINPAVLPKLEWWLNAL--PLSSPIFPRQVQHFISTDASDLGWGSQVDSS------- 790
             T  +   +  ++ +   L   +  PI    +   I  DAS+  +GS +          
Sbjct: 478 TWTKEDEEKIKLIQDYSKNLVIKMKYPINKEDMNWIIEVDASNNAYGSCLKYKPKNSKIE 537

Query: 791 ----FLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLRRQG 846
               + SG +   +Q + IN+KE+ AV+Q L            +V++DN  V  +++   
Sbjct: 538 YLCRYNSGTFKENEQKYDINRKELIAVYQGLQSYSLFTCEGNKLVRTDNSQVYYWIKNDT 597

Query: 847 GTKSLSLLSEVEKI-FLLSQDWRIHILAQFIPGAYNSVADSLSRSKS 892
             KS+    E   I +LL++    +   Q I G  N +AD LSR  S
Sbjct: 598 NKKSI----EFRNIKYLLAKIAVYNFEIQLIDGKTNIIADYLSRYNS 640
Encodes for at least two polypeptides: protease (PR) and reverse transcriptase (RT). The protease processes the polyprotein in cis. Reverse transcriptase is multifunctional enzyme that converts the viral RNA genome into dsDNA in viral cytoplasmic capsids. This enzyme displays a DNA polymerase activity that can copy either DNA or RNA templates, and a ribonuclease H (RNase H) activity that cleaves the RNA strand of RNA-DNA heteroduplexes in a partially processive 3'- to 5'-endonucleasic mode. Neo-synthesized pregenomic RNA (pgRNA) are encapsidated, and reverse-transcribed inside the nucleocapsid. Partial (+)DNA is synthesized from the (-)DNA template and generates the relaxed circular DNA (RC-DNA) genome. After budding and infection, the RC-DNA migrates in the nucleus, and is converted into a plasmid-like covalently closed circular DNA (cccDNA).
Manihot esculenta (taxid: 3983)
EC: 3EC: .EC: 1EC: .EC: 2EC: 6EC: .EC: 4
>sp|Q05654|RTF21_SCHPO Retrotransposable element Tf2 155 kDa protein type 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=Tf2-1 PE=4 SV=1 Back     alignment and function description
>sp|P09523|POL_FMVD Enzymatic polyprotein OS=Figwort mosaic virus (strain DxS) GN=ORF V PE=3 SV=1 Back     alignment and function description
>sp|Q9UR07|RTF23_SCHPO Retrotransposable element Tf2 155 kDa protein type 3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=Tf2-11 PE=4 SV=1 Back     alignment and function description
>sp|Q9C0R2|RTF22_SCHPO Retrotransposable element Tf2 155 kDa protein type 2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=Tf2-7 PE=4 SV=1 Back     alignment and function description
>sp|P0C691|DPOL_DHBV3 Protein P OS=Duck hepatitis B virus (strain Germany/DHBV-3) GN=P PE=1 SV=1 Back     alignment and function description
>sp|P03162|DPOL_DHBV1 Protein P OS=Duck hepatitis B virus (strain United States/DHBV-16) GN=P PE=3 SV=2 Back     alignment and function description
>sp|P30028|DPOL_HPBDC Protein P OS=Duck hepatitis B virus (strain China) GN=P PE=3 SV=1 Back     alignment and function description
>sp|Q66403|DPOL_DHBVQ Protein P OS=Duck hepatitis B virus (isolate Shanghai/DHBVQCA34) GN=P PE=3 SV=1 Back     alignment and function description
>sp|P17193|DPOL_HPBDW Protein P OS=Duck hepatitis B virus (isolate white Shanghai duck S31) GN=P 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 ?
Query1097
357630297500 putative transposon Ty3-I Gag-Pol polypr 0.305 0.67 0.419 6e-70
301619133707 PREDICTED: transposon Ty3-G Gag-Pol poly 0.459 0.712 0.339 1e-69
3272864461049 PREDICTED: hypothetical protein LOC10056 0.458 0.479 0.333 1e-68
301618694 4048 PREDICTED: hypothetical protein LOC10012 0.536 0.145 0.315 3e-67
301612402683 PREDICTED: transposon Ty3-I Gag-Pol poly 0.463 0.743 0.337 6e-63
270017202872 hypothetical protein TcasGA2_TC015886 [T 0.453 0.569 0.297 3e-60
348525970 1418 PREDICTED: hypothetical protein LOC10069 0.423 0.327 0.340 8e-57
3844978231062 hypothetical protein RO3G_13025 [Rhizopu 0.402 0.416 0.304 2e-56
170819724757 reverse transcriptase [Daphnia pulex] 0.460 0.667 0.306 2e-56
17066696785 reverse transcriptase/ribonuclease H/put 0.484 0.676 0.301 4e-56
>gi|357630297|gb|EHJ78517.1| putative transposon Ty3-I Gag-Pol polyprotein [Danaus plexippus] Back     alignment and taxonomy information
 Score =  272 bits (696), Expect = 6e-70,   Method: Compositional matrix adjust.
 Identities = 148/353 (41%), Positives = 213/353 (60%), Gaps = 18/353 (5%)

Query: 578 VLAMTCLPFGLATAPQAFASLSNWVASLLRSRGMRVVVYLDDFLLVNQDPRILEIQGKLA 637
           +L +TCLPFGL   P+ FAS++NW+A LLR+ G+R VVYLDDFL  NQ    L+     A
Sbjct: 58  LLQITCLPFGLIPVPRTFASVTNWIAELLRNHGIRCVVYLDDFLRANQSKSALQNDIAGA 117

Query: 638 VSILGSLGWIVNLQKSSLSPAPVLQFLGIMWDPHLDRMWLPEDKQLTLGNILRTLLASKT 697
           + ++ +LGW++N QKS L+P   L+FLGI WD   +   L   K LTL   L  L  SK 
Sbjct: 118 LKMMRTLGWMINFQKSVLAPTQCLEFLGITWDTKRNTKSLSGQKCLTLRKALYLLKQSK- 176

Query: 698 WNLDSARSLLGYLSFASFVIPMGRLHSRRIQRQASLLRLGAPH-LTPINPAVLPKLEWWL 756
           W+L   +S++G L FASFV   GRLH R +Q  +  L    PH    I   V P+LEWWL
Sbjct: 177 WSLRQYQSIMGRLKFASFVTRRGRLHCRTLQYYSRQLPKTHPHRRVSIPQPVQPELEWWL 236

Query: 757 NALPLSSPIFPRQVQHFISTDASDLGWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQA 816
             +  S PI   Q+ + ++T+AS+ GWG+Q++   +S  W++                 A
Sbjct: 237 EEIGGSMPIQIPQLTNLLTTNASNTGWGAQLNEISISRTWTKP----------------A 280

Query: 817 LSLNLPLLQSSVVMVQSDNQTVVSYLRRQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFI 876
           + L+   LQ+S +++Q+DN+TVVSY+ ++GGT+SL LL +  ++  +     +H++AQ+I
Sbjct: 281 IQLDQDGLQNSQILLQTDNRTVVSYINKEGGTQSLKLLEQTRRLLSVLDKVNMHLIAQYI 340

Query: 877 PGAYNSVADSLSRSKSLPDWHLSRSATEQIFLKWGVPCIDLFASRVSAVVPNH 929
           PG YN   D+LSR K+ P+WHL   AT +IF  WG P ID FAS+ + VV  +
Sbjct: 341 PGRYNVEVDALSRQKACPEWHLITEATTKIFQMWGCPEIDFFASKTAHVVRTY 393

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|301619133|ref|XP_002938952.1| PREDICTED: transposon Ty3-G Gag-Pol polyprotein-like [Xenopus (Silurana) tropicalis] Back     alignment and taxonomy information
>gi|327286446|ref|XP_003227941.1| PREDICTED: hypothetical protein LOC100566709 [Anolis carolinensis] Back     alignment and taxonomy information
>gi|301618694|ref|XP_002938748.1| PREDICTED: hypothetical protein LOC100127807 [Xenopus (Silurana) tropicalis] Back     alignment and taxonomy information
>gi|301612402|ref|XP_002935710.1| PREDICTED: transposon Ty3-I Gag-Pol polyprotein-like, partial [Xenopus (Silurana) tropicalis] Back     alignment and taxonomy information
>gi|270017202|gb|EFA13648.1| hypothetical protein TcasGA2_TC015886 [Tribolium castaneum] Back     alignment and taxonomy information
>gi|348525970|ref|XP_003450494.1| PREDICTED: hypothetical protein LOC100698500 [Oreochromis niloticus] Back     alignment and taxonomy information
>gi|384497823|gb|EIE88314.1| hypothetical protein RO3G_13025 [Rhizopus delemar RA 99-880] Back     alignment and taxonomy information
>gi|170819724|gb|ACB38666.1| reverse transcriptase [Daphnia pulex] Back     alignment and taxonomy information
>gi|17066696|gb|AAL35360.1|AF442732_3 reverse transcriptase/ribonuclease H/putative methyltransferase [Tetraodon nigroviridis] 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 ?
Query1097
DICTYBASE|DDB_G0291223300 DDB_G0291223_RTE "DIRS1 ORF2/O 0.223 0.816 0.307 4.6e-25
DICTYBASE|DDB_G0267304 833 DDB_G0267304_RTE "DIRS1 ORF3 f 0.320 0.422 0.267 6.2e-25
DICTYBASE|DDB_G0267210 968 DDB_G0267210_RTE "DIRS1 ORF2 f 0.241 0.273 0.294 5.1e-24
DICTYBASE|DDB_G0294180558 DDB_G0294180_RTE "DIRS1 ORF1/O 0.251 0.494 0.291 9.1e-22
DICTYBASE|DDB_G0294346541 DDB_G0294346_RTE "DIRS1 ORF1/O 0.181 0.367 0.317 1.7e-19
DICTYBASE|DDB_G0267338161 DDB_G0267338_RTE "DIRS1 ORF3" 0.132 0.900 0.310 2.1e-16
DICTYBASE|DDB_G0267326 818 DDB_G0267326_RTE "DIRS1 ORF2 f 0.115 0.155 0.314 7.9e-13
DICTYBASE|DDB_G0267240 818 DDB_G0267240_RTE "DIRS1 ORF2 f 0.115 0.155 0.330 9.3e-13
POMBASE|SPAC167.08 1333 Tf2-2 "retrotransposable eleme 0.356 0.293 0.223 9.6e-13
POMBASE|SPAC26A3.13c 1333 Tf2-4 "retrotransposable eleme 0.356 0.293 0.223 9.6e-13
DICTYBASE|DDB_G0291223 DDB_G0291223_RTE "DIRS1 ORF2/ORF3 fusion fragment" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
 Score = 297 (109.6 bits), Expect = 4.6e-25, P = 4.6e-25
 Identities = 79/257 (30%), Positives = 133/257 (51%)

Query:   435 RLGAPAPLVR----IVSGYAIPFSAKPPLVPLCSLQHLATPVSSAMSLHIQEMLETGVLK 490
             R+G+   L R    I S  A  F A    +P+ S+     P S  ++  +Q++L    ++
Sbjct:    41 RIGSSKLLSRGCKWINSPSASKFQADAKPIPI-SIPE--GPKSDCITKEVQDLLLDDAIE 97

Query:   491 RL----DSTTGFLSRLFLVPK-GNGGTRPVLNLKGLNQFLSPKKFSLINHFRIPSFLQKG 545
             ++     S   F S +F+VPK G    RPVL+LK LN +++ + F +     +PS +++G
Sbjct:    98 QVLPNRYSKRVFYSNVFMVPKPGTNLHRPVLDLKRLNSYINNQSFKMEGIKNLPSMVKQG 157

Query:   546 DYMISIDLSQAYFHVPIKTTHQRFLALSYNGDVLAMTCLPFGLATAPQAFASLSNWVASL 605
              YM+ +D+ +AY HV +   ++      + G       +PFGL+TAP+ F  L   V  +
Sbjct:   158 YYMVKLDIKKAYLHVLVDPQYRDLFRFVWKGSHYRWKTMPFGLSTAPRIFTMLLRPVLRM 217

Query:   606 LRSRGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNLQKSSLSPAPVLQFLG 665
             LR   + V+ YLDD L+V           K A+ +L  LG+ +NL+KS L P   + FLG
Sbjct:   218 LRDINVSVIAYLDDLLIVGSTKEECLSNLKKAMDLLVKLGFKLNLEKSVLEPTQSITFLG 277

Query:   666 IMWDPHLDRMWLPEDKQ 682
             +  D    ++ +P++K+
Sbjct:   278 LQIDSVSMKLLVPKEKK 294
GO:0006278 "RNA-dependent DNA replication" evidence=IEA
GO:0003964 "RNA-directed DNA polymerase activity" evidence=IEA
GO:0003723 "RNA binding" evidence=IEA
DICTYBASE|DDB_G0267304 DDB_G0267304_RTE "DIRS1 ORF3 fragment" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0267210 DDB_G0267210_RTE "DIRS1 ORF2 fragment" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0294180 DDB_G0294180_RTE "DIRS1 ORF1/ORF3 fusion fragment" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0294346 DDB_G0294346_RTE "DIRS1 ORF1/ORF3 fusion fragment" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0267338 DDB_G0267338_RTE "DIRS1 ORF3" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0267326 DDB_G0267326_RTE "DIRS1 ORF2 fragment" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0267240 DDB_G0267240_RTE "DIRS1 ORF2 fragment" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
POMBASE|SPAC167.08 Tf2-2 "retrotransposable element/transposon Tf2-type" [Schizosaccharomyces pombe (taxid:4896)] Back     alignment and assigned GO terms
POMBASE|SPAC26A3.13c Tf2-4 "retrotransposable element/transposon Tf2-type" [Schizosaccharomyces pombe (taxid:4896)] 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 EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
4th Layer2.7.7.490.737
3rd Layer3.4.23LOW CONFIDENCE prediction!
3rd Layer2.7.70.691

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query1097
cd09275120 cd09275, RNase_HI_RT_DIRS1, DIRS1 family of RNase 6e-31
cd03714119 cd03714, RT_DIRS1, RT_DIRS1: Reverse transcriptase 2e-21
cd03715210 cd03715, RT_ZFREV_like, RT_ZFREV_like: A subfamily 3e-16
cd01647177 cd01647, RT_LTR, RT_LTR: Reverse transcriptases (R 2e-14
pfam00078194 pfam00078, RVT_1, Reverse transcriptase (RNA-depen 3e-13
cd09274121 cd09274, RNase_HI_RT_Ty3, Ty3/Gypsy family of RNas 8e-10
PRK07764824 PRK07764, PRK07764, DNA polymerase III subunits ga 2e-06
PRK07764824 PRK07764, PRK07764, DNA polymerase III subunits ga 1e-05
cd06222123 cd06222, RNase_H, RNase H is an endonuclease that 1e-05
PHA032473151 PHA03247, PHA03247, large tegument protein UL36; P 3e-05
PRK102631355 PRK10263, PRK10263, DNA translocase FtsK; Provisio 5e-05
PHA032473151 PHA03247, PHA03247, large tegument protein UL36; P 1e-04
PRK14951618 PRK14951, PRK14951, DNA polymerase III subunits ga 1e-04
PRK07764824 PRK07764, PRK07764, DNA polymerase III subunits ga 2e-04
PRK12323700 PRK12323, PRK12323, DNA polymerase III subunits ga 3e-04
PRK07003830 PRK07003, PRK07003, DNA polymerase III subunits ga 5e-04
PHA032473151 PHA03247, PHA03247, large tegument protein UL36; P 0.001
cd01182162 cd01182, INT_REC_C, DNA breaking-rejoining enzymes 0.001
PRK07003830 PRK07003, PRK07003, DNA polymerase III subunits ga 0.002
PTZ003951560 PTZ00395, PTZ00395, Sec24-related protein; Provisi 0.002
PRK12270 1228 PRK12270, kgd, alpha-ketoglutarate decarboxylase; 0.002
PRK07003830 PRK07003, PRK07003, DNA polymerase III subunits ga 0.003
PRK07003830 PRK07003, PRK07003, DNA polymerase III subunits ga 0.003
PRK10856331 PRK10856, PRK10856, cytoskeletal protein RodZ; Pro 0.003
PRK14951618 PRK14951, PRK14951, DNA polymerase III subunits ga 0.004
pfam04652315 pfam04652, DUF605, Vta1 like 0.004
pfam1345688 pfam13456, RVT_3, Reverse transcriptase-like 0.004
TIGR03895602 TIGR03895, protease_PatA, cyanobactin maturation p 0.004
>gnl|CDD|187699 cd09275, RNase_HI_RT_DIRS1, DIRS1 family of RNase HI in long-term repeat retroelements Back     alignment and domain information 
 Score =  117 bits (296), Expect = 6e-31
 Identities = 51/116 (43%), Positives = 71/116 (61%)

Query: 774 ISTDASDLGWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQS 833
           + TDAS  GWG+ +  S+  GLWS E++N HIN  E+ AV  AL      L +  V+V+S
Sbjct: 2   LFTDASLSGWGAVLSGSWAQGLWSAEERNKHINFLELLAVLLALQHWGARLSNRKVLVRS 61

Query: 834 DNQTVVSYLRRQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGAYNSVADSLSR 889
           DN T V+Y+ RQGGT+S  LL+   ++ L  ++  I + A+ IPG  N  AD LSR
Sbjct: 62  DNTTAVAYINRQGGTRSPELLALARQLVLWCEERNIWLRARHIPGVLNVAADRLSR 117

Ribonuclease H (RNase H) enzymes are divided into two major families, Type 1 and Type 2, based on amino acid sequence similarities and biochemical properties. RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner in the presence of divalent cations. RNase H is widely present in various organisms, including bacteria, archaea and eukaryotes. RNase HI has also been observed as adjunct domains to the reverse transcriptase gene in retroviruses, in long-term repeat (LTR)-bearing retrotransposons and non-LTR retrotransposons. RNase HI in LTR retrotransposons perform degradation of the original RNA template, generation of a polypurine tract (the primer for plus-strand DNA synthesis), and final removal of RNA primers from newly synthesized minus and plus strands. The catalytic residues for RNase H enzymatic activity, three aspartatic acids and one glutamatic acid residue (DEDD), are unvaried across all RNase H domains. Phylogenetic patterns of RNase HI of LTR retroelements is classified into five major families, Ty3/Gypsy, Ty1/Copia, Bel/Pao, DIRS1 and the vertebrate retroviruses. The structural features of DIRS1-group elements are different from typical LTR elements. RNase H inhibitors have been explored as an anti-HIV drug target because RNase H inactivation inhibits reverse transcription. Length = 120
>gnl|CDD|239684 cd03714, RT_DIRS1, RT_DIRS1: Reverse transcriptases (RTs) occurring in the DIRS1 group of retransposons Back     alignment and domain information
>gnl|CDD|239685 cd03715, RT_ZFREV_like, RT_ZFREV_like: A subfamily of reverse transcriptases (RTs) found in sequences similar to the intact endogenous retrovirus ZFERV from zebrafish and to Moloney murine leukemia virus RT Back     alignment and domain information
>gnl|CDD|238825 cd01647, RT_LTR, RT_LTR: Reverse transcriptases (RTs) from retrotransposons and retroviruses which have long terminal repeats (LTRs) in their DNA copies but not in their RNA template Back     alignment and domain information
>gnl|CDD|215698 pfam00078, RVT_1, Reverse transcriptase (RNA-dependent DNA polymerase) Back     alignment and domain information
>gnl|CDD|187698 cd09274, RNase_HI_RT_Ty3, Ty3/Gypsy family of RNase HI in long-term repeat retroelements Back     alignment and domain information
>gnl|CDD|236090 PRK07764, PRK07764, DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>gnl|CDD|236090 PRK07764, PRK07764, DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>gnl|CDD|187690 cd06222, RNase_H, RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner Back     alignment and domain information
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional Back     alignment and domain information
>gnl|CDD|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional Back     alignment and domain information
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional Back     alignment and domain information
>gnl|CDD|237865 PRK14951, PRK14951, DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>gnl|CDD|236090 PRK07764, PRK07764, DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>gnl|CDD|237057 PRK12323, PRK12323, DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>gnl|CDD|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional Back     alignment and domain information
>gnl|CDD|238587 cd01182, INT_REC_C, DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain Back     alignment and domain information
>gnl|CDD|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>gnl|CDD|185594 PTZ00395, PTZ00395, Sec24-related protein; Provisional Back     alignment and domain information
>gnl|CDD|237030 PRK12270, kgd, alpha-ketoglutarate decarboxylase; Reviewed Back     alignment and domain information
>gnl|CDD|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>gnl|CDD|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>gnl|CDD|236776 PRK10856, PRK10856, cytoskeletal protein RodZ; Provisional Back     alignment and domain information
>gnl|CDD|237865 PRK14951, PRK14951, DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>gnl|CDD|218191 pfam04652, DUF605, Vta1 like Back     alignment and domain information
>gnl|CDD|205634 pfam13456, RVT_3, Reverse transcriptase-like Back     alignment and domain information
>gnl|CDD|234383 TIGR03895, protease_PatA, cyanobactin maturation protease, PatA/PatG family Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 1097
cd03715210 RT_ZFREV_like RT_ZFREV_like: A subfamily of revers 100.0
cd01645213 RT_Rtv RT_Rtv: Reverse transcriptases (RTs) from r 100.0
cd01647177 RT_LTR RT_LTR: Reverse transcriptases (RTs) from r 99.96
cd01644213 RT_pepA17 RT_pepA17: Reverse transcriptase (RTs) i 99.94
cd03714119 RT_DIRS1 RT_DIRS1: Reverse transcriptases (RTs) oc 99.92
PF00078214 RVT_1: Reverse transcriptase (RNA-dependent DNA po 99.62
cd0030498 RT_like RT_like: Reverse transcriptase (RT, RNA-de 99.35
PF0933739 zf-H2C2: His(2)-Cys(2) zinc finger; InterPro: IPR0 99.06
cd03487214 RT_Bac_retron_II RT_Bac_retron_II: Reverse transcr 98.85
cd01648119 TERT TERT: Telomerase reverse transcriptase (TERT) 98.8
.; GO: 0004523 ribonuclease H activity" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF00336">PF00336245 DNA_pol_viral_C: DNA polymerase (viral) C-terminal 98.79
cd01650220 RT_nLTR_like RT_nLTR: Non-LTR (long terminal repea 98.76
cd06222130 RnaseH RNase H (RNase HI) is an endonuclease that 98.73
cd01651226 RT_G2_intron RT_G2_intron: Reverse transcriptases 98.6
PRK13907128 rnhA ribonuclease H; Provisional 98.44
cd01646158 RT_Bac_retron_I RT_Bac_retron_I: Reverse transcrip 98.4
PF00075132 RNase_H: RNase H; InterPro: IPR002156 The RNase H 98.31
COG0328154 RnhA Ribonuclease HI [DNA replication, recombinati 98.2
PRK07708219 hypothetical protein; Validated 98.19
PRK07238372 bifunctional RNase H/acid phosphatase; Provisional 98.01
PF1345687 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EH 97.97
PRK00203150 rnhA ribonuclease H; Reviewed 97.96
PRK06548161 ribonuclease H; Provisional 97.89
PRK08719147 ribonuclease H; Reviewed 97.52
PF05380159 Peptidase_A17: Pao retrotransposon peptidase ; Int 97.31
KOG3752|consensus371 96.53
cd01709346 RT_like_1 RT_like_1: A subfamily of reverse transc 95.69
PF07727246 RVT_2: Reverse transcriptase (RNA-dependent DNA po 94.28
KOG4768|consensus796 91.55
cd0609489 RP_Saci_like RP_Saci_like, retropepsin family. Ret 88.42
PF02160201 Peptidase_A3: Cauliflower mosaic virus peptidase ( 85.4
>cd03715 RT_ZFREV_like RT_ZFREV_like: A subfamily of reverse transcriptases (RTs) found in sequences similar to the intact endogenous retrovirus ZFERV from zebrafish and to Moloney murine leukemia virus RT Back     alignment and domain information 
Probab=100.00  E-value=1.4e-41  Score=364.36  Aligned_cols=206  Identities=26%  Similarity=0.456  Sum_probs=194.9

Q ss_pred             CccCCCCCCCccccccCCcccHHHHHHHHHHHHHcCCccccCCCCCcceeEEEEecCCC-CcccccccCCcccccCCccc
Q psy14859        452 PFSAKPPLVPLCSLQHLATPVSSAMSLHIQEMLETGVLKRLDSTTGFLSRLFLVPKGNG-GTRPVLNLKGLNQFLSPKKF  530 (1097)
Q Consensus       452 pv~~~p~r~p~~~lr~~s~~~~~~i~~eI~~ll~~GiI~~~~s~S~~~SPv~~V~Kkdg-k~R~vvD~R~LN~~t~~~~~  530 (1097)
                      |+.+++|++++        +++++++++|++|+++|+|+++  .|+|.+|+++|+||+| ++|+|+|||.||+.+..+.+
T Consensus         1 ~~~~~~~~~~~--------~~~~~~~~~v~~ll~~G~I~~~--~s~~~sp~~~V~Kk~g~~~R~~vD~r~lN~~~~~~~~   70 (210)
T cd03715           1 PVNQKQYPLPR--------EAREGITPHIQELLEAGILVPC--QSPWNTPILPVKKPGGNDYRMVQDLRLVNQAVLPIHP   70 (210)
T ss_pred             CCCcCCCCCCH--------HHHHHHHHHHHHHHHCCCeECC--CCCCCCceEEEEeCCCCcceEEEEhhhhhhcccccCc
Confidence            67788888877        4568999999999999999995  8999999999999999 99999999999999999999


Q ss_pred             ccccccccccccc-CCceeEEecccccccccccccccccccccccccceEEeeccCccCCCChHHHHHhhHHHHhhhhc-
Q psy14859        531 SLINHFRIPSFLQ-KGDYMISIDLSQAYFHVPIKTTHQRFLALSYNGDVLAMTCLPFGLATAPQAFASLSNWVASLLRS-  608 (1097)
Q Consensus       531 plP~i~~ll~~L~-~~~~fs~lDLksAY~qI~L~~edr~~taF~t~~g~y~~~rLPFGL~nSP~~Fqr~m~~il~~lr~-  608 (1097)
                      ++|++++++..+. ++++|+++|+++|||||+|+++++++|+|++++|+|+|++||||+++||++||++|+.++..+.. 
T Consensus        71 ~~p~~~~~l~~l~~~~~~~s~lDl~~af~~i~l~~~~~~~taf~~~~~~y~~~~lp~Gl~~sp~~f~~~~~~~l~~~~~~  150 (210)
T cd03715          71 AVPNPYTLLSLLPPKHQWYTVLDLANAFFSLPLAPDSQPLFAFEWEGQQYTFTRLPQGFKNSPTLFHEALARDLAPFPLE  150 (210)
T ss_pred             CCCcHHHHHHHhccCCeEEEEeeccCeEEEEEcccccEEeEEEEECCeeEEEEEEeccccCcHHHHHHHHHHHHHHHHhh
Confidence            9999999999996 79999999999999999999999999999999999999999999999999999999999997743 


Q ss_pred             -cCceEEEEecCceeeecCchhHHHhhhHHHHHHhhccceeccccCCCCCCCeEEEeeEEe
Q psy14859        609 -RGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNLQKSSLSPAPVLQFLGIMW  668 (1097)
Q Consensus       609 -~g~~v~vYvDDILI~s~s~eeh~~~l~~Vl~~L~~~Gl~ln~~Kc~f~p~~~v~fLG~iI  668 (1097)
                       .+..+.+|+|||+|++++.++|.++++.|+.+|+++|+.+|++||+++ .++++||||+|
T Consensus       151 ~~~~~~~~Y~DDili~s~~~~e~~~~l~~v~~~l~~~gl~l~~~K~~~~-~~~v~fLG~~~  210 (210)
T cd03715         151 HEGTILLQYVDDLLLAADSEEDCLKGTDALLTHLGELGYKVSPKKAQIC-RAEVKFLGVVW  210 (210)
T ss_pred             CCCeEEEEECCcEEEecCCHHHHHHHHHHHHHHHHHCCCCcCHHHeeCC-CCceEEeeEEC
Confidence             356789999999999999999999999999999999999999999998 99999999986

An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. These elements can be divided into two major groups. One group contains retroviruses and DNA viruses whose propagation involves an RNA intermediate. They are grouped together with transposable elements containing long terminal repeats (LTRs). The other group, also called poly(A)-type retrotransposons, contain fungal mitochondrial introns and transposable elements that lack LTRs. Phylogenetic analysis suggests that ZFERV belongs to a distinct group of retroviruses.
>cd01645 RT_Rtv RT_Rtv: Reverse transcriptases (RTs) from retroviruses (Rtvs) Back     alignment and domain information
>cd01647 RT_LTR RT_LTR: Reverse transcriptases (RTs) from retrotransposons and retroviruses which have long terminal repeats (LTRs) in their DNA copies but not in their RNA template Back     alignment and domain information
>cd01644 RT_pepA17 RT_pepA17: Reverse transcriptase (RTs) in retrotransposons Back     alignment and domain information
>cd03714 RT_DIRS1 RT_DIRS1: Reverse transcriptases (RTs) occurring in the DIRS1 group of retransposons Back     alignment and domain information
>PF00078 RVT_1: Reverse transcriptase (RNA-dependent DNA polymerase); InterPro: IPR000477 The use of an RNA template to produce DNA, for integration into the host genome and exploitation of a host cell, is a strategy employed in the replication of retroid elements, such as the retroviruses and bacterial retrons Back     alignment and domain information
>cd00304 RT_like RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family Back     alignment and domain information
>PF09337 zf-H2C2: His(2)-Cys(2) zinc finger; InterPro: IPR015416 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule Back     alignment and domain information
>cd03487 RT_Bac_retron_II RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons Back     alignment and domain information
>cd01648 TERT TERT: Telomerase reverse transcriptase (TERT) Back     alignment and domain information
>PF00336 DNA_pol_viral_C: DNA polymerase (viral) C-terminal domain; InterPro: IPR001462 This domain is at the C terminus of hepatitis B-type viruses P proteins and represents a functional domain that controls the RNase H activities of the protein Back     alignment and domain information
>cd01650 RT_nLTR_like RT_nLTR: Non-LTR (long terminal repeat) retrotransposon and non-LTR retrovirus reverse transcriptase (RT) Back     alignment and domain information
>cd06222 RnaseH RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner Back     alignment and domain information
>cd01651 RT_G2_intron RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin Back     alignment and domain information
>PRK13907 rnhA ribonuclease H; Provisional Back     alignment and domain information
>cd01646 RT_Bac_retron_I RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons Back     alignment and domain information
>PF00075 RNase_H: RNase H; InterPro: IPR002156 The RNase H domain is responsible for hydrolysis of the RNA portion of RNA x DNA hybrids, and this activity requires the presence of divalent cations (Mg2+ or Mn2+) that bind its active site Back     alignment and domain information
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK07708 hypothetical protein; Validated Back     alignment and domain information
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional Back     alignment and domain information
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B Back     alignment and domain information
>PRK00203 rnhA ribonuclease H; Reviewed Back     alignment and domain information
>PRK06548 ribonuclease H; Provisional Back     alignment and domain information
>PRK08719 ribonuclease H; Reviewed Back     alignment and domain information
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family Back     alignment and domain information
>KOG3752|consensus Back     alignment and domain information
>cd01709 RT_like_1 RT_like_1: A subfamily of reverse transcriptases (RTs) Back     alignment and domain information
>PF07727 RVT_2: Reverse transcriptase (RNA-dependent DNA polymerase); InterPro: IPR013103 A reverse transcriptase gene is usually indicative of a mobile element such as a retrotransposon or retrovirus Back     alignment and domain information
>KOG4768|consensus Back     alignment and domain information
>cd06094 RP_Saci_like RP_Saci_like, retropepsin family Back     alignment and domain information
>PF02160 Peptidase_A3: Cauliflower mosaic virus peptidase (A3); InterPro: IPR000588 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families 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 ?
Query1097
4b3o_B441 Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A 2e-04
4b3p_B454 Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A 2e-04
4hkq_A681 Protein Dna Complex Length = 681 3e-04
4b3p_A560 Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A 3e-04
4b3o_A560 Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A 3e-04
4b3q_A560 Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A 3e-04
1hni_B427 Structure Of Hiv-1 Reverse Transcriptase In A Compl 5e-04
1rt3_B440 Azt Drug Resistant Hiv-1 Reverse Transcriptase Comp 6e-04
1t05_B437 Hiv-1 Reverse Transcriptase Crosslinked To Template 7e-04
1bqn_A558 Tyr 188 Leu Hiv-1 RtHBY 097 Length = 558 7e-04
3kjv_B452 Hiv-1 Reverse Transcriptase In Complex With Dna Len 7e-04
2ynf_A563 Hiv-1 Reverse Transcriptase Y188l Mutant In Complex 9e-04
>pdb|4B3O|B Chain B, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique Rt Conformation And Substrate Interface Length = 441 Back     alignment and structure 
Iteration: 1

 Score = 45.4 bits (106), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 63/279 (22%), Positives = 118/279 (42%), Gaps = 38/279 (13%)
Query: 482 EMLETGVLKRLDSTTGFLSRLFLVPKGNGGT-RPVLNLKGLNQFLSPKKFSLINHFRI-- 538
           EM + G + ++     + + +F + K +G   R +++ + LN     KK       ++  
Sbjct: 41  EMEKEGKISKIGPENPYNTPVFAIKKKDGTKWRKLVDFRELN-----KKTQDFWEVQLGI 95
Query: 539 --PSFLQKGDYMISIDLSQAYFHVPIKTTHQRFLAL---SYNGDVLAM----TCLPFGLA 589
             P+ L+K   +  +D+  AYF VP+    +++ A    S N +   +      LP G  
Sbjct: 96  PHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWK 155
Query: 590 TAPQAFASLSNWVASLLRSRGMRVVV--YLDDFLLVNQDPRILEIQGKLAVSILGSLGWI 647
            +P  F S    +    R +   +V+  Y+DD L V  D  I + + K+       L W 
Sbjct: 156 GSPAIFQSSMTKILEPFRKQNPDIVIYQYMDD-LYVGSDLEIGQHRTKIEELRQHLLRWG 214
Query: 648 VNLQKSSLSPAPVLQFLGIMWDPHLDRMWLPEDKQLTLGNILRTLLASKTWNLDSARSLL 707
           +          P   FL + ++ H D+         T+  I+  L    +W ++  + L+
Sbjct: 215 LTTPDKKHQKEP--PFLWMGYELHPDKW--------TVQPIV--LPEKDSWTVNDIQKLV 262
Query: 708 GYLSFASFVIPMGRLHSRRIQRQASLLRLGAPHLTPINP 746
           G L++AS + P       ++++   LLR G   LT + P
Sbjct: 263 GKLNWASQIYP-----GIKVRQLCKLLR-GTKALTEVIP 295
>pdb|4B3P|B Chain B, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique Rt Conformation And Substrate Interface Length = 454 Back     alignment and structure
>pdb|4HKQ|A Chain A, Protein Dna Complex Length = 681 Back     alignment and structure
>pdb|4B3P|A Chain A, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique Rt Conformation And Substrate Interface Length = 560 Back     alignment and structure
>pdb|4B3O|A Chain A, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique Rt Conformation And Substrate Interface Length = 560 Back     alignment and structure
>pdb|4B3Q|A Chain A, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique Rt Conformation And Substrate Interface Length = 560 Back     alignment and structure
>pdb|1HNI|B Chain B, Structure Of Hiv-1 Reverse Transcriptase In A Complex With The Nonnucleoside Inhibitor Alpha-Apa R 95845 At 2.8 Angstroms Resolution Length = 427 Back     alignment and structure
>pdb|1RT3|B Chain B, Azt Drug Resistant Hiv-1 Reverse Transcriptase Complexed With 1051u91 Length = 440 Back     alignment and structure
>pdb|1T05|B Chain B, Hiv-1 Reverse Transcriptase Crosslinked To Template-Primer With Tenofovir-Diphosphate Bound As The Incoming Nucleotide Substrate Length = 437 Back     alignment and structure
>pdb|1BQN|A Chain A, Tyr 188 Leu Hiv-1 RtHBY 097 Length = 558 Back     alignment and structure
>pdb|3KJV|B Chain B, Hiv-1 Reverse Transcriptase In Complex With Dna Length = 452 Back     alignment and structure
>pdb|2YNF|A Chain A, Hiv-1 Reverse Transcriptase Y188l Mutant In Complex With Inhibitor Gsk560 Length = 563 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 ?
Query1097
1rw3_A455 POL polyprotein; RNA and DNA dependent DNA polymer 2e-17
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-12
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-11
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 6e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-07
>1rw3_A POL polyprotein; RNA and DNA dependent DNA polymerase, reverse transcriptase, transferase, replication; 3.00A {Moloney murine leukemia virus} SCOP: e.8.1.2 Length = 455 Back     alignment and structure
 Score = 85.8 bits (213), Expect = 2e-17
 Identities = 83/476 (17%), Positives = 154/476 (32%), Gaps = 96/476 (20%)

Query: 426 LRRFVDAWIRLGAPAPLVRIVSGYAIPFS--AKPPLVPLCSLQHLATPVSSAMSLHIQEM 483
           L  F  AW   G     VR      IP    + P  +       ++      +  HIQ +
Sbjct: 7   LSDFPQAWAETGGMGLAVRQAP-LIIPLKATSTPVSIKQY---PMSQEARLGIKPHIQRL 62

Query: 484 LETGVLKRLDSTTGFLSRLFLVPK-GNGGTRPVLNLKGLNQFLSPKKFSLINHFRIP--- 539
           L+ G+L      + + + L  V K G    RPV +L+ +N      K     H  +P   
Sbjct: 63  LDQGILVP--CQSPWNTPLLPVKKPGTNDYRPVQDLREVN------KRVEDIHPTVPNPY 114

Query: 540 ---SFLQKGDYMIS-IDLSQAYFHVPIKTTHQRFLALSYNGDVLAM------TCLPFGLA 589
              S L       + +DL  A+F + +  T Q   A  +    + +      T LP G  
Sbjct: 115 NLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAFEWRDPEMGISGQLTWTRLPQGFK 174

Query: 590 TAPQAFASLSNWVAS--LLRSRGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWI 647
            +P  F    +   +   ++   + ++ Y+DD LL        +   +  +  LG+LG+ 
Sbjct: 175 NSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLAATSELDCQQGTRALLQTLGNLGYR 234

Query: 648 VNLQKSSLSPAPVLQFLGIMWDPHL---DRMWLPEDKQLTLGNILRTLLASKTW----NL 700
            + +K+ +    V ++LG     +L    + WL E +                       
Sbjct: 235 ASAKKAQICQKQV-KYLG-----YLLKEGQRWLTEAR----------KETVMGQPTPKTP 278

Query: 701 DSARSLLGYLSFASFVIPMGRLHSRR-IQRQASLLRLGAPHLTPINPAVLPKLEW-W--- 755
              R  LG    A F         R  I   A +         P+ P       + W   
Sbjct: 279 RQLREFLG---TAGFC--------RLWIPGFAEMAA-------PLYPLTKTGTLFNWGPD 320

Query: 756 -------LNALPLSSPI--FPRQVQHF-ISTDASDLGWG---SQVDS------SFLSGLW 796
                  +    L++P    P   + F +  D          +Q         ++LS   
Sbjct: 321 QQKAYQEIKQALLTAPALGLPDLTKPFELFVDEKQGYAKGVLTQKLGPWRRPVAYLSKKL 380

Query: 797 SREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLRRQGGTKSLS 852
                 W    + + A+         L     +++++ +  V + +++       +
Sbjct: 381 DPVAAGWPPCLRMVAAIAVLTKDAGKLTMGQPLVIKAPHA-VEALVKQPPDRWLSN 435
>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
>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
>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 ?
Query1097
1rw3_A455 POL polyprotein; RNA and DNA dependent DNA polymer 100.0
2zd1_B428 P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleosid 100.0
2zd1_A557 Reverse transcriptase/ribonuclease H; P51/P66, het 100.0
1mu2_A555 HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym 100.0
3fsi_A255 RT, reverse transcriptase domain; transferase/DNA 100.0
3hst_B141 Protein RV2228C/MT2287; ribonuclease H1, RV2228C N 98.71
2ehg_A149 Ribonuclease HI; RNAse HI, hyperthermophilic archa 98.66
3u3g_D140 Ribonuclease H, RNAse H1; hydrolase, cleave the RN 98.64
3oym_A 395 PFV integrase, P42IN; protein-DNA complex; HET: DN 98.36
2e4l_A158 Ribonuclease HI, RNAse HI; hydrolase, endoribonucl 98.3
3h08_A146 RNH (ribonuclease H); RNAse H, 3D-structure, endon 98.29
1jl1_A155 Ribonuclease HI; RNAse HI, protein stability, ther 98.26
3p1g_A165 Xenotropic murine leukemia virus-related virus (X 98.25
1ril_A166 Ribonuclease H; hydrolase(endoribonuclease); 2.80A 98.23
3qio_A150 GAG-POL polyprotein; RNAse H, inhibitor, nuclease, 98.22
2qkb_A154 Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy 98.2
2lsn_A165 Reverse transcriptase; RNAse H, viral protein; NMR 98.16
2kq2_A147 Ribonuclease H-related protein; PSI, NESG, protein 98.08
1zbf_A142 Ribonuclease H-related protein; RNAse H, RNA/DNA h 97.66
3f9k_A210 Integrase; protein-protein complex, AIDS, DNA inte 97.53
4htu_A134 Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, 97.37
3hph_A219 Integrase, IN; protein-protein complex, tetramer, 96.95
1k6y_A212 Integrase; HIV-1, domain organization, transferase 96.52
3kyl_A596 Telomerase reverse transcriptase; reverse transcri 96.36
>1rw3_A POL polyprotein; RNA and DNA dependent DNA polymerase, reverse transcriptase, transferase, replication; 3.00A {Moloney murine leukemia virus} SCOP: e.8.1.2 Back     alignment and structure
Probab=100.00  E-value=4.9e-70  Score=647.02  Aligned_cols=419  Identities=17%  Similarity=0.223  Sum_probs=362.6

Q ss_pred             hHHHHHHHhhhc---CCCC-CCeeEee--eCCCCCccCCCCCCCccccccCCcccHHHHHHHHHHHHHcCCccccCCCCC
Q psy14859        424 GRLRRFVDAWIR---LGAP-APLVRIV--SGYAIPFSAKPPLVPLCSLQHLATPVSSAMSLHIQEMLETGVLKRLDSTTG  497 (1097)
Q Consensus       424 ~~l~~f~~~~~~---~~~~-~~v~~~I--~g~~~pv~~~p~r~p~~~lr~~s~~~~~~i~~eI~~ll~~GiI~~~~s~S~  497 (1097)
                      ..+++|.+.|..   .+.. ....|.|  .+...|+..++|++++        ..+++++++|++|+++|+|+++  .||
T Consensus         5 ~ll~~~~dvf~~~~~~g~~~~~~~~~i~l~~~~~p~~~~~~~~~~--------~~~~~~~~~i~~ll~~G~I~~~--~sp   74 (455)
T 1rw3_A            5 TWLSDFPQAWAETGGMGLAVRQAPLIIPLKATSTPVSIKQYPMSQ--------EARLGIKPHIQRLLDQGILVPC--QSP   74 (455)
T ss_dssp             CHHHHCTTTBHHHHCSCCCSSSCCBCCCBCTTCCCCBCCCCCCCT--------THHHHSHHHHHHHHHTTSEEEE--CCS
T ss_pred             HHHHHhHHhhcCCCCCCCCCCCCceEEEecCCCcccccCCcCCCH--------HHHHHHHHHHHHHHhCCCEEec--CCc
Confidence            457778888853   3333 2355666  5777889988888877        4558999999999999999995  789


Q ss_pred             cceeEEEEecC-CCCcccccccCCcccccCCcccccccccccccccc-CCceeEEeccccccccccccccccccccccc-
Q psy14859        498 FLSRLFLVPKG-NGGTRPVLNLKGLNQFLSPKKFSLINHFRIPSFLQ-KGDYMISIDLSQAYFHVPIKTTHQRFLALSY-  574 (1097)
Q Consensus       498 ~~SPv~~V~Kk-dgk~R~vvD~R~LN~~t~~~~~plP~i~~ll~~L~-~~~~fs~lDLksAY~qI~L~~edr~~taF~t-  574 (1097)
                      |++|+++|+|| +|++|+|+|||.||+.|.++++++|+++++++.++ ++++|+++|+++|||||+|+++|+++|+|.| 
T Consensus        75 ~~spv~~V~Kk~~g~~R~~~D~r~LN~~~~~~~~~lp~~~~ll~~l~~~~~~~s~lDl~~~y~qi~l~~~d~~~taF~~~  154 (455)
T 1rw3_A           75 WNTPLLPVKKPGTNDYRPVQDLREVNKRVEDIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAFEWR  154 (455)
T ss_dssp             CBBCEECCCCSSSSCCCCEECTHHHHHTBCCCCCCCCCHHHHHTTCCTTCCEEEEEEBTTGGGGSBBCSTTSGGGCEEEC
T ss_pred             ccCceEEEeccCCCcEEEchhHHHHHhhccCCCCCCCCHHHHhhhhccCCceEEecchhhhheeEeccccccceeEEeec
Confidence            99999999999 79999999999999999999999999999999997 8999999999999999999999999999998 


Q ss_pred             -----ccceEEeeccCccCCCChHHHHHhhHHHHhhhhc--cCceEEEEecCceeeecCchhHHHhhhHHHHHHhhccce
Q psy14859        575 -----NGDVLAMTCLPFGLATAPQAFASLSNWVASLLRS--RGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWI  647 (1097)
Q Consensus       575 -----~~g~y~~~rLPFGL~nSP~~Fqr~m~~il~~lr~--~g~~v~vYvDDILI~s~s~eeh~~~l~~Vl~~L~~~Gl~  647 (1097)
                           ++|+|+|+|||||++|||++||++|+.+++.++.  .+..+.+|+|||+|++++.++|..+++.|+++|+++|+.
T Consensus       155 ~p~~~~~g~y~~~~mpfGl~naP~~fq~~m~~~l~~~~~~~~~~~v~~YvDDili~s~~~~e~~~~l~~v~~~l~~~gl~  234 (455)
T 1rw3_A          155 DPEMGISGQLTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLAATSELDCQQGTRALLQTLGNLGYR  234 (455)
T ss_dssp             TTSSSCCEEEEESBCCSSCTTHHHHHHHHHHHHHHHHHHTCTTCEEEEETTEEEEEESSHHHHHHHHHHHHHHHHHHTCC
T ss_pred             CCCCCCCceEEEEecCCCCCCcHHHHHHHHHHHHHHhhhhCCCceEEEEcCCEEEecCCHHHHHHHHHHHHHHHHHcCCc
Confidence                 4899999999999999999999999999998753  356899999999999999999999999999999999999


Q ss_pred             eccccCCCCCCCeEEEeeEEeCCCCCcccCcchhhhhhhHHHHHhhhccccChhhhhhhhhccccccccccCCccchhhh
Q psy14859        648 VNLQKSSLSPAPVLQFLGIMWDPHLDRMWLPEDKQLTLGNILRTLLASKTWNLDSARSLLGYLSFASFVIPMGRLHSRRI  727 (1097)
Q Consensus       648 ln~~Kc~f~p~~~v~fLG~iIs~~gi~v~l~~~Ki~ai~~~~~il~~~~P~t~keLrsfLGllny~r~fI~~~~~~arpL  727 (1097)
                      +|++||+|+ ..+++||||+|+.+|+++  +++|++++      ..++.|+|++++|+|+|++||||+||++++.+++||
T Consensus       235 l~~~K~~f~-~~~~~fLG~~i~~~gi~~--~~~kv~~i------~~~~~p~t~k~l~~flG~~~y~r~fi~~~~~~~~pL  305 (455)
T 1rw3_A          235 ASAKKAQIC-QKQVKYLGYLLKEGQRWL--TEARKETV------MGQPTPKTPRQLREFLGTAGFCRLWIPGFAEMAAPL  305 (455)
T ss_dssp             BCGGGCCCS-BSSCEETTEEESSSEECC--CTTCCCCC------CCCCTTTHHHHHHHTTTTTCCCSSCCCCCGGGCCTT
T ss_pred             cCccchhhh-ccceeEeeeeccCCeeEE--ChhHhhhh------ccCCCCCCHHHhhhhcccchHHHHHHhhhhhhcccH
Confidence            999999998 899999999999999965  88888765      456789999999999999999999999999999999


Q ss_pred             HHHHHHhhcCCCCCCCCCcccchhhHHhhhhCCCCCCCC---CCCcceeeeeccCCCCCcceeec---------cccccc
Q psy14859        728 QRQASLLRLGAPHLTPINPAVLPKLEWWLNALPLSSPIF---PRQVQHFISTDASDLGWGSQVDS---------SFLSGL  795 (1097)
Q Consensus       728 ~~ll~~lkk~~~~W~~~~q~Af~~LK~~l~~l~~~~Pil---~~~~p~~L~TDAS~~GiGAVL~q---------a~~Sr~  795 (1097)
                      +.+++  +...+.|++++++||++||..+.    ..|++   ++..+|+|+||||+.|+||||.|         +|+|++
T Consensus       306 ~~llk--k~~~~~W~~~~~~af~~lK~~l~----~~pvL~~p~~~~~~~l~~DAS~~~~gavL~q~~~~~~~~i~y~Sk~  379 (455)
T 1rw3_A          306 YPLTK--TGTLFNWGPDQQKAYQEIKQALL----TAPALGLPDLTKPFELFVDEKQGYAKGVLTQKLGPWRRPVAYLSKK  379 (455)
T ss_dssp             CC----------CCCCCCSSSCCHHHHHTC----SSCCSCCSSSCCTTSCEEEEEECSSSBEECCBCTTTTCCCCCCCBC
T ss_pred             HHHhc--CCCCcCchHHHHHHHHHHHHHhh----cCcccccCCCCCcEEEEEeccCCcceeEEEEecCCcEEEEEEEccc
Confidence            98765  44679999999999999998653    34443   46789999999999999999998         589999


Q ss_pred             cchhhhcccchHHhhhhHHHHHHHhhhhhccCceEeecCcHHHHHHHHhcCCCCchhhHHHHHHHHHHhh-ccCce
Q psy14859        796 WSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLRRQGGTKSLSLLSEVEKIFLLSQ-DWRIH  870 (1097)
Q Consensus       796 ls~aE~~ysi~ekELlAIv~AL~~~r~~L~g~~~~V~TDhk~lv~~l~~~~~~~~~~l~~~~~r~~~~L~-~f~~~  870 (1097)
                      ++++|.+|+++++|++||++|+++|++|+.|.+|+|+|||+ +..++++.....  ..+.++.||...|+ .|++.
T Consensus       380 l~~~e~~ys~~ekEllAi~~a~~~~~~yl~g~~~~v~tDh~-~~~~l~~~~~~~--~~~~Rl~rW~~~L~e~~~i~  452 (455)
T 1rw3_A          380 LDPVAAGWPPCLRMVAAIAVLTKDAGKLTMGQPLVIKAPHA-VEALVKQPPDRW--LSNARMTHYQALLLDTDRVQ  452 (455)
T ss_dssp             SCSSCSSSCCSSHHHHHHHHHHHHHHGGGCSSCEEEECSSC-TTTTSSSTTTTT--CCCCCCSCCCCCCCCCCSSS
T ss_pred             CCccccccchHHHHHHHHHHHHHHHHHHcCCCcEEEEecCh-HHHHhCCCcccc--ccchHHHHHHHHhCcCCCeE
Confidence            99999999999999999999999999999999999999998 557776543210  01233566777777 46653
>2zd1_B P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} SCOP: e.8.1.2 PDB: 2ykm_B* 2ykn_B* 2ze2_B* 3bgr_B* 3ig1_B* 3irx_B* 3is9_B* 3qo9_B* 3v4i_B* 3v6d_B* 3v81_B* 3klf_B* 3kk1_B* 3kjv_B* 3kk2_B* 3kk3_B* 2be2_B* 1n5y_B* 1bqm_B* 1n6q_B* ... Back     alignment and structure
>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} PDB: 3is9_A* 3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A 1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A* 2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ... Back     alignment and structure
>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug design, transferase; 2.35A {Human immunodeficiency virus 2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B Back     alignment and structure
>3fsi_A RT, reverse transcriptase domain; transferase/DNA MMLV RT, protein-DNA complex, drug-DNA complex; HET: OWL; 1.75A {Moloney murine leukemia virus} SCOP: e.8.1.2 PDB: 1d1u_A 1n4l_A* 1ztt_A 2fjv_A* 2fjw_A 2fjx_A* 2fvp_A 2fvq_A 2fvr_A 2fvs_A 2r2r_A* 2r2s_A* 2r2t_A* 2r2u_A* 1ztw_A* 1i6j_A 1qaj_A* 1d0e_A* 1nnd_A 1mml_A ... Back     alignment and structure
>3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain, fusion protein, maltose binding protein, HYDR; HET: MLR TAR; 2.25A {Mycobacterium tuberculosis} Back     alignment and structure
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A Back     alignment and structure
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism} Back     alignment and structure
>3oym_A PFV integrase, P42IN; protein-DNA complex; HET: DNA; 2.02A {Human spumaretrovirus} PDB: 3oyn_A* 3s3o_A* 4be2_A* 3l2q_A 3l2s_A 3l2r_A* 3l2u_A* 3l2v_A* 3l2w_A* 3l2t_A* 3os1_A* 3os2_A* 3os0_A* 3oya_A* 3oy9_A* 3oyc_A* 3oyd_A* 3oye_A* 3oyb_A* 3oyg_A* ... Back     alignment and structure
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A Back     alignment and structure
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum} Back     alignment and structure
>1jl1_A Ribonuclease HI; RNAse HI, protein stability, thermostability, hydrogen exchange, cooperativity, hydrolase; 1.30A {Escherichia coli} SCOP: c.55.3.1 PDB: 1f21_A 1jxb_A 1g15_A 1rch_A 1rdd_A 1rnh_A* 2rn2_A 1rda_A 1law_A 1rdb_A 1lav_A 3aa4_A 1rbu_A 1gob_A 1rdc_A 1kvc_A 3aa3_A 3aa2_A 3aa5_X 1rbv_A ... Back     alignment and structure
>3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV, RNAse H, reverse transcriptase, transcription; 1.50A {Xenotropic mulv-related virus} PDB: 3v1q_A 3v1o_A 3v1r_A* 2hb5_A 4e89_A Back     alignment and structure
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A Back     alignment and structure
>3qio_A GAG-POL polyprotein; RNAse H, inhibitor, nuclease, transferase, hydrolase- complex; HET: QID; 1.40A {Hiv-1 M} SCOP: c.55.3.1 PDB: 3qin_A* 3hyf_A* 1o1w_A 3lp3_A* 1hrh_A 3k2p_A* 1rdh_A Back     alignment and structure
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A* Back     alignment and structure
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus} Back     alignment and structure
>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO enzyme, structural genomics, protein structure initiative; NMR {Desulfitobacterium hafniense dcb-2} PDB: 2kw4_A Back     alignment and structure
>1zbf_A Ribonuclease H-related protein; RNAse H, RNA/DNA hybrid, DDE motif, hydrolase; 1.50A {Bacillus halodurans} SCOP: c.55.3.1 PDB: 1zbi_A 2g8u_A 2g8i_A 2g8h_A 2g8k_A 2g8f_A 2g8v_A 2g8w_A 3ey1_A* 1zbl_A 3d0p_A* 3i8d_A* 2r7y_A* Back     alignment and structure
>3f9k_A Integrase; protein-protein complex, AIDS, DNA integration, endonuclease magnesium, metal-binding, multifunctional enzyme; 3.20A {Human immunodeficiency virus type 2} PDB: 1e0e_A Back     alignment and structure
>4htu_A Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, W-C base PAIR, wobble base PAIR, D helix; HET: DNA UCL; 1.49A {Bacillus halodurans} PDB: 3d0p_A* 4hue_A* 4huf_A* 4hug_A* 1zbf_A 1zbi_A 2g8u_A 3uld_A* 3ey1_A* 3twh_A* 2g8f_A 2g8v_A 2g8w_A 2g8i_A 2g8h_A 2g8k_A 3i8d_A* 2r7y_A* 1zbl_A Back     alignment and structure
>3hph_A Integrase, IN; protein-protein complex, tetramer, DNA integration, endonucl magnesium, metal-binding, multifunctional enzyme; 2.64A {Maedi visna virus} PDB: 3hpg_A Back     alignment and structure
>1k6y_A Integrase; HIV-1, domain organization, transferase; 2.40A {Human immunodeficiency virus 1} SCOP: a.4.10.1 c.55.3.2 PDB: 1wjb_A 1wjd_A 1wjf_A 1wja_A 1wjc_A 1wje_A Back     alignment and structure
>3kyl_A Telomerase reverse transcriptase; reverse transcriptase; 2.70A {Tribolium castaneum} PDB: 3du5_A 3du6_A 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 1097
d2zd1b1424 e.8.1.2 (B:5-428) HIV-1 reverse transcriptase {Hum 4e-17
d1hara_216 e.8.1.2 (A:) HIV-1 reverse transcriptase {Human im 4e-14
d1mu2a2427 e.8.1.2 (A:3-429) HIV-1 reverse transcriptase {Hum 5e-14
>d2zd1b1 e.8.1.2 (B:5-428) HIV-1 reverse transcriptase {Human immunodeficiency virus type 1 [TaxId: 11676]} Length = 424 Back     information, alignment and structure

class: Multi-domain proteins (alpha and beta)
fold: DNA/RNA polymerases
superfamily: DNA/RNA polymerases
family: Reverse transcriptase
domain: HIV-1 reverse transcriptase
species: Human immunodeficiency virus type 1 [TaxId: 11676]

 Score = 83.1 bits (205), Expect = 4e-17
 Identities = 60/327 (18%), Positives = 117/327 (35%), Gaps = 32/327 (9%)

Query: 475 AMSLHIQEMLETGVLKRLDSTTGFLSRLFLVPKGNGGT-RPVLNLKGLNQFLSPKKFSLI 533
           A+     EM + G + ++     + + +F + K +    R +++ + LN+  +   + + 
Sbjct: 29  ALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNK-RTQDFWEVQ 87

Query: 534 NHFRIPSFLQKGDYMISIDLSQAYFHVPIKTTHQRFLAL-------SYNGDVLAMTCLPF 586
                P+ L+K   +  +D+  AYF VP+    +++ A           G       LP 
Sbjct: 88  LGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQ 147

Query: 587 GLATAPQAFASLSNWV-ASLLRSRGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLG 645
           G   +P  F S    +     +     V+    D L V  D  I + + K+       L 
Sbjct: 148 GWKGSPAIFQSSMTKILEPFKKQNPDIVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLR 207

Query: 646 WIVNLQKSSLSPAPVLQFLGIMWDPHLDRMWLPEDKQLTLGNILRTLLASKTWNLDSARS 705
           W +          P   ++G    P  D+  +              L    +W ++  + 
Sbjct: 208 WGLTTPDKKHQKEPPFLWMGYELHP--DKWTVQPIV----------LPEKDSWTVNDIQK 255

Query: 706 LLGYLSFASFVIPMGRLHSRRIQRQASLLRLGAPHLTPINPAVLPKLEWWLNALPLSSP- 764
           L+G L++AS + P       ++++ + LLR        I      +LE   N   L  P 
Sbjct: 256 LVGKLNWASQIYP-----GIKVRQLSKLLRGTKALTEVIPLTEEAELELAENREILKEPV 310

Query: 765 --IFPRQVQHFI-STDASDLG-WGSQV 787
             ++    +  I        G W  Q+
Sbjct: 311 HGVYYDPSKDLIAEIQKQGQGQWTYQI 337
>d1hara_ e.8.1.2 (A:) HIV-1 reverse transcriptase {Human immunodeficiency virus type 1 [TaxId: 11676]} Length = 216 Back     information, alignment and structure
>d1mu2a2 e.8.1.2 (A:3-429) HIV-1 reverse transcriptase {Human immunodeficiency virus type 2 [TaxId: 11709]} Length = 427 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 ?
Query1097
d2zd1b1424 HIV-1 reverse transcriptase {Human immunodeficienc 100.0
d1mu2a2427 HIV-1 reverse transcriptase {Human immunodeficienc 100.0
d1ztwa1255 MMLV reverse transcriptase {Moloney murine leukemi 100.0
d1hara_216 HIV-1 reverse transcriptase {Human immunodeficienc 100.0
d1mu2a1126 HIV RNase H (Domain of reverse transcriptase) {Hum 98.0
d1zbfa1132 BH0863-like Ribonuclease H {Bacillus halodurans [T 97.88
d1s1ta1110 HIV RNase H (Domain of reverse transcriptase) {Hum 97.77
d1rila_147 RNase H (RNase HI) {Thermus thermophilus [TaxId: 2 97.75
d1jl1a_152 RNase H (RNase HI) {Escherichia coli [TaxId: 562]} 97.71
>d2zd1b1 e.8.1.2 (B:5-428) HIV-1 reverse transcriptase {Human immunodeficiency virus type 1 [TaxId: 11676]} Back     information, alignment and structure
class: Multi-domain proteins (alpha and beta)
fold: DNA/RNA polymerases
superfamily: DNA/RNA polymerases
family: Reverse transcriptase
domain: HIV-1 reverse transcriptase
species: Human immunodeficiency virus type 1 [TaxId: 11676]

Probab=100.00  E-value=3.4e-59  Score=539.01  Aligned_cols=376  Identities=15%  Similarity=0.162  Sum_probs=297.3

Q ss_pred             cCCcccHHHHHHHHHHHHHcCCccccCCCCCcceeEEEEecCCC-CcccccccCCcccccCCccccccccccccccccCC
Q psy14859        467 HLATPVSSAMSLHIQEMLETGVLKRLDSTTGFLSRLFLVPKGNG-GTRPVLNLKGLNQFLSPKKFSLINHFRIPSFLQKG  545 (1097)
Q Consensus       467 ~~s~~~~~~i~~eI~~ll~~GiI~~~~s~S~~~SPv~~V~Kkdg-k~R~vvD~R~LN~~t~~~~~plP~i~~ll~~L~~~  545 (1097)
                      +++.++.++++++|++|+++|+|+++.+.|||+||+|+|+|||| ++|+|+|||.||+.| .+.+++|.+.++++.|+++
T Consensus        21 pLs~ek~~al~~~i~~ll~~G~I~~~~s~Sp~~sPvf~V~KKdg~k~R~~iDyR~LN~~t-~d~~~~~~~~~~~~~L~~~   99 (424)
T d2zd1b1          21 PLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKRT-QDFWEVQLGIPHPAGLKKK   99 (424)
T ss_dssp             CCCHHHHHHHHHHHHHHHHTTSEEECCTTCCCBBCEEEECCTTCSSCEEEECTHHHHHHB-CCCCCTTSCCCCCTTGGGS
T ss_pred             CCCHHHHHHHHHHHHHHHHCCeeEecCCCCCCcCCeEEEEeCCCCceEEEEccHHHHHhc-CCCCCCCCcCcChHHhcCC
Confidence            44446679999999999999999998778999999999999987 599999999999999 5889999999999999999


Q ss_pred             ceeEEecccccccccccccccccccccc-------cccceEEeeccCccCCCChHHHHHhhHHHHhhhhcc--CceEEEE
Q psy14859        546 DYMISIDLSQAYFHVPIKTTHQRFLALS-------YNGDVLAMTCLPFGLATAPQAFASLSNWVASLLRSR--GMRVVVY  616 (1097)
Q Consensus       546 ~~fs~lDLksAY~qI~L~~edr~~taF~-------t~~g~y~~~rLPFGL~nSP~~Fqr~m~~il~~lr~~--g~~v~vY  616 (1097)
                      ++|+++|+++|||||+|+|+|+++|||+       +++|+|+|+|||||++|||++||++|+.+++.++..  +.+|++|
T Consensus       100 ~~ft~lDl~~ay~qIpl~e~~r~~tAF~~p~~~f~T~~g~y~~~vlPfGl~nsPa~Fqr~m~~il~~~~~~~~~~~i~~Y  179 (424)
T d2zd1b1         100 KSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFKKQNPDIVIYQY  179 (424)
T ss_dssp             SEEEEEECGGGGGGSBCCTTTGGGGCEEECCGGGCSCCEEEEESBCCTTCTHHHHHHHHHHHHHHHHHHHHCTTCEEEEE
T ss_pred             ceEeeccccccccccCCChhhccceeccccCcccccCCceEEEEecCCcccCcHHHHHHHHHHHcccccccCcceeEEec
Confidence            9999999999999999999999999998       478999999999999999999999999999988654  3579999


Q ss_pred             ecCceeeecC-chhHHHhhhHHHHHHhhccceeccccCCCCCCCeEEEeeEEeCCCCCcccCcchhhhhhhHHHHHhhhc
Q psy14859        617 LDDFLLVNQD-PRILEIQGKLAVSILGSLGWIVNLQKSSLSPAPVLQFLGIMWDPHLDRMWLPEDKQLTLGNILRTLLAS  695 (1097)
Q Consensus       617 vDDILI~s~s-~eeh~~~l~~Vl~~L~~~Gl~ln~~Kc~f~p~~~v~fLG~iIs~~gi~v~l~~~Ki~ai~~~~~il~~~  695 (1097)
                      +|||+|+|++ .++|..+++.|+++|+++||.++ +||.+. ..+++||||+|+.+|+++  ++.|++          .+
T Consensus       180 ~DDIlI~S~~~~eeH~~~l~~vl~~L~~~gl~l~-~Kk~f~-~~~v~~LG~~is~~gi~~--~~~kl~----------~~  245 (424)
T d2zd1b1         180 MDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTP-DKKHQK-EPPFLWMGYELHPDKWTV--QPIVLP----------EK  245 (424)
T ss_dssp             TTEEEEEECSCHHHHHHHHHHHHHHHHHHHC--------------CTTCCEEECGGGCCC--CCCCCC----------CC
T ss_pred             cceEEEecCchhHHHHHHHHHHHHHHHHhCCccc-hhhhhh-hcccccceeeecCCcEeC--CHHHhc----------cc
Confidence            9999999985 78999999999999999999998 455566 899999999999999965  777763          35


Q ss_pred             cccChhhhhhhhhccccccccccCCccchhhhHHHHHHhhc--CCCCCCCCCcccchhhHHhhhhCCCCCCC---CCCCc
Q psy14859        696 KTWNLDSARSLLGYLSFASFVIPMGRLHSRRIQRQASLLRL--GAPHLTPINPAVLPKLEWWLNALPLSSPI---FPRQV  770 (1097)
Q Consensus       696 ~P~t~keLrsfLGllny~r~fI~~~~~~arpL~~ll~~lkk--~~~~W~~~~q~Af~~LK~~l~~l~~~~Pi---l~~~~  770 (1097)
                      .|+|++++|+|+|++||||+||++++  +++|+++++..++  ..+.|++++++||+++|..+.    ..|+   +++++
T Consensus       246 ~p~t~kelq~fLG~~n~~r~fIp~~s--~~~L~~ll~~~~~~~~~~~Wt~e~~~af~~lK~~l~----~~p~L~~~Dp~k  319 (424)
T d2zd1b1         246 DSWTVNDIQKLVGKLNWASQIYPGIK--VRQLSKLLRGTKALTEVIPLTEEAELELAENREILK----EPVHGVYYDPSK  319 (424)
T ss_dssp             SSEEHHHHHHHHHHHHHHTTTCTTCC--CHHHHHTTCSCCCTTCEECCCHHHHHHHHHHHHHTT----SCCTTCCCCTTS
T ss_pred             cCCCHHHHHHHHHHHHHHHHhcccch--HHHHHHHhhhhccCCCCccCCHHHHHHHHHHHHHhc----ccccccCCCCCC
Confidence            79999999999999999999999997  5788877654322  347899999999999998543    3333   47899


Q ss_pred             ceeeeeccCCCCCccee-ec--------cccccccchhhhcccchHHhhhhHHHHHHHhhhhhccCceEeecCcHHHHHH
Q psy14859        771 QHFISTDASDLGWGSQV-DS--------SFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSY  841 (1097)
Q Consensus       771 p~~L~TDAS~~GiGAVL-~q--------a~~Sr~ls~aE~~ysi~ekELlAIv~AL~~~r~~L~g~~~~V~TDhk~lv~~  841 (1097)
                      +|+++||||..|.++.. .|        +++++ ...++.+ ..-.+++++.-.+.+.+.++..+-.+.|-.        
T Consensus       320 p~~~~~das~~g~~~~~~~q~~~~~~~~~~~~~-~~~~~~n-~~~~~~~~~~k~~~e~~~~~g~~p~~~~p~--------  389 (424)
T d2zd1b1         320 DLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYAR-MRGAHTN-DVKQLTEAVQKITTESIVIWGKTPKFKLPI--------  389 (424)
T ss_dssp             CCEEEEEEEETTEEEEEEESSTTCEEEEEEEEC-CSSCTTC-HHHHHHHHHHHHHHHHHHHHSSCCEEEESS--------
T ss_pred             CEEEEEecCCCCceEEEEEcCCCcccceEEecc-ccccccC-HHHHHHHHHHHHHHHHHHHhCcCccEECCc--------
Confidence            99999999987754443 33        23443 3444544 333345555555555566555444443321        


Q ss_pred             HHhcCCCCchhhHHHHHHHHHHhhccCceEEEEEecCCCccccccccCC
Q psy14859        842 LRRQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGAYNSVADSLSRS  890 (1097)
Q Consensus       842 l~~~~~~~~~~l~~~~~r~~~~L~~f~~~i~I~hipGk~N~~ADaLSR~  890 (1097)
                                    ....|..|..+|   ..+.|+|.-+++.++.|+|.
T Consensus       390 --------------~~~~w~~~~~~~---~~~~~~p~~~~~~~~~l~~~  421 (424)
T d2zd1b1         390 --------------QKETWETWWTEY---WQATWIPEWEFVNTPPLVKL  421 (424)
T ss_dssp             --------------CHHHHHHHHHHH---CCCSSCCEEEECCSCCTTTG
T ss_pred             --------------cHHHHHHHHHhh---cccccCCCceeccCcHHHHH
Confidence                          123455555655   23489999999999999985
>d1mu2a2 e.8.1.2 (A:3-429) HIV-1 reverse transcriptase {Human immunodeficiency virus type 2 [TaxId: 11709]} Back     information, alignment and structure
>d1ztwa1 e.8.1.2 (A:24-278) MMLV reverse transcriptase {Moloney murine leukemia virus, MoMLV [TaxId: 11801]} Back     information, alignment and structure
>d1hara_ e.8.1.2 (A:) HIV-1 reverse transcriptase {Human immunodeficiency virus type 1 [TaxId: 11676]} Back     information, alignment and structure
>d1mu2a1 c.55.3.1 (A:430-555) HIV RNase H (Domain of reverse transcriptase) {Human immunodeficiency virus type 2 [TaxId: 11709]} Back     information, alignment and structure
>d1zbfa1 c.55.3.1 (A:62-193) BH0863-like Ribonuclease H {Bacillus halodurans [TaxId: 86665]} Back     information, alignment and structure
>d1s1ta1 c.55.3.1 (A:430-539) HIV RNase H (Domain of reverse transcriptase) {Human immunodeficiency virus type 1 [TaxId: 11676]} Back     information, alignment and structure
>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure