Psyllid ID: psy15121

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
RGVRCLVYLDDFLLASQDPIVLKNQILQTLQLLTYLAQALIELKWFYHNLTGFTPLHPPVPRTFMSTDASDVGWGAMVGNVSVQGVWTQAQRSWHINLKELFTVRAAISSNPSLVANHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFQRWGIESCAALCDPESPGQQGGIHRCLLKKVGFQASVGLPAPASTSSSIASLERRPGLICNSSSSVAEGLLVSRLEGAGNSPPNNGSRPQIASDRSSNGLLSGNDRGHDIGNLANTGLSIMFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLYKGTVYQRTCLSFGLASAPQAFAQLSNWVAVLLRERGVRCLVYLDDFLLASQDSVVLKNQIFQTLPVNLSGNCSRSGRRSHPTHSLVANHTVVLQSDNKTVITYIRKQVGLRSNALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFPRWGSRVVPLYVTRNPQDSKAAFIDAFSRKWDFKLAWVFPPPPLLQVLHHLNDAQGLYGDGTMRPVFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLIPMDMSSFRPSLSSPGVCPTIKLGRRLRERGVRCLVYLDDFLLASQDPIVLKNQILQTLQLLTYLGWQVNLKKSQIIPSHRVDYLGISWDTDLLQVRLPVDKIPPLRDRLQTQALIELKWFYHNLTGFTPLHPPVPRTFMSTDASDVGWGAMVGNVSVQGVWTQAQRSWHINLKELFTVRAAISSNPSLVANHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFQRWGTISSCTEHQGTG
cccEEEEEHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccEEEEEEcccccEEEEEccEEEcccccHHHHHcccHHHHHHHHHHHHHHcccccccccEEEEcccHHHHHHHHHccccccHHHHHHHHHHHHHHHHccccEEEEEEcccccccccccccccccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEccccccccccccccccccHHHHHccccccEEEEEccccccccccccccccccEEEEEcccEEEEEEccccccccHHHHHHHHHHHHHHHHHcccEEEEEEcEEEEEcccHHHHHHHHHHHccccccccccccccccccccccccccEEEEcccccHHHHHHHHHcccccHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHccccccccccccHHHHcccccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccEEEEEEccccccccccccccccccHHHHHccccccEEEEEEcccccccccccccccccEEEEEcccEEEEEEcccccccccHHHHHHHHHHcccEEEEEEccEEEEcccHHHHHHHHHHHHHHHHHcccEEEEcccEEccccEEEEEEEEEEccccEEEccccccccccccccHHHHHHHHHHHHccccccccccccccccEEcccccccccEEEccccccccccHHHHHccHHHHHHHHHHHHHHHccccccccEEEEEEccHHHHHHHHHccccccHHHHHHHHHHHHHHHHcccEEEEEEEcccccccccccccccccccccccHHHHHHHHHHHccccccccccccc
cccEEEEEHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccEEEEEccccccccEEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHcccEEEEEcccHHHHHEEHccccHHHHHHHHHHHHHHHHHcHHHccEEEEEcccHHHHHHHHHHHHccccHHcccHHHHHHHHHHHccHEHHHccccccccccccHHHHHHHHcccccccccccccccccHHHHHccccccccccccccccccccccccccccccccHHHcHHHHHHHHHcccEccccccccccccccccEEEEEEHHHHHHHccccccccccHHHHHHHHcccEEEEEEEcccccEEEEEcccccccEEEEcccccEEEEEEcccccccHHHHHHHHHHHHHHHHccccEEEEEEccEEEEcccHHHHHHHHHHHHHHHHHcccccccEEEEccEEEEEEEEEEccccccccHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHcccccHHHHcccHHHHcccccccEEEcccHHHHHHHHHHHHHcccEEEcccccccEEEEEEcccccccEEEEEEcccccEEEcccccHHHHcccccccEEEEEEHHHHHHHccccccccccHHHHHHHHcccEEEEEEEcccccEEEEEcccccccEEEEccccccccccHHHHHHHcHHHHHHHHHHcccEEEEEEEccEEEEcccHHHHHHHHHHHHHHHHHcccEEcccHEEEEEEcEEEEEEEEEcccccEEEEccccccccccHHHHHHHHcHHHHHHHHHcccccccccccEEEEEccccccHHHHHccccccccccHHHHccccHHHHHHHHHHHHHHHHHHHcccEEEEEEcHHHHHHHHHcccccccHHHHHHHHHHHHHHHHccccEEEEEcccccccHHHHHccccccccccccHHHHHHHHHHcccccHHHHccccc
RGVRCLVYLDdfllasqdpivlKNQILQTLQLLTYLAQALIELKWFYhnltgftplhppvprtfmstdasdvgwgAMVGNVSVQGVWTQAQRSWHINLKELFTVRAaissnpslvaNHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIhivpyfipgkcNSLADALSrqalipdwhllpsltesvfqrwgiescaalcdpespgqqggihrclLKKVgfqasvglpapastsssiaslerrpglicnssssVAEGLLVSrlegagnsppnngsrpqiasdrssngllsgndrghdignlantGLSIMFNLKSlnsyvttkkfklinhqkiplflqkndylaTIDLsqaychipiARRHRRFLCFLYKGTVYQRTCLSFGLASAPQAFAQLSNWVAVLLRERGVRCLVYLDDFLLASQDSVVLKNQIfqtlpvnlsgncsrsgrrshpthslvANHTVVLQSDNKTVITYIRKQVGLRSNALLAETKKLLLIMSKLNIhivpyfipgkcNSLADALSrqalipdwhllpsltesvfprwgsrvvplyvtrnpqdskAAFIDAFSRKWDfklawvfppppllqVLHHLNdaqglygdgtmrpvfnlkslnsyvttkkfklinhqkiplflqkndylaTIDLSQAYCHIPIARRHRRFLCFlipmdmssfrpslsspgvcptiklgrRLRERGVRCLVYLDDfllasqdpivlKNQILQTLQLLTYLGWqvnlkksqiipshrvdylgiswdtdllqvrlpvdkipplrdRLQTQALIELKWFyhnltgftplhppvprtfmstdasdvgwgAMVGNVSVQGVWTQAQRSWHINLKELFTVRAaissnpslvaNHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIhivpyfipgkcNSLADALSrqalipdwhllpsltesvfqrwgtissctehqgtg
RGVRCLVYLDDFLLASQDPIVLKNQILQTLQLLTYLAQALIELKWFYHNLTGFTPLHPPVPRTFMSTDASDVGWGAMVGNVSVQGVWTQAQRSWHINLKELFTVRAAISSNPSLVANHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFQRWGIESCAALCDPESPGQQGGIHRCLLKKVGFQASVGLPAPASTSSSIASLERRPGLICNSSSSVAEGLLVSRLEgagnsppnngsrpqiASDRSSNGLLSGNDRGHDIGNLANTGLSIMFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLYKGTVYQRTCLSFGLASAPQAFAQLSNWVAVLLRERGVRCLVYLDDFLLASQDSVVLKNQIFQTLPVNLSGNCSRSGRRShpthslvanhtvvlqsdnkTVITYIRKQVGLRSNALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFPRWGSRVVPLYVTRNPQDSKAAFIDAFSRKWDFKLAWVFPPPPLLQVLHHLNDAQGLYGDGTMRPVFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLIPMDMssfrpslsspgvcPTIKLGRRLRERGVRCLVYLDDFLLASQDPIVLKNQILQTLQLLTYLGWQVNLKKSQIIPSHRVDYLGISWDTDLLQvrlpvdkipplRDRLQTQALIELKWFYHNLTGFTPLHPPVPRTFMSTDASDVGWGAMVGNVSVQGVWTQAQRSWHINLKELFTVRAAISSNPSLVANHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFQRWGTISSCTEHQGTG
RGVRCLVYLDDFLLASQDPIVLKNqilqtlqlltylaqaliELKWFYHNLTGFTPLHPPVPRTFMSTDASDVGWGAMVGNVSVQGVWTQAQRSWHINLKELFTVRAAISSNPSLVANHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFQRWGIESCAALCDPESPGQQGGIHRCLLKKVGFQASVGLpapastsssiasLERRPGLICNSSSSVAEGLLVSRLEGAGNSPPNNGSRPQIASDRSSNGLLSGNDRGHDIGNLANTGLSIMFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLYKGTVYQRTCLSFGLASAPQAFAQLSNWVAVLLRERGVRCLVYLDDFLLASQDSVVLKNQIFQTLPVNLSGNCSRSGRRSHPTHSLVANHTVVLQSDNKTVITYIRKQVGLRSNALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFPRWGSRVVPLYVTRNPQDSKAAFIDAFSRKWDFKLAWVFppppllqvlhhlNDAQGLYGDGTMRPVFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLIPMDMSSFRPSLSSPGVCPTIKLGRRLRERGVRCLVYLDDFLLASQDPIVLKNQIlqtlqlltylGWQVNLKKSQIIPSHRVDYLGISWDTDLLQVRLPVDKIPPLRDRLQTQALIELKWFYHNLTGFTPLHPPVPRTFMSTDASDVGWGAMVGNVSVQGVWTQAQRSWHINLKELFTVRAAISSNPSLVANHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFQRWGTISSCTEHQGTG
**VRCLVYLDDFLLASQDPIVLKNQILQTLQLLTYLAQALIELKWFYHNLTGFTPLHPPVPRTFMSTDASDVGWGAMVGNVSVQGVWTQAQRSWHINLKELFTVRAAISSNPSLVANHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFQRWGIESCAALCDPES*GQQGGIHRCLLKKVGFQASV***********************************************************************DIGNLANTGLSIMFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLYKGTVYQRTCLSFGLASAPQAFAQLSNWVAVLLRERGVRCLVYLDDFLLASQDSVVLKNQIFQTLPVNLSGN************SLVANHTVVLQSDNKTVITYIRKQVGLRSNALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFPRWGSRVVPLYVTRNPQDSKAAFIDAFSRKWDFKLAWVFPPPPLLQVLHHLNDAQGLYGDGTMRPVFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLIPMDMSSFRPSLSSPGVCPTIKLGRRLRERGVRCLVYLDDFLLASQDPIVLKNQILQTLQLLTYLGWQVNLKKSQIIPSHRVDYLGISWDTDLLQVRLPVDKIPPLRDRLQTQALIELKWFYHNLTGFTPLHPPVPRTFMSTDASDVGWGAMVGNVSVQGVWTQAQRSWHINLKELFTVRAAISSNPSLVANHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFQRWGTISS********
**VRCLVYLDDFLLASQDPIVLKNQILQTLQLLTYLAQALIELKWFYHNLTGFTPLHPPVPRTFMSTDASDVGWGAMVGNVSVQGVWTQAQRSWHINLKELFTVRAAISSNPSLVANHTVVLQSDNKTVIAYIR*************TKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFQRWGIESCAALC******************VGF**SVGLPAPASTSSSIASLERRP*LICNSS*SVAEGLLVSRL**AGNSPP********************************TGLSIMFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLYKGTVYQRTCLSFGLASAPQAFAQLSNWVAVLLRERGVRCLVYLDDFLLASQDSVVLKNQIFQTLPVNLSGNCSRSGRRSHPTHSLVANHTVVLQSDNKTVITYIRKQVGLRSNALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFPRWGSRVVPLYVTRNPQDSKAAFIDAFSRKWDFKLAWVFPPPPLLQVLHHLNDAQGLYGDGTMRPVFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLIPMDMSSFRPSLSSPGVCPTIKLGRRLRERGVRCLVYLDDFLLASQDPIVLKNQILQTLQLLTYLGWQVNLKKSQIIPSHRVDYLGISWDTDLLQVRLPVDKIPPLRDRLQTQALIELKWFYHNLTGFTPLHPPVPRTFMSTDASDVGWGAMVGNVSVQGVWTQAQRSWHINLKELFTVRAAISSNPSLVANHTVVLQSDNKTVIAYIRKQ********LAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFQRWGTIS*********
RGVRCLVYLDDFLLASQDPIVLKNQILQTLQLLTYLAQALIELKWFYHNLTGFTPLHPPVPRTFMSTDASDVGWGAMVGNVSVQGVWTQAQRSWHINLKELFTVRAAISSNPSLVANHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFQRWGIESCAALCDPESPGQQGGIHRCLLKKVGFQASVGLP***********LERRPGLICNSSSSVAEGLLVSRLEGA****************RSSNGLLSGNDRGHDIGNLANTGLSIMFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLYKGTVYQRTCLSFGLASAPQAFAQLSNWVAVLLRERGVRCLVYLDDFLLASQDSVVLKNQIFQTLPVNLSG***********THSLVANHTVVLQSDNKTVITYIRKQVGLRSNALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFPRWGSRVVPLYVTRNPQDSKAAFIDAFSRKWDFKLAWVFPPPPLLQVLHHLNDAQGLYGDGTMRPVFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLIPMDMSSFRPSLSSPGVCPTIKLGRRLRERGVRCLVYLDDFLLASQDPIVLKNQILQTLQLLTYLGWQVNLKKSQIIPSHRVDYLGISWDTDLLQVRLPVDKIPPLRDRLQTQALIELKWFYHNLTGFTPLHPPVPRTFMSTDASDVGWGAMVGNVSVQGVWTQAQRSWHINLKELFTVRAAISSNPSLVANHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFQRWGTISS********
*GVRCLVYLDDFLLASQDPIVLKNQILQTLQLLTYLAQALIELKWFYHNLTGFTPLHPPVPRTFMSTDASDVGWGAMVGNVSVQGVWTQAQRSWHINLKELFTVRAAISSNPSLVANHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFQRWGIESCAALCDPESPGQQGGIHRCLLKKVGFQASVGLPAPASTSSSIASLERRPGLICNSSSSVAEGLLVSRLEGAGNSPPNNGSRPQIASDRSSNGLLSGNDRGHDIGNLANTGLSIMFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLYKGTVYQRTCLSFGLASAPQAFAQLSNWVAVLLRERGVRCLVYLDDFLLASQDSVVLKNQIFQTLPVNLSGNCSRSGRRSHPTHSLVANHTVVLQSDNKTVITYIRKQVGLRSNALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFPRWGSRVVPLYVTRNPQDSKAAFIDAFSRKWDFKLAWVFPPPPLLQVLHHLNDAQGLYGDGTMRPVFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLIPMDMSSFRPSLSSPGVCPTIKLGRRLRERGVRCLVYLDDFLLASQDPIVLKNQILQTLQLLTYLGWQVNLKKSQIIPSHRVDYLGISWDTDLLQVRLPVDKIPPLRDRLQTQALIELKWFYHNLTGFTPLHPPVPRTFMSTDASDVGWGAMVGNVSVQGVWTQAQRSWHINLKELFTVRAAISSNPSLVANHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFQRWGTIS*********
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RGVRCLVYLDDFLLASQDPIVLKNQILQTLQLLTYLAQALIELKWFYHNLTGFTPLHPPVPRTFMSTDASDVGWGAMVGNVSVQGVWTQAQRSWHINLKELFTVRAAISSNPSLVANHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFQRWGIESCAALCDPESPGQQGGIHRCLLKKVGFQASVGLPAPASTSSSIASLERRPGLICNSSSSVAEGLLVSRLEGAGNSPPNNGSRPQIASDRSSNGLLSGNDRGHDIGNLANTGLSIMFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLYKGTVYQRTCLSFGLASAPQAFAQLSNWVAVLLRERGVRCLVYLDDFLLASQDSVVLKNQIFQTLPVNLSGNCSRSGRRSHPTHSLVANHTVVLQSDNKTVITYIRKQVGLRSNALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFPRWGSRVVPLYVTRNPQDSKAAFIDAFSRKWDFKLAWVFPPPPLLQVLHHLNDAQGLYGDGTMRPVFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLIPMDMSSFRPSLSSPGVCPTIKLGRRLRERGVRCLVYLDDFLLASQDPIVLKNQILQTLQLLTYLGWQVNLKKSQIIPSHRVDYLGISWDTDLLQVRLPVDKIPPLRDRLQTQALIELKWFYHNLTGFTPLHPPVPRTFMSTDASDVGWGAMVGNVSVQGVWTQAQRSWHINLKELFTVRAAISSNPSLVANHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQALIPDWHLLPSLTESVFQRWGTISSCTEHQGTG
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 ?
Query960 2.2.26 [Sep-21-2011]
P09523666 Enzymatic polyprotein OS= N/A N/A 0.288 0.415 0.198 2e-09
Q00962680 Enzymatic polyprotein OS= N/A N/A 0.335 0.473 0.220 8e-07
P03555679 Enzymatic polyprotein OS= N/A N/A 0.328 0.463 0.220 3e-06
Q02964679 Enzymatic polyprotein OS= N/A N/A 0.328 0.463 0.220 3e-06
P03554679 Enzymatic polyprotein OS= N/A N/A 0.328 0.463 0.217 6e-06
P03556674 Enzymatic polyprotein OS= N/A N/A 0.328 0.467 0.215 3e-05
P05400659 Enzymatic polyprotein OS= N/A N/A 0.286 0.417 0.208 6e-05
Q02836 1472 Gag-Pol polyprotein OS=Si N/A N/A 0.095 0.062 0.308 0.0002
Q89703652 Putative enzymatic polypr N/A N/A 0.325 0.478 0.191 0.0005
P20825 1059 Retrovirus-related Pol po yes N/A 0.112 0.101 0.285 0.0009
>sp|P09523|POL_FMVD Enzymatic polyprotein OS=Figwort mosaic virus (strain DxS) GN=ORF V PE=3 SV=1 Back     alignment and function desciption
 Score = 65.5 bits (158), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 68/343 (19%), Positives = 129/343 (37%), Gaps = 66/343 (19%)

Query: 608 GTMRPVFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRF 667
           G  R V N K++N         L N Q++   L+     ++ D    +  + +    ++ 
Sbjct: 291 GKKRMVVNYKAINQATIGDSHNLPNMQELLTLLRGKSIFSSFDCKSGFWQVVLDEESQKL 350

Query: 668 LCFLIPMDMSSFRPSLSSPGVCPTI---KLGRRLRERGVRCLVYLDDFLLASQDPIVLKN 724
             F  P     ++         P+I    +   L      C+VY+DD ++ S   +   N
Sbjct: 351 TAFTCPQGHFQWKVVPFGLKQAPSIFQRHMQTALNGADKFCMVYVDDIIVFSNSELDHYN 410

Query: 725 QILQTLQLLTYLGWQVNLKKSQIIPSHRVDYLGISWDTD--------------------- 763
            +   L+++   G  ++ KK+ +    ++++LG+  D                       
Sbjct: 411 HVYAVLKIVEKYGIILSKKKANLF-KEKINFLGLEIDKGTHCPQNHILENIHKFPDRLED 469

Query: 764 ----------LLQVRLPVDKIPPLRDRLQTQALIELKWFY------------HNLTGFTP 801
                     L      + K+  +R  LQ +   ++ W +             NL  F  
Sbjct: 470 KKHLQRFLGVLTYAETYIPKLAEIRKPLQVKLKKDVTWNWTQSDSDYVKKIKKNLGSFPK 529

Query: 802 LHPPVPRT--FMSTDASDVGWGAMVGNVSVQGV----------WTQAQRSWHINLKELFT 849
           L+ P P     + TDASD  WG ++   ++ GV          + QA++++H N KEL  
Sbjct: 530 LYLPKPEDHLIIETDASDSFWGGVLKARALDGVELICRYSSGSFKQAEKNYHSNDKELLA 589

Query: 850 VRAAISSNPSLVANHTVVLQSDNKTVIAYIR-------KQGGL 885
           V+  I+   + +      +++DNK    ++R       KQG L
Sbjct: 590 VKQVITKFSAYLTPVRFTVRTDNKNFTYFLRINLKGDSKQGRL 632
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).
Scrophularia californica (taxid: 46031)
EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 4EC: 9
>sp|Q00962|POL_CAMVN Enzymatic polyprotein OS=Cauliflower mosaic virus (strain NY8153) GN=ORF V PE=3 SV=1 Back     alignment and function description
>sp|P03555|POL_CAMVC Enzymatic polyprotein OS=Cauliflower mosaic virus (strain CM-1841) GN=ORF V PE=3 SV=1 Back     alignment and function description
>sp|Q02964|POL_CAMVE Enzymatic polyprotein OS=Cauliflower mosaic virus (strain BBC) GN=ORF V PE=3 SV=1 Back     alignment and function description
>sp|P03554|POL_CAMVS Enzymatic polyprotein OS=Cauliflower mosaic virus (strain Strasbourg) GN=ORF V PE=3 SV=1 Back     alignment and function description
>sp|P03556|POL_CAMVD Enzymatic polyprotein OS=Cauliflower mosaic virus (strain D/H) GN=ORF V PE=3 SV=1 Back     alignment and function description
>sp|P05400|POL_CERV Enzymatic polyprotein OS=Carnation etched ring virus GN=ORF V PE=3 SV=1 Back     alignment and function description
>sp|Q02836|POL_SIVG1 Gag-Pol polyprotein OS=Simian immunodeficiency virus agm.grivet (isolate AGM gr-1) GN=gag-pol PE=3 SV=2 Back     alignment and function description
>sp|Q89703|POL_CSVMV Putative enzymatic polyprotein OS=Cassava vein mosaic virus GN=ORF 3 PE=3 SV=1 Back     alignment and function description
>sp|P20825|POL2_DROME Retrovirus-related Pol polyprotein from transposon 297 OS=Drosophila melanogaster GN=pol PE=4 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 ?
Query960
3272864461049 PREDICTED: hypothetical protein LOC10056 0.355 0.325 0.300 2e-39
357630297500 putative transposon Ty3-I Gag-Pol polypr 0.244 0.47 0.313 3e-39
301618694 4048 PREDICTED: hypothetical protein LOC10012 0.346 0.082 0.299 1e-37
326678616585 PREDICTED: enzymatic polyprotein-like [D 0.346 0.569 0.308 1e-33
326671087714 PREDICTED: enzymatic polyprotein-like [D 0.346 0.466 0.308 5e-33
301612402683 PREDICTED: transposon Ty3-I Gag-Pol poly 0.356 0.500 0.287 5e-32
301619133707 PREDICTED: transposon Ty3-G Gag-Pol poly 0.355 0.482 0.297 1e-31
357609981264 hypothetical protein KGM_00439 [Danaus p 0.198 0.723 0.373 5e-28
384497823 1062 hypothetical protein RO3G_13025 [Rhizopu 0.358 0.323 0.278 1e-27
357609714421 putative transposon Ty3-I Gag-Pol polypr 0.234 0.534 0.318 1e-27
>gi|327286446|ref|XP_003227941.1| PREDICTED: hypothetical protein LOC100566709 [Anolis carolinensis] Back     alignment and taxonomy information
 Score =  171 bits (433), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 123/409 (30%), Positives = 187/409 (45%), Gaps = 68/409 (16%)

Query: 608 GTMRPVFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRF 667
           G +RP+ +L+++N ++  ++F+++    I  FL+K  + AT+DL  AY HI + R HRRF
Sbjct: 103 GGLRPILDLRAVNRHIKARRFRMVTLATILPFLRKGAWFATVDLRDAYFHISVRRSHRRF 162

Query: 668 LCFLIPMDMSSFRPSLSSPGVCPTI------KLGRRLRERGVRCLVYLDDFLLASQDPIV 721
           L FLI   + SF          P +       +   LR+RG+    Y+DD+LL S     
Sbjct: 163 LSFLIGDVIYSFNVLPFGLATAPRVFTKCMSVVAAALRQRGITIFPYIDDWLLVSDSRPQ 222

Query: 722 LKNQILQTLQLLTYLGWQVNLKKSQIIPSHRVDYLGISWDT------------------- 762
           L+  +  TL  L  LG  +N +KS + PS  + ++G   D+                   
Sbjct: 223 LEFDVSFTLSFLQGLGLIINEEKSHLHPSQTIQFIGALMDSIAERAYLPEERFRSIRASI 282

Query: 763 ----------------------------DLLQVRLP------VDKIPPLRDRLQT----- 783
                                       DL ++R+       +    PL D  +T     
Sbjct: 283 SQLRMSGQASAWHVQSILGHMASTTSLVDLARLRMRPLQFWFLKVFNPLFDSQRTLLRPP 342

Query: 784 -QALIELKWFY--HNLTGFTPLHPPVPRTFMSTDASDVGWGAMVGNVSVQGVWTQAQRSW 840
              L  L+W+   HNL    P HPP P   ++TDAS  GWGA +  +++ G W+   R+ 
Sbjct: 343 ASVLESLEWWLKRHNLLKGLPFHPPTPSLELTTDASQDGWGAHLNGMTINGRWSAQHRTL 402

Query: 841 HINLKELFTVRAAISSNPSLVANHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLI 900
           HINL EL  V  A+ +   L+  +TV L +DN TV  Y+ KQGG  S  LL  + ++   
Sbjct: 403 HINLLELLAVERALHAFDRLLRGNTVRLVTDNTTVKFYLNKQGGTHSRLLLQTSMRIWDW 462

Query: 901 MSKLNIHIVPYFIPGKCNSLADALSRQALIP-DWHLLPSLTESVFQRWG 948
                I++    +PGK N+LADALSR      +W L       + +RWG
Sbjct: 463 CVDRRINLQAVHLPGKDNALADALSRTTTSNHEWQLNNKEFRLLARRWG 511

Source: Anolis carolinensis

Species: Anolis carolinensis

Genus: Anolis

Family: Iguanidae

Order: Squamata

Class:

Phylum: Chordata

Superkingdom: Eukaryota
>gi|357630297|gb|EHJ78517.1| putative transposon Ty3-I Gag-Pol polyprotein [Danaus plexippus] Back     alignment and taxonomy information
>gi|301618694|ref|XP_002938748.1| PREDICTED: hypothetical protein LOC100127807 [Xenopus (Silurana) tropicalis] Back     alignment and taxonomy information
>gi|326678616|ref|XP_689703.4| PREDICTED: enzymatic polyprotein-like [Danio rerio] Back     alignment and taxonomy information
>gi|326671087|ref|XP_002660956.2| PREDICTED: enzymatic polyprotein-like [Danio rerio] 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|301619133|ref|XP_002938952.1| PREDICTED: transposon Ty3-G Gag-Pol polyprotein-like [Xenopus (Silurana) tropicalis] Back     alignment and taxonomy information
>gi|357609981|gb|EHJ66772.1| hypothetical protein KGM_00439 [Danaus plexippus] 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|357609714|gb|EHJ66600.1| putative transposon Ty3-I Gag-Pol polyprotein [Danaus plexippus] 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 ?
Query960
DICTYBASE|DDB_G0291223300 DDB_G0291223_RTE "DIRS1 ORF2/O 0.112 0.36 0.324 1e-11
DICTYBASE|DDB_G0267304 833 DDB_G0267304_RTE "DIRS1 ORF3 f 0.090 0.104 0.298 5.2e-11
DICTYBASE|DDB_G0294180558 DDB_G0294180_RTE "DIRS1 ORF1/O 0.112 0.193 0.314 2.4e-10
DICTYBASE|DDB_G0267210 968 DDB_G0267210_RTE "DIRS1 ORF2 f 0.112 0.111 0.314 2.6e-10
DICTYBASE|DDB_G0267338161 DDB_G0267338_RTE "DIRS1 ORF3" 0.148 0.888 0.256 9.5e-10
DICTYBASE|DDB_G0294346541 DDB_G0294346_RTE "DIRS1 ORF1/O 0.112 0.199 0.314 1e-09
DICTYBASE|DDB_G0267240 818 DDB_G0267240_RTE "DIRS1 ORF2 f 0.129 0.151 0.261 3.3e-06
DICTYBASE|DDB_G0267326 818 DDB_G0267326_RTE "DIRS1 ORF2 f 0.129 0.151 0.261 8.9e-06
DICTYBASE|DDB_G0294338693 DDB_G0294338_RTE "DGLT-A" [Dic 0.314 0.435 0.219 8.5e-05
DICTYBASE|DDB_G0267342 925 DDB_G0267342_RTE "DIRS1 ORF2 f 0.188 0.195 0.227 0.00015
DICTYBASE|DDB_G0291223 DDB_G0291223_RTE "DIRS1 ORF2/ORF3 fusion fragment" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
 Score = 187 (70.9 bits), Expect = 1.0e-11, P = 1.0e-11
 Identities = 35/108 (32%), Positives = 65/108 (60%)

Query:   319 MFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY 378
             + +LK LNSY+  + FK+   + +P  +++  Y+  +D+ +AY H+ +  ++R    F++
Sbjct:   127 VLDLKRLNSYINNQSFKMEGIKNLPSMVKQGYYMVKLDIKKAYLHVLVDPQYRDLFRFVW 186

Query:   379 KGTVYQRTCLSFGLASAPQAFAQLSNWVAVLLRERGVRCLVYLDDFLL 426
             KG+ Y+   + FGL++AP+ F  L   V  +LR+  V  + YLDD L+
Sbjct:   187 KGSHYRWKTMPFGLSTAPRIFTMLLRPVLRMLRDINVSVIAYLDDLLI 234
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_G0294180 DDB_G0294180_RTE "DIRS1 ORF1/ORF3 fusion 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_G0267338 DDB_G0267338_RTE "DIRS1 ORF3" [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_G0267240 DDB_G0267240_RTE "DIRS1 ORF2 fragment" [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_G0294338 DDB_G0294338_RTE "DGLT-A" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0267342 DDB_G0267342_RTE "DIRS1 ORF2 fragment" [Dictyostelium discoideum (taxid:44689)] 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 Layer2.7.7.49LOW CONFIDENCE prediction!
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 ?
Query960
cd09275120 cd09275, RNase_HI_RT_DIRS1, DIRS1 family of RNase 2e-27
cd09275120 cd09275, RNase_HI_RT_DIRS1, DIRS1 family of RNase 2e-27
cd03714119 cd03714, RT_DIRS1, RT_DIRS1: Reverse transcriptase 3e-17
cd03714119 cd03714, RT_DIRS1, RT_DIRS1: Reverse transcriptase 2e-13
pfam00078194 pfam00078, RVT_1, Reverse transcriptase (RNA-depen 3e-11
cd09275120 cd09275, RNase_HI_RT_DIRS1, DIRS1 family of RNase 2e-10
cd01647177 cd01647, RT_LTR, RT_LTR: Reverse transcriptases (R 2e-10
cd06222123 cd06222, RNase_H, RNase H is an endonuclease that 9e-08
cd06222123 cd06222, RNase_H, RNase H is an endonuclease that 9e-08
cd03715210 cd03715, RT_ZFREV_like, RT_ZFREV_like: A subfamily 7e-06
cd06222123 cd06222, RNase_H, RNase H is an endonuclease that 8e-06
cd09274121 cd09274, RNase_HI_RT_Ty3, Ty3/Gypsy family of RNas 9e-06
cd09274121 cd09274, RNase_HI_RT_Ty3, Ty3/Gypsy family of RNas 9e-06
cd01647177 cd01647, RT_LTR, RT_LTR: Reverse transcriptases (R 6e-05
pfam00078194 pfam00078, RVT_1, Reverse transcriptase (RNA-depen 0.001
pfam1345688 pfam13456, RVT_3, Reverse transcriptase-like 0.002
pfam1345688 pfam13456, RVT_3, Reverse transcriptase-like 0.002
pfam1345688 pfam13456, RVT_3, Reverse transcriptase-like 0.002
cd01645213 cd01645, RT_Rtv, RT_Rtv: Reverse transcriptases (R 0.002
>gnl|CDD|187699 cd09275, RNase_HI_RT_DIRS1, DIRS1 family of RNase HI in long-term repeat retroelements Back     alignment and domain information 
 Score =  107 bits (269), Expect = 2e-27
 Identities = 49/116 (42%), Positives = 69/116 (59%)

Query: 66  STDASDVGWGAMVGNVSVQGVWTQAQRSWHINLKELFTVRAAISSNPSLVANHTVVLQSD 125
            TDAS  GWGA++     QG+W+  +R+ HIN  EL  V  A+    + ++N  V+++SD
Sbjct: 3   FTDASLSGWGAVLSGSWAQGLWSAEERNKHINFLELLAVLLALQHWGARLSNRKVLVRSD 62

Query: 126 NKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQ 181
           N T +AYI +QGG RS  LLA  ++L+L   + NI +    IPG  N  AD LSR 
Sbjct: 63  NTTAVAYINRQGGTRSPELLALARQLVLWCEERNIWLRARHIPGVLNVAADRLSRL 118

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|187699 cd09275, RNase_HI_RT_DIRS1, DIRS1 family of RNase HI in long-term repeat retroelements Back     alignment and domain information
>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|239684 cd03714, RT_DIRS1, RT_DIRS1: Reverse transcriptases (RTs) occurring in the DIRS1 group of retransposons Back     alignment and domain information
>gnl|CDD|215698 pfam00078, RVT_1, Reverse transcriptase (RNA-dependent DNA polymerase) Back     alignment and domain information
>gnl|CDD|187699 cd09275, RNase_HI_RT_DIRS1, DIRS1 family of RNase HI in long-term repeat retroelements 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|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|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|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|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|187698 cd09274, RNase_HI_RT_Ty3, Ty3/Gypsy family of RNase HI in long-term repeat retroelements 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|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|205634 pfam13456, RVT_3, Reverse transcriptase-like Back     alignment and domain information
>gnl|CDD|205634 pfam13456, RVT_3, Reverse transcriptase-like Back     alignment and domain information
>gnl|CDD|205634 pfam13456, RVT_3, Reverse transcriptase-like Back     alignment and domain information
>gnl|CDD|238823 cd01645, RT_Rtv, RT_Rtv: Reverse transcriptases (RTs) from retroviruses (Rtvs) Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 960
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
cd03715210 RT_ZFREV_like RT_ZFREV_like: A subfamily of revers 99.97
cd01645213 RT_Rtv RT_Rtv: Reverse transcriptases (RTs) from r 99.95
cd01644213 RT_pepA17 RT_pepA17: Reverse transcriptase (RTs) i 99.95
cd01647177 RT_LTR RT_LTR: Reverse transcriptases (RTs) from r 99.94
cd01647177 RT_LTR RT_LTR: Reverse transcriptases (RTs) from r 99.93
cd01644213 RT_pepA17 RT_pepA17: Reverse transcriptase (RTs) i 99.92
cd03714119 RT_DIRS1 RT_DIRS1: Reverse transcriptases (RTs) oc 99.89
cd03714119 RT_DIRS1 RT_DIRS1: Reverse transcriptases (RTs) oc 99.86
PF00078214 RVT_1: Reverse transcriptase (RNA-dependent DNA po 99.49
PF00078214 RVT_1: Reverse transcriptase (RNA-dependent DNA po 99.4
cd0030498 RT_like RT_like: Reverse transcriptase (RT, RNA-de 99.15
cd0030498 RT_like RT_like: Reverse transcriptase (RT, RNA-de 99.06
cd06222130 RnaseH RNase H (RNase HI) is an endonuclease that 98.81
cd06222130 RnaseH RNase H (RNase HI) is an endonuclease that 98.71
cd03487214 RT_Bac_retron_II RT_Bac_retron_II: Reverse transcr 98.65
cd01648119 TERT TERT: Telomerase reverse transcriptase (TERT) 98.6
PRK07708219 hypothetical protein; Validated 98.48
PRK13907128 rnhA ribonuclease H; Provisional 98.43
PF00075132 RNase_H: RNase H; InterPro: IPR002156 The RNase H 98.39
PF00075132 RNase_H: RNase H; InterPro: IPR002156 The RNase H 98.37
COG0328154 RnhA Ribonuclease HI [DNA replication, recombinati 98.31
cd01648119 TERT TERT: Telomerase reverse transcriptase (TERT) 98.3
PRK13907128 rnhA ribonuclease H; Provisional 98.27
cd01651226 RT_G2_intron RT_G2_intron: Reverse transcriptases 98.26
cd01650220 RT_nLTR_like RT_nLTR: Non-LTR (long terminal repea 98.25
cd03487214 RT_Bac_retron_II RT_Bac_retron_II: Reverse transcr 98.24
PRK00203150 rnhA ribonuclease H; Reviewed 98.24
cd01646158 RT_Bac_retron_I RT_Bac_retron_I: Reverse transcrip 98.16
PRK07708219 hypothetical protein; Validated 98.11
PRK06548161 ribonuclease H; Provisional 98.09
PRK07238 372 bifunctional RNase H/acid phosphatase; Provisional 97.97
PRK00203150 rnhA ribonuclease H; Reviewed 97.88
cd01650220 RT_nLTR_like RT_nLTR: Non-LTR (long terminal repea 97.86
PRK08719147 ribonuclease H; Reviewed 97.81
PRK07238372 bifunctional RNase H/acid phosphatase; Provisional 97.76
PF1345687 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EH 97.74
PF1345687 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EH 97.68
COG0328154 RnhA Ribonuclease HI [DNA replication, recombinati 97.61
PRK06548161 ribonuclease H; Provisional 97.58
PRK08719147 ribonuclease H; Reviewed 97.48
cd01651226 RT_G2_intron RT_G2_intron: Reverse transcriptases 97.4
.; 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 97.38
.; 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 97.37
cd01646158 RT_Bac_retron_I RT_Bac_retron_I: Reverse transcrip 97.23
PF05380159 Peptidase_A17: Pao retrotransposon peptidase ; Int 97.08
KOG3752|consensus371 96.7
KOG3752|consensus371 95.54
cd01709346 RT_like_1 RT_like_1: A subfamily of reverse transc 93.75
PF07727246 RVT_2: Reverse transcriptase (RNA-dependent DNA po 91.9
PF05380159 Peptidase_A17: Pao retrotransposon peptidase ; Int 90.8
KOG4768|consensus796 86.41
cd01709346 RT_like_1 RT_like_1: A subfamily of reverse transc 84.31
PF07727246 RVT_2: Reverse transcriptase (RNA-dependent DNA po 83.59
>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=6.8e-36  Score=314.05  Aligned_cols=194  Identities=15%  Similarity=0.194  Sum_probs=174.0

Q ss_pred             hhHhHHHHHhhcCCCCCCCCCCCCeeeccCCCCCcccCCCCCCcccccCCC-cEEEEEeChhhhhcccCCCCCCCCcchH
Q psy15121        264 VAEGLLVSRLEGAGNSPPNNGSRPQIASDRSSNGLLSGNDRGHDIGNLANT-GLSIMFNLKSLNSYVTTKKFKLINHQKI  342 (960)
Q Consensus       264 ~~~~~~~~~~~~~~~~~~~~~s~p~~~~~~~~~~~~~~~~~~~~i~~kk~g-~~R~~~D~r~lN~~~~~~~~plp~i~~~  342 (960)
                      ..++.++++|+++.+.|.|+++.         +.+.++.+.    |+||+| ++|+|+|||.||+.|..+.+++|+++++
T Consensus        12 ~~~~~~~~~v~~ll~~G~I~~~~---------s~~~sp~~~----V~Kk~g~~~R~~vD~r~lN~~~~~~~~~~p~~~~~   78 (210)
T cd03715          12 EAREGITPHIQELLEAGILVPCQ---------SPWNTPILP----VKKPGGNDYRMVQDLRLVNQAVLPIHPAVPNPYTL   78 (210)
T ss_pred             HHHHHHHHHHHHHHHCCCeECCC---------CCCCCceEE----EEeCCCCcceEEEEhhhhhhcccccCcCCCcHHHH
Confidence            34455889999999999998763         234567777    999999 9999999999999999999999999999


Q ss_pred             hhhhc-CCcEEEEeeccccccccccCccccceEEEEEcCeeEEEEEeCCCCCCHHHHHHHHHHHHHHHHHH--cCCeeeE
Q psy15121        343 PLFLQ-KNDYLATIDLSQAYCHIPIARRHRRFLCFLYKGTVYQRTCLSFGLASAPQAFAQLSNWVAVLLRE--RGVRCLV  419 (960)
Q Consensus       343 l~~l~-~~~~~s~lDl~~~y~qi~l~~~d~~~taf~~~~~~y~~~~lPfGl~~aP~~fq~~~~~il~~~~~--~~~~~~~  419 (960)
                      +.++. ++++|+++|+++|||||+|+|+++++|||++++|.|+|++||||++|||++||+.|+.++..+..  .+..+.+
T Consensus        79 l~~l~~~~~~~s~lDl~~af~~i~l~~~~~~~taf~~~~~~y~~~~lp~Gl~~sp~~f~~~~~~~l~~~~~~~~~~~~~~  158 (210)
T cd03715          79 LSLLPPKHQWYTVLDLANAFFSLPLAPDSQPLFAFEWEGQQYTFTRLPQGFKNSPTLFHEALARDLAPFPLEHEGTILLQ  158 (210)
T ss_pred             HHHhccCCeEEEEeeccCeEEEEEcccccEEeEEEEECCeeEEEEEEeccccCcHHHHHHHHHHHHHHHHhhCCCeEEEE
Confidence            99996 89999999999999999999999999999999999999999999999999999999999988753  3456889


Q ss_pred             EecceEEEeCCHHHHHHHHHHhhccccccccccCCceecCCccccccCeEEecCChHHHHHHHHhh
Q psy15121        420 YLDDFLLASQDSVVLKNQIFQTLPVNLSGNCSRSGRRSHPTHSLVANHTVVLQSDNKTVITYIRKQ  485 (960)
Q Consensus       420 YlDDili~s~s~~e~~~~l~~~~~~~~~~~l~~~g~~~~~~K~~~~~~~v~~~~~~~~~i~~lg~~  485 (960)
                      |+|||+|++++.+||.+++.++     +.+|+++|+.++++||.+..     .+     ++|||+.
T Consensus       159 Y~DDili~s~~~~e~~~~l~~v-----~~~l~~~gl~l~~~K~~~~~-----~~-----v~fLG~~  209 (210)
T cd03715         159 YVDDLLLAADSEEDCLKGTDAL-----LTHLGELGYKVSPKKAQICR-----AE-----VKFLGVV  209 (210)
T ss_pred             ECCcEEEecCCHHHHHHHHHHH-----HHHHHHCCCCcCHHHeeCCC-----Cc-----eEEeeEE
Confidence            9999999999999999999999     99999999999999999854     22     6677764

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
>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
>cd01645 RT_Rtv RT_Rtv: Reverse transcriptases (RTs) from retroviruses (Rtvs) Back     alignment and domain information
>cd01644 RT_pepA17 RT_pepA17: Reverse transcriptase (RTs) in retrotransposons 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
>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
>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
>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
>cd00304 RT_like RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family 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
>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
>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
>PRK07708 hypothetical protein; Validated Back     alignment and domain information
>PRK13907 rnhA ribonuclease H; Provisional 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
>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
>cd01648 TERT TERT: Telomerase reverse transcriptase (TERT) Back     alignment and domain information
>PRK13907 rnhA ribonuclease H; Provisional 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
>cd01650 RT_nLTR_like RT_nLTR: Non-LTR (long terminal repeat) retrotransposon and non-LTR retrovirus reverse transcriptase (RT) 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
>PRK00203 rnhA ribonuclease H; Reviewed 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
>PRK07708 hypothetical protein; Validated Back     alignment and domain information
>PRK06548 ribonuclease H; Provisional Back     alignment and domain information
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional Back     alignment and domain information
>PRK00203 rnhA ribonuclease H; Reviewed 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
>PRK08719 ribonuclease H; Reviewed 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
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B Back     alignment and domain information
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK06548 ribonuclease H; Provisional Back     alignment and domain information
>PRK08719 ribonuclease H; Reviewed 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
>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
>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
>cd01646 RT_Bac_retron_I RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons 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
>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
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family Back     alignment and domain information
>KOG4768|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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query960
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 8e-10
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 8e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-06
1rw3_A455 POL polyprotein; RNA and DNA dependent DNA polymer 5e-07
1rw3_A455 POL polyprotein; RNA and DNA dependent DNA polymer 6e-05
>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
 Score = 61.8 bits (149), Expect = 8e-10
 Identities = 105/711 (14%), Positives = 185/711 (26%), Gaps = 262/711 (36%)

Query: 162 IVPYFIPG-----KCNSLADALSRQAL----IPDWHLLPSLTESVFQRWGIESCAALCDP 212
           I+  F         C  + D   +  L    I    +         + +       L   
Sbjct: 21  ILSVFEDAFVDNFDCKDVQDMP-KSILSKEEIDHIIMSKDAVSGTLRLFWT-----LLSK 74

Query: 213 ESPGQQGGIHRCLLKKVGFQASVGLPAPASTSSSIASLERRPGLICNSSSSVAEGLLVSR 272
           +    Q  +   L     F  S            I + +R+P ++              R
Sbjct: 75  QEEMVQKFVEEVLRINYKFLMS-----------PIKTEQRQPSMMTRMYIEQ-----RDR 118

Query: 273 LEGAGNS-PPNNGSRPQ--------IASDRSSNGL-LSGNDRGHDIGNLANTGLSIMFNL 322
           L          N SR Q        +   R +  + + G         +  +G + +  L
Sbjct: 119 LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDG---------VLGSGKTWV-AL 168

Query: 323 KSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIAR-RHRRFLCFLYKGT 381
               SY    K               +  +  ++L    C+ P       + L +     
Sbjct: 169 DVCLSYKVQCKM--------------DFKIFWLNLKN--CNSPETVLEMLQKLLYQIDPN 212

Query: 382 VYQRTCLSFGLASAPQAFAQLSNWVAVLLRERG-VRCLVYLDDFLLASQDSVVLKNQIFQ 440
              R   S   ++       +   +  LL+ +    CL+ L +     Q++       F 
Sbjct: 213 WTSR---SDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNV----QNAKAWN--AF- 262

Query: 441 TLPVNLSGNC-----SRSGRRSHPTHSLVANHTVVLQSDNKTVITYIRKQVGLRSNALLA 495
                 + +C     +R           V +    L +   T I+     + L       
Sbjct: 263 ------NLSCKILLTTRF--------KQVTD---FLSAATTTHISLDHHSMTL----TPD 301

Query: 496 ETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSRQAL--IPDWHLLPSL-TESV--FP-R 549
           E K LLL    L+                  L R+ L   P      S+  ES+      
Sbjct: 302 EVKSLLL--KYLDCRP-------------QDLPREVLTTNP---RRLSIIAESIRDGLAT 343

Query: 550 WG----------SRVVPLYVTR-NPQDSKAAFIDAFSRKWDFKLAWVFP-----PPPLLQ 593
           W           + ++   +    P + +  F           L+ VFP     P  LL 
Sbjct: 344 WDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDR---------LS-VFPPSAHIPTILLS 393

Query: 594 VL------------------------------HHLNDAQGLYGDGTMRPVFNLKSLNSYV 623
           ++                                +     +Y +     + N  +L+   
Sbjct: 394 LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPS---IYLE-LKVKLENEYALHR-- 447

Query: 624 TTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLIPMDM----SSF 679
                 +++H  IP     +D +        Y HI     H      L  ++     + F
Sbjct: 448 -----SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIG---HH------LKNIEHPERMTLF 493

Query: 680 RPSLSSPGVCPTIKLGRRLRERGVRCLVYLD-DFLLA----SQDPIVLKNQILQTLQLLT 734
           R                         +V+LD  FL                IL TLQ   
Sbjct: 494 R-------------------------MVFLDFRFLEQKIRHDSTAWNASGSILNTLQ--- 525

Query: 735 YLGWQVNLKKSQIIPSHR---------VDYLG-------ISWDTDLLQVRL 769
               Q+   K  I  +           +D+L         S  TDLL++ L
Sbjct: 526 ----QLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIAL 572
>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
>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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query960
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
1rw3_A455 POL polyprotein; RNA and DNA dependent DNA polymer 100.0
2zd1_A557 Reverse transcriptase/ribonuclease H; P51/P66, het 100.0
2zd1_B428 P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleosid 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 98.71
3u3g_D140 Ribonuclease H, RNAse H1; hydrolase, cleave the RN 98.66
3hst_B141 Protein RV2228C/MT2287; ribonuclease H1, RV2228C N 98.54
3u3g_D140 Ribonuclease H, RNAse H1; hydrolase, cleave the RN 98.5
2e4l_A158 Ribonuclease HI, RNAse HI; hydrolase, endoribonucl 98.48
3h08_A146 RNH (ribonuclease H); RNAse H, 3D-structure, endon 98.47
2ehg_A149 Ribonuclease HI; RNAse HI, hyperthermophilic archa 98.46
1jl1_A155 Ribonuclease HI; RNAse HI, protein stability, ther 98.44
1ril_A166 Ribonuclease H; hydrolase(endoribonuclease); 2.80A 98.44
3p1g_A165 Xenotropic murine leukemia virus-related virus (X 98.44
2qkb_A154 Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy 98.37
3qio_A150 GAG-POL polyprotein; RNAse H, inhibitor, nuclease, 98.35
2lsn_A165 Reverse transcriptase; RNAse H, viral protein; NMR 98.27
2e4l_A158 Ribonuclease HI, RNAse HI; hydrolase, endoribonucl 98.24
1ril_A166 Ribonuclease H; hydrolase(endoribonuclease); 2.80A 98.23
2kq2_A147 Ribonuclease H-related protein; PSI, NESG, protein 98.22
3h08_A146 RNH (ribonuclease H); RNAse H, 3D-structure, endon 98.17
1jl1_A155 Ribonuclease HI; RNAse HI, protein stability, ther 98.16
3qio_A150 GAG-POL polyprotein; RNAse H, inhibitor, nuclease, 98.13
2qkb_A154 Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy 98.12
3p1g_A165 Xenotropic murine leukemia virus-related virus (X 98.12
2lsn_A165 Reverse transcriptase; RNAse H, viral protein; NMR 97.86
1zbf_A142 Ribonuclease H-related protein; RNAse H, RNA/DNA h 97.71
2kq2_A147 Ribonuclease H-related protein; PSI, NESG, protein 97.68
4htu_A134 Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, 97.43
1zbf_A142 Ribonuclease H-related protein; RNAse H, RNA/DNA h 97.23
4htu_A134 Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, 96.69
3kyl_A596 Telomerase reverse transcriptase; reverse transcri 93.96
>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=2e-52  Score=488.81  Aligned_cols=298  Identities=16%  Similarity=0.193  Sum_probs=252.8

Q ss_pred             ccC-CCCeeEEeecccccccccCCCCcCCChhhHhhhcC-CCcEEEeeehhhccCcccccccccccceee----------
Q psy15121        604 LYG-DGTMRPVFNLKSLNSYVTTKKFKLINHQKIPLFLQ-KNDYLATIDLSQAYCHIPIARRHRRFLCFL----------  671 (960)
Q Consensus       604 ~kk-~gk~R~~vD~r~LN~~~~~~~~plp~i~~~l~~l~-~~~~fs~lDl~~ay~qI~l~~~d~~~taF~----------  671 (960)
                      +|| +|+||+|+|||.||+.|.++++|+|++++++++++ |+++|+++|+++|||||+|+++|+++|||+          
T Consensus        83 ~Kk~~g~~R~~~D~r~LN~~~~~~~~~lp~~~~ll~~l~~~~~~~s~lDl~~~y~qi~l~~~d~~~taF~~~~p~~~~~g  162 (455)
T 1rw3_A           83 KKPGTNDYRPVQDLREVNKRVEDIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAFEWRDPEMGISG  162 (455)
T ss_dssp             CCSSSSCCCCEECTHHHHHTBCCCCCCCCCHHHHHTTCCTTCCEEEEEEBTTGGGGSBBCSTTSGGGCEEECTTSSSCCE
T ss_pred             eccCCCcEEEchhHHHHHhhccCCCCCCCCHHHHhhhhccCCceEEecchhhhheeEeccccccceeEEeecCCCCCCCc
Confidence            466 79999999999999999999999999999999997 999999999999999999999999999994          


Q ss_pred             -eeecccccCCCCccccchhhHHHhhHhhhc-----CCeEEEEecceEEecCCHHHHHHHHHHHHHHHHHcCCeecccCc
Q psy15121        672 -IPMDMSSFRPSLSSPGVCPTIKLGRRLRER-----GVRCLVYLDDFLLASQDPIVLKNQILQTLQLLTYLGWQVNLKKS  745 (960)
Q Consensus       672 -y~~~rlPFG~l~~ap~~f~~~~i~~~l~~~-----~~~v~~YvDDili~s~s~eeh~~~l~~vl~~l~~~Gl~l~~~K~  745 (960)
                       |+|+||||| ++|||++|| +.|..++.+.     +..+.+|+|||+|++++.++|.++++.++++|+++|+.+|++||
T Consensus       163 ~y~~~~mpfG-l~naP~~fq-~~m~~~l~~~~~~~~~~~v~~YvDDili~s~~~~e~~~~l~~v~~~l~~~gl~l~~~K~  240 (455)
T 1rw3_A          163 QLTWTRLPQG-FKNSPTLFD-EALHRDLADFRIQHPDLILLQYVDDLLLAATSELDCQQGTRALLQTLGNLGYRASAKKA  240 (455)
T ss_dssp             EEEESBCCSS-CTTHHHHHH-HHHHHHHHHHHHTCTTCEEEEETTEEEEEESSHHHHHHHHHHHHHHHHHHTCCBCGGGC
T ss_pred             eEEEEecCCC-CCCcHHHHH-HHHHHHHHHhhhhCCCceEEEEcCCEEEecCCHHHHHHHHHHHHHHHHHcCCccCccch
Confidence             999999999 999999999 6888888775     67899999999999999999999999999999999999999999


Q ss_pred             cccccceEEEEEEEEcCCCcEEec---------CC---------------------CCCCCccccchhhHHH--Hhhhhh
Q psy15121        746 QIIPSHRVDYLGISWDTDLLQVRL---------PV---------------------DKIPPLRDRLQTQALI--ELKWFY  793 (960)
Q Consensus       746 ~~~~~~~~~fLG~~i~~~g~~~~~---------p~---------------------~k~~~l~~~L~~~l~~--~l~w~~  793 (960)
                      +|..+ +++||||+|+.+|+.+..         |.                     +++..+.++|...+++  .+.|..
T Consensus       241 ~f~~~-~~~fLG~~i~~~gi~~~~~kv~~i~~~~~p~t~k~l~~flG~~~y~r~fi~~~~~~~~pL~~llkk~~~~~W~~  319 (455)
T 1rw3_A          241 QICQK-QVKYLGYLLKEGQRWLTEARKETVMGQPTPKTPRQLREFLGTAGFCRLWIPGFAEMAAPLYPLTKTGTLFNWGP  319 (455)
T ss_dssp             CCSBS-SCEETTEEESSSEECCCTTCCCCCCCCCTTTHHHHHHHTTTTTCCCSSCCCCCGGGCCTTCC--------CCCC
T ss_pred             hhhcc-ceeEeeeeccCCeeEEChhHhhhhccCCCCCCHHHhhhhcccchHHHHHHhhhhhhcccHHHHhcCCCCcCchH
Confidence            99885 999999999999887621         11                     1223333444555544  477877


Q ss_pred             hhhcCCC----------CC--CCCCCceEEEeCCCccceeeeEeee---------eeccccccccccCChhHHHHHHHHH
Q psy15121        794 HNLTGFT----------PL--HPPVPRTFMSTDASDVGWGAMVGNV---------SVQGVWTQAQRSWHINLKELFTVRA  852 (960)
Q Consensus       794 ~~l~~f~----------~l--~~p~~~~~l~tDAS~~g~GavL~q~---------~~S~~l~~~e~~ysi~~kEllAiv~  852 (960)
                      ++.++|.          .+  +++..++.++||||+.|+||||.|.         |.|++++++|++|+++++|++|+++
T Consensus       320 ~~~~af~~lK~~l~~~pvL~~p~~~~~~~l~~DAS~~~~gavL~q~~~~~~~~i~y~Sk~l~~~e~~ys~~ekEllAi~~  399 (455)
T 1rw3_A          320 DQQKAYQEIKQALLTAPALGLPDLTKPFELFVDEKQGYAKGVLTQKLGPWRRPVAYLSKKLDPVAAGWPPCLRMVAAIAV  399 (455)
T ss_dssp             CCSSSCCHHHHHTCSSCCSCCSSSCCTTSCEEEEEECSSSBEECCBCTTTTCCCCCCCBCSCSSCSSSCCSSHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcCcccccCCCCCcEEEEEeccCCcceeEEEEecCCcEEEEEEEcccCCccccccchHHHHHHHHHH
Confidence            7766663          33  4556889999999999999999985         8999999999999999999999999


Q ss_pred             HHHhCccccCCCeEEEEcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHHh-ccCcE
Q psy15121        853 AISSNPSLVANHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMS-KLNIH  907 (960)
Q Consensus       853 Al~~~~~~L~g~~~~I~TDh~~l~~~l~~~~~~~~~~l~~~~~r~~~~l~-~~~~~  907 (960)
                      |+++|++|+.|++|+|+|||+ +.++++++....  -.+.++.||..+|+ .|+++
T Consensus       400 a~~~~~~yl~g~~~~v~tDh~-~~~~l~~~~~~~--~~~~Rl~rW~~~L~e~~~i~  452 (455)
T 1rw3_A          400 LTKDAGKLTMGQPLVIKAPHA-VEALVKQPPDRW--LSNARMTHYQALLLDTDRVQ  452 (455)
T ss_dssp             HHHHHHGGGCSSCEEEECSSC-TTTTSSSTTTTT--CCCCCCSCCCCCCCCCCSSS
T ss_pred             HHHHHHHHcCCCcEEEEecCh-HHHHhCCCcccc--ccchHHHHHHHHhCcCCCeE
Confidence            999999999999999999998 667777542110  12346678999998 58876
>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
>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
>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
>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
>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
>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
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism} 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
>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
>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
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_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
>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
>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
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus} Back     alignment and structure
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_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
>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
>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
>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
>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
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus} 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
>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
>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
>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
>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
>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 960
d1hara_216 e.8.1.2 (A:) HIV-1 reverse transcriptase {Human im 1e-06
d1hara_216 e.8.1.2 (A:) HIV-1 reverse transcriptase {Human im 0.003
d1mu2a2427 e.8.1.2 (A:3-429) HIV-1 reverse transcriptase {Hum 3e-05
d1mu2a2427 e.8.1.2 (A:3-429) HIV-1 reverse transcriptase {Hum 0.001
d2zd1b1424 e.8.1.2 (B:5-428) HIV-1 reverse transcriptase {Hum 4e-05
>d1hara_ e.8.1.2 (A:) HIV-1 reverse transcriptase {Human immunodeficiency virus type 1 [TaxId: 11676]} Length = 216 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 = 48.4 bits (115), Expect = 1e-06
 Identities = 21/113 (18%), Positives = 39/113 (34%), Gaps = 9/113 (7%)

Query: 329 VTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY-------KGT 381
            T   +++      P  L+K   +  +D+  AY  +P+    R++  F          G 
Sbjct: 83  RTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGI 142

Query: 382 VYQRTCLSFGLASAPQAFAQLSNWV--AVLLRERGVRCLVYLDDFLLASQDSV 432
            YQ   L  G   +P  F      +          +    Y+DD  + S  ++
Sbjct: 143 RYQYNVLPQGWKGSPAIFQSSMTKILAPFKAANPDIVIYQYMDDLYVGSDLAI 195
>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
>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
>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

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query960
d2zd1b1424 HIV-1 reverse transcriptase {Human immunodeficienc 100.0
d2zd1b1424 HIV-1 reverse transcriptase {Human immunodeficienc 100.0
d1hara_216 HIV-1 reverse transcriptase {Human immunodeficienc 100.0
d1ztwa1255 MMLV reverse transcriptase {Moloney murine leukemi 100.0
d1mu2a2427 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 99.97
d1mu2a1126 HIV RNase H (Domain of reverse transcriptase) {Hum 98.21
d1rila_147 RNase H (RNase HI) {Thermus thermophilus [TaxId: 2 98.06
d1jl1a_152 RNase H (RNase HI) {Escherichia coli [TaxId: 562]} 98.05
d1zbfa1132 BH0863-like Ribonuclease H {Bacillus halodurans [T 98.03
d1mu2a1126 HIV RNase H (Domain of reverse transcriptase) {Hum 97.98
d1s1ta1110 HIV RNase H (Domain of reverse transcriptase) {Hum 97.95
d1rila_147 RNase H (RNase HI) {Thermus thermophilus [TaxId: 2 97.75
d1jl1a_152 RNase H (RNase HI) {Escherichia coli [TaxId: 562]} 97.66
d1s1ta1110 HIV RNase H (Domain of reverse transcriptase) {Hum 97.31
d1zbfa1132 BH0863-like Ribonuclease H {Bacillus halodurans [T 97.28
>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=1.5e-40  Score=374.06  Aligned_cols=291  Identities=13%  Similarity=0.092  Sum_probs=213.8

Q ss_pred             ccCCC-CeeEEeecccccccccCCCCcCCChhhHhhhcCCCcEEEeeehhhccCcccccccccccceee-----------
Q psy15121        604 LYGDG-TMRPVFNLKSLNSYVTTKKFKLINHQKIPLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFL-----------  671 (960)
Q Consensus       604 ~kk~g-k~R~~vD~r~LN~~~~~~~~plp~i~~~l~~l~~~~~fs~lDl~~ay~qI~l~~~d~~~taF~-----------  671 (960)
                      +|||| |||+|+|||.||++| .+.+|+|.+.++++.++|+++|+++|+++|||||||+|+|+++|||+           
T Consensus        60 ~KKdg~k~R~~iDyR~LN~~t-~d~~~~~~~~~~~~~L~~~~~ft~lDl~~ay~qIpl~e~~r~~tAF~~p~~~f~T~~g  138 (424)
T d2zd1b1          60 KKKDSTKWRKLVDFRELNKRT-QDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGI  138 (424)
T ss_dssp             CCTTCSSCEEEECTHHHHHHB-CCCCCTTSCCCCCTTGGGSSEEEEEECGGGGGGSBCCTTTGGGGCEEECCGGGCSCCE
T ss_pred             EeCCCCceEEEEccHHHHHhc-CCCCCCCCcCcChHHhcCCceEeeccccccccccCCChhhccceeccccCcccccCCc
Confidence            57887 699999999999999 58899999999999999999999999999999999999999999996           


Q ss_pred             -eeecccccCCCCccccchhhHHHhhHhhhc-----CCeEEEEecceEEecCC-HHHHHHHHHHHHHHHHHcCCeecccC
Q psy15121        672 -IPMDMSSFRPSLSSPGVCPTIKLGRRLRER-----GVRCLVYLDDFLLASQD-PIVLKNQILQTLQLLTYLGWQVNLKK  744 (960)
Q Consensus       672 -y~~~rlPFG~l~~ap~~f~~~~i~~~l~~~-----~~~v~~YvDDili~s~s-~eeh~~~l~~vl~~l~~~Gl~l~~~K  744 (960)
                       |+|+||||| ++|||++|| +.|..+|.++     +..|.+|||||+|+|++ .++|.++++.|+++|+++|+.++. |
T Consensus       139 ~y~~~vlPfG-l~nsPa~Fq-r~m~~il~~~~~~~~~~~i~~Y~DDIlI~S~~~~eeH~~~l~~vl~~L~~~gl~l~~-K  215 (424)
T d2zd1b1         139 RYQYNVLPQG-WKGSPAIFQ-SSMTKILEPFKKQNPDIVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTPD-K  215 (424)
T ss_dssp             EEEESBCCTT-CTHHHHHHH-HHHHHHHHHHHHHCTTCEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHHHHC------
T ss_pred             eEEEEecCCc-ccCcHHHHH-HHHHHHcccccccCcceeEEeccceEEEecCchhHHHHHHHHHHHHHHHHhCCccch-h
Confidence             999999999 999999999 7888888765     35799999999999985 799999999999999999999985 5


Q ss_pred             ccccccceEEEEEEEEcCCCcEEec-----CC-----------------CCCCCccc--cchhhHH------HHhhhhhh
Q psy15121        745 SQIIPSHRVDYLGISWDTDLLQVRL-----PV-----------------DKIPPLRD--RLQTQAL------IELKWFYH  794 (960)
Q Consensus       745 ~~~~~~~~~~fLG~~i~~~g~~~~~-----p~-----------------~k~~~l~~--~L~~~l~------~~l~w~~~  794 (960)
                      |.+.. .+++||||+++.+|+++..     +.                 ++|.+..+  +|++.++      ..+.|+.+
T Consensus       216 k~f~~-~~v~~LG~~is~~gi~~~~~kl~~~~p~t~kelq~fLG~~n~~r~fIp~~s~~~L~~ll~~~~~~~~~~~Wt~e  294 (424)
T d2zd1b1         216 KHQKE-PPFLWMGYELHPDKWTVQPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPLTEE  294 (424)
T ss_dssp             --------CTTCCEEECGGGCCCCCCCCCCCSSEEHHHHHHHHHHHHHHTTTCTTCCCHHHHHTTCSCCCTTCEECCCHH
T ss_pred             hhhhh-cccccceeeecCCcEeCCHHHhccccCCCHHHHHHHHHHHHHHHHhcccchHHHHHHHhhhhccCCCCccCCHH
Confidence            55666 4999999999999987721     11                 12322222  3333332      24668777


Q ss_pred             hhcCC----------CCC--CCCCCceEEEeCCCccceeeeEe-ee--------eeccccccccccCChhHHHHHHHHHH
Q psy15121        795 NLTGF----------TPL--HPPVPRTFMSTDASDVGWGAMVG-NV--------SVQGVWTQAQRSWHINLKELFTVRAA  853 (960)
Q Consensus       795 ~l~~f----------~~l--~~p~~~~~l~tDAS~~g~GavL~-q~--------~~S~~l~~~e~~ysi~~kEllAiv~A  853 (960)
                      +..+|          +.+  ++|+++++++||||..|.++... |.        ++++ ...+++| ..-.+++++.-.+
T Consensus       295 ~~~af~~lK~~l~~~p~L~~~Dp~kp~~~~~das~~g~~~~~~~q~~~~~~~~~~~~~-~~~~~~n-~~~~~~~~~~k~~  372 (424)
T d2zd1b1         295 AELELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYAR-MRGAHTN-DVKQLTEAVQKIT  372 (424)
T ss_dssp             HHHHHHHHHHHTTSCCTTCCCCTTSCCEEEEEEEETTEEEEEEESSTTCEEEEEEEEC-CSSCTTC-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccccCCCCCCCEEEEEecCCCCceEEEEEcCCCcccceEEecc-ccccccC-HHHHHHHHHHHHH
Confidence            66554          233  67889999999999888766543 32        4443 4445555 3344455565666


Q ss_pred             HHhCccccCCCeEEEEcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHHhccCcEEEEEeeCCCCCCccccccC
Q psy15121        854 ISSNPSLVANHTVVLQSDNKTVIAYIRKQGGLRSHALLAETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSR  926 (960)
Q Consensus       854 l~~~~~~L~g~~~~I~TDh~~l~~~l~~~~~~~~~~l~~~~~r~~~~l~~~~~~i~~~~vpG~~N~~AD~LSR  926 (960)
                      .+.+.++..+.++.|-                      .+...|..+..+| ..++  |+|.-+++.++.|+|
T Consensus       373 ~e~~~~~g~~p~~~~p----------------------~~~~~w~~~~~~~-~~~~--~~p~~~~~~~~~l~~  420 (424)
T d2zd1b1         373 TESIVIWGKTPKFKLP----------------------IQKETWETWWTEY-WQAT--WIPEWEFVNTPPLVK  420 (424)
T ss_dssp             HHHHHHHSSCCEEEES----------------------SCHHHHHHHHHHH-CCCS--SCCEEEECCSCCTTT
T ss_pred             HHHHHHhCcCccEECC----------------------ccHHHHHHHHHhh-cccc--cCCCceeccCcHHHH
Confidence            6666665555544332                      1234566666666 3443  999999989999998
>d2zd1b1 e.8.1.2 (B:5-428) HIV-1 reverse transcriptase {Human immunodeficiency virus type 1 [TaxId: 11676]} 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
>d1ztwa1 e.8.1.2 (A:24-278) MMLV reverse transcriptase {Moloney murine leukemia virus, MoMLV [TaxId: 11801]} Back     information, alignment and structure
>d1mu2a2 e.8.1.2 (A:3-429) HIV-1 reverse transcriptase {Human immunodeficiency virus type 2 [TaxId: 11709]} Back     information, alignment and structure
>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
>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
>d1zbfa1 c.55.3.1 (A:62-193) BH0863-like Ribonuclease H {Bacillus halodurans [TaxId: 86665]} 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
>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
>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
>d1zbfa1 c.55.3.1 (A:62-193) BH0863-like Ribonuclease H {Bacillus halodurans [TaxId: 86665]} Back     information, alignment and structure