Citrus Sinensis ID: 000721

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------1100------1110------1120------1130------1140------1150------1160------1170------1180------1190------1200------1210------1220------1230------1240------1250------1260------1270------1280------1290------1300------1310------1320------1330--

MGFDNECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCNRCAIQIVHRQVQEHAQNCPGVQPQASQPEGVHDAAAIGTAATGDQSQVATQAGLTASQVQTQTIATPPPGKDTNQQPSSMSQPLAVVQAAVPTAEQWYQQQQQYQQYYQQYPGYNPYQQHYQQYYPYQQQALPQYQQPQAQSQSQMQPQAQVHPSAQFQSQLQPSHPPVQATVAAQPQNQAQVNQQQQSHPLHHGQLLSQAQSYPQAQPQSYPQSQPPQPQPIQPHLQHMQLPQYQQPQSQILHTPPQIQHPVPQPQPQPQPQSNPQSLQTQVQHQSQPQSHHPPHPSHRPQAQQTAASAVTSHHSYSQPQPHQQIPLSGPLQHPMYVHPHTGAQSQMQNQFPQQTPSMRPAQSHATISNQPLSTGLPPLGQVANIPPAQQLPVRPHAPQPGVPVSQHPVMQPVQQPMPYQYVQQHLPFSGQHQQGPFVQPQLRPQRPPQSLQLHPPAYSQPLQNVAVINGMQSHQPRNLGQPLTPNYGVHAQSYQQSATSLHVRPAQLGANQSSSNQSNLSWTSNQVQLSSEQQAGATSKPEMSEKNEVAVKIAHEREAESSSEKTAKTDNFDTPGPEAAAVGMKVPKSETDVKAAVDEIKTEVEDKTNVVDTSSKEFVTDRESHIAENVQPINKMVKEEVIENVEGQKDSANVDIKQEEHSVSKEVQEEPLLKTSTMQQGTQFGEQSEKVQKEQKVPQAQGAQGPGAVPPAGQAQAGGFVQSPPSLYGSSTLQQRPAAPSIFQAPPPGAVPQTQAPTQFRPPMFKPEVPPGGIPVSGPAASFGRGPGHNGPHQHSFESPLVAPQGPYNLGHPHPSPVGGPPQRSVPLSGFDSHVGTMVGPAYGPGGPMDLKQPSNPMEAEMFTGQRPGYMDGRESDSHFPGSQQRSPLGPPSGTRSNMMRMNGGPGSELRDERFKSFPDGRLNPFPVDPARSVIDRGEFEEDLKQFSRPSHLDAEPVPKLGSHFLPSRPFDRGPHGYGMDMGPRPFERGLSYDPGLKLDPMGASAPSRFLPAYHDDAAGRSDSSHAHPDFPRPGRAYGRRHMGGLSPRSPFREFCGFGGLPGSLGGSRSVREDIGGREFRRFGDPIGNSFHDSRFPVLPSHLRRGEFEGPGRTGDLIGQEFLPSHLRRGEPLGPHNLRLGETVGLGGFPGPARMEELGGPGNFPPPRLGEPGFRSSFSRQGFPNDGGFYTVKNTFVISVFLTLRCAAFYI

ccccccHHccccccccccccccccccccccHHHHHccccccccccHHHHHccccccccccEEEccccccccccccccccccccHHHHHHHccEEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEEEEEEEHHccccccc

ccccccEEEEEcccccccccccEEEEEcccHHHHHccccccccccHHHHHHcccccccccEEEEEccccEEEEccEEEccHccHHHHHHHccEEEEEEEcccccccccccccccccccccccccccEEEccccEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccccccccccHcccccccHccHHcccccccccccccccccccccHHHcccccccccccccccccccccHHHcccccccccccccccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHccccccccccccccccccccccccccccccccccHHcccccccccccccHcccccccccccccccccccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEcEEEEEEHHHHHHHHHcc

MGFDNECILNIQSlageyfcpvcrllvypnealqsqcthlyckpcltyivnttqacpydgylvteadSKVVLSSAVVPLVESNKALAETIGKITVHClfhrsgctwqgplsectshcsgcafgnspvvcnrCAIQIVHRQVQEhaqncpgvqpqasqpegvhdaaaigtaatgdqsqvatqagltasqvqtqtiatpppgkdtnqqpssmsqplAVVQAAVPTAEQWYQQQQQYQQYYqqypgynpyqqhyqqyypyqqqalpqyqqpqaqsqsqmqpqaqvhpsaqfqsqlqpshppvqatvaaqpqnqaqvnqqqqshplhhgqllsqaqsypqaqpqsypqsqppqpqpiqphlqhmqlpqyqqpqsqilhtppqiqhpvpqpqpqpqpqsnpqslqtqvqhqsqpqshhpphpshrpqaqqTAASavtshhsysqpqphqqiplsgplqhpmyvhphtgaqsqmqnqfpqqtpsmrpaqshatisnqplstglpplgqvanippaqqlpvrphapqpgvpvsqhpvmqpvqqpmpyqyvqqhlpfsgqhqqgpfvqpqlrpqrppqslqlhppaysqplqnVAVINgmqshqprnlgqpltpnygvhaqsyqqsatslhvrpaqlganqsssnqsnlswtsnqvqlsseqqagatskpemsekNEVAVKIAHEreaesssektaktdnfdtpgpeaaavgmkvpksetdVKAAVDEIKTEvedktnvvdtsskeFVTDRESHIAENVQPINKMVKEEVIENVegqkdsanvdikqeehsvskevqeepllktstmqqgtqfgeqsEKVQkeqkvpqaqgaqgpgavppagqaqaggfvqsppslygsstlqqrpaapsifqapppgavpqtqaptqfrppmfkpevppggipvsgpaasfgrgpghngphqhsfesplvapqgpynlghphpspvggppqrsvplsgfdshvgtmvgpaygpggpmdlkqpsnpmeaemftgqrpgymdgresdshfpgsqqrsplgppsgtrsnmmrmnggpgselrderfksfpdgrlnpfpvdparsvidrgefeedlkqfsrpshldaepvpklgshflpsrpfdrgphgygmdmgprpferglsydpglkldpmgasapsrflpayhddaagrsdsshahpdfprpgraygrrhmgglsprspfrefcgfgglpgslggsrsvrediggrefrrfgdpignsfhdsrfpvlpshlrrgefegpgrtgdligqeflpshlrrgeplgphnlrlgetvglggfpgparmeelggpgnfppprlgepgfrssfsrqgfpndggfytvkNTFVISVFLTLRCAAFYI

MGFDNECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCNRCAIQIVHRQVQEHAQNCPGVQPQASQPEGVHDAAAIGTAATGDQSQVATQAGLTASQVQTQTIATPPPGKDTNQQPSSMSQPLAVVQAAVPTAEQWYQQQQQYQQYYQQYPGYNPYQQHYQQYYPYQQQALPQYQQPQAQSQSQMQPQAQVHPSAQFQSQLQPSHPPVQATVAAQPQNQAQVNQQQQSHPLHHGQLLSQAQSYPQAQPQSYPQSQPPQPQPIQPHLQHMQLPQYQQPQSQILHTPPQIQHPVPQPQPQPQPQSNPQSLQTQVQHQSQPQSHHPPHPSHRPQAQQTAASAVTSHHSYSQPQPHQQIPLSGPLQHPMYVHPHTGAQSQMQNQFPQQTPSMRPAQSHATISNQPLSTGLPPLGQVANIPPAQQLPVRPHAPQPGVPVSQHPVMQPVQQPMPYQYVQQHLPFSGQHQQGPFVQPQLRPQRPPQSLQLHPPAYSQPLQNVAVINGMQSHQPRNLGQPLTPNYGVHAQSYQQSATSLHVRPAQLGAnqsssnqsnlSWTSNQVQLSSEQQagatskpemseKNEVAVKIAhereaesssektaktdnfdtPGPEAaavgmkvpkseTDVKAAVDeiktevedktnvvdtsskefvtdreshiaenvqpinkMVKEEVIENvegqkdsanvdikqeehsvskevqeepllktSTMQQGTQFGEQSEKVQKEQKVPQAQGAQGPGAVPPAGQAQAGGFVQSPPSLYGSSTLQQRPAAPSIFQAPPPGAVPQTQAPTQFRPPMFKPEVPPGGIPVSGPAASFGRGPGHNGPHQHSFESPLVAPQGPYNLGHPHPSPVGGPPQRSVPLSGFDSHVGTMVGPAYGPGGPMDLKQPSNPMEAEMFTGQRPGYMDGRESDSHfpgsqqrsplgppsgtrsnMMRMNGGPGSELRDERFKSfpdgrlnpfpvdparsVIDRGEFEEDLKqfsrpshldaepvpKLGSHFLPSRPFDRGPHGYGMDMGPRPFERGLSYDPGLKLDPMGASAPSRFLPAYHDDAAgrsdsshahpdfprpgrAYGRRHMGGLSPRSPFREFCGFGglpgslggsrsVREDIGGREFRrfgdpignsfhdsrfpvlPSHLRRGEFEGPGRTGDLIGQEFLPSHLRRGEPLGPHNLRLGETVGLGGFPGPARMEELGGPGNFPPPRLGEPGFRSSFSRQGFPNDGGFYTVKNTFVISVFLTLRCAAFYI

MGFDNECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCNRCAIQIVHRQVQEHAQNCPGVQPQASQPEGVHdaaaigtaatgdQSQVATQAGLTASQVQTQTIATPPPGKDTNQQPSSMSQPLAVVQAAVPTAEqwyqqqqqyqqyyqqypgynpyqqhyqqyypyqqqalpqyqqpqaqsqsqmqpqaqVHPSAQFQSQLQPSHppvqatvaaqpqnqaqvnqqqqSHPLHHGqllsqaqsypqaqpqsypqsqppqpqpiqphlqhmqlpqyqqpqsqilHTppqiqhpvpqpqpqpqpqsnpqslqtqvqhqsqpqshhpphpshrpqaqqtaasavtshhsysqpqphqqipLSGPLQHPMYVHPHTGAQSQMQNQFPQQTPSMRPAQSHATISNQPLSTGLPPLGQVANIPPAQQLPVRPHAPQPGvpvsqhpvmqpvqqpmpyqyvqqhLPFSGQHQQGPFVqpqlrpqrppqslqlhppAYSQPLQNVAVINGMQSHQPRNLGQPLTPNYGVHAQSYQQSATSLHVRPAQLGAnqsssnqsnlswtsnqVQLSSEQQAGATSKPEMSEKNEVAVKIAHEREAESSSEKTAKTDNFDTPGPEAAAVGMKVPKSETDVKAAVDEIKTEVEDKTNVVDTSSKEFVTDRESHIAENVQPINKMVKEEVIENVEGQKDSANVDIKQEEHSVSKEVQEEPLLKTSTMQQGTQFGEQSEKVQKEQKvpqaqgaqgpgavppagqaqaggfvqSPPSLYGSSTLQQRPAAPSIFQAPPPGAVPQTQAPTQFRPPMFKPEVPPGGIPVSGPAASFGRGPGHNGPHQHSFESPLVAPQGPYNLghphpspvggppQRSVPLSGFDSHVGTMVGPAYGPGGPMDLKQPSNPMEAEMFTGQRPGYMDGRESDSHFPGSQQRSPLGPPSGTRSNMMRMNGGPGSELRDERFKSFPDGRLNPFPVDPARSVIDRGEFEEDLKQFSRPSHLDAEPVPKLGSHFLPSRPFDRGPHGYGMDMGPRPFERGLSYDPGLKLDPMGASAPSRFLPAYHDDAAGRSDSSHAHPDFPRPGRAYGRRHMGGLSPRSPFREFCgfgglpgslggsRSVREDIGGREFRRFGDPIGNSFHDSRFPVLPSHLRRGEFEGPGRTGDLIGQEFLPSHLRRGEPLGPHNLRLGETVGLGGFPGPARMEELGGPGNFPPPRLGEPGFRSSFSRQGFPNDGGFYTVKNTFVISVFLTLRCAAFYI

****NECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCNRCAIQIVHRQVQ****************************************************************************************************GYNPYQQHYQQYYPY******************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************FC********************************************************************************************************************************NDGGFYTVKNTFVISVFLTLRCAAFY*

*GFDNECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCS*****************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************TVGLGGFPGP****************LGEPGFRSSFSRQGFPNDGGFYTVKNTFVISVFLTLRCAAFYI

MGFDNECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCNRCAIQIVHRQVQEHA*****************DAAAIGTAATGDQSQVATQAGLTASQVQTQTIATP*******************VQAAVPTAEQWYQQQQQYQQYYQQYPGYNPYQQHYQQYYPYQQQAL*************************************************************HGQLLSQ***********************QPHLQHMQLPQYQQPQSQILHTPPQI******************************************************************IPLSGPLQHPMYVHPHT************************TISNQPLSTGLPPLGQVANIPPAQQLPVRPHAPQPGVPVSQHPVMQPVQQPMPYQYVQQHLPFSGQHQQGPFVQPQLRPQRPPQSLQLHPPAYSQPLQNVAVINGMQSHQPRNLGQPLTPNYGVHAQSYQQSATSLHVRPAQLG**************************************EVAVKI*****************NFDTPGPEAAAVGMKVPKSETDVKAAVDEIKTEVEDKTNVVDTSSKEFVTDRESHIAENVQPINKMVKEEVIENVEGQKDSANVD************QEEPLLKT***************************************AQAGGFVQSPPSLYGSSTLQQRPAAPSIFQAPPPGAVPQTQAPTQFRPPMFKPEVPPGGIPVSGPAASFGRGPGHNGPHQHSFESPLVAPQGPYNLGHPHPSPVGGPPQRSVPLSGFDSHVGTMVGPAYGPGGPMDLKQPSNPMEAEMFTGQRPGYMDG********************GTRSNMMRMNGGPGSELRDERFKSFPDGRLNPFPVDPARSVIDRGEFEEDLKQFSRPSHLDAEPVPKLGSHFLPSRPFDRGPHGYGMDMGPRPFERGLSYDPGLKLDPMGASAPSRFLPAYHDDA**********PDFPRPGRAYGRRHMGGLSPRSPFREFCGFGGLPGSLGGSRSVREDIGGREFRRFGDPIGNSFHDSRFPVLPSHLRRGEFEGPGRTGDLIGQEFLPSHLRRGEPLGPHNLRLGETVGLGGFPGPARMEELGGPGNFPPPRLGEPGFRSSFSRQGFPNDGGFYTVKNTFVISVFLTLRCAAFYI

*GFDNECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCNRCAIQIVHRQV****************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************QGPYNLGHPHPSPVGGPPQRSVPLSGFDSHVGTMVGPAYGPGGPMDLKQPSNPMEAEMFTGQRPGYMDGRESDSHFPGSQQRSPL*P*S**R********GP*SELRDERFKSFPDGRLNPFPVDPAR**IDRGEFEEDLKQFSRPSHLDAEPVPKLGSHFLPSRPFDRGPHGYGMDMGPRPFERGLSYDPGLKLDPMGASAPSRFLPAYHDDAAGRSDSSHAHPDFPRPGRAYGRRHMGGLSPRSPFREFCGFGGLPGSLGGSRSVREDIGGREFRRFGDPIGNSFHDSRFPVLPSHLRRGEFEGPGRTGDLIGQEFLPSHLRRGEPLGPHNLRLGETVGLGGFPGPARMEELGGPGNFPPPRLGEPGFRSSFSRQGFPNDGGFYTVKNTFVISVFLTLRCAAFYI

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MGFDNECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCNRCAIQIVHRQVQEHAQNCPGVQPQASQPEGVHDAAAIGTAATGDQSQVATQAGLTASQVQTQTIATPPPGKDTNQQPSSMSQPLAVVQAAVPTAEQWYQQQQQYQQYYQQYPGYNPYQQHYQQYYPYQQQALPQYQQPQAQSQSQMQPQAQVHPSAQFQSQLQPSHPPVQATVAAQPQNQAQVNQQQQSHPLHHGQLLSQAQSYPQAQPQSYPQSQPPQPQPIQPHLQHMQLPQYQQPQSQILHTPPQIQHPVPQPQPQPQPQSNPQSLQTQVQHQSQPQSHHPPHPSHRPQAQQTAASAVTSHHSYSQPQPHQQIPLSGPLQHPMYVHPHTGAQSQMQNQFPQQTPSMRPAQSHATISNQPLSTGLPPLGQVANIPPAQQLPVRPHAPQPGVPVSQHPVMQPVQQPMPYQYVQQHLPFSGQHQQGPFVQPQLRPQRPPQSLQLHPPAYSQPLQNVAVINGMQSHQPRNLGQPLTPNYGVHAQSYQQSATSLHVRPAQLGANQSSSNQSNLSWTSNQVQLSSEQQAGATSKPEMSEKNEVAVKIAHEREAESSSEKTAKTDNFDTPGPEAAAVGMKVPKSETDVKAAVDEIKTEVEDKTNVVDTSSKEFVTDRESHIAENVQPINKMVKEEVxxxxxxxxxxxxxxxxxxxxxVSKEVQEEPLLKTSTMQQGTQFGEQSEKVQKEQKVPQAQGAQGPGAVPPAGQAQAGGFVQSPPSLYGSSTLQQRPAAPSIFQAPPPGAVPQTQAPTQFRPPMFKPEVPPGGIPVSGPAASFGRGPGHNGPHQHSFESPLVAPQGPYNLGHPHPSPVGGPPQRSVPLSGFDSHVGTMVGPAYGPGGPMDLKQPSNPMEAEMFTGQRPGYMDGRESDSHFPGSQQRSPLGPPSGTRSNMMRMNGGPGSELRDERFKSFPDGRLNPFPVDPARSVIDRGEFEEDLKQFSRPSHLDAEPVPKLGSHFLPSRPFDRGPHGYGMDMGPRPFERGLSYDPGLKLDPMGASAPSRFLPAYHDDAAGRSDSSHAHPDFPRPGRAYGRRHMGGLSPRSPFREFCGFGGLPGSLGGSRSVREDIGGREFRRFGDPIGNSFHDSRFPVLPSHLRRGEFEGPGRTGDLIGQEFLPSHLRRGEPLGPHNLRLGETVGLGGFPGPARMEELGGPGNFPPPRLGEPGFRSSFSRQGFPNDGGFYTVKNTFVISVFLTLRCAAFYI

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

No hits with e-value below 0.001 by BLAST

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
Query		1332
255558854		1329	hypothetical protein RCOM_0731250 [Ricin	0.863	0.865	0.481	0.0
224054576		1327	predicted protein [Populus trichocarpa]	0.863	0.866	0.460	0.0
449455164		1434	PREDICTED: uncharacterized protein LOC10	0.879	0.817	0.398	1e-180
297745966		1669	unnamed protein product [Vitis vinifera]	0.706	0.563	0.392	1e-149
147780120		1131	hypothetical protein VITISV_000937 [Viti	0.632	0.745	0.362	1e-109
449529790		891	PREDICTED: uncharacterized LOC101207800,	0.162	0.242	0.696	5e-88
356529863		858	PREDICTED: uncharacterized protein LOC10	0.159	0.248	0.710	3e-86
449474556		271	PREDICTED: uncharacterized protein LOC10	0.162	0.797	0.696	3e-85
449470991		1177	PREDICTED: uncharacterized protein LOC10	0.682	0.772	0.337	4e-84
222616659		1181	hypothetical protein OsJ_35269 [Oryza sa	0.316	0.356	0.432	2e-75

>gi\|255558854\|ref\|XP_002520450.1\| hypothetical protein RCOM_0731250 [Ricinus communis] gi\|223540292\|gb\|EEF41863.1\| hypothetical protein RCOM_0731250 [Ricinus communis]	Back alignment and taxonomy information

 Score =  891 bits (2302), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 675/1403 (48%), Positives = 806/1403 (57%), Gaps = 253/1403 (18%)

Query: 1    MGFDNECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACPYDG 60
            MGFDNECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCL+Y+V+TT+ACPYDG
Sbjct: 1    MGFDNECILNIQSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLSYVVSTTRACPYDG 60

Query: 61   YLVTEADSKVVLSSAVVPLVESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCSGC 120
            YLVTEADSK        PL ESNKALAETIGKITV+CL+HRSGCTWQGPLSECTSHCS C
Sbjct: 61   YLVTEADSK--------PLSESNKALAETIGKITVYCLYHRSGCTWQGPLSECTSHCSEC 112

Query: 121  AFGNSPVVCNRCAIQIVHRQVQEHAQNCPGVQPQASQPEGVHDAAAIGTAATGDQSQVAT 180
            AFGNSPVVCNRC +QIVHRQVQEHAQNCPGVQPQA   EG  DAA  GT A GDQ+Q AT
Sbjct: 113  AFGNSPVVCNRCGVQIVHRQVQEHAQNCPGVQPQA-HAEGAKDAAVTGTPAAGDQNQAAT 171

Query: 181  QAGLTASQVQTQTIATPPPGKDTNQQPSSMSQPLAVVQAAVPTAEQWYQQQQQYQQYYQQ 240
            QA  T++  QT   +TP  G +    P++ SQP   VQA V TA+QWYQQQQQYQQYYQQ
Sbjct: 172  QAATTSATTQTTASSTPGQGSNQQANPTTQSQP--AVQAVVSTADQWYQQQQQYQQYYQQ 229

Query: 241  YPGYNPYQQHYQQYYPYQQQALPQYQQPQAQSQSQMQPQAQVHPSAQFQSQLQPSHPPVQ 300
            YPGY+PYQQHYQQYYPYQQQA+PQ      QSQ  MQPQ QV P AQ Q+Q Q SHP VQ
Sbjct: 230  YPGYDPYQQHYQQYYPYQQQAVPQC----TQSQVYMQPQTQVQPQAQLQTQAQ-SHPQVQ 284

Query: 301  ATVAAQPQNQAQVNQQQQSH-PLH-HGQLLSQAQSYPQAQPQSYPQSQPPQPQ------P 352
               AAQPQ+Q QVN QQQ+H P+    QL  Q  + P  QP       PPQ Q      P
Sbjct: 285  LPAAAQPQSQGQVNPQQQTHTPIQPQSQLPLQTHAPPHGQP-------PPQAQLHQQTNP 337

Query: 353  IQPHLQHMQLPQYQQPQSQILHTPPQI----------QHPVPQPQPQPQ--PQSNPQSLQ 400
            +Q H QH+QLPQYQQP SQ+ H   Q+          QHPVPQ  P  Q  PQ++ Q   
Sbjct: 338  VQQHPQHIQLPQYQQPHSQMQHPQSQVLTQAHSQLHPQHPVPQSHPPAQGLPQTHAQYPM 397

Query: 401  TQVQHQSQPQSHHPPHPSHRPQAQQTAASAVTSHHSYSQPQPHQQIPLSGPLQHPMYVHP 460
              +      Q +HP +P  +PQ Q ++A AVT HHSY QPQP QQ+ L          HP
Sbjct: 398  QPIPQPFASQPNHPVNPHVQPQPQHSSAHAVTGHHSYPQPQPQQQLQLG------GLQHP 451

Query: 461  HTGAQSQMQNQFPQQTPSMRPAQSHATISNQPLSTGLPPLGQVANIPPAQQLPVRPHAPQ 520
               AQ   Q QFPQQ+P +RP QSH  + N   S  LP  GQV N+PPAQQ PV+ HA Q
Sbjct: 452  VHYAQGGPQPQFPQQSPLLRPPQSHVPVQNPQQSGLLPSPGQVPNVPPAQQQPVQAHAQQ 511

Query: 521  PGVPVSQHPVMQPVQQPMPYQYVQQHLPFSGQ---------HQQGPFVQ------PQLRP 565
            PG+PV Q PVMQ VQQP+  QYVQQ  PF GQ         HQQG ++Q       QLRP
Sbjct: 512  PGLPVHQLPVMQSVQQPIHQQYVQQQPPFPGQALGPVQNQVHQQGAYMQQHLHGHSQLRP 571

Query: 566  QRPPQSLQLHPPAYSQPLQNVAVINGMQSHQPRNLGQPLTPNYGVHAQSYQQSATSLHVR 625
            Q P         AY+QPLQNV + +G Q+HQ +NLG    P YGV    +  S+  + VR
Sbjct: 572  QGPSH-------AYTQPLQNVPLPHGTQAHQAQNLGG--RPPYGVPTYPHPHSSVGMQVR 622

Query: 626  PAQLGANQSSSNQSNLSWTSNQVQLSSEQQAGATSKPEMSEKNEVAVKIAHEREAESSSE 685
            P Q+GA+Q S    N    +NQ+QLSSEQ +GA S+P  + + +  ++ +   EA+SSS+
Sbjct: 623  PMQVGADQQS---GNAFRANNQMQLSSEQPSGAISRPTSNRQGDDIIEKS--SEADSSSQ 677

Query: 686  KTAKTDNFDTPGPEAAAVGMKVPKSETDVKAAVDEIKTEVEDKTNVVDTSSKEFVTDRES 745
            K  + D  D                  DV +    + ++V D   V+  S+ + V D   
Sbjct: 678  KNVRRDPND-----------------LDVASG---LGSDVSDLKTVISESNLKPVDDDNK 717

Query: 746  HIAENVQPINKMVKEEVIENVEGQKDSANVDIKQEEHSVSKEVQEEPLLKTSTMQQGTQF 805
             I E        VKEE  +  + QKD +N D   E+    K V++ P++K   + +    
Sbjct: 718  SINE--------VKEEPKKGNDDQKDISNTDNDAED----KGVKDGPVMKNRPLPEAEHL 765

Query: 806  GEQSEKVQKEQKV-PQAQG-------AQGPG------AVPPAGQAQAGGFVQSPPSL-YG 850
             +QS K Q+ + V PQ  G        QG G      ++P A Q +     Q PP + +G
Sbjct: 766  EDQSMKSQRGRNVTPQHSGGFILHGQVQGEGLAQPSHSIPIAEQGK-----QQPPVIPHG 820

Query: 851  SSTLQQRPAAPSIFQAPPPGAVPQTQAP----TQFRPPM-----FKPEVPPGGIPVSGPA 901
             S LQQRP   S+  APPPG++   Q P     + RP         PEV   G+   G  
Sbjct: 821  PSALQQRPIGSSLLTAPPPGSLHHGQIPGHPSARVRPLGPGHIPHGPEVSSAGMTGLGST 880

Query: 902  ASFGRGPGHNGPHQHSFESPLVAPQGPYNLGHPHPSPVGGPPQRSVPLSGFDSHVGTMVG 961
               GRG  H G             QG Y  GH  PS     P                  
Sbjct: 881  PITGRGGSHYG------------LQGTYTQGHALPSQADRTP------------------ 910

Query: 962  PAYGPGGPMDLKQPSNPMEAEMFTGQRPGYMDGRESDSHFPGSQQRSPLGPPSGTRSNMM 1021
              YG              + +MF  QRP Y DG+  D          PLG  SG  SN M
Sbjct: 911  --YG-------------HDTDMFANQRPNYTDGKRLD----------PLGQQSGMHSNAM 945

Query: 1022 RMNGGPGSE------LRDERFKSFPDGRLNPFPVDPARSVIDRGEFEEDLKQFSRPSHLD 1075
            RMNG PG +      LRD+RF+ F D  +NPFP DP++ ++DR EFEEDLK FSRPS LD
Sbjct: 946  RMNGAPGMDSSSALGLRDDRFRPFSDEYMNPFPKDPSQRIVDRREFEEDLKHFSRPSDLD 1005

Query: 1076 AEPVPKLGSHFLPSRPFDRGPHGYGMDMGPRPFERGLSYDPGLKLDPMGASAPSRFLPAY 1135
             +   K G++F  SRP DRGP   G+         G +YD G+KL+ +G   PSRF P Y
Sbjct: 1006 TQSTTKFGANFSSSRPLDRGPLDKGL--------HGPNYDSGMKLESLGGPPPSRFFPPY 1057

Query: 1136 H-------DDAAGRS------------DSSHAHPDFPRPGRAYGRRHMGGLSPRSPFREF 1176
            H       +D A RS            DS  AHP+F  PGR Y RRH  G++PRSP R++
Sbjct: 1058 HHDGLMHPNDIAERSIGFHDNTLGRQPDSVRAHPEFFGPGRRYDRRHRDGMAPRSPGRDY 1117

Query: 1177 -----CGFGGLPGSLGGSRSVREDIGGREFRRFGDPIGNSFHDSRFPVLPSHLRRGEFEG 1231
                  GFG +PG         +DI GRE RRFGD    SFH SRFPVLPSH+R GEFEG
Sbjct: 1118 PGVSSRGFGAIPG--------LDDIDGRESRRFGD----SFHGSRFPVLPSHMRMGEFEG 1165

Query: 1232 PGRTGDLIGQEFLPSHLRRGEPLGPHNL--RLGETVGLGGFPGPARMEELGGPGNFPPPR 1289
            P + G         +H RRGE LG HN+  RLGE +G G FPGPA M +L G GNF  PR
Sbjct: 1166 PSQDG-------FSNHFRRGEHLGHHNMRNRLGEPIGFGAFPGPAGMGDLSGTGNFFNPR 1218

Query: 1290 LGEPGFRSSFSRQGFPNDGGFYT 1312
            LGEPGFRSSFS +GFP DGG Y 
Sbjct: 1219 LGEPGFRSSFSFKGFPGDGGIYA 1241

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|224054576\|ref\|XP_002298329.1\| predicted protein [Populus trichocarpa] gi\|222845587\|gb\|EEE83134.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|449455164\|ref\|XP_004145323.1\| PREDICTED: uncharacterized protein LOC101205914 [Cucumis sativus]	Back alignment and taxonomy information

>gi\|297745966\|emb\|CBI16022.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|147780120\|emb\|CAN64434.1\| hypothetical protein VITISV_000937 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|449529790\|ref\|XP_004171881.1\| PREDICTED: uncharacterized LOC101207800, partial [Cucumis sativus]	Back alignment and taxonomy information

>gi\|356529863\|ref\|XP_003533506.1\| PREDICTED: uncharacterized protein LOC100809964 [Glycine max]	Back alignment and taxonomy information

>gi\|449474556\|ref\|XP_004154213.1\| PREDICTED: uncharacterized protein LOC101207800, partial [Cucumis sativus]	Back alignment and taxonomy information

>gi\|449470991\|ref\|XP_004153176.1\| PREDICTED: uncharacterized protein LOC101214768 [Cucumis sativus]	Back alignment and taxonomy information

>gi\|222616659\|gb\|EEE52791.1\| hypothetical protein OsJ_35269 [Oryza sativa Japonica Group]	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
Query		1332
FB\|FBgn0028847		328	CG9014 [Drosophila melanogaste	0.098	0.399	0.271	8.6e-09
UNIPROTKB\|C9JJ10		182	TRAF4 "TNF receptor-associated	0.090	0.664	0.276	5.6e-08
UNIPROTKB\|B1AMX7		172	TRAF2 "TNF receptor-associated	0.099	0.767	0.288	4e-07
UNIPROTKB\|J9P9L4		1691	COL4A5 "Collagen alpha-5(IV) c	0.319	0.251	0.258	4.3e-07
UNIPROTKB\|Q28247		1691	COL4A5 "Collagen alpha-5(IV) c	0.319	0.251	0.258	4.3e-07
UNIPROTKB\|F1PH05		1693	COL4A5 "Collagen alpha-5(IV) c	0.319	0.251	0.258	4.3e-07
ZFIN\|ZDB-GENE-040308-1		470	traf4a "tnf receptor-associate	0.085	0.242	0.305	6.1e-07
UNIPROTKB\|F1Q0F7		1678	COL4A5 "Collagen alpha-5(IV) c	0.321	0.255	0.256	1.8e-06
MGI\|MGI:101835		501	Traf2 "TNF receptor-associated	0.099	0.263	0.320	6.4e-06
UNIPROTKB\|B1AMX8		193	TRAF2 "TNF receptor-associated	0.099	0.683	0.288	7.1e-06

FB\|FBgn0028847 CG9014 [Drosophila melanogaster (taxid:7227)]	Back alignment and assigned GO terms

 Score = 159 (61.0 bits), Expect = 8.6e-09, Sum P(2) = 8.6e-09
 Identities = 41/151 (27%), Positives = 73/151 (48%)

Query:     1 MGFDNECILNIQSLAGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTTQACPYD 59
             MGFD  CI+    +  E  CP+C  ++   E +QS +C H +C+ C+   +   Q CP  
Sbjct:     1 MGFDLNCIVG--HVDEELICPICTDVL--EEPVQSSECEHAFCRACIDKWMIQKQICP-- 54

Query:    60 GYLVTEADSKVVLSSAVVPLVESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCSG 119
                    D   +L+S +VP+   ++ +   + ++ + C F +SGC     L E  +H + 
Sbjct:    55 ------VDRSGLLTSHLVPV---SRLMRNMLSRLKIKCTFSQSGCAQMLALEEFRTHVAA 105

Query:   120 CAFGNSPVV-CNR-CAIQIVHRQVQEHAQNC 148
             C      VV C++ C +++   ++  H  NC
Sbjct:   106 CEHNPKVVVECSKGCGMKVPKDEMSRH--NC 134

GO:0008270 "zinc ion binding" evidence=IEA

GO:0031386 "protein tag" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

UNIPROTKB\|C9JJ10 TRAF4 "TNF receptor-associated factor 4" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|B1AMX7 TRAF2 "TNF receptor-associated factor 2" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|J9P9L4 COL4A5 "Collagen alpha-5(IV) chain" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

UNIPROTKB\|Q28247 COL4A5 "Collagen alpha-5(IV) chain" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

UNIPROTKB\|F1PH05 COL4A5 "Collagen alpha-5(IV) chain" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

ZFIN\|ZDB-GENE-040308-1 traf4a "tnf receptor-associated factor 4a" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

UNIPROTKB\|F1Q0F7 COL4A5 "Collagen alpha-5(IV) chain" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

MGI\|MGI:101835 Traf2 "TNF receptor-associated factor 2" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

UNIPROTKB\|B1AMX8 TRAF2 "TNF receptor-associated factor 2" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	fgenesh4_pg.C_LG_I001687	hypothetical protein (1327 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
		Sorry, there are no predicted associations at the current settings.

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		1332
pfam09770		804	pfam09770, PAT1, Topoisomerase II-associated prote	3e-17
pfam09770		804	pfam09770, PAT1, Topoisomerase II-associated prote	2e-16
pfam09770		804	pfam09770, PAT1, Topoisomerase II-associated prote	1e-15
pfam09770		804	pfam09770, PAT1, Topoisomerase II-associated prote	1e-15
pfam09770		804	pfam09770, PAT1, Topoisomerase II-associated prote	8e-15
pfam09770		804	pfam09770, PAT1, Topoisomerase II-associated prote	1e-14
pfam09606		768	pfam09606, Med15, ARC105 or Med15 subunit of Media	2e-14
pfam09770		804	pfam09770, PAT1, Topoisomerase II-associated prote	4e-14
pfam09606		768	pfam09606, Med15, ARC105 or Med15 subunit of Media	8e-12
PRK03427		333	PRK03427, PRK03427, cell division protein ZipA; Pr	1e-09
PHA03247		3151	PHA03247, PHA03247, large tegument protein UL36; P	1e-08
pfam09606		768	pfam09606, Med15, ARC105 or Med15 subunit of Media	2e-08
pfam03154		979	pfam03154, Atrophin-1, Atrophin-1 family	2e-07
PRK10263		1355	PRK10263, PRK10263, DNA translocase FtsK; Provisio	2e-07
pfam09770		804	pfam09770, PAT1, Topoisomerase II-associated prote	5e-07
PHA03247		3151	PHA03247, PHA03247, large tegument protein UL36; P	7e-07
PRK03427		333	PRK03427, PRK03427, cell division protein ZipA; Pr	8e-07
PRK10263		1355	PRK10263, PRK10263, DNA translocase FtsK; Provisio	8e-07
pfam03153		332	pfam03153, TFIIA, Transcription factor IIA, alpha/	1e-06
pfam09770		804	pfam09770, PAT1, Topoisomerase II-associated prote	2e-06
pfam14179		110	pfam14179, YppG, YppG-like protein	2e-06
pfam13923		45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	2e-06
TIGR01628		562	TIGR01628, PABP-1234, polyadenylate binding protei	3e-06
PRK10263		1355	PRK10263, PRK10263, DNA translocase FtsK; Provisio	4e-06
pfam03153		332	pfam03153, TFIIA, Transcription factor IIA, alpha/	9e-06
PRK10263		1355	PRK10263, PRK10263, DNA translocase FtsK; Provisio	1e-05
PRK14949		944	PRK14949, PRK14949, DNA polymerase III subunits ga	1e-05
pfam03154		979	pfam03154, Atrophin-1, Atrophin-1 family	3e-05
pfam03153		332	pfam03153, TFIIA, Transcription factor IIA, alpha/	4e-05
TIGR01628		562	TIGR01628, PABP-1234, polyadenylate binding protei	4e-05
PRK10263		1355	PRK10263, PRK10263, DNA translocase FtsK; Provisio	7e-05
PRK01741		332	PRK01741, PRK01741, cell division protein ZipA; Pr	7e-05
PRK07994		647	PRK07994, PRK07994, DNA polymerase III subunits ga	7e-05
PHA03247		3151	PHA03247, PHA03247, large tegument protein UL36; P	1e-04
PRK10263		1355	PRK10263, PRK10263, DNA translocase FtsK; Provisio	1e-04
pfam03153		332	pfam03153, TFIIA, Transcription factor IIA, alpha/	1e-04
PRK14949		944	PRK14949, PRK14949, DNA polymerase III subunits ga	1e-04
pfam07223		357	pfam07223, DUF1421, Protein of unknown function (D	1e-04
pfam04652		315	pfam04652, DUF605, Vta1 like	1e-04
pfam03153		332	pfam03153, TFIIA, Transcription factor IIA, alpha/	2e-04
TIGR01628		562	TIGR01628, PABP-1234, polyadenylate binding protei	2e-04
PRK01741		332	PRK01741, PRK01741, cell division protein ZipA; Pr	2e-04
TIGR02813		2582	TIGR02813, omega_3_PfaA, polyketide-type polyunsat	2e-04
smart00184		40	smart00184, RING, Ring finger	2e-04
pfam06513		215	pfam06513, DUF1103, Repeat of unknown function (DU	2e-04
pfam03154		979	pfam03154, Atrophin-1, Atrophin-1 family	3e-04
PRK10263		1355	PRK10263, PRK10263, DNA translocase FtsK; Provisio	4e-04
pfam14179		110	pfam14179, YppG, YppG-like protein	4e-04
PRK03427		333	PRK03427, PRK03427, cell division protein ZipA; Pr	5e-04
COG3115		324	COG3115, ZipA, Cell division protein [Cell divisio	5e-04
PRK03427		333	PRK03427, PRK03427, cell division protein ZipA; Pr	6e-04
TIGR01628		562	TIGR01628, PABP-1234, polyadenylate binding protei	6e-04
pfam07223		357	pfam07223, DUF1421, Protein of unknown function (D	7e-04
pfam00097		40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	7e-04
PRK07764		824	PRK07764, PRK07764, DNA polymerase III subunits ga	7e-04
PRK10263		1355	PRK10263, PRK10263, DNA translocase FtsK; Provisio	8e-04
PRK10263		1355	PRK10263, PRK10263, DNA translocase FtsK; Provisio	9e-04
pfam09770		804	pfam09770, PAT1, Topoisomerase II-associated prote	0.001
pfam09770		804	pfam09770, PAT1, Topoisomerase II-associated prote	0.001
PRK10263		1355	PRK10263, PRK10263, DNA translocase FtsK; Provisio	0.001
pfam03153		332	pfam03153, TFIIA, Transcription factor IIA, alpha/	0.001
pfam07223		357	pfam07223, DUF1421, Protein of unknown function (D	0.001
pfam04652		315	pfam04652, DUF605, Vta1 like	0.001
pfam03153		332	pfam03153, TFIIA, Transcription factor IIA, alpha/	0.002
TIGR00618		1042	TIGR00618, sbcc, exonuclease SbcC	0.002
PRK12757		256	PRK12757, PRK12757, cell division protein FtsN; Pr	0.002
PTZ00395		1560	PTZ00395, PTZ00395, Sec24-related protein; Provisi	0.002
PRK14971		614	PRK14971, PRK14971, DNA polymerase III subunits ga	0.002
smart00817		411	smart00817, Amelin, Ameloblastin precursor (Amelin	0.002
PRK03427		333	PRK03427, PRK03427, cell division protein ZipA; Pr	0.003
pfam03154		979	pfam03154, Atrophin-1, Atrophin-1 family	0.003
PRK01741		332	PRK01741, PRK01741, cell division protein ZipA; Pr	0.003
PRK14971		614	PRK14971, PRK14971, DNA polymerase III subunits ga	0.003

>gnl\|CDD\|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1	Back alignment and domain information

 Score = 87.5 bits (217), Expect = 3e-17
 Identities = 47/216 (21%), Positives = 67/216 (31%), Gaps = 8/216 (3%)

Query: 267 QPQAQSQSQMQPQAQVHPSAQFQSQLQPSHPPVQATVAAQPQNQAQVNQQQQSHPLHHGQ 326
            P+ + Q    P++Q  P  Q  +Q   S   V+A +  + Q        QQ  P     
Sbjct: 129 APKPEPQPPQAPESQ--PQPQTPAQKMLSLEEVEAQLQQRQQAPQLPQPPQQVLP---QG 183

Query: 327 LLSQAQSYPQAQPQSYPQSQPPQPQPIQPHLQHMQLPQYQQPQSQILHTPPQIQHPVPQP 386
           +  +  ++PQ  P   P   P  PQ     +Q  Q              PPQ+    P  
Sbjct: 184 MPPRQAAFPQQGPPEQPPGYPQPPQGHPEQVQPQQFLPAPSQAPAQPPLPPQLPQQPPPL 243

Query: 387 QPQPQPQSNPQSLQTQVQHQSQPQSHHPPHPSHRPQAQQTAASAVTSHHSYSQPQPHQQI 446
           Q    P  + Q      Q   Q Q   PP P  +P  Q             + P P  Q 
Sbjct: 244 QQPQFPGLSQQMPPPPPQPPQQQQQ--PPQPQAQPPPQNQPTPHPGLPQGQNAPLPPPQQ 301

Query: 447 PLSGPLQHPMYVHPHTGAQSQMQNQ-FPQQTPSMRP 481
           P   PL              +   Q   QQ  ++  
Sbjct: 302 PQLLPLVQQPQGQQRGPQFREQLVQLSQQQREALSQ 337

Members of this family are necessary for accurate chromosome transmission during cell division. Length = 804

>gnl\|CDD\|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1	Back alignment and domain information

>gnl\|CDD\|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1	Back alignment and domain information

>gnl\|CDD\|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1	Back alignment and domain information

>gnl\|CDD\|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1	Back alignment and domain information

>gnl\|CDD\|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1	Back alignment and domain information

>gnl\|CDD\|220309 pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex non-fungal	Back alignment and domain information

>gnl\|CDD\|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1	Back alignment and domain information

>gnl\|CDD\|220309 pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex non-fungal	Back alignment and domain information

>gnl\|CDD\|235124 PRK03427, PRK03427, cell division protein ZipA; Provisional	Back alignment and domain information

>gnl\|CDD\|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional	Back alignment and domain information

>gnl\|CDD\|220309 pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex non-fungal	Back alignment and domain information

>gnl\|CDD\|217393 pfam03154, Atrophin-1, Atrophin-1 family	Back alignment and domain information

>gnl\|CDD\|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional	Back alignment and domain information

>gnl\|CDD\|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1	Back alignment and domain information

>gnl\|CDD\|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional	Back alignment and domain information

>gnl\|CDD\|235124 PRK03427, PRK03427, cell division protein ZipA; Provisional	Back alignment and domain information

>gnl\|CDD\|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional	Back alignment and domain information

>gnl\|CDD\|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit	Back alignment and domain information

>gnl\|CDD\|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1	Back alignment and domain information

>gnl\|CDD\|222579 pfam14179, YppG, YppG-like protein	Back alignment and domain information

>gnl\|CDD\|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)	Back alignment and domain information

>gnl\|CDD\|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1, 2, 3, 4 family	Back alignment and domain information

>gnl\|CDD\|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional	Back alignment and domain information

>gnl\|CDD\|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit	Back alignment and domain information

>gnl\|CDD\|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional	Back alignment and domain information

>gnl\|CDD\|237863 PRK14949, PRK14949, DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>gnl\|CDD\|217393 pfam03154, Atrophin-1, Atrophin-1 family	Back alignment and domain information

>gnl\|CDD\|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit	Back alignment and domain information

>gnl\|CDD\|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1, 2, 3, 4 family	Back alignment and domain information

>gnl\|CDD\|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional	Back alignment and domain information

>gnl\|CDD\|234977 PRK01741, PRK01741, cell division protein ZipA; Provisional	Back alignment and domain information

>gnl\|CDD\|236138 PRK07994, PRK07994, 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\|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional	Back alignment and domain information

>gnl\|CDD\|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit	Back alignment and domain information

>gnl\|CDD\|237863 PRK14949, PRK14949, DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>gnl\|CDD\|219339 pfam07223, DUF1421, Protein of unknown function (DUF1421)	Back alignment and domain information

>gnl\|CDD\|218191 pfam04652, DUF605, Vta1 like	Back alignment and domain information

>gnl\|CDD\|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit	Back alignment and domain information

>gnl\|CDD\|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1, 2, 3, 4 family	Back alignment and domain information

>gnl\|CDD\|234977 PRK01741, PRK01741, cell division protein ZipA; Provisional	Back alignment and domain information

>gnl\|CDD\|234022 TIGR02813, omega_3_PfaA, polyketide-type polyunsaturated fatty acid synthase PfaA	Back alignment and domain information

>gnl\|CDD\|214546 smart00184, RING, Ring finger	Back alignment and domain information

>gnl\|CDD\|115185 pfam06513, DUF1103, Repeat of unknown function (DUF1103)	Back alignment and domain information

>gnl\|CDD\|217393 pfam03154, Atrophin-1, Atrophin-1 family	Back alignment and domain information

>gnl\|CDD\|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional	Back alignment and domain information

>gnl\|CDD\|222579 pfam14179, YppG, YppG-like protein	Back alignment and domain information

>gnl\|CDD\|235124 PRK03427, PRK03427, cell division protein ZipA; Provisional	Back alignment and domain information

>gnl\|CDD\|225657 COG3115, ZipA, Cell division protein [Cell division and chromosome partitioning]	Back alignment and domain information

>gnl\|CDD\|235124 PRK03427, PRK03427, cell division protein ZipA; Provisional	Back alignment and domain information

>gnl\|CDD\|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1, 2, 3, 4 family	Back alignment and domain information

>gnl\|CDD\|219339 pfam07223, DUF1421, Protein of unknown function (DUF1421)	Back alignment and domain information

>gnl\|CDD\|215715 pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING finger)	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\|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional	Back alignment and domain information

>gnl\|CDD\|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional	Back alignment and domain information

>gnl\|CDD\|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1	Back alignment and domain information

>gnl\|CDD\|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1	Back alignment and domain information

>gnl\|CDD\|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional	Back alignment and domain information

>gnl\|CDD\|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit	Back alignment and domain information

>gnl\|CDD\|219339 pfam07223, DUF1421, Protein of unknown function (DUF1421)	Back alignment and domain information

>gnl\|CDD\|218191 pfam04652, DUF605, Vta1 like	Back alignment and domain information

>gnl\|CDD\|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit	Back alignment and domain information

>gnl\|CDD\|129705 TIGR00618, sbcc, exonuclease SbcC	Back alignment and domain information

>gnl\|CDD\|237191 PRK12757, PRK12757, cell division protein FtsN; Provisional	Back alignment and domain information

>gnl\|CDD\|185594 PTZ00395, PTZ00395, Sec24-related protein; Provisional	Back alignment and domain information

>gnl\|CDD\|237874 PRK14971, PRK14971, DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>gnl\|CDD\|214832 smart00817, Amelin, Ameloblastin precursor (Amelin)	Back alignment and domain information

>gnl\|CDD\|235124 PRK03427, PRK03427, cell division protein ZipA; Provisional	Back alignment and domain information

>gnl\|CDD\|217393 pfam03154, Atrophin-1, Atrophin-1 family	Back alignment and domain information

>gnl\|CDD\|234977 PRK01741, PRK01741, cell division protein ZipA; Provisional	Back alignment and domain information

>gnl\|CDD\|237874 PRK14971, PRK14971, DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		1332
KOG0297		391	consensus TNF receptor-associated factor [Signal t	99.58
COG5432		391	RAD18 RING-finger-containing E3 ubiquitin ligase [	99.42
TIGR00599		397	rad18 DNA repair protein rad18. This family is bas	99.18
KOG0287		442	consensus Postreplication repair protein RAD18 [Re	99.17
KOG3002		299	consensus Zn finger protein [General function pred	98.98
smart00504		63	Ubox Modified RING finger domain. Modified RING fi	98.93
PF04564		73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.73
KOG0320		187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.72
PLN03208		193	E3 ubiquitin-protein ligase RMA2; Provisional	98.68
KOG0823		230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.66
PF15227		42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.5
PF13923		39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.45
PF14835		65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.36
PF13920		50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.34
KOG2177		386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.33
PHA02929		238	N1R/p28-like protein; Provisional	98.32
KOG0317		293	consensus Predicted E3 ubiquitin ligase, integral	98.32
PF13639		44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.3
KOG2164		513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.21
cd00162		45	RING RING-finger (Really Interesting New Gene) dom	98.11
PF00097		41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.1
TIGR00570		309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.09
KOG0311		381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.97
PHA02926		242	zinc finger-like protein; Provisional	97.95
COG5222		427	Uncharacterized conserved protein, contains RING Z	97.92
smart00184		39	RING Ring finger. E3 ubiquitin-protein ligase acti	97.87
KOG0825		1134	consensus PHD Zn-finger protein [General function	97.85
PF14634		44	zf-RING_5: zinc-RING finger domain	97.85
COG5574		271	PEX10 RING-finger-containing E3 ubiquitin ligase [	97.81
KOG2660		331	consensus Locus-specific chromosome binding protei	97.78
KOG0978		698	consensus E3 ubiquitin ligase involved in syntaxin	97.76
PF13445		43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	97.75
COG5152		259	Uncharacterized conserved protein, contains RING a	97.4
KOG0802		543	consensus E3 ubiquitin ligase [Posttranslational m	97.33
PF12678		73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	97.33
KOG1002		791	consensus Nucleotide excision repair protein RAD16	97.21
PLN03086		567	PRLI-interacting factor K; Provisional	97.15
KOG4159		398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.02
PF03145		198	Sina: Seven in absentia protein family; InterPro:	96.97
PF11789		57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.88
COG5243		491	HRD1 HRD ubiquitin ligase complex, ER membrane com	96.84
KOG1813		313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.82
KOG3039		303	consensus Uncharacterized conserved protein [Funct	96.79
KOG4628		348	consensus Predicted E3 ubiquitin ligase [Posttrans	96.76
PLN03086		567	PRLI-interacting factor K; Provisional	96.75
COG5540		374	RING-finger-containing ubiquitin ligase [Posttrans	96.75
KOG2879		298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.69
KOG1814		445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.63
KOG1785		563	consensus Tyrosine kinase negative regulator CBL [	96.54
PF04641		260	Rtf2: Rtf2 RING-finger	96.2
KOG1039		344	consensus Predicted E3 ubiquitin ligase [Posttrans	96.1
KOG0824		324	consensus Predicted E3 ubiquitin ligase [Posttrans	95.99
PF02176		60	zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A	95.9
KOG4265		349	consensus Predicted E3 ubiquitin ligase [Posttrans	95.72
PF12861		85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	95.49
PF02176		60	zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A	95.48
COG5219		1525	Uncharacterized conserved protein, contains RING Z	95.13
KOG4172		62	consensus Predicted E3 ubiquitin ligase [Posttrans	95.01
KOG1734		328	consensus Predicted RING-containing E3 ubiquitin l	94.93
KOG4739		233	consensus Uncharacterized protein involved in syna	94.86
COG5175		480	MOT2 Transcriptional repressor [Transcription]	94.83
KOG3800		300	consensus Predicted E3 ubiquitin ligase containing	94.82
COG5236		493	Uncharacterized conserved protein, contains RING Z	94.78
KOG1812		384	consensus Predicted E3 ubiquitin ligase [Posttrans	94.74
KOG4185		296	consensus Predicted E3 ubiquitin ligase [Posttrans	94.64
KOG0804		493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	94.33
PF07800		162	DUF1644: Protein of unknown function (DUF1644); In	94.32
KOG0297		391	consensus TNF receptor-associated factor [Signal t	94.23
KOG1001		674	consensus Helicase-like transcription factor HLTF/	93.9
KOG1645		463	consensus RING-finger-containing E3 ubiquitin liga	93.81
KOG4692		489	consensus Predicted E3 ubiquitin ligase [Posttrans	93.59
KOG4275		350	consensus Predicted E3 ubiquitin ligase [Posttrans	93.39
KOG0828		636	consensus Predicted E3 ubiquitin ligase [Posttrans	93.34
KOG4367		699	consensus Predicted Zn-finger protein [Function un	93.03
PF14570		48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	92.49
KOG0826		357	consensus Predicted E3 ubiquitin ligase involved i	92.31
KOG2462		279	consensus C2H2-type Zn-finger protein [Transcripti	92.18
KOG2932		389	consensus E3 ubiquitin ligase involved in ubiquiti	91.76
PF11793		70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	91.25
COG5220		314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	91.22
PF05290		140	Baculo_IE-1: Baculovirus immediate-early protein (	90.73
PF14447		55	Prok-RING_4: Prokaryotic RING finger family 4	90.45
KOG4362		684	consensus Transcriptional regulator BRCA1 [Replica	90.24
KOG1815		444	consensus Predicted E3 ubiquitin ligase [Posttrans	89.21
KOG0827		465	consensus Predicted E3 ubiquitin ligase [Posttrans	89.12
KOG3161		861	consensus Predicted E3 ubiquitin ligase [Posttrans	89.1
KOG0298		1394	consensus DEAD box-containing helicase-like transc	88.93
KOG1571		355	consensus Predicted E3 ubiquitin ligase [Posttrans	88.89
KOG0314		448	consensus Predicted E3 ubiquitin ligase [Posttrans	87.99
PHA03096		284	p28-like protein; Provisional	87.77
COG5194		88	APC11 Component of SCF ubiquitin ligase and anapha	87.5
KOG3039		303	consensus Uncharacterized conserved protein [Funct	86.73
KOG3623		1007	consensus Homeobox transcription factor SIP1 [Tran	85.25
KOG1428		3738	consensus Inhibitor of type V adenylyl cyclases/Ne	85.1
KOG3579		352	consensus Predicted E3 ubiquitin ligase [Posttrans	84.87
smart00744		49	RINGv The RING-variant domain is a C4HC3 zinc-fing	84.72
KOG1701		468	consensus Focal adhesion adaptor protein Paxillin	82.76
KOG3993		500	consensus Transcription factor (contains Zn finger	81.86
KOG1941		518	consensus Acetylcholine receptor-associated protei	81.36

>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]	Back alignment and domain information

Probab=99.58  E-value=1.4e-15  Score=173.41  Aligned_cols=146  Identities=26%  Similarity=0.585  Sum_probs=126.4

Q ss_pred             CCCchhhhccccCCCCccccccCCccccCCCcEEc-cCCCeeccchHHHHhhcCCCCCCCCcccccccchhhhcccccch
Q 000721            1 MGFDNECILNIQSLAGEYFCPVCRLLVYPNEALQS-QCTHLYCKPCLTYIVNTTQACPYDGYLVTEADSKVVLSSAVVPL   79 (1332)
Q Consensus         1 MGyD~e~IlfVE~L~EeL~CPICleLL~P~DPVQc-qCGHtFCssCIeKwLsss~kCPiCRk~LsekDLklLveskIFPL   79 (1332)
                      ||||.+.+.  ..++++|.|+||..++  .+|+++ .|||.||..|+.+|+.....||.|+..+...+..          
T Consensus         7 ~~~~~~~~~--~~~~~~l~C~~C~~vl--~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~----------   72 (391)
T KOG0297|consen    7 MGFDLKHLG--RPLDENLLCPICMSVL--RDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL----------   72 (391)
T ss_pred             ccccccccC--CCCcccccCccccccc--cCCCCCCCCCCcccccccchhhccCcCCcccccccchhhcc----------
Confidence            899999987  5699999999999999  899995 9999999999999999988999998877655322          


Q ss_pred             hhhhHHHHHHhhceecccccCCCCCccccccCCCCccCCCCCCCCccccCCC-ccchhcHHHHHHHHh-hCCCCCCCCCC
Q 000721           80 VESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCNR-CAIQIVHRQVQEHAQ-NCPGVQPQASQ  157 (1332)
Q Consensus        80 lesNK~LEKeIekLkVKCpnsk~GCqwsgkLSELesHekeC~y~~RpVkCp~-CGqkI~RkELQeHLd-eCPK~PVqCPn  157 (1332)
                       ..++.+.+++.++.+.|.+...||.|.+++..+..|+..|    ..+.|+. |+..+.+.++.+|++ .|.+....|..
T Consensus        73 -~~~~~~~~~~~~l~i~c~~~~~GC~~~~~l~~~~~Hl~~c----~~~~C~~~C~~~~~~~d~~~hl~~~C~~~~~~c~~  147 (391)
T KOG0297|consen   73 -PVPRALRRELLKLPIRCIFASRGCRADLELEALQGHLSTC----DPLKCPHRCGVQVPRDDLEDHLEAECPRRSLKCSL  147 (391)
T ss_pred             -CchHHHHHHHHhcccccccCCCCccccccHHHHHhHhccC----CcccCccccccccchHHHHHHHhcccccccccchh
Confidence             1356788899999999999999999999999999999999    2689965 999999999999996 69999888887


Q ss_pred             CCCccccc
Q 000721          158 PEGVHDAA  165 (1332)
Q Consensus       158 sc~~qkIA  165 (1332)
                      +.......
T Consensus       148 ~~~~~~~~  155 (391)
T KOG0297|consen  148 CQSDSILI  155 (391)
T ss_pred             hcCccchh
Confidence            65443333

>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]	Back alignment and domain information

>TIGR00599 rad18 DNA repair protein rad18	Back alignment and domain information

>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]	Back alignment and domain information

>KOG3002 consensus Zn finger protein [General function prediction only]	Back alignment and domain information

>smart00504 Ubox Modified RING finger domain	Back alignment and domain information

>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis	Back alignment and domain information

>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional	Back alignment and domain information

>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A	Back alignment and domain information

>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A	Back alignment and domain information

>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B	Back alignment and domain information

>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A	Back alignment and domain information

>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PHA02929 N1R/p28-like protein; Provisional	Back alignment and domain information

>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A	Back alignment and domain information

>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

Back alignment and domain information

>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 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

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1	Back alignment and domain information

>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PHA02926 zinc finger-like protein; Provisional	Back alignment and domain information

>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]	Back alignment and domain information

>smart00184 RING Ring finger	Back alignment and domain information

>KOG0825 consensus PHD Zn-finger protein [General function prediction only]	Back alignment and domain information

>PF14634 zf-RING_5: zinc-RING finger domain	Back alignment and domain information

>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]	Back alignment and domain information

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A	Back alignment and domain information

>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]	Back alignment and domain information

>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 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

>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]	Back alignment and domain information

>PLN03086 PRLI-interacting factor K; Provisional	Back alignment and domain information

>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila	Back alignment and domain information

>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C	Back alignment and domain information

>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]	Back alignment and domain information

>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PLN03086 PRLI-interacting factor K; Provisional	Back alignment and domain information

>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]	Back alignment and domain information

>PF04641 Rtf2: Rtf2 RING-finger	Back alignment and domain information

>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A	Back alignment and domain information

>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger	Back alignment and domain information

>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A	Back alignment and domain information

>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]	Back alignment and domain information

>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]	Back alignment and domain information

>COG5175 MOT2 Transcriptional repressor [Transcription]	Back alignment and domain information

>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]	Back alignment and domain information

>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]	Back alignment and domain information

>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function	Back alignment and domain information

>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]	Back alignment and domain information

>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]	Back alignment and domain information

>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG4367 consensus Predicted Zn-finger protein [Function unknown]	Back alignment and domain information

>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B	Back alignment and domain information

>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]	Back alignment and domain information

>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A	Back alignment and domain information

>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]	Back alignment and domain information

>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0	Back alignment and domain information

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4	Back alignment and domain information

>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]	Back alignment and domain information

>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]	Back alignment and domain information

>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PHA03096 p28-like protein; Provisional	Back alignment and domain information

>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]	Back alignment and domain information

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]	Back alignment and domain information

>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]	Back alignment and domain information

>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]	Back alignment and domain information

>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins	Back alignment and domain information

>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]	Back alignment and domain information

>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]	Back alignment and domain information

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]	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
Query		1332
3hcs_A		170	Crystal Structure Of The N-Terminal Domain Of Traf6		8e-04

>pdb|3HCS|A Chain A, Crystal Structure Of The N-Terminal Domain Of Traf6 Length = 170

Back alignment and structure

Iteration: 1

Score = 43.5 bits (101), Expect = 8e-04, Method: Composition-based stats. Identities = 40/162 (24%), Positives = 61/162 (37%), Gaps = 42/162 (25%) Query: 14 LAGEYFCPVCRLLVYPNEALQSQCTHLYCKPC-LTYIVNTTQACPYDGYLVTEADSKVVL 72 L +Y CP+C L+ EA+Q+ C H +CK C + I + CP D++++L Sbjct: 15 LESKYECPIC--LMALREAVQTPCGHRFCKACIIKSIRDAGHKCP--------VDNEILL 64 Query: 73 SSAVVPLVESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCSGCAFG--------- 123 + + P N A E + + V C GC + L H + C F Sbjct: 65 ENQLFP---DNFAKREIL-SLMVKC--PNEGCLHKMELRHLEDHQAHCEFALMDCPQCQR 118 Query: 124 ----------------NSPVVCNRCAIQIVHRQVQEHAQNCP 149 V C+ CA + + H QNCP Sbjct: 119 PFQKFHINIHILKDCPRRQVSCDNCAASMAFEDKEIHDQNCP 160

PyMOL of 3hcs

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		1332
3hcs_A		170	TNF receptor-associated factor 6; cross-brace, bet	1e-16
3hct_A		118	TNF receptor-associated factor 6; cross-brace, bet	1e-15
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	3e-15
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	4e-14
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	1e-12
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	4e-12
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	7e-11
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	4e-10
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	3e-09
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	5e-09
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	2e-08
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	2e-06
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	3e-06
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	3e-06
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	7e-06
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	1e-04
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	1e-04
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	2e-04
1m2v_B		926	SEC24, protein transport protein SEC24, SEC24P, SE	6e-04
3knv_A		141	TNF receptor-associated factor 2; cross-brace, alt	9e-15
1rmd_A		116	RAG1; V(D)J recombination, antibody, MAD, ring fin	2e-13
2ecy_A		66	TNF receptor-associated factor 3; metal binding pr	3e-07
1twf_A		1733	B220, DNA-directed RNA polymerase II largest subun	2e-04
1g25_A		65	CDK-activating kinase assembly factor MAT1; ring f	3e-04
3haj_A		486	Human pacsin2 F-BAR; pacsin,syndapin,FAP52,F-BAR,	6e-04
1bg1_A		596	Protein (transcription factor STAT3B); protein-DNA	7e-04

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens} Length = 170	Back alignment and structure

 Score = 78.2 bits (192), Expect = 1e-16
 Identities = 31/135 (22%), Positives = 51/135 (37%), Gaps = 20/135 (14%)

Query: 17  EYFCPVCRLLVYPNEALQSQCTHLYCKPCLT-YIVNTTQACPYDGYLVTEADSKVVLSSA 75
           +Y CP+C + +   EA+Q+ C H +CK C+   I +    CP D  ++ E          
Sbjct: 18  KYECPICLMALR--EAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ-------- 67

Query: 76  VVPLVESNKALAETIGKITVHCLFHRSGCTWQGPLSECTSHCSGCAFGNSPVVCNRCAIQ 135
               +  +      I  + V C     GC  +  L     H + C F  + + C +C   
Sbjct: 68  ----LFPDNFAKREILSLMVKC--PNEGCLHKMELRHLEDHQAHCEF--ALMDCPQCQRP 119

Query: 136 IVHRQVQEHAQN-CP 149
                +  H    CP
Sbjct: 120 FQKFHINIHILKDCP 134

PyMOL of 3hcs

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A Length = 118	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926	Back alignment and structure

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens} Length = 141	Back alignment and structure

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1 Length = 116	Back alignment and structure

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 66	Back alignment and structure

>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ... Length = 1733	Back alignment and structure

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 65	Back alignment and structure

>3haj_A Human pacsin2 F-BAR; pacsin,syndapin,FAP52,F-BAR, alternative splicing, coiled coil, cytoplasmic vesicle, endocytosis, phosphoprotein, polymorphism; 2.78A {Homo sapiens} Length = 486	Back alignment and structure

>1bg1_A Protein (transcription factor STAT3B); protein-DNA complex, cytokine activation, complex (transcription factor/DNA), transcription/DNA complex; HET: DNA PTR; 2.25A {Mus musculus} SCOP: a.47.1.1 b.2.5.5 d.93.1.1 PDB: 3cwg_A Length = 596	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

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		1332
d1chca_		68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	0.001

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68	Back information, alignment and structure


class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 36.5 bits (84), Expect = 0.001
 Identities = 12/38 (31%), Positives = 18/38 (47%), Gaps = 1/38 (2%)

Query: 20 CPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTTQACP 57
          CP+C L    N ++   C H +C  C+T  +     CP
Sbjct: 8  CPIC-LEDPSNYSMALPCLHAFCYVCITRWIRQNPTCP 44

PyMOL of d1chca_

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		1332
d2c2la2		80	STIP1 homology and U box-containing protein 1, STU	99.09
d1wgma_		98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.02
d1jm7a_		103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.0
d1t1ha_		78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.97
d1rmda2		86	V(D)J recombination activating protein 1 (RAG1), d	98.86
d1jm7b_		97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.8
d2baya1		56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.64
d1fbva4		79	CBL {Human (Homo sapiens) [TaxId: 9606]}	98.62
d1chca_		68	Immediate early protein, IEEHV {Equine herpesvirus	98.37
d1g25a_		65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.33
d1iyma_		55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.3
d1bora_		56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.28
d1v87a_		114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.17
d1ur6b_		52	Not-4 N-terminal RING finger domain {Human (Homo s	97.95
d3dplr1		88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	97.93
d1wima_		94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	97.29
d1vyxa_		60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	97.16
d1k2fa_		190	SIAH, seven in absentia homolog {Mouse (Mus muscul	96.76

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.09  E-value=8.2e-11  Score=89.27  Aligned_cols=69  Identities=14%  Similarity=0.128  Sum_probs=57.3

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCEECCCCCEECCCHHHHHHHCC-CCCCCCCCCCCCCCCHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             499992110658766667996782689810215187886209-9999998443334201210135331010017899774
Q 000721           12 QSLAGEYFCPVCRLLVYPNEALQSQCTHLYCKPCLTYIVNTT-QACPYDGYLVTEADSKVVLSSAVVPLVESNKALAETI   90 (1332)
Q Consensus        12 EsLeEeLkCPIClEIL~PkEPVQTsCGHtFCksCLeelLksS-~tCPiCRtsIT~sDLkiI~~ssIFPLLEsDKaLEKEI   90 (1332)
                      .+++++|.|+||+++|  ++|+.+.|||+||..||.+|+..+ ..||.|+..++..++.        +    |..|.+.|
T Consensus         2 ~eiP~~l~CpIc~~l~--~dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l~--------p----N~~L~~~I   67 (80)
T d2c2la2           2 RDIPDYLCGKISFELM--REPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLI--------P----NLAMKEVI   67 (80)
T ss_dssp             CCCCSTTBCTTTCSBC--SSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCE--------E----CHHHHHHH
T ss_pred             CCCCCCCCCCCCCCHH--HHHCCCCCCCEECHHHHHHHHHCCCCCCCCCCCCCCCCCCC--------C----HHHHHHHH
T ss_conf             9897001185837323--40330588685638899999863776578756665423555--------1----99999999


Q ss_pred             HCEE
Q ss_conf             1100
Q 000721           91 GKIT   94 (1332)
Q Consensus        91 skLk   94 (1332)
                      +...
T Consensus        68 ~~~l   71 (80)
T d2c2la2          68 DAFI   71 (80)
T ss_dssp             HHHH
T ss_pred             HHHH
T ss_conf             9999

PyMOL of d2c2la2

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}	Back information, alignment and structure

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}	Back information, alignment and structure

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}	Back information, alignment and structure

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}	Back information, alignment and structure

>d1k2fa_ b.8.1.2 (A:) SIAH, seven in absentia homolog {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure