Citrus Sinensis ID: 001655

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------

MLDVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQWDAESSELITRAMGDVSDRIGRPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGCAKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLIIGEETIVYCSANAFKAIPIRPSITKAYGRVDADGSRYLLGDHAGLLHLLVITHEKEKVTGLKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLERYVNLGPIVDFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWSLRSSTDDPFDTFLVVSFISETRILAMNLEDELEETEIEGFCSQTQTLFCHDAIYNQLVQVTSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEVKHAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPRSVLLCAFEGISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHVFAASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQKLHIRSIPLGEHPRRICHQEQSRTFAICSLKNQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSILSCSFSDDSNVYYCVGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEERARDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLEVVGEYHLGEFVNRFRHGSLVMRLPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKGVGGLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMNVSVEELCKRVEELTRLH

cEEEEEEEEEcEEEEEccccccccEEEEEEcccEEEEEEEEcccccEEEEEEcccccccccccccccEEEEcccccEEEEEEEcccEEEEEccccccccEEEEEEcccEEEEEEEEEccccccEEEEEEEcccccEEEEEEEEEcccccEEEccccccccccccccccccccccccEEEEEEEEEEEEccccccccccccccEEEEEEEEccccEEEEEcccccEEEEEEEEcccEEEEEEEEEccccccccEEEEEcccEEEEEEcccccccEEEcccccccccEEEEEccccccccccccEEcccccccccEEEEEEEccccccEEEEEEccEEEEEEEEEcccccEEEEEcccccccccEEEEEEcccccEEEEEcccccEEEEEcccccccccEEEEEcccccEEEEEcccEEEEEEcccccEEEcccccccccEEEEEEcccEEEEEEcccEEEEEEEcccEEEEEEEEcccccEEEEEEcccccccccccEEEEEEEcccEEEEEEccccccEEEEcccccccccEEEEEEEEccEEEEEEcccccEEEEEEccccccccccEEEEccccccEEEEEEEcccEEEEEcccccEEEEEcccEEEEEcccccccccccccccccccccEEEEEccEEEEEEEcccccEEEEEEEccccccEEEEEccccEEEEEEEEccccccccEEEEEEEEcccccEEEcccccccccEEEEEEEEEEEcccccEEEEEEEEEcccccccccEEEEEEEEEccEEEEEEEEEEcccEEEEcccccEEEEEEccEEEEEEEEEccccccEEcccEEEEEcEEEEEEEEEccEEEEEEccccEEEEEEEccccEEEEEEccccccccccEEEEcccccccccccccEEEEEEccccccccccccEEEEEEEEcccccEEEEcccccccccccccccccEEEEEEEccEEEEEEcccHHHHHHHHHHHHHHHHccccccccccccccccccccccccccEEccHHHHHHHHcccHHHHHHHHHHccccHHHHHHHHHHHHccc

cccccEEEEEEEHEHEccccccccEEEEEEcccEEEEEEEcccccEEEEEEcccccccccEEcccccEEEEcccccEEEEEEEccEEEEEEcccccccccccccEEccccEEEEEEEEcccccEEEEEEEcccccccccccEEEcccccEEEcccccccccccccEEEEccccccEEEEEEccEEEEEccccccccccccccccccccccccccEEEEEcccccEEEEEEEEccccEEEEEEEEccccccHHHEEEEcccEEEEEEEccccEEEEEccccccccccEEEEEccccccccEEEEEEEcccccccEEEEEEcccccccHHEEEccccEEEEEEEccccccEEEEEEcccccccccEEEEEEcccEEEEEEccccEEEEEccccccccccEEEEEEcccccEEEEccccEEEEEcccccEEEccccccccEEEEEEEcccEEEEEEcccEEEEEEEccccEEEEEEEEcccEEEEEEcccccccccccEEEEEEEccccEEEEEEcccccccccccccccccccEEEEEEEcccEEEEEEEcccEEEEEEEEccccccccccEEEcccccEEEEEEEEcccEEEEEEccccEEEEEcccEEEEEcccHHHHHEccccccHHccccEEEEEccEEEEEEEHHHHHcEEEEccccccccEEEEEccccEEEEEEEcccccccccEEEEEEEEccccccEEEEEEccccccEEEEEEEEccccccEEEEEEEEEEccccccccccEEEEEEEcccEEEEEEEEcccccHHHHHHccccEEEEEccEEEEEEEEcccccHHHHHHHHHccccEEEEEEEEcccEEEEEccHHEEEEEEEccccccEEEEEccccccEEEEEEEEccccEEEEcccccEEEEEcccccccHHHcccHHHEEEEEcccHHHEEEEEEEEEEccccccccccEEEEEEEccEEEEEEEccHHHHHHHHHHHHHHHHHccccccccHHHHHHHHccccccccccccccHHHHHHHcccHHHHHHHHHHccccHHHHHHHHHHHHHcc

mldvpiygriatlelfrphgeaqdFLFIATERYKFCVLQWDAESSELITRAMGdvsdrigrptdngqigiidpdcrliglhlydglfkvipfdnkgqLKEAFNIRLEELQVLDIKflygcakpTIVVLYQDNKDARHVKTYEVALkdkdfvegpwsqnnldngadllipvppplcgvliigeeTIVYCSanafkaipirpsitkaygrvdadgsryllgDHAGLLHLLVITHEKEKVTGLKIELLGETSIASTISYLDNAVVYIGssygdsqliklnlqpdakgSYVEVLERYVNLGPIVDFCVVDlerqgqgqvvtcsgaykdgslriVRNGIGINEQASVELQGIKGMwslrsstddpfdtFLVVSFISETRILAMNLEDELEETEIEGFCSQTQTLFCHDAIYNQLVQVTSGSVRLVSSTSRELrnewksppgysvnvATANASQVLLATGGGHLVYLEIGDGILTEVKHAQLEYEIScldinpigenpsysqIAAVGMWTDISVRIfslpdlnlitkehlggeiiprSVLLCAFEGISYLLCALGDGHLLNFLLnmktgeltdrkkvslgtqpitlrtfsskntthvfaasdrptviyssnkkllysnvnlkevshmcpfnsaafpdslaiakegeltigtiddIQKLHirsiplgehprrichqeqSRTFAICSLknqscaeeSEMHFVRLLDDQTFEfistypldtfeygCSILscsfsddsnvyycvgtayvlpeeneptkgRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEERARDYNANWMSAVEIldddiylgaennfnlftvrknsegatdeergrlevvgeyhlgefvnrfrhgslvmrlpdsdvgqiptvIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKgvgglnheQWRSFnnekktvdaknfldgDLIESFLDLSRTRMDEISKTMNVSVEELCKRVEELTRLH

MLDVPIYGRIatlelfrphgEAQDFLFIATERYKFCVLQWDAESSELITRAMgdvsdrigrptdngqigiiDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGCAKPTIVVlyqdnkdaRHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLIIGEETIVYCSANAFKAIPIRPSITKAYGRVDADGSRYLLGDHAGLLHLLVITHEKEKVTGLKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLERYVNLGPIVDFCVVDLERQGQGQVVtcsgaykdgsLRIVRNGIGINEQASVELQGIKGMWSLRSSTDDPFDTFLVVSFISETRILAMNLEDELEETEIEGFCSQTQTLFCHDAIYNQLVQVTSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEVKHAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPRSVLLCAFEGISYLLCALGDGHLLNFLLNMKtgeltdrkkvslgtqpitlrtfsskntthvfaasdrptviyssnKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQKLHIRSIPLGEHPRRICHQEQSRTFAICSLKNQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSILSCSFSDDSNVYYCVGTAYvlpeeneptKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEERARDYNANWMSAVEILDDDIYLGAENNFNLftvrknsegatdeergrleVVGEYHLGEFVNRFRHGSLVMRLPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKGVGglnheqwrsfnnekktvdaknfldgDLIESFLDLSRTRMDEISKTMNVSVEELCKRveeltrlh

MLDVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQWDAESSELITRAMGDVSDRIGRPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGCAKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLIIGEETIVYCSANAFKAIPIRPSITKAYGRVDADGSRYllgdhagllhllVITHEKEKVTGLKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLERYVNLGPIVDFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWSLRSSTDDPFDTFLVVSFISETRILAMNLedeleeteieGFCSQTQTLFCHDAIYNQLVQVTSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEVKHAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPRSVLLCAFEGISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHVFAASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQKLHIRSIPLGEHPRRICHQEQSRTFAICSLKNQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSILSCSFSDDSNVYYCVGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEERARDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLEVVGEYHLGEFVNRFRHGSLVMRLPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKGVGGLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMNVSVEELCKRVEELTRLH

***VPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQWDAESSELITRAMGDVSDRIGRPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGCAKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLIIGEETIVYCSANAFKAIPIRPSITKAYGRVDADGSRYLLGDHAGLLHLLVITHEKEKVTGLKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLERYVNLGPIVDFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWSLRSSTDDPFDTFLVVSFISETRILA*************GFCSQTQTLFCHDAIYNQLVQVTSGSVRLV***************GYSVNVATANASQVLLATGGGHLVYLEIGDGILTEVKHAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPRSVLLCAFEGISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHVFAASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQKLHIRSIPLGEHPRRICHQEQSRTFAICSLKNQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSILSCSFSDDSNVYYCVGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEERARDYNANWMSAVEILDDDIYLGAENNFNLFTVRK**********GRLEVVGEYHLGEFVNRFRHGSLVMRLPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKGVGGLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRT***************************

MLDVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQWDAESSELITRAMGDVS*RIGRPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGCAKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLIIGEETIVYCSANAFKAIPIRPSITKAYGRVDADGSRYLLGDHAGLLHLLVITHEKEKVTGLKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLERYVNLGPIVDFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWSLRSSTDDPFDTFLVVSFISETRILAMNLEDELEETEIEGFCSQTQTLFCHDAIYNQLVQVTSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEVKHAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLI*********IPRSVLLCAFEGISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHVFAASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQKLHIRSIPLGEHPRRICHQEQSRTFAICSLKNQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSILSCSFSDDSNVYYCVGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEERARDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLEVVGEYHLGEFVNRFRHG************QIPTVIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKGVGGLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMNVSVEELCKRVEELTRLH

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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MLDVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQWDAESSELITRAMGDVSDRIGRPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGCAKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLIIGEETIVYCSANAFKAIPIRPSITKAYGRVDADGSRYLLGDHAGLLHLLVITHEKEKVTGLKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLERYVNLGPIVDFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWSLRSSTDDPFDTFLVVSFxxxxxxxxxxxxxxxxxxxxxGFCSQTQTLFCHDAIYNQLVQVTSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEVKHAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPRSVLLCAFEGISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHVFAASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQKLHIRSIPLGEHPRRICHQEQSRTFAICSLKNQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSILSCSFSDDSNVYYCVGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEERARDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLEVVGEYHLGEFVNRFRHGSLVMRLPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKGVGGLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMNVSVEELCKRVEELTRLH

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
Query		1036	2.2.26 [Sep-21-2011]
Q9M0V3		1088	DNA damage-binding protei	yes	no	1.0	0.952	0.918	0.0
Q6QNU4		1090	DNA damage-binding protei	N/A	no	1.0	0.950	0.923	0.0
Q6E7D1		1095	DNA damage-binding protei	N/A	no	1.0	0.946	0.923	0.0
O49552		1088	DNA damage-binding protei	no	no	1.0	0.952	0.892	0.0
Q3U1J4		1140	DNA damage-binding protei	yes	no	0.991	0.900	0.529	0.0
P33194		1140	DNA damage-binding protei	N/A	no	0.991	0.900	0.528	0.0
A1A4K3		1140	DNA damage-binding protei	yes	no	0.991	0.900	0.529	0.0
Q16531		1140	DNA damage-binding protei	yes	no	0.991	0.900	0.528	0.0
Q5R649		1140	DNA damage-binding protei	yes	no	0.991	0.900	0.527	0.0
Q805F9		1140	DNA damage-binding protei	yes	no	0.991	0.900	0.526	0.0

>sp\|Q9M0V3\|DDB1A_ARATH DNA damage-binding protein 1a OS=Arabidopsis thaliana GN=DDB1A PE=1 SV=1	Back alignment and function desciption

 Score = 1974 bits (5114), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 952/1036 (91%), Positives = 1005/1036 (97%)

Query: 1    MLDVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQWDAESSELITRAMGDVSDRIG 60
            MLDVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQWD ESSELITRAMGDVSDRIG
Sbjct: 53   MLDVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQWDPESSELITRAMGDVSDRIG 112

Query: 61   RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGC 120
            RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFL+GC
Sbjct: 113  RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLFGC 172

Query: 121  AKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLII 180
            AKPTI VLYQDNKDARHVKTYEV+LKDKDFVEGPWSQN+LDNGADLLIPVPPPLCGVLII
Sbjct: 173  AKPTIAVLYQDNKDARHVKTYEVSLKDKDFVEGPWSQNSLDNGADLLIPVPPPLCGVLII 232

Query: 181  GEETIVYCSANAFKAIPIRPSITKAYGRVDADGSRYLLGDHAGLLHLLVITHEKEKVTGL 240
            GEETIVYCSA+AFKAIPIRPSITKAYGRVD DGSRYLLGDHAG++HLLVITHEKEKVTGL
Sbjct: 233  GEETIVYCSASAFKAIPIRPSITKAYGRVDVDGSRYLLGDHAGMIHLLVITHEKEKVTGL 292

Query: 241  KIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLERYVNLGPIV 300
            KIELLGETSIASTISYLDNAVV++GSSYGDSQL+KLNL PDAKGSYVEVLERY+NLGPIV
Sbjct: 293  KIELLGETSIASTISYLDNAVVFVGSSYGDSQLVKLNLHPDAKGSYVEVLERYINLGPIV 352

Query: 301  DFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWSLRSSTDDP 360
            DFCVVDLERQGQGQVVTCSGA+KDGSLR+VRNGIGINEQASVELQGIKGMWSL+SS D+ 
Sbjct: 353  DFCVVDLERQGQGQVVTCSGAFKDGSLRVVRNGIGINEQASVELQGIKGMWSLKSSIDEA 412

Query: 361  FDTFLVVSFISETRILAMNLEDELEETEIEGFCSQTQTLFCHDAIYNQLVQVTSGSVRLV 420
            FDTFLVVSFISETRILAMNLEDELEETEIEGF SQ QTLFCHDA+YNQLVQVTS SVRLV
Sbjct: 413  FDTFLVVSFISETRILAMNLEDELEETEIEGFLSQVQTLFCHDAVYNQLVQVTSNSVRLV 472

Query: 421  SSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEVKHAQLEYEI 480
            SST+RELR+EW +P G++VNVATANASQVLLATGGGHLVYLEIGDG LTEV+HA LEYE+
Sbjct: 473  SSTTRELRDEWHAPAGFTVNVATANASQVLLATGGGHLVYLEIGDGKLTEVQHALLEYEV 532

Query: 481  SCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPRSVLLCAFEG 540
            SCLDINPIG+NP+YSQ+AAVGMWTDISVRIFSLP+L LITKE LGGEIIPRSVLLCAFEG
Sbjct: 533  SCLDINPIGDNPNYSQLAAVGMWTDISVRIFSLPELTLITKEQLGGEIIPRSVLLCAFEG 592

Query: 541  ISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHVFAASDRPTV 600
            ISYLLCALGDGHLLNF ++  TG+L DRKKVSLGTQPITLRTFSSK+ THVFAASDRPTV
Sbjct: 593  ISYLLCALGDGHLLNFQMDTTTGQLKDRKKVSLGTQPITLRTFSSKSATHVFAASDRPTV 652

Query: 601  IYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQKLHIRSIPLG 660
            IYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIA+EGELTIGTIDDIQKLHIR+IPLG
Sbjct: 653  IYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAREGELTIGTIDDIQKLHIRTIPLG 712

Query: 661  EHPRRICHQEQSRTFAICSLKNQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSIL 720
            EH RRICHQEQ+RTF ICSL NQS +EESEMHFVRLLDDQTFEF+STYPLD+FEYGCSIL
Sbjct: 713  EHARRICHQEQTRTFGICSLGNQSNSEESEMHFVRLLDDQTFEFMSTYPLDSFEYGCSIL 772

Query: 721  SCSFSDDSNVYYCVGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFN 780
            SCSF++D NVYYCVGTAYVLPEENEPTKGRILVFIVEDG+LQLIAEKETKGAVYSLNAFN
Sbjct: 773  SCSFTEDKNVYYCVGTAYVLPEENEPTKGRILVFIVEDGRLQLIAEKETKGAVYSLNAFN 832

Query: 781  GKLLAAINQKIQLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLL 840
            GKLLAAINQKIQLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLL
Sbjct: 833  GKLLAAINQKIQLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLL 892

Query: 841  IYKHEEGAIEERARDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLE 900
            +YKHEEGAIEERARDYNANWMSAVEILDDDIYLGAENNFNL TV+KNSEGATDEERGRLE
Sbjct: 893  LYKHEEGAIEERARDYNANWMSAVEILDDDIYLGAENNFNLLTVKKNSEGATDEERGRLE 952

Query: 901  VVGEYHLGEFVNRFRHGSLVMRLPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKL 960
            VVGEYHLGEFVNRFRHGSLVMRLPDS++GQIPTVIFGTVNGVIGVIASLP EQY FLEKL
Sbjct: 953  VVGEYHLGEFVNRFRHGSLVMRLPDSEIGQIPTVIFGTVNGVIGVIASLPQEQYTFLEKL 1012

Query: 961  QTNLRKVIKGVGGLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMNV 1020
            Q++LRKVIKGVGGL+HEQWRSFNNEK+T +A+NFLDGDLIESFLDLSR +M++ISK+MNV
Sbjct: 1013 QSSLRKVIKGVGGLSHEQWRSFNNEKRTAEARNFLDGDLIESFLDLSRNKMEDISKSMNV 1072

Query: 1021 SVEELCKRVEELTRLH 1036
             VEELCKRVEELTRLH
Sbjct: 1073 QVEELCKRVEELTRLH 1088

Component of light signal transduction machinery. Involved in repression of photomorphogenesis in darkness by participating in the CDD complex, a complex probably required to regulate the activity of ubiquitin conjugating enzymes (E2s). Repression of photomorphogenesis is probably mediated by ubiquitination and subsequent degradation of photomorphogenesis-promoting factors such as HY5, HYH and LAF1. Plays a role in DNA repair by forming with DDB2 the UV-damaged DNA-binding protein complex (UV-DDB). Component of the CUL4-RBX1-DDB1-PRL1 E3 ubiquitin-protein ligase complex.
Arabidopsis thaliana (taxid: 3702)

>sp\|Q6QNU4\|DDB1_SOLLC DNA damage-binding protein 1 OS=Solanum lycopersicum GN=DDB1 PE=1 SV=1	Back alignment and function description

>sp\|Q6E7D1\|DDB1_SOLCE DNA damage-binding protein 1 OS=Solanum cheesmanii GN=DDB1 PE=3 SV=1	Back alignment and function description

>sp\|O49552\|DDB1B_ARATH DNA damage-binding protein 1b OS=Arabidopsis thaliana GN=DDB1B PE=2 SV=2	Back alignment and function description

>sp\|Q3U1J4\|DDB1_MOUSE DNA damage-binding protein 1 OS=Mus musculus GN=Ddb1 PE=1 SV=2	Back alignment and function description

>sp\|P33194\|DDB1_CHLAE DNA damage-binding protein 1 OS=Chlorocebus aethiops GN=DDB1 PE=1 SV=1	Back alignment and function description

>sp\|A1A4K3\|DDB1_BOVIN DNA damage-binding protein 1 OS=Bos taurus GN=DDB1 PE=2 SV=1	Back alignment and function description

>sp\|Q16531\|DDB1_HUMAN DNA damage-binding protein 1 OS=Homo sapiens GN=DDB1 PE=1 SV=1	Back alignment and function description

>sp\|Q5R649\|DDB1_PONAB DNA damage-binding protein 1 OS=Pongo abelii GN=DDB1 PE=2 SV=1	Back alignment and function description

>sp\|Q805F9\|DDB1_CHICK DNA damage-binding protein 1 OS=Gallus gallus GN=DDB1 PE=2 SV=1	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		1036
225443990		1089	PREDICTED: DNA damage-binding protein 1	1.0	0.951	0.957	0.0
224061051		1088	predicted protein [Populus trichocarpa]	1.0	0.952	0.949	0.0
356512636		1089	PREDICTED: DNA damage-binding protein 1a	1.0	0.951	0.938	0.0
356525401		1089	PREDICTED: DNA damage-binding protein 1-	1.0	0.951	0.936	0.0
312283457		1088	unnamed protein product [Thellungiella h	1.0	0.952	0.924	0.0
297809743		1088	UV-damaged DNA-binding protein 1A [Arabi	1.0	0.952	0.924	0.0
225443992		1068	PREDICTED: DNA damage-binding protein 1	0.979	0.950	0.937	0.0
15235577		1088	DNA damage-binding protein 1a [Arabidops	1.0	0.952	0.918	0.0
350537001		1090	DNA damage-binding protein 1 [Solanum ly	1.0	0.950	0.923	0.0
55976392		1095	RecName: Full=DNA damage-binding protein	1.0	0.946	0.923	0.0

>gi\|225443990\|ref\|XP_002280735.1\| PREDICTED: DNA damage-binding protein 1 isoform 1 [Vitis vinifera]	Back alignment and taxonomy information

 Score = 2034 bits (5270), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 993/1037 (95%), Positives = 1020/1037 (98%), Gaps = 1/1037 (0%)

Query: 1    MLDVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQWDAESSELITRAMGDVSDRIG 60
            MLDVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQWDAE+SE+ITRAMGDVSDRIG
Sbjct: 53   MLDVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQWDAENSEVITRAMGDVSDRIG 112

Query: 61   RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGC 120
            RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGC
Sbjct: 113  RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGC 172

Query: 121  AKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLII 180
            +KPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPW+QNNLDNGADLLIPVPPPLCGVLII
Sbjct: 173  SKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWAQNNLDNGADLLIPVPPPLCGVLII 232

Query: 181  GEETIVYCSANAFKAIPIRPSITKAYGRVDADGSRYLLGDHAGLLHLLVITHEKEKVTGL 240
            GEETIVYCSA+AFKAIPIRPSITKAYGRVDADGSRYLLGDHAGLLHLLVITHEKEKVTGL
Sbjct: 233  GEETIVYCSASAFKAIPIRPSITKAYGRVDADGSRYLLGDHAGLLHLLVITHEKEKVTGL 292

Query: 241  KIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLERYVNLGPIV 300
            KIELLGETSIASTISYLDNA VY+GSSYGDSQLIK++LQPDAKGSYVEVLERYVNLGPIV
Sbjct: 293  KIELLGETSIASTISYLDNAFVYVGSSYGDSQLIKIHLQPDAKGSYVEVLERYVNLGPIV 352

Query: 301  DFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWSLRSSTDDP 360
            DFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWSLRSSTDDP
Sbjct: 353  DFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWSLRSSTDDP 412

Query: 361  FDTFLVVSFISETRILAMNLEDELEETEIEGFCSQTQTLFCHDAIYNQLVQVTSGSVRLV 420
             DTFLVVSFISETRILAMNLEDELEETEIEGFCSQ QTLFCHDA+Y+QLVQVTS SVRLV
Sbjct: 413  HDTFLVVSFISETRILAMNLEDELEETEIEGFCSQVQTLFCHDAVYDQLVQVTSSSVRLV 472

Query: 421  SSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEVKHAQLEYEI 480
             STSRELRNEWK+P GYSVNVATANA+QVLLATGGGHLVYLEIGDG LTEVKHAQLEY+I
Sbjct: 473  GSTSRELRNEWKAPSGYSVNVATANATQVLLATGGGHLVYLEIGDGTLTEVKHAQLEYDI 532

Query: 481  SCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPRSVLLCAFEG 540
            SCLDINPIGENP++SQ+AAVGMWTDISVRIFSLPDLNLITKE+LGGEIIPRSVLLC+FEG
Sbjct: 533  SCLDINPIGENPNFSQLAAVGMWTDISVRIFSLPDLNLITKEYLGGEIIPRSVLLCSFEG 592

Query: 541  ISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHVFAASDRPTV 600
            I YLLCALGDGHLLNFLLNM TGELTDRKKVSLGTQPITLRTFSSKNTTHVFAASDRPTV
Sbjct: 593  IPYLLCALGDGHLLNFLLNMSTGELTDRKKVSLGTQPITLRTFSSKNTTHVFAASDRPTV 652

Query: 601  IYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQKLHIRSIPLG 660
            IYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEG+LTIGTIDDIQKLHIRSIPLG
Sbjct: 653  IYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGDLTIGTIDDIQKLHIRSIPLG 712

Query: 661  EHPRRICHQEQSRTFAICSLK-NQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSI 719
            EH RRICHQEQSRTFAICSLK NQS  E+SEMHF+RLLDDQTFEFISTYPLDTFEYGCSI
Sbjct: 713  EHARRICHQEQSRTFAICSLKYNQSSTEDSEMHFIRLLDDQTFEFISTYPLDTFEYGCSI 772

Query: 720  LSCSFSDDSNVYYCVGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAF 779
            LSCSFSDDSNVYYCVGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAF
Sbjct: 773  LSCSFSDDSNVYYCVGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAF 832

Query: 780  NGKLLAAINQKIQLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISL 839
            NGKLLAAINQKIQLYKWMLRDDGTRELQSE GHHGHILALYVQTRGDFIVVGDLMKSISL
Sbjct: 833  NGKLLAAINQKIQLYKWMLRDDGTRELQSESGHHGHILALYVQTRGDFIVVGDLMKSISL 892

Query: 840  LIYKHEEGAIEERARDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRL 899
            LIYKHEEGAIEERARDYNANWMSAVEILDDDIYLGAENNFN+FTVRKNSEGATDEERGRL
Sbjct: 893  LIYKHEEGAIEERARDYNANWMSAVEILDDDIYLGAENNFNIFTVRKNSEGATDEERGRL 952

Query: 900  EVVGEYHLGEFVNRFRHGSLVMRLPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEK 959
            EVVGEYHLGEFVNRFRHGSLVMRLPDSDVGQIPTVIFGTVNGVIGVIASLPH+QY+FLEK
Sbjct: 953  EVVGEYHLGEFVNRFRHGSLVMRLPDSDVGQIPTVIFGTVNGVIGVIASLPHDQYVFLEK 1012

Query: 960  LQTNLRKVIKGVGGLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMN 1019
            LQ NLRKVIKGVGGL+HEQWRSFNNEKKTVDAKNFLDGDLIE+FLDL+RTRMDEISK M 
Sbjct: 1013 LQANLRKVIKGVGGLSHEQWRSFNNEKKTVDAKNFLDGDLIETFLDLNRTRMDEISKAMA 1072

Query: 1020 VSVEELCKRVEELTRLH 1036
            VSVEELCKRVEELTRLH
Sbjct: 1073 VSVEELCKRVEELTRLH 1089

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|224061051\|ref\|XP_002300334.1\| predicted protein [Populus trichocarpa] gi\|222847592\|gb\|EEE85139.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|356512636\|ref\|XP_003525024.1\| PREDICTED: DNA damage-binding protein 1a-like isoform 1 [Glycine max]	Back alignment and taxonomy information

>gi\|356525401\|ref\|XP_003531313.1\| PREDICTED: DNA damage-binding protein 1-like isoform 1 [Glycine max]	Back alignment and taxonomy information

>gi\|312283457\|dbj\|BAJ34594.1\| unnamed protein product [Thellungiella halophila]	Back alignment and taxonomy information

>gi\|297809743\|ref\|XP_002872755.1\| UV-damaged DNA-binding protein 1A [Arabidopsis lyrata subsp. lyrata] gi\|297318592\|gb\|EFH49014.1\| UV-damaged DNA-binding protein 1A [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi\|225443992\|ref\|XP_002280744.1\| PREDICTED: DNA damage-binding protein 1 isoform 2 [Vitis vinifera]	Back alignment and taxonomy information

>gi|15235577|ref|NP_192451.1| DNA damage-binding protein 1a [Arabidopsis thaliana] gi|55976605|sp|Q9M0V3.1|DDB1A_ARATH RecName: Full=DNA damage-binding protein 1a; AltName: Full=UV-damaged DNA-binding protein 1a; Short=DDB1a gi|7267302|emb|CAB81084.1| UV-damaged DNA binding factor-like protein [Arabidopsis thaliana] gi|25054828|gb|AAN71904.1| putative UV-damaged DNA binding factor [Arabidopsis thaliana] gi|332657117|gb|AEE82517.1| DNA damage-binding protein 1a [Arabidopsis thaliana]

Back alignment and taxonomy information

>gi|350537001|ref|NP_001234275.1| DNA damage-binding protein 1 [Solanum lycopersicum] gi|350539125|ref|NP_001233864.1| UV damaged DNA binding protein 1 [Solanum lycopersicum] gi|55976440|sp|Q6QNU4.1|DDB1_SOLLC RecName: Full=DNA damage-binding protein 1; AltName: Full=High pigmentation protein 1; AltName: Full=UV-damaged DNA-binding protein 1 gi|38455768|gb|AAR20885.1| UV damaged DNA binding protein 1 [Solanum lycopersicum] gi|42602165|gb|AAS21683.1| UV-damaged DNA binding protein 1 [Solanum lycopersicum]

Back alignment and taxonomy information

>gi\|55976392\|sp\|Q6E7D1.1\|DDB1_SOLCE RecName: Full=DNA damage-binding protein 1; AltName: Full=UV-damaged DNA-binding protein 1 gi\|49484911\|gb\|AAT66742.1\| UV-damaged DNA binding protein 1 [Solanum cheesmaniae]	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		1036
TAIR\|locus:2115909		1088	DDB1A "damaged DNA binding pro	1.0	0.952	0.899	0.0
TAIR\|locus:2127368		1088	DDB1B "damaged DNA binding pro	1.0	0.952	0.872	0.0
UNIPROTKB\|E2R9E3		1140	DDB1 "Uncharacterized protein"	0.650	0.591	0.550	3.5e-297
UNIPROTKB\|A1A4K3		1140	DDB1 "DNA damage-binding prote	0.650	0.591	0.550	5.7e-297
MGI\|MGI:1202384		1140	Ddb1 "damage specific DNA bind	0.650	0.591	0.550	5.7e-297
UNIPROTKB\|F1RIE2		1140	DDB1 "Uncharacterized protein"	0.650	0.591	0.548	1.2e-296
UNIPROTKB\|Q16531		1140	DDB1 "DNA damage-binding prote	0.650	0.591	0.548	1.5e-296
UNIPROTKB\|P33194		1140	DDB1 "DNA damage-binding prote	0.650	0.591	0.548	1.5e-296
UNIPROTKB\|Q5R649		1140	DDB1 "DNA damage-binding prote	0.650	0.591	0.548	4e-296
UNIPROTKB\|F1P4I8		1120	DDB1 "DNA damage-binding prote	0.650	0.601	0.544	1.1e-295

TAIR\|locus:2115909 DDB1A "damaged DNA binding protein 1A" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 4875 (1721.1 bits), Expect = 0., P = 0.
 Identities = 932/1036 (89%), Positives = 983/1036 (94%)

Query:     1 MLDVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQWDAESSELITRAMGDVSDRIG 60
             MLDVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQWD ESSELITRAMGDVSDRIG
Sbjct:    53 MLDVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQWDPESSELITRAMGDVSDRIG 112

Query:    61 RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGC 120
             RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFL+GC
Sbjct:   113 RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLFGC 172

Query:   121 AKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLII 180
             AKPTI VLYQDNKDARHVKTYEV+LKDKDFVEGPWSQN+LDNGADLLIPVPPPLCGVLII
Sbjct:   173 AKPTIAVLYQDNKDARHVKTYEVSLKDKDFVEGPWSQNSLDNGADLLIPVPPPLCGVLII 232

Query:   181 GEETIVYCSANAFKAIPIRPSITKAYGRVDADGSRYXXXXXXXXXXXXVITHEKEKVTGL 240
             GEETIVYCSA+AFKAIPIRPSITKAYGRVD DGSRY            VITHEKEKVTGL
Sbjct:   233 GEETIVYCSASAFKAIPIRPSITKAYGRVDVDGSRYLLGDHAGMIHLLVITHEKEKVTGL 292

Query:   241 KIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLERYVNLGPIV 300
             KIELLGETSIASTISYLDNAVV++GSSYGDSQL+KLNL PDAKGSYVEVLERY+NLGPIV
Sbjct:   293 KIELLGETSIASTISYLDNAVVFVGSSYGDSQLVKLNLHPDAKGSYVEVLERYINLGPIV 352

Query:   301 DFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWSLRSSTDDP 360
             DFCVVDLERQGQGQVVTCSGA+KDGSLR+VRNGIGINEQASVELQGIKGMWSL+SS D+ 
Sbjct:   353 DFCVVDLERQGQGQVVTCSGAFKDGSLRVVRNGIGINEQASVELQGIKGMWSLKSSIDEA 412

Query:   361 FDTFLVVSFISETRILAMNLXXXXXXXXXXGFCSQTQTLFCHDAIYNQLVQVTSGSVRLV 420
             FDTFLVVSFISETRILAMNL          GF SQ QTLFCHDA+YNQLVQVTS SVRLV
Sbjct:   413 FDTFLVVSFISETRILAMNLEDELEETEIEGFLSQVQTLFCHDAVYNQLVQVTSNSVRLV 472

Query:   421 SSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEVKHAQLEYEI 480
             SST+RELR+EW +P G++VNVATANASQVLLATGGGHLVYLEIGDG LTEV+HA LEYE+
Sbjct:   473 SSTTRELRDEWHAPAGFTVNVATANASQVLLATGGGHLVYLEIGDGKLTEVQHALLEYEV 532

Query:   481 SCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPRSVLLCAFEG 540
             SCLDINPIG+NP+YSQ+AAVGMWTDISVRIFSLP+L LITKE LGGEIIPRSVLLCAFEG
Sbjct:   533 SCLDINPIGDNPNYSQLAAVGMWTDISVRIFSLPELTLITKEQLGGEIIPRSVLLCAFEG 592

Query:   541 ISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHVFAASDRPTV 600
             ISYLLCALGDGHLLNF ++  TG+L DRKKVSLGTQPITLRTFSSK+ THVFAASDRPTV
Sbjct:   593 ISYLLCALGDGHLLNFQMDTTTGQLKDRKKVSLGTQPITLRTFSSKSATHVFAASDRPTV 652

Query:   601 IYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQKLHIRSIPLG 660
             IYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIA+EGELTIGTIDDIQKLHIR+IPLG
Sbjct:   653 IYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAREGELTIGTIDDIQKLHIRTIPLG 712

Query:   661 EHPRRICHQEQSRTFAICSLKNQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSIL 720
             EH RRICHQEQ+RTF ICSL NQS +EESEMHFVRLLDDQTFEF+STYPLD+FEYGCSIL
Sbjct:   713 EHARRICHQEQTRTFGICSLGNQSNSEESEMHFVRLLDDQTFEFMSTYPLDSFEYGCSIL 772

Query:   721 SCSFSDDSNVYYCVGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFN 780
             SCSF++D NVYYCVGTAYVLPEENEPTKGRILVFIVEDG+LQLIAEKETKGAVYSLNAFN
Sbjct:   773 SCSFTEDKNVYYCVGTAYVLPEENEPTKGRILVFIVEDGRLQLIAEKETKGAVYSLNAFN 832

Query:   781 GKLLAAINQKIQLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLL 840
             GKLLAAINQKIQLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLL
Sbjct:   833 GKLLAAINQKIQLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLL 892

Query:   841 IYKHEEGAIEERARDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLE 900
             +YKHEEGAIEERARDYNANWMSAVEILDDDIYLGAENNFNL TV+KNSEGATDEERGRLE
Sbjct:   893 LYKHEEGAIEERARDYNANWMSAVEILDDDIYLGAENNFNLLTVKKNSEGATDEERGRLE 952

Query:   901 VVGEYHLGEFVNRFRHGSLVMRLPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKL 960
             VVGEYHLGEFVNRFRHGSLVMRLPDS++GQIPTVIFGTVNGVIGVIASLP EQY FLEKL
Sbjct:   953 VVGEYHLGEFVNRFRHGSLVMRLPDSEIGQIPTVIFGTVNGVIGVIASLPQEQYTFLEKL 1012

Query:   961 QTNLRKVIKGVGGLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMNV 1020
             Q++LRKVIKGVGGL+HEQWRSFNNEK+T +A+NFLDGDLIESFLDLSR +M++ISK+MNV
Sbjct:  1013 QSSLRKVIKGVGGLSHEQWRSFNNEKRTAEARNFLDGDLIESFLDLSRNKMEDISKSMNV 1072

Query:  1021 SVEELCKRVEELTRLH 1036
              VEELCKRVEELTRLH
Sbjct:  1073 QVEELCKRVEELTRLH 1088

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003677 "DNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM;IEA;IDA;IPI

GO:0010100 "negative regulation of photomorphogenesis" evidence=IGI;RCA

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IPI

GO:0005515 "protein binding" evidence=IPI

GO:0080008 "Cul4-RING ubiquitin ligase complex" evidence=IPI

GO:0005829 "cytosol" evidence=IDA

GO:0000278 "mitotic cell cycle" evidence=RCA

GO:0000911 "cytokinesis by cell plate formation" evidence=RCA

GO:0003002 "regionalization" evidence=RCA

GO:0006281 "DNA repair" evidence=RCA

GO:0006486 "protein glycosylation" evidence=RCA

GO:0007155 "cell adhesion" evidence=RCA

GO:0008284 "positive regulation of cell proliferation" evidence=RCA

GO:0009630 "gravitropism" evidence=RCA

GO:0009639 "response to red or far red light" evidence=RCA

GO:0010090 "trichome morphogenesis" evidence=RCA

GO:0033043 "regulation of organelle organization" evidence=RCA

GO:0045010 "actin nucleation" evidence=RCA

GO:0048449 "floral organ formation" evidence=RCA

GO:0048608 "reproductive structure development" evidence=RCA

TAIR\|locus:2127368 DDB1B "damaged DNA binding protein 1B" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

UNIPROTKB\|E2R9E3 DDB1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

UNIPROTKB\|A1A4K3 DDB1 "DNA damage-binding protein 1" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

MGI\|MGI:1202384 Ddb1 "damage specific DNA binding protein 1" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

UNIPROTKB\|F1RIE2 DDB1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

UNIPROTKB\|Q16531 DDB1 "DNA damage-binding protein 1" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|P33194 DDB1 "DNA damage-binding protein 1" [Chlorocebus aethiops (taxid:9534)]	Back alignment and assigned GO terms

UNIPROTKB\|Q5R649 DDB1 "DNA damage-binding protein 1" [Pongo abelii (taxid:9601)]	Back alignment and assigned GO terms

UNIPROTKB\|F1P4I8 DDB1 "DNA damage-binding protein 1" [Gallus gallus (taxid:9031)]	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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9ESW0	DDB1_RAT	No assigned EC number	0.5219	0.9913	0.9008	yes	no
Q6E7D1	DDB1_SOLCE	No assigned EC number	0.9238	1.0	0.9461	N/A	no
Q3U1J4	DDB1_MOUSE	No assigned EC number	0.5292	0.9913	0.9008	yes	no
Q21554	DDB1_CAEEL	No assigned EC number	0.3351	0.9816	0.8968	yes	no
Q6P6Z0	DDB1_XENLA	No assigned EC number	0.5292	0.9913	0.9008	N/A	no
Q5R649	DDB1_PONAB	No assigned EC number	0.5274	0.9913	0.9008	yes	no
Q9XYZ5	DDB1_DROME	No assigned EC number	0.4631	0.9864	0.8964	yes	no
Q805F9	DDB1_CHICK	No assigned EC number	0.5265	0.9913	0.9008	yes	no
B0M0P5	DDB1_DICDI	No assigned EC number	0.4384	0.9884	0.8670	yes	no
Q6QNU4	DDB1_SOLLC	No assigned EC number	0.9238	1.0	0.9504	N/A	no
Q9M0V3	DDB1A_ARATH	No assigned EC number	0.9189	1.0	0.9522	yes	no
P33194	DDB1_CHLAE	No assigned EC number	0.5283	0.9913	0.9008	N/A	no
O49552	DDB1B_ARATH	No assigned EC number	0.8928	1.0	0.9522	no	no
Q16531	DDB1_HUMAN	No assigned EC number	0.5283	0.9913	0.9008	yes	no
A1A4K3	DDB1_BOVIN	No assigned EC number	0.5292	0.9913	0.9008	yes	no

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:
	GSVIVG00028385001	SubName- Full=Chromosome chr10 scaffold_43, whole genome shotgun sequence; (1089 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00024110001	SubName- Full=Putative uncharacterized protein (Chromosome chr6 scaffold_3, whole genome shotgu [...] (559 aa)		•	•	•	0.804
	GSVIVG00014959001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (462 aa)		•		•	0.741
	cul4	SubName- Full=Chromosome chr10 scaffold_43, whole genome shotgun sequence; (802 aa)		•		•	0.735
	GSVIVG00002569001	SubName- Full=Chromosome chr2 scaffold_132, whole genome shotgun sequence; (779 aa)	•		•	•	0.702
	GSVIVG00023628001	SubName- Full=Chromosome chr7 scaffold_31, whole genome shotgun sequence; (467 aa)		•		•	0.700
	GSVIVG00023341001	SubName- Full=Chromosome chr8 scaffold_29, whole genome shotgun sequence; (433 aa)	•	•		•	0.668
	GSVIVG00023710001	SubName- Full=Chromosome chr7 scaffold_31, whole genome shotgun sequence; (758 aa)	•		•	•	0.651
	GSVIVG00022868001	SubName- Full=Chromosome chr14 scaffold_27, whole genome shotgun sequence; (379 aa)		•	•	•	0.624
	GSVIVG00016529001	SubName- Full=Chromosome chr11 scaffold_13, whole genome shotgun sequence; (372 aa)		•		•	0.611
	GSVIVG00024178001	RecName- Full=Proliferating cell nuclear antigen;; This protein is an auxiliary protein of DNA [...] (266 aa)	•	•	•	•	0.596

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		1036
pfam10433		513	pfam10433, MMS1_N, Mono-functional DNA-alkylating	1e-106
pfam03178		318	pfam03178, CPSF_A, CPSF A subunit region	6e-89
COG5161		1319	COG5161, SFT1, Pre-mRNA cleavage and polyadenylati	5e-12

>gnl\|CDD\|220751 pfam10433, MMS1_N, Mono-functional DNA-alkylating methyl methanesulfonate N-term	Back alignment and domain information

 Score =  340 bits (874), Expect = e-106
 Identities = 142/528 (26%), Positives = 235/528 (44%), Gaps = 78/528 (14%)

Query: 24  DFLFIATERYKFCVLQWDAESSELITRAM---GDVSDRIGRPTDNGQIGIIDPDCRLIGL 80
           D L ++ +  +   L +D E  +L         D+   + R   +G+   +DP  R + +
Sbjct: 1   DILVLSLDSGELLFLYYDEEPRQLFPEFYHSRRDLPSDVSRLEQSGRHIAVDPSGRAMAV 60

Query: 81  HLYDGLFKVIPFDNKGQLKEA--------------FNIRLEELQVLDIKFLYGCA----K 122
             Y G F V P     + +E                  RL +  +LD+ FLY  +     
Sbjct: 61  SAYSGFFGVYPLQRDNKTQELQSQMAEGPLSPIEEERFRLVDGDILDMCFLYPKSEDDDH 120

Query: 123 PTIVVLYQDNKDARHVKTYEVALKD-------KDFVEGPWSQNNLDNGADLLIPVPPPLC 175
             +++L  D +   H+K YE +  +       K+      ++  L +   LLIP+P P  
Sbjct: 121 VILLLLVFDEQRRLHLKLYEWSAGEGLNQVISKETRLPLPNEFELPS---LLIPLPKP-G 176

Query: 176 GVLIIGEETIVYCSAN-------AFKAIPI--RPSITKAYGRVDADGS------RYLLGD 220
             L++G  ++VY + +        F  + I    SI  A+ R D + S        LL  
Sbjct: 177 SFLVVGPTSLVYYTVHLIESAEYPFLRLEIGSDKSIWTAWARPDRNWSYNEKHDDILLAR 236

Query: 221 HAGLLHLLVITHEKEKVTGLKIELLGETSIASTISYLDN----AVVYIGSSYGDSQLIKL 276
             G ++ L I+++ E V  + I  +G+ S+A   + LD      V+++ S  GD  L K+
Sbjct: 237 EDGRIYYLEISNDGE-VESITILGIGKCSVAIAFAILDKGNEGDVLFVASDTGDGGLFKI 295

Query: 277 NLQPDAKGSYVEVLERYVNLGPIVDFCVVDLERQGQG-------QVVTCSGAYKDGSLRI 329
           + + +        ++ + N  PI+DF VVD              ++ TCSG  K GSLR 
Sbjct: 296 SARDN-----PRCVQDFPNWAPILDFVVVDSGNSKNESQDPSQDRIFTCSGVGKRGSLRE 350

Query: 330 VRNGIGINEQASVE--LQGIKGMWSLRSSTDDPFDTFLVVSFISETRILAMNLE--DELE 385
           +R+GI       +E  L+GI+G+W L S ++     +L+VSF  ETR+L + ++  +E+E
Sbjct: 351 LRHGIEAEIGLVIEEELRGIRGLWLLPSGSNG--GYYLLVSFPFETRVLQLPVDPGEEVE 408

Query: 386 ETEIE-GFCSQTQTLFCHDAIYNQLVQVTSGSVRLVSSTSRELRNEWKSPPGYSVNVATA 444
           E + + G     QTL   +     ++QVT  S+RL      ++ +EW       +  A+ 
Sbjct: 409 EVDEDSGLDLSVQTLAAGNTSDGVIIQVTENSIRLSDLELGKITDEW---SDEIITAASV 465

Query: 445 NASQVLLATGGGHLVYLEIGDGILTEVKHAQLEY----EISCLDINPI 488
           N S VL+A  G +LV L I  G+L       L      EI CLD  PI
Sbjct: 466 NGSLVLVAVAGRNLVSLRIYLGLLVIEDDGSLTLLDLGEILCLDYEPI 513

MMS1 is a protein that protects against replication-dependent DNA damage in Saccharomyces cerevisiae. MMS1 belongs to the DDB1 family of cullin 4 adaptors and the two proteins are homologous. MMS1 bridges the interaction of MMS22 and Crt10 with Cul8/Rtt101. Cul8/Rtt101 is a cullin protein involved in the regulation of DNA replication subsequent to DNA damage. The N-terminal region of MMS1 and the C-terminal of MMS22 are required for the the MMS1-MMS22 interaction. The human HIV-1 virion-associated protein Vpr assembles with DDB1 through interaction with DCAF1 (chromatin assembly factor) to form an E3 ubiquitin ligase that targets cellular substrates for proteasome-mediated degradation and subsequent G2 arrest. Length = 513

>gnl\|CDD\|217409 pfam03178, CPSF_A, CPSF A subunit region	Back alignment and domain information

>gnl\|CDD\|227490 COG5161, SFT1, Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification]	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		1036
KOG1897		1096	consensus Damage-specific DNA binding complex, sub	100.0
KOG1896		1366	consensus mRNA cleavage and polyadenylation factor	100.0
KOG1898		1205	consensus Splicing factor 3b, subunit 3 [RNA proce	100.0
COG5161		1319	SFT1 Pre-mRNA cleavage and polyadenylation specifi	100.0
PF10433		504	MMS1_N: Mono-functional DNA-alkylating methyl meth	100.0
PF03178		321	CPSF_A: CPSF A subunit region; InterPro: IPR004871	100.0
KOG0318		603	consensus WD40 repeat stress protein/actin interac	98.91
KOG2048		691	consensus WD40 repeat protein [General function pr	98.89
KOG1036		323	consensus Mitotic spindle checkpoint protein BUB3,	98.13
KOG0291		893	consensus WD40-repeat-containing subunit of the 18	98.04
PRK11028		330	6-phosphogluconolactonase; Provisional	98.04
KOG0319		775	consensus WD40-repeat-containing subunit of the 18	98.03
PF10282		345	Lactonase: Lactonase, 7-bladed beta-propeller; Int	97.87
cd00200		289	WD40 WD40 domain, found in a number of eukaryotic	97.83
KOG0318		603	consensus WD40 repeat stress protein/actin interac	97.82
KOG1446		311	consensus Histone H3 (Lys4) methyltransferase comp	97.82
PF03178		321	CPSF_A: CPSF A subunit region; InterPro: IPR004871	97.81
KOG2106		626	consensus Uncharacterized conserved protein, conta	97.8
KOG0306		888	consensus WD40-repeat-containing subunit of the 18	97.78
cd00200		289	WD40 WD40 domain, found in a number of eukaryotic	97.6
PF10282		345	Lactonase: Lactonase, 7-bladed beta-propeller; Int	97.59
KOG1539		910	consensus WD repeat protein [General function pred	97.55
PRK11028		330	6-phosphogluconolactonase; Provisional	97.45
KOG0647		347	consensus mRNA export protein (contains WD40 repea	97.44
KOG2055		514	consensus WD40 repeat protein [General function pr	97.4
PF02239		369	Cytochrom_D1: Cytochrome D1 heme domain; PDB: 1NNO	97.39
KOG0319		775	consensus WD40-repeat-containing subunit of the 18	97.36
KOG1408		1080	consensus WD40 repeat protein [Function unknown]	97.29
KOG0291		893	consensus WD40-repeat-containing subunit of the 18	97.25
KOG2106		626	consensus Uncharacterized conserved protein, conta	97.16
KOG1274		933	consensus WD40 repeat protein [General function pr	97.09
KOG0310		487	consensus Conserved WD40 repeat-containing protein	97.06
KOG1273		405	consensus WD40 repeat protein [General function pr	96.8
KOG2055		514	consensus WD40 repeat protein [General function pr	96.74
COG2706		346	3-carboxymuconate cyclase [Carbohydrate transport	96.59
KOG0315		311	consensus G-protein beta subunit-like protein (con	96.58
KOG0296		399	consensus Angio-associated migratory cell protein	96.54
PLN00181		793	protein SPA1-RELATED; Provisional	96.48
TIGR02658		352	TTQ_MADH_Hv methylamine dehydrogenase heavy chain.	96.43
TIGR03866		300	PQQ_ABC_repeats PQQ-dependent catabolism-associate	96.34
KOG0647		347	consensus mRNA export protein (contains WD40 repea	96.28
KOG0285		460	consensus Pleiotropic regulator 1 [RNA processing	96.27
KOG1036		323	consensus Mitotic spindle checkpoint protein BUB3,	96.24
PF08596		395	Lgl_C: Lethal giant larvae(Lgl) like, C-terminal;	96.19
KOG1539		910	consensus WD repeat protein [General function pred	95.99
KOG1407		313	consensus WD40 repeat protein [Function unknown]	95.64
KOG2110		391	consensus Uncharacterized conserved protein, conta	95.63
KOG0263		707	consensus Transcription initiation factor TFIID, s	95.37
TIGR03866		300	PQQ_ABC_repeats PQQ-dependent catabolism-associate	95.35
KOG2111		346	consensus Uncharacterized conserved protein, conta	95.29
KOG2048		691	consensus WD40 repeat protein [General function pr	95.26
KOG0282		503	consensus mRNA splicing factor [Function unknown]	95.24
KOG0283		712	consensus WD40 repeat-containing protein [Function	95.2
PF00780		275	CNH: CNH domain; InterPro: IPR001180 Based on sequ	95.15
KOG2110		391	consensus Uncharacterized conserved protein, conta	95.03
KOG0276		794	consensus Vesicle coat complex COPI, beta' subunit	94.94
KOG0310		487	consensus Conserved WD40 repeat-containing protein	94.8
KOG4378		673	consensus Nuclear protein COP1 [Signal transductio	94.7
KOG0282		503	consensus mRNA splicing factor [Function unknown]	94.7
KOG0306		888	consensus WD40-repeat-containing subunit of the 18	94.69
KOG0278		334	consensus Serine/threonine kinase receptor-associa	94.68
PF00780		275	CNH: CNH domain; InterPro: IPR001180 Based on sequ	94.68
PF14727		418	PHTB1_N: PTHB1 N-terminus	94.63
TIGR02658		352	TTQ_MADH_Hv methylamine dehydrogenase heavy chain.	94.62
KOG0283		712	consensus WD40 repeat-containing protein [Function	94.44
KOG0294		362	consensus WD40 repeat-containing protein [Function	94.43
KOG1273		405	consensus WD40 repeat protein [General function pr	94.35
KOG0316		307	consensus Conserved WD40 repeat-containing protein	94.31
TIGR03300		377	assembly_YfgL outer membrane assembly lipoprotein	94.17
PLN00181		793	protein SPA1-RELATED; Provisional	93.8
KOG0275		508	consensus Conserved WD40 repeat-containing protein	93.67
PF14727		418	PHTB1_N: PTHB1 N-terminus	93.47
KOG4378		673	consensus Nuclear protein COP1 [Signal transductio	93.47
KOG0299		479	consensus U3 snoRNP-associated protein (contains W	93.35
KOG2321		703	consensus WD40 repeat protein [General function pr	93.33
KOG0649		325	consensus WD40 repeat protein [General function pr	93.33
KOG0289		506	consensus mRNA splicing factor [General function p	93.21
PTZ00420		568	coronin; Provisional	93.16
KOG0278		334	consensus Serine/threonine kinase receptor-associa	93.05
KOG2445		361	consensus Nuclear pore complex component (sc Seh1)	93.03
PRK11138		394	outer membrane biogenesis protein BamB; Provisiona	92.9
KOG1645		463	consensus RING-finger-containing E3 ubiquitin liga	92.8
KOG0316		307	consensus Conserved WD40 repeat-containing protein	92.75
KOG0289		506	consensus mRNA splicing factor [General function p	92.69
KOG0646		476	consensus WD40 repeat protein [General function pr	92.29
KOG0645		312	consensus WD40 repeat protein [General function pr	92.06
KOG0277		311	consensus Peroxisomal targeting signal type 2 rece	91.62
KOG0650		733	consensus WD40 repeat nucleolar protein Bop1, invo	91.4
KOG2321		703	consensus WD40 repeat protein [General function pr	91.31
KOG0772		641	consensus Uncharacterized conserved protein, conta	91.28
PF02239		369	Cytochrom_D1: Cytochrome D1 heme domain; PDB: 1NNO	91.27
KOG0640		430	consensus mRNA cleavage stimulating factor complex	91.15
KOG1897		1096	consensus Damage-specific DNA binding complex, sub	91.14
KOG0646		476	consensus WD40 repeat protein [General function pr	90.72
KOG0315		311	consensus G-protein beta subunit-like protein (con	90.22
TIGR03300		377	assembly_YfgL outer membrane assembly lipoprotein	90.21
COG2706		346	3-carboxymuconate cyclase [Carbohydrate transport	89.69
KOG4649		354	consensus PQQ (pyrrolo-quinoline quinone) repeat p	89.68
KOG0294		362	consensus WD40 repeat-containing protein [Function	89.62
PRK11138		394	outer membrane biogenesis protein BamB; Provisiona	88.82
PF04053		443	Coatomer_WDAD: Coatomer WD associated region ; Int	88.71
KOG1274		933	consensus WD40 repeat protein [General function pr	88.6
KOG0266		456	consensus WD40 repeat-containing protein [General	88.5
KOG0650		733	consensus WD40 repeat nucleolar protein Bop1, invo	88.46
KOG0276		794	consensus Vesicle coat complex COPI, beta' subunit	88.43
KOG1538		1081	consensus Uncharacterized conserved protein WDR10,	87.91
PTZ00421		493	coronin; Provisional	87.54
KOG0266		456	consensus WD40 repeat-containing protein [General	87.49
KOG1034		385	consensus Transcriptional repressor EED/ESC/FIE, r	87.33
PF13360		238	PQQ_2: PQQ-like domain; PDB: 3HXJ_B 1YIQ_A 1KV9_A	86.44
KOG2096		420	consensus WD40 repeat protein [General function pr	86.19
KOG2111		346	consensus Uncharacterized conserved protein, conta	85.96
KOG3881		412	consensus Uncharacterized conserved protein [Funct	85.39
KOG4441		571	consensus Proteins containing BTB/POZ and Kelch do	84.52
KOG0772		641	consensus Uncharacterized conserved protein, conta	84.43
KOG0288		459	consensus WD40 repeat protein TipD [General functi	84.35
KOG0305		484	consensus Anaphase promoting complex, Cdc20, Cdh1,	84.14
KOG0649		325	consensus WD40 repeat protein [General function pr	83.94
KOG1587		555	consensus Cytoplasmic dynein intermediate chain [C	83.47
KOG1517		1387	consensus Guanine nucleotide binding protein MIP1	83.46
PTZ00421		493	coronin; Provisional	83.36
KOG0284		464	consensus Polyadenylation factor I complex, subuni	83.23
PF06433		342	Me-amine-dh_H: Methylamine dehydrogenase heavy cha	82.87
KOG0268		433	consensus Sof1-like rRNA processing protein (conta	82.33
KOG2114		933	consensus Vacuolar assembly/sorting protein PEP5/V	82.23
KOG1517		1387	consensus Guanine nucleotide binding protein MIP1	82.16
KOG0299		479	consensus U3 snoRNP-associated protein (contains W	82.09
KOG1188		376	consensus WD40 repeat protein [General function pr	82.03
PF12894		47	Apc4_WD40: Anaphase-promoting complex subunit 4 WD	81.95
PF14761		215	HPS3_N: Hermansky-Pudlak syndrome 3	81.87
PHA02713		557	hypothetical protein; Provisional	81.31
KOG1896		1366	consensus mRNA cleavage and polyadenylation factor	81.28
KOG4441		571	consensus Proteins containing BTB/POZ and Kelch do	81.22
KOG0272		459	consensus U4/U6 small nuclear ribonucleoprotein Pr	81.15
PF08553		794	VID27: VID27 cytoplasmic protein; InterPro: IPR013	80.24

>KOG1897 consensus Damage-specific DNA binding complex, subunit DDB1 [Replication, recombination and repair]	Back alignment and domain information

Probab=100.00  E-value=3.8e-178  Score=1488.77  Aligned_cols=1025  Identities=63%  Similarity=1.036  Sum_probs=973.5

Q ss_pred             CeeEEEeEEEeEeeeeccCCCCccEEEEEeCcCcEEEEEEeCCCCcEEEEEeeeccCCCCccCCCCCeEEECCCCCEEEE
Q 001655            1 MLDVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQWDAESSELITRAMGDVSDRIGRPTDNGQIGIIDPDCRLIGL   80 (1036)
Q Consensus         1 ~~~~~l~g~i~~i~~~r~~~~~~D~Llv~~~~~~l~il~~~~~~~~~~t~s~~~~~~~~~~~~~~~~~l~vdp~~r~~~~   80 (1036)
                      ++++++||+|..|+.|||+++++|+|+|+|+++++++|+||....+.+|...+...++.+|+.++|++++|||.+|.+++
T Consensus        51 i~sv~ifg~I~~i~~fRp~g~~kD~LfV~t~~~~~~iL~~d~~~~~vv~~a~~~v~dr~gr~s~~g~~~~VDp~~R~Igl  130 (1096)
T KOG1897|consen   51 ITSVPIFGTIATIALFRPPGSDKDYLFVATDSYRYFILEWDEESIQVVTRAHGDVSDRSGRPSDNGQILLVDPKGRVIGL  130 (1096)
T ss_pred             eEeeccceeEEEEEeecCCCCCcceEEEEECcceEEEEEEccccceEEEEecccccccccccCCCceEEEECCCCcEEEE
Confidence            57899999999999999999999999999999999999999877889999999999988999999999999999999999


Q ss_pred             EecCCeEEEEeCCCC-----CccccceecccCCceEEEEEeecCCCCCEEEEEEEecCCcceEEEEEEeccCCceeeccc
Q 001655           81 HLYDGLFKVIPFDNK-----GQLKEAFNIRLEELQVLDIKFLYGCAKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPW  155 (1036)
Q Consensus        81 ~~~~~~~~ilp~~~~-----~~~~~~~~~~l~~~~i~d~~FL~~~~~ptlavL~~~~~~~~~l~~~~~~~~~~~~~~~~~  155 (1036)
                      ++|+|+++|+|+.+.     ..+...|++|+++.+|.||+||++...||+|+||.|. ..+|+++|+++++++++.++.|
T Consensus       131 ~~yqgl~~vIp~d~~~sht~~s~l~~fn~rfdel~v~Di~fly~~s~pt~~vly~Ds-~~~Hv~~yelnl~~ke~~~~~w  209 (1096)
T KOG1897|consen  131 HLYQGLFKVIPIDSDESHTGGSLLKAFNVRFDELNVYDIKFLYGCSDPTLAVLYKDS-DGRHVKTYELNLRDKEFVKGPW  209 (1096)
T ss_pred             EeecCeEEEEEecccccccCcccccccccccCcceEEEEEEEcCCCCCceEEEEEcC-CCcEEEEEEeccchhhcccccc
Confidence            999999999999886     5566789999999999999999999999999999998 8899999999999999999999


Q ss_pred             cccccCCCCCEEEecCCCCcceEEEeCceEEEEcCCceeeec---cCcceeeEEEEEecCCCEEEEEcCccCEEEEEEEe
Q 001655          156 SQNNLDNGADLLIPVPPPLCGVLIIGEETIVYCSANAFKAIP---IRPSITKAYGRVDADGSRYLLGDHAGLLHLLVITH  232 (1036)
Q Consensus       156 ~~~~lp~~~~~lip~p~~~~G~lv~~~~~i~y~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~ll~~~~G~l~~l~l~~  232 (1036)
                      + +++..++..+||+|.|.||+||+|++.|+|+++..+.+++   .+++.+.||++++.++.+||++|++|+||++.+..
T Consensus       210 ~-~~v~~~a~~li~VP~~~gGvlV~ge~~I~Y~~~~~~~ai~p~~~~~~t~~~~~~v~~~~~~yLl~d~~G~Lf~l~l~~  288 (1096)
T KOG1897|consen  210 S-NNVDNGASMLIPVPSPIGGVLVIGEEFIVYMSGDNFVAIAPLTAEQSTIVCYGRVDLQGSRYLLGDEDGMLFKLLLSH  288 (1096)
T ss_pred             c-cccccCCceeeecCCCCceEEEEeeeEEEEeeCCceeEecccccCCceEEEcccccCCccEEEEecCCCcEEEEEeec
Confidence            9 9999999999999999999999999999999998877765   67788999999999999999999999999999998


Q ss_pred             cCcEEee--EEEEEcCccccceEEEEecCCeEEEEEeecCeeEEEEeeCCCCCCCcEEEeeecccCCceeeeEEeccCCC
Q 001655          233 EKEKVTG--LKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLERYVNLGPIVDFCVVDLERQ  310 (1036)
Q Consensus       233 ~~~~v~~--l~i~~~~~~~~~s~l~~l~~~~lF~gS~~gds~l~~~~~~~~~~~~~~~~~~~l~n~~Pi~D~~~~~~~~~  310 (1036)
                      .+.++.+  |+++++|++++|+||++|++|+||+||++|||+|+++..++|. ++|..++++++|+|||.||++.+.+++
T Consensus       289 ~~e~~s~~~lkve~lge~siassi~~L~ng~lFvGS~~gdSqLi~L~~e~d~-gsy~~ilet~~NLgPI~Dm~Vvd~d~q  367 (1096)
T KOG1897|consen  289 TGETVSGLDLKVEYLGETSIASSINYLDNGVLFVGSRFGDSQLIKLNTEPDV-GSYVVILETFVNLGPIVDMCVVDLDRQ  367 (1096)
T ss_pred             ccccccceEEEEEecCCcchhhhhhcccCceEEEeccCCceeeEEccccCCC-CchhhhhhhcccccceeeEEEEecccc
Confidence            8888887  8999999999999999999999999999999999999998876 888999999999999999999999889


Q ss_pred             CCceEEEEeeCCCCccEEEEecCCceeEEEeeeCCCcceEEEeecCCCCCcccEEEEEecCceEEEEecCCCCeeeeeec
Q 001655          311 GQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWSLRSSTDDPFDTFLVVSFISETRILAMNLEDELEETEIE  390 (1036)
Q Consensus       311 ~~~~lv~~sG~g~~g~l~~lr~gi~~~~~~~~~l~~~~~iw~l~~~~~~~~~~~lv~S~~~~T~vl~~~~~~~~~e~~~~  390 (1036)
                      +++++++|||++++|+||++|+|+++++.+..++||++++|+++....++++.||++||.++|++|.+++  ++||++++
T Consensus       368 ~q~qivtCsGa~kdgSLRiiRngi~I~e~A~i~l~Gikg~w~lk~~v~~~~d~ylvlsf~~eTrvl~i~~--e~ee~~~~  445 (1096)
T KOG1897|consen  368 GQGQIVTCSGAFKDGSLRIIRNGIGIDELASIDLPGIKGMWSLKSMVDENYDNYLVLSFISETRVLNISE--EVEETEDP  445 (1096)
T ss_pred             CCceEEEEeCCCCCCcEEEEecccccceeeEeecCCccceeEeeccccccCCcEEEEEeccceEEEEEcc--ceEEeccc
Confidence            9999999999999999999999999999999999999999999976667888999999999999999986  49999999


Q ss_pred             CeeccccceeeeecCCCeEEEEecCcEEEEecCCccceeeeeCCCCCcEEEEEeCCCEEEEEEcCCeEEEEEEcCcEEEE
Q 001655          391 GFCSQTQTLFCHDAIYNQLVQVTSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTE  470 (1036)
Q Consensus       391 ~f~~~~~Tl~~~~~~~~~~vQVt~~~i~l~~~~~~~~~~~w~~~~~~~I~~as~~~~~vvv~~~~~~~~~l~~~~~~l~~  470 (1036)
                      ||.++++||+|+.+.++.++|||+++||+++.+  .+.++|.+|.+..|..+++|..+++||.+++.+.|++++.+.+.+
T Consensus       446 gf~~~~~Tif~S~i~g~~lvQvTs~~iRl~ss~--~~~~~W~~p~~~ti~~~~~n~sqVvvA~~~~~l~y~~i~~~~l~e  523 (1096)
T KOG1897|consen  446 GFSTDEQTIFCSTINGNQLVQVTSNSIRLVSSA--GLRSEWRPPGKITIGVVSANASQVVVAGGGLALFYLEIEDGGLRE  523 (1096)
T ss_pred             cccccCceEEEEccCCceEEEEecccEEEEcch--hhhhcccCCCceEEEEEeecceEEEEecCccEEEEEEeeccceee
Confidence            999999999999998889999999999999876  388999999988888888998999999988999999998877999


Q ss_pred             EEeccCCceeEEEEcCCCCCCCCcccEEEEEEecCCEEEEEECCCCCeeEEecCCCccCceeEEeeeecC-eEEEEEEeC
Q 001655          471 VKHAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPRSVLLCAFEG-ISYLLCALG  549 (1036)
Q Consensus       471 ~~~~~l~~~is~l~~~~~~~~~~~~~~~~vg~w~~~~i~i~~l~~l~~v~~~~l~~~~~p~si~~~~~~~-~~~L~vgl~  549 (1036)
                      +.+.+++.||+|+|++|+++++.++.+++||+|.+-.+.+..+|++.+++.+.++.+.+|+|+++..+++ ..||+|+++
T Consensus       524 ~~~~~~e~evaCLDisp~~d~~~~s~~~aVG~Ws~~~~~l~~~pd~~~~~~~~l~~~~iPRSIl~~~~e~d~~yLlvalg  603 (1096)
T KOG1897|consen  524 VSHKEFEYEVACLDISPLGDAPNKSRLLAVGLWSDISMILTFLPDLILITHEQLSGEIIPRSILLTTFEGDIHYLLVALG  603 (1096)
T ss_pred             eeeheecceeEEEecccCCCCCCcceEEEEEeecceEEEEEECCCcceeeeeccCCCccchheeeEEeeccceEEEEEcC
Confidence            9999999999999999998877788899999997778888889999998888888889999999999986 899999999


Q ss_pred             CCcEEEEEEecCCCccccceeeecCccceEEEEEEeCCceEEEEEcCCceEEEecCCcEEEeeeccccceeeecccCCCC
Q 001655          550 DGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHVFAASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAAF  629 (1036)
Q Consensus       550 ~G~l~~y~~~~~~~~l~~~~~~~lG~~pv~l~~~~~~~~~~v~~~~~~p~~i~~~~~~~~~~~~~~~~i~~~~~f~~~~~  629 (1036)
                      ||.++.|.++..++.++++|++++|++|+.|+.|.+.+.+++||+|+|||++|..++++.|+|++.+.+..+|||++.++
T Consensus       604 dG~l~~fv~d~~tg~lsd~Kk~~lGt~P~~Lr~f~sk~~t~vfa~sdrP~viY~~n~kLv~spls~kev~~~c~f~s~a~  683 (1096)
T KOG1897|consen  604 DGALLYFVLDINTGQLSDRKKVTLGTQPISLRTFSSKSRTAVFALSDRPTVIYSSNGKLVYSPLSLKEVNHMCPFNSDAY  683 (1096)
T ss_pred             CceEEEEEEEcccceEccccccccCCCCcEEEEEeeCCceEEEEeCCCCEEEEecCCcEEEeccchHHhhhhcccccccC
Confidence            99999999999999999999999999999999999889999999999999999999999999999999999999999999


Q ss_pred             CCeEEEEeCCeEEEEEEcCCCCeEEEEEeCCCccceEEEecCCCEEEEEEeecCC----CCCceeeEEEEEEeCCCceEE
Q 001655          630 PDSLAIAKEGELTIGTIDDIQKLHIRSIPLGEHPRRICHQEQSRTFAICSLKNQS----CAEESEMHFVRLLDDQTFEFI  705 (1036)
Q Consensus       630 ~~~l~~~~~~~l~i~~l~~~~~~~~~~i~l~~tp~~i~y~~~~~~~~v~~~~~~~----~~~~~~~~~l~l~d~~t~~~i  705 (1036)
                      ++++++++++.|+|+++++.+++++|++|++++||||+|++.+.+|+|+|.+.+.    .+++.+.++++++|++|++++
T Consensus       684 ~d~l~~~~~~~l~i~tid~iqkl~irtvpl~~~prrI~~q~~sl~~~v~s~r~e~~~~~~~ee~~~s~l~vlD~nTf~vl  763 (1096)
T KOG1897|consen  684 PDSLASANGGALTIGTIDEIQKLHIRTVPLGESPRRICYQESSLTFGVLSNRIESSAEYYGEEYEVSFLRVLDQNTFEVL  763 (1096)
T ss_pred             CceEEEecCCceEEEEecchhhcceeeecCCCChhheEecccceEEEEEecccccchhhcCCcceEEEEEEecCCceeEE
Confidence            9999999999999999999999999999999999999999999999999988753    355788999999999999999


Q ss_pred             EEEECCCCCeEeEEEEEEEcCCCceEEEEEeeeeCCCCCCCcceEEEEEEEeC-CeEEEEEEEEecCceeEeccccCeEE
Q 001655          706 STYPLDTFEYGCSILSCSFSDDSNVYYCVGTAYVLPEENEPTKGRILVFIVED-GKLQLIAEKETKGAVYSLNAFNGKLL  784 (1036)
Q Consensus       706 ~~~~~~~~E~v~si~~~~l~~~~~~~i~VGT~~~~~~e~~~~~Gri~v~~i~~-~kl~~~~~~~~~g~v~~i~~~~g~Lv  784 (1036)
                      +.++|+++|.++|+++++|.++...|++|||++..|+|.+|..|||.+|++.+ ++|+++++++++|+|++++.|||+|+
T Consensus       764 ~~hef~~~E~~~Si~s~~~~~d~~t~~vVGT~~v~Pde~ep~~GRIivfe~~e~~~L~~v~e~~v~Gav~aL~~fngkll  843 (1096)
T KOG1897|consen  764 SSHEFERNETALSIISCKFTDDPNTYYVVGTGLVYPDENEPVNGRIIVFEFEELNSLELVAETVVKGAVYALVEFNGKLL  843 (1096)
T ss_pred             eeccccccceeeeeeeeeecCCCceEEEEEEEeeccCCCCcccceEEEEEEecCCceeeeeeeeeccceeehhhhCCeEE
Confidence            99999999999999999999988999999999999999999999999999997 89999999999999999999999999


Q ss_pred             EEECCEEEEEEeeecCCCccchhcccccccceEEEEEEEeCCEEEEEeccccEEEEEEeccCCeEEEEeccCCcceeEEE
Q 001655          785 AAINQKIQLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEERARDYNANWMSAV  864 (1036)
Q Consensus       785 ~~~g~~l~v~~~~~~~~~~~~L~~~~~~~~~~~~~~l~~~~~~I~vgD~~~Sv~~~~~~~~~~~l~~~a~D~~~~~~~~~  864 (1036)
                      +|+|++|++|+|.    .+++|+..|....+..++++++.+|+|+|||+|+|+++++|+.+++.|+++|||+.|+|++++
T Consensus       844 A~In~~vrLye~t----~~~eLr~e~~~~~~~~aL~l~v~gdeI~VgDlm~Sitll~y~~~eg~f~evArD~~p~Wmtav  919 (1096)
T KOG1897|consen  844 AGINQSVRLYEWT----TERELRIECNISNPIIALDLQVKGDEIAVGDLMRSITLLQYKGDEGNFEEVARDYNPNWMTAV  919 (1096)
T ss_pred             EecCcEEEEEEcc----ccceehhhhcccCCeEEEEEEecCcEEEEeeccceEEEEEEeccCCceEEeehhhCccceeeE
Confidence            9999999999995    246787788888889999999999999999999999999999999999999999999999999


Q ss_pred             EEeeCceEEEEccCCcEEEEeeCCCCCCcccccceeEEEEEEcCCccceEEeeeeeecCCCCCCCCcceEEEEccccceE
Q 001655          865 EILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLEVVGEYHLGEFVNRFRHGSLVMRLPDSDVGQIPTVIFGTVNGVIG  944 (1036)
Q Consensus       865 ~~l~~~~~l~~D~~gnl~~l~~~~~~~~~~~~~~L~~~~~~~lg~~v~~~~~~~l~~~~~~~~~~~~~~il~~t~~GsIg  944 (1036)
                      +++++++++++|++||+++++++.++.++++++.|+..+.||+|+.|++|+.++++++.+++.....++++|||.+|+||
T Consensus       920 eil~~d~ylgae~~gNlf~v~~d~~~~td~eR~~l~~~~~~hlGelvn~f~hg~lv~~~~~s~~~~~~~vlfgTv~GsIG  999 (1096)
T KOG1897|consen  920 EILDDDTYLGAENSGNLFTVRKDSDATTDEERQILEEVGKFHLGELVNKFRHGSLVMQLGDSMIPLEPKVLFGTVNGSIG  999 (1096)
T ss_pred             EEecCceEEeecccccEEEEEecCCCCchhhhhcccceeeEEeccceeeeeecceEeeccccccCCCCcEEEEEccceEE
Confidence            99999999999999999999999999999999999999999999999999999999885555555678899999999999


Q ss_pred             EEEecChhHHHHHHHHHHHHHhcccCCCCCCcccccccccccccCCCCcEEehhHHHHHhcCCHHHHHHHHHhcCCC---
Q 001655          945 VIASLPHEQYLFLEKLQTNLRKVIKGVGGLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMNVS--- 1021 (1036)
Q Consensus       945 ~l~~l~~~~~~~L~~lq~~l~~~~~~~~gl~~~~~R~~~~~~~~~~~~~~iDGdll~~fl~l~~~~q~~i~~~~~~~--- 1021 (1036)
                      ++..++++.+.+|..||++|++..+++||++|..||+++.+.+..|++|||||||+|+|++|+.+++.+|++++..+   
T Consensus      1000 ~i~sl~~d~~~fL~~Lq~~irk~i~s~gglsH~~yrsf~~e~~~~P~~gfIDGDLiEsfl~l~~~~~~~i~~~~~~~~~~ 1079 (1096)
T KOG1897|consen 1000 IIVSLPQDWYDFLEELQRRIRKVIKSVGGLSHMDYRSFEFEKRTSPVKGFIDGDLIESFLDLSRSKMREIVRGLEHTESL 1079 (1096)
T ss_pred             EEEecCcchhHHHHHHHHHHHHhhcccCCcchhhHhhhhcccccCCCcCcccchHHHhhhccCHHHHHHHHhhccccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999766   


Q ss_pred             --HHHHHHHHHHHhccC
Q 001655         1022 --VEELCKRVEELTRLH 1036 (1036)
Q Consensus      1022 --~~~i~~~l~~l~~~h 1036 (1036)
                        ++||.|.+|||+|||
T Consensus      1080 ~s~~el~k~vEel~rlh 1096 (1096)
T KOG1897|consen 1080 ASVQELLKIVEELTRLH 1096 (1096)
T ss_pred             CCHHHHHHHHHHHHhcC
Confidence              999999999999999

>KOG1896 consensus mRNA cleavage and polyadenylation factor II complex, subunit CFT1 (CPSF subunit) [RNA processing and modification]	Back alignment and domain information

>KOG1898 consensus Splicing factor 3b, subunit 3 [RNA processing and modification]	Back alignment and domain information

>COG5161 SFT1 Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification]	Back alignment and domain information

>PF10433 MMS1_N: Mono-functional DNA-alkylating methyl methanesulfonate N-term; PDB: 2B5M_A 4A0K_C 4A0B_C 3I7L_A 2B5N_C 3I8E_A 4A09_A 4A0A_A 3EI4_C 2B5L_A	Back alignment and domain information

>PF03178 CPSF_A: CPSF A subunit region; InterPro: IPR004871 This family includes a region that lies towards the C terminus of the cleavage and polyadenylation specificity factor (CPSF) A (160 kDa) subunit	Back alignment and domain information

>KOG0318 consensus WD40 repeat stress protein/actin interacting protein [Cytoskeleton]	Back alignment and domain information

>KOG2048 consensus WD40 repeat protein [General function prediction only]	Back alignment and domain information

>KOG1036 consensus Mitotic spindle checkpoint protein BUB3, WD repeat superfamily [Cell cycle control, cell division, chromosome partitioning]	Back alignment and domain information

>KOG0291 consensus WD40-repeat-containing subunit of the 18S rRNA processing complex [RNA processing and modification]	Back alignment and domain information

>PRK11028 6-phosphogluconolactonase; Provisional	Back alignment and domain information

>KOG0319 consensus WD40-repeat-containing subunit of the 18S rRNA processing complex [RNA processing and modification]	Back alignment and domain information

>PF10282 Lactonase: Lactonase, 7-bladed beta-propeller; InterPro: IPR019405 6-phosphogluconolactonases (6PGL) 3	Back alignment and domain information

>cd00200 WD40 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and botto

Back alignment and domain information

>KOG0318 consensus WD40 repeat stress protein/actin interacting protein [Cytoskeleton]	Back alignment and domain information

>KOG1446 consensus Histone H3 (Lys4) methyltransferase complex and RNA cleavage factor II complex, subunit SWD2 [RNA processing and modification; Chromatin structure and dynamics; Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF03178 CPSF_A: CPSF A subunit region; InterPro: IPR004871 This family includes a region that lies towards the C terminus of the cleavage and polyadenylation specificity factor (CPSF) A (160 kDa) subunit	Back alignment and domain information

>KOG2106 consensus Uncharacterized conserved protein, contains HELP and WD40 domains [Function unknown]	Back alignment and domain information

>KOG0306 consensus WD40-repeat-containing subunit of the 18S rRNA processing complex [RNA processing and modification]	Back alignment and domain information

Back alignment and domain information

>PF10282 Lactonase: Lactonase, 7-bladed beta-propeller; InterPro: IPR019405 6-phosphogluconolactonases (6PGL) 3	Back alignment and domain information

>KOG1539 consensus WD repeat protein [General function prediction only]	Back alignment and domain information

>PRK11028 6-phosphogluconolactonase; Provisional	Back alignment and domain information

>KOG0647 consensus mRNA export protein (contains WD40 repeats) [RNA processing and modification]	Back alignment and domain information

>KOG2055 consensus WD40 repeat protein [General function prediction only]	Back alignment and domain information

>PF02239 Cytochrom_D1: Cytochrome D1 heme domain; PDB: 1NNO_B 1HZU_A 1N15_B 1N50_A 1GJQ_A 1BL9_B 1NIR_B 1N90_B 1HZV_A 1AOQ_A	Back alignment and domain information

>KOG0319 consensus WD40-repeat-containing subunit of the 18S rRNA processing complex [RNA processing and modification]	Back alignment and domain information

>KOG1408 consensus WD40 repeat protein [Function unknown]	Back alignment and domain information

>KOG0291 consensus WD40-repeat-containing subunit of the 18S rRNA processing complex [RNA processing and modification]	Back alignment and domain information

>KOG2106 consensus Uncharacterized conserved protein, contains HELP and WD40 domains [Function unknown]	Back alignment and domain information

>KOG1274 consensus WD40 repeat protein [General function prediction only]	Back alignment and domain information

>KOG0310 consensus Conserved WD40 repeat-containing protein [Function unknown]	Back alignment and domain information

>KOG1273 consensus WD40 repeat protein [General function prediction only]	Back alignment and domain information

>KOG2055 consensus WD40 repeat protein [General function prediction only]	Back alignment and domain information

>COG2706 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]	Back alignment and domain information

>KOG0315 consensus G-protein beta subunit-like protein (contains WD40 repeats) [General function prediction only]	Back alignment and domain information

>KOG0296 consensus Angio-associated migratory cell protein (contains WD40 repeats) [Function unknown]	Back alignment and domain information

>PLN00181 protein SPA1-RELATED; Provisional	Back alignment and domain information

>TIGR02658 TTQ_MADH_Hv methylamine dehydrogenase heavy chain	Back alignment and domain information

>TIGR03866 PQQ_ABC_repeats PQQ-dependent catabolism-associated beta-propeller protein	Back alignment and domain information

>KOG0647 consensus mRNA export protein (contains WD40 repeats) [RNA processing and modification]	Back alignment and domain information

>KOG0285 consensus Pleiotropic regulator 1 [RNA processing and modification]	Back alignment and domain information

>KOG1036 consensus Mitotic spindle checkpoint protein BUB3, WD repeat superfamily [Cell cycle control, cell division, chromosome partitioning]	Back alignment and domain information

>PF08596 Lgl_C: Lethal giant larvae(Lgl) like, C-terminal; InterPro: IPR013905 The Lethal giant larvae (Lgl) tumour suppressor protein is conserved from yeast to mammals	Back alignment and domain information

>KOG1539 consensus WD repeat protein [General function prediction only]	Back alignment and domain information

>KOG1407 consensus WD40 repeat protein [Function unknown]	Back alignment and domain information

>KOG2110 consensus Uncharacterized conserved protein, contains WD40 repeats [Function unknown]	Back alignment and domain information

>KOG0263 consensus Transcription initiation factor TFIID, subunit TAF5 (also component of histone acetyltransferase SAGA) [Transcription]	Back alignment and domain information

>TIGR03866 PQQ_ABC_repeats PQQ-dependent catabolism-associated beta-propeller protein	Back alignment and domain information

>KOG2111 consensus Uncharacterized conserved protein, contains WD40 repeats [Function unknown]	Back alignment and domain information

>KOG2048 consensus WD40 repeat protein [General function prediction only]	Back alignment and domain information

>KOG0282 consensus mRNA splicing factor [Function unknown]	Back alignment and domain information

>KOG0283 consensus WD40 repeat-containing protein [Function unknown]	Back alignment and domain information

>PF00780 CNH: CNH domain; InterPro: IPR001180 Based on sequence similarities a domain of homology has been identified in the following proteins []: Citron and Citron kinase	Back alignment and domain information

>KOG2110 consensus Uncharacterized conserved protein, contains WD40 repeats [Function unknown]	Back alignment and domain information

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>KOG0310 consensus Conserved WD40 repeat-containing protein [Function unknown]	Back alignment and domain information

>KOG4378 consensus Nuclear protein COP1 [Signal transduction mechanisms]	Back alignment and domain information

>KOG0282 consensus mRNA splicing factor [Function unknown]	Back alignment and domain information

>KOG0306 consensus WD40-repeat-containing subunit of the 18S rRNA processing complex [RNA processing and modification]	Back alignment and domain information

>KOG0278 consensus Serine/threonine kinase receptor-associated protein [Lipid transport and metabolism]	Back alignment and domain information

>PF00780 CNH: CNH domain; InterPro: IPR001180 Based on sequence similarities a domain of homology has been identified in the following proteins []: Citron and Citron kinase	Back alignment and domain information

>PF14727 PHTB1_N: PTHB1 N-terminus	Back alignment and domain information

>TIGR02658 TTQ_MADH_Hv methylamine dehydrogenase heavy chain	Back alignment and domain information

>KOG0283 consensus WD40 repeat-containing protein [Function unknown]	Back alignment and domain information

>KOG0294 consensus WD40 repeat-containing protein [Function unknown]	Back alignment and domain information

>KOG1273 consensus WD40 repeat protein [General function prediction only]	Back alignment and domain information

>KOG0316 consensus Conserved WD40 repeat-containing protein [Function unknown]	Back alignment and domain information

>TIGR03300 assembly_YfgL outer membrane assembly lipoprotein YfgL	Back alignment and domain information

>PLN00181 protein SPA1-RELATED; Provisional	Back alignment and domain information

>KOG0275 consensus Conserved WD40 repeat-containing protein [General function prediction only]	Back alignment and domain information

>PF14727 PHTB1_N: PTHB1 N-terminus	Back alignment and domain information

>KOG4378 consensus Nuclear protein COP1 [Signal transduction mechanisms]	Back alignment and domain information

>KOG0299 consensus U3 snoRNP-associated protein (contains WD40 repeats) [RNA processing and modification]	Back alignment and domain information

>KOG2321 consensus WD40 repeat protein [General function prediction only]	Back alignment and domain information

>KOG0649 consensus WD40 repeat protein [General function prediction only]	Back alignment and domain information

>KOG0289 consensus mRNA splicing factor [General function prediction only]	Back alignment and domain information

>PTZ00420 coronin; Provisional	Back alignment and domain information

>KOG0278 consensus Serine/threonine kinase receptor-associated protein [Lipid transport and metabolism]	Back alignment and domain information

>KOG2445 consensus Nuclear pore complex component (sc Seh1) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>PRK11138 outer membrane biogenesis protein BamB; Provisional	Back alignment and domain information

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

>KOG0316 consensus Conserved WD40 repeat-containing protein [Function unknown]	Back alignment and domain information

>KOG0289 consensus mRNA splicing factor [General function prediction only]	Back alignment and domain information

>KOG0646 consensus WD40 repeat protein [General function prediction only]	Back alignment and domain information

>KOG0645 consensus WD40 repeat protein [General function prediction only]	Back alignment and domain information

>KOG0277 consensus Peroxisomal targeting signal type 2 receptor [Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>KOG0650 consensus WD40 repeat nucleolar protein Bop1, involved in ribosome biogenesis [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>KOG2321 consensus WD40 repeat protein [General function prediction only]	Back alignment and domain information

>KOG0772 consensus Uncharacterized conserved protein, contains WD40 repeat [Function unknown]	Back alignment and domain information

>PF02239 Cytochrom_D1: Cytochrome D1 heme domain; PDB: 1NNO_B 1HZU_A 1N15_B 1N50_A 1GJQ_A 1BL9_B 1NIR_B 1N90_B 1HZV_A 1AOQ_A	Back alignment and domain information

>KOG0640 consensus mRNA cleavage stimulating factor complex; subunit 1 [RNA processing and modification]	Back alignment and domain information

>KOG1897 consensus Damage-specific DNA binding complex, subunit DDB1 [Replication, recombination and repair]	Back alignment and domain information

>KOG0646 consensus WD40 repeat protein [General function prediction only]	Back alignment and domain information

>KOG0315 consensus G-protein beta subunit-like protein (contains WD40 repeats) [General function prediction only]	Back alignment and domain information

>TIGR03300 assembly_YfgL outer membrane assembly lipoprotein YfgL	Back alignment and domain information

>COG2706 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]	Back alignment and domain information

>KOG4649 consensus PQQ (pyrrolo-quinoline quinone) repeat protein [Secondary metabolites biosynthesis, transport and catabolism]	Back alignment and domain information

>KOG0294 consensus WD40 repeat-containing protein [Function unknown]	Back alignment and domain information

>PRK11138 outer membrane biogenesis protein BamB; Provisional	Back alignment and domain information

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment	Back alignment and domain information

>KOG1274 consensus WD40 repeat protein [General function prediction only]	Back alignment and domain information

>KOG0266 consensus WD40 repeat-containing protein [General function prediction only]	Back alignment and domain information

>KOG0650 consensus WD40 repeat nucleolar protein Bop1, involved in ribosome biogenesis [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]	Back alignment and domain information

>PTZ00421 coronin; Provisional	Back alignment and domain information

>KOG0266 consensus WD40 repeat-containing protein [General function prediction only]	Back alignment and domain information

>KOG1034 consensus Transcriptional repressor EED/ESC/FIE, required for transcriptional silencing, WD repeat superfamily [Transcription]	Back alignment and domain information

>PF13360 PQQ_2: PQQ-like domain; PDB: 3HXJ_B 1YIQ_A 1KV9_A 3Q54_A 2YH3_A 3PRW_A 3P1L_A 3Q7M_A 3Q7O_A 3Q7N_A	Back alignment and domain information

>KOG2096 consensus WD40 repeat protein [General function prediction only]	Back alignment and domain information

>KOG2111 consensus Uncharacterized conserved protein, contains WD40 repeats [Function unknown]	Back alignment and domain information

>KOG3881 consensus Uncharacterized conserved protein [Function unknown]	Back alignment and domain information

>KOG4441 consensus Proteins containing BTB/POZ and Kelch domains, involved in regulatory/signal transduction processes [Signal transduction mechanisms; General function prediction only]	Back alignment and domain information

>KOG0772 consensus Uncharacterized conserved protein, contains WD40 repeat [Function unknown]	Back alignment and domain information

>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]	Back alignment and domain information

>KOG0305 consensus Anaphase promoting complex, Cdc20, Cdh1, and Ama1 subunits [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0649 consensus WD40 repeat protein [General function prediction only]	Back alignment and domain information

>KOG1587 consensus Cytoplasmic dynein intermediate chain [Cytoskeleton]	Back alignment and domain information

>KOG1517 consensus Guanine nucleotide binding protein MIP1 [Cell cycle control, cell division, chromosome partitioning]	Back alignment and domain information

>PTZ00421 coronin; Provisional	Back alignment and domain information

>KOG0284 consensus Polyadenylation factor I complex, subunit PFS2 [RNA processing and modification]	Back alignment and domain information

>PF06433 Me-amine-dh_H: Methylamine dehydrogenase heavy chain (MADH); InterPro: IPR009451 Methylamine dehydrogenase (1	Back alignment and domain information

>KOG0268 consensus Sof1-like rRNA processing protein (contains WD40 repeats) [RNA processing and modification]	Back alignment and domain information

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>KOG1517 consensus Guanine nucleotide binding protein MIP1 [Cell cycle control, cell division, chromosome partitioning]	Back alignment and domain information

>KOG0299 consensus U3 snoRNP-associated protein (contains WD40 repeats) [RNA processing and modification]	Back alignment and domain information

>KOG1188 consensus WD40 repeat protein [General function prediction only]	Back alignment and domain information

>PF12894 Apc4_WD40: Anaphase-promoting complex subunit 4 WD40 domain	Back alignment and domain information

>PF14761 HPS3_N: Hermansky-Pudlak syndrome 3	Back alignment and domain information

>PHA02713 hypothetical protein; Provisional	Back alignment and domain information

>KOG1896 consensus mRNA cleavage and polyadenylation factor II complex, subunit CFT1 (CPSF subunit) [RNA processing and modification]	Back alignment and domain information

>KOG4441 consensus Proteins containing BTB/POZ and Kelch domains, involved in regulatory/signal transduction processes [Signal transduction mechanisms; General function prediction only]	Back alignment and domain information

>KOG0272 consensus U4/U6 small nuclear ribonucleoprotein Prp4 (contains WD40 repeats) [RNA processing and modification]	Back alignment and domain information

>PF08553 VID27: VID27 cytoplasmic protein; InterPro: IPR013863 This entry represents fungal and plant proteins and contains many hypothetical proteins	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		1036
4a0b_A		1159	Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Dup		0.0
4a0a_A		1159	Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Dup		0.0
3e0c_A		1140	Crystal Structure Of Dna Damage-Binding Protein 1(D		0.0
4e54_A		1150	Damaged Dna Induced Uv-Damaged Dna-Binding Protein		0.0
3ei1_A		1158	Structure Of Hsddb1-Drddb2 Bound To A 14 Bp 6-4 Pho		0.0
4a11_A		1159	Structure Of The Hsddb1-Hscsa Complex Length = 1159		0.0
4a0l_A		1144	Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp		0.0
4a08_A		1159	Structure Of Hsddb1-Drddb2 Bound To A 13 Bp Cpd-Dup		0.0
2b5l_A		1140	Crystal Structure Of Ddb1 In Complex With Simian Vi		0.0
3ei4_A		1158	Structure Of The Hsddb1-Hsddb2 Complex Length = 115		0.0
3i7h_A		1143	Crystal Structure Of Ddb1 In Complex With The H-Box		0.0
2b5n_A		323	Crystal Structure Of The Ddb1 Bpb Domain Length = 3		7e-98

>pdb|4A0B|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex ( Pyrimidine At D-1 Position) At 3.8 A Resolution (Cpd 4) Length = 1159