Citrus Sinensis ID: 001088

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------116

MEVKRKTPLQAKALLKFYSEEKYPTKSEMEGLAAALDLTYKQVRTWFIEKRRRDKGDNGIVIPSSSSKKLKGFHGRNRLGVVSAKIVKKQDSLIHNKHLSLMVCNGTGKKKNAVTVLQDLLTSDYILKKVFRKDGPPLGVEFDSLPSQAFFRSKDSINSCPPLQENQTAKRKRKVSIHDELDHQECCTNTDHVRKHGMGKGLMTAWRVMNPNGGTVPTGIDVADRQVTVVPQMATPLSQKPPLRKKRAQQIVSLLKQRRLANNLQSKRKPVAKGKQVKLDKGERLRQPNKEKCELAPDSVISQERLDQIAMLVDDEELELRELEVGPNPPTCCDHISTKGLHGCSLCRDLLAKFPPNSVKMKQPFGTQPWDSSPETVKKLFKVFHFLCTYAGIVDICSFTLDEFAQAFHDKDSMLLGKIHVALLKLLLSDVEMELGRGCPPHLSVSCKFLALLHSVENQEFFVEFWNKSLNPLTWTEILRQVLVAAGFGSKQGSSRKESLSKEMILMLKYGLRPGTLKGELFRILLEQGNNGSKVCQLARSSQIAELNLESTTEEVELLISSTLSSDITLFEKIASSTYRLRINTSKEADDFESDAEDIGSVDDNSDDDDTCSNRDDSECNSENQRQRRPKYLNCCKSENNMLTVYMEIDESHRGDVWLSGLMEGEYSDLTIDEKLNALVGLIDLVSAGSSIRMEDPTKAIAESVPSVRHYGSGAKIKRALPNQHSLPRPSWVHAGDFHGVRETNTSRELHPLDSFSLISKSCGKEKSSSVKDAKATEVSTDLHPMQSIYLGSDRRYNRYWLFLGPCNEYDPGHKRVYFESSEDGHWEVIDTEEALRALLSVLDDRGRQEALLIESLEKREAFLCQAMSSGLVNNTEIRHVAQSDQSELDLVREDSSSPVSDVDNNLALSEIGKESLPSCGAIVLDVGKKGEEQHRMWSRLQEFDAWIWNSFYLNLNAVKHGKRSYLDALARCERCHDLYWRDEKHCKICHTTFELDFDLEERYAVHAATCRGKGDHLVSKHKILSSQLQSLKAAVHAIESVMPEDALVGAWTKSAHKLWVKRLRRTSSLAELLQVVADFVSAINEGWLYQWNVQIADTVMGEIIAFFPTMPQTSSALALWLVKLDAIIAPYLERVNSGKEDARMRCRGIFLFPQRPFI

cccccccHHHHHHHHHHHHHcccccHHHHHHHHHHcccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccHHHHHHHcccccccccccccccccccccccccccccccccccccHHHHHHcccccccccccccccccccccccccccccccEEEEccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHcccccHHHHHHccccHHHHHHHHHHHHcccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccccccccccHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHcccccHHHHHHHHccccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccHHHHHHHHHcccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEccccccccccHHcccccccccccHHHHHHHHHHHHHHHHcccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccccccccccccccccEEEEccccccccccccEEEEEcccccEEEEccHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHcccccccccccHHHHHHHHHHHHHccccccccccccccccHHHccccccccccccccc

cccccccHHHHHHHHHHHHccccccHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccHccccccccHcHHHHHHHHccHcHHHccccccccccccEEcccccccccccccccccccccHHcccccccEEEEcccccccccccccccccccccccccccEEEEEEEcccccccccccccccccEcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccEcccccccccccHHHHHHcccccccEEEccccccccccccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHccccHHHHHHHcccccHHHHHHHHHHHcccccccccccHHHccHHHHHHHHccccccHHHHHHHHHHHHcccccccHHHHHHHHHHHccccccccccHHHHHHHHHHHccEEEEEccccEEEEEccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccccccccccccccccHHHHHHcccccccccHHHHHHHHHHHHHHHHccccEEEccHHHHHHHHcHHHcccccccccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccHHHHHHHHHHHHHHcccccccccccccccccEEEEEcccccccccccEEEEEEcccccEEEEccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHcccccHHHHHHHHHHHHHHHcccccccHHHccEEEEccccHHHEEHHHHHccccccccccccccccHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHcccccccHccccccEEEcccccHHHHHHHHHHHHHHHHHcccHcccccccccHcccccccccccccccc

MEVKRKTPLQAKALLKFYseekyptksEMEGLAAALDLTYKQVRTWFIEKrrrdkgdngivipsssskklkgfhgrnrlgVVSAKIVKkqdslihnKHLSLMVcngtgkkkNAVTVLQDLLTSDYILkkvfrkdgpplgvefdslpsqaffrskdsinscpplqenqtakrkrkvsihdeldhqecctntdhvrkhgmgkgLMTAWRvmnpnggtvptgidvadrqvtvvpqmatplsqkpplrkKRAQQIVSLLKQRRLANNlqskrkpvakgkqvkldkgerlrqpnkekcelapdsvisQERLDQIAMLVDdeelelrelevgpnpptccdhistkglhgcSLCRDllakfppnsvkmkqpfgtqpwdsspetVKKLFKVFHFLCTYAGIVDICSFTLDEFAQAFHDKDSMLLGKIHVALLKLLLSDVEmelgrgcpphlsVSCKFLALLHSVENQEFFVEFWNkslnpltwTEILRQVLVAAgfgskqgssrkESLSKEMILMLKyglrpgtlkGELFRILLEQGNNGSKVCQLARSSQIAELNLESTTEEVELLISSTLSSDITLFEKIASSTYRLRINtskeaddfesdaedigsvddnsddddtcsnrddsecnsenqrqrrpkylncckSENNMLTVYMEideshrgdvwlsglmegeysdltIDEKLNALVGLIDLvsagssirmedptkaiaesvpsvrhygsgakikralpnqhslprpswvhagdfhgvretntsrelhpldsfsliskscgkeksssvkdakatevstdlhpmqsiylgsdrrynrywlflgpcneydpghkrvyfessedghweviDTEEALRALLSVLDDRGRQEALLIESLEKREAFLCQAMssglvnnteirhvaqsdqseldlvredssspvsdvdnnlalseigkeslpscgaivldvgkkgeEQHRMWSRLQEFDAWIWNSFYLNLNAVKHGKRSYLDALARCERchdlywrdekhckichtTFELDFDLEERYAVHAAtcrgkgdhlvSKHKILSSQLQSLKAAVHAIESvmpedalvGAWTKSAHKLWVKRLRRTSSLAELLQVVADFVSAINEGWLYQWNVQIADTVMGEIIaffptmpqtSSALALWLVKLDAIIAPYlervnsgkedarmrcrgiflfpqrpfi

mevkrktplqakALLKfyseekyptkSEMEGLAAALDLTYKQVRTWFIekrrrdkgdngivipsssskklkgfhgrnrlGVVSAKIVKKQDSLIHNKHLSLMVCNGTGKKKNAVTVLQDLLTSDYILKKVFRKDGPPLGVEFDSLPSQAFfrskdsinscpplqenqtakrKRKVSIHdeldhqecctntdhvrkHGMGKGLMTAWRVMNPNGGTVPTGIDVADRQVTVVPQmatplsqkpplrkkRAQQIVSLLKQRRlannlqskrkpvakgkqvkldkgerlrqpnkekcelapdsvisqeRLDQIAMLVDDEELELRELEVGPNPPTCCDHISTKGLHGCSLCRDLLAKFPPNSVKMKQPFGTQPWDSSPETVKKLFKVFHFLCTYAGIVDICSFTLDEFAQAFHDKDSMLLGKIHVALLKLLLSDVEMELGRGCPPHLSVSCKFLALLHSVENQEFFVEFWNKSLNPLTWTEILRQVLVAagfgskqgssrkesLSKEMILMLKYGLRPGTLKGELFRILLEQGNNGSKVCQLARSSQIAELNLESTTEEVELLISstlssditLFEKiasstyrlrintskeaddfesdaedigsvddnsddddtcsnrddsecnsenqrqrrpkylncCKSENNMLTVYMEIDESHRGDVWLSGLMEGEYSDLTIDEKLNALVGLIDLVSagssirmedptkaiaesvpsvRHYGSGAKIKRALPNQHSLPRPSWVHAGDFHGVREtntsrelhpldsfsliskscgkeksssvkdakatevstdlhpmqsiylgsdRRYNRYWLFLGPCNEYDPGHKRVYFESSEDGHWEVIDTEEALRALLSVLDDRGRQEALLIESLEKREAFLCQAMSSGLVNNTEIRHVAQSDQSELDLVRedssspvsdvDNNLALSeigkeslpscGAIVLDVGKKGEEQHRMWSRLQEFDAWIWNSFYLNLNAVKHGKRSYLDALARCERCHDLYWRDEKHCKICHTTFELDFDLEERYAVHAATCRGKGDHLVSKHKILSSQLQSLKAAVHAIESVMPEDALVGAWTKSAHKLWVKRLRRTSSLAELLQVVADFVSAINEGWLYQWNVQIADTVMGEIIAFFPTMPQTSSALALWLVKLDAIIAPYLervnsgkedarMRCRGiflfpqrpfi

MEVKRKTPLQAKALLKFYSEEKYPTKSEMEGLAAALDLTYKQVRTWFIEKRRRDKGDNGIVIPSSSSKKLKGFHGRNRLGVVSAKIVKKQDSLIHNKHLSLMVCNGTGKKKNAVTVLQDLLTSDYILKKVFRKDGPPLGVEFDSLPSQAFFRSKDSINSCPPLQENQTAKRKRKVSIHDELDHQECCTNTDHVRKHGMGKGLMTAWRVMNPNGGTVPTGIDVADRQVTVVPQMATPLSQKPPLRKKRAQQIVSLLKQRRLANNLQSKRKPVAKGKQVKLDKGERLRQPNKEKCELAPDSVISQERLDQIAMlvddeelelrelevGPNPPTCCDHISTKGLHGCSLCRDLLAKFPPNSVKMKQPFGTQPWDSSPETVKKLFKVFHFLCTYAGIVDICSFTLDEFAQAFHDKDSMLLGKIHVALLKLLLSDVEMELGRGCPPHLSVSCKFLALLHSVENQEFFVEFWNKSLNPLTWTEILRQVLVAAGFGSKQGSSRKESLSKEMILMLKYGLRPGTLKGELFRILLEQGNNGSKVCQLARSSQIAELNLESTTEEVEllisstlssditlFEKIASSTYRLRINTSKEADDFESDAEdigsvddnsddddtcsnrddsECNSENQRQRRPKYLNCCKSENNMLTVYMEIDESHRGDVWLSGLMEGEYSDLTIDEKLNALVGLIDLVSAGSSIRMEDPTKAIAESVPSVRHYGSGAKIKRALPNQHSLPRPSWVHAGDFHGVRETNTSRELHPLDSFSLISKSCGKEKSSSVKDAKATEVSTDLHPMQSIYLGSDRRYNRYWLFLGPCNEYDPGHKRVYFESSEDGHWEVIDTEEALRALLSVLDDRGRQEALLIESLEKREAFLCQAMSSGLVNNTEIRHVAQSDQSELDLVREdssspvsdvdNNLALSEIGKESLPSCGAIVLDVGKKGEEQHRMWSRLQEFDAWIWNSFYLNLNAVKHGKRSYLDALARCERCHDLYWRDEKHCKICHTTFELDFDLEERYAVHAATCRGKGDHLVSKHKILSSQLQSLKAAVHAIESVMPEDALVGAWTKSAHKLWVKRLRRTSSLAELLQVVADFVSAINEGWLYQWNVQIADTVMGEIIAFFPTMPQTSSALALWLVKLDAIIAPYLERVNSGKEDARMRCRGIFLFPQRPFI

*************LLKFY***********EGLAAALDLTYKQVRTWFIEKR********************GFHGRNRLGVVSAKIVKKQDSLIHNKHLSLMVCNGTGKKKNAVTVLQDLLTSDYILKKVFRKDGPPLGVEF****************************************HQECCTNTDHVRKHGMGKGLMTAWRVMNPNGGTVPTGIDVADRQVTVV*****************************************************************************QIAMLVDDEELELRELEVGPNPPTCCDHISTKGLHGCSLCRDLLAKFP********************TVKKLFKVFHFLCTYAGIVDICSFTLDEFAQAFHDKDSMLLGKIHVALLKLLLSDVEMELGRGCPPHLSVSCKFLALLHSVENQEFFVEFWNKSLNPLTWTEILRQVLVAAGFG**************MILMLKYGLRPGTLKGELFRILLEQGNNGSKVCQLARSSQIAELNLESTTEEVELLISSTLSSDITLFEKIASSTYRLRI************************************************YLNCCKSENNMLTVYMEIDESHRGDVWLSGLMEGEYSDLTIDEKLNALVGLIDLVSAG******************************************WVHAGDF************************************************QSIYLGSDRRYNRYWLFLGPCNEYDPGHKRVYFESSEDGHWEVIDTEEALRALLSVLDDRGRQEALLIESLEKREAFLCQAMSSGLVNN*****************************************LPSCGAIVLDVGKKGEEQHRMWSRLQEFDAWIWNSFYLNLNAVKHGKRSYLDALARCERCHDLYWRDEKHCKICHTTFELDFDLEERYAVHAATCRGKGDHLVSKHKILSSQLQSLKAAVHAIESVMPEDALVGAWTKSAHKLWVKRLRRTSSLAELLQVVADFVSAINEGWLYQWNVQIADTVMGEIIAFFPTMPQTSSALALWLVKLDAIIAPYLERVNSGKEDARMRCRGIFLF******

****RKT**QAKALLKFYSEEKYPTKSEMEGLAAALDLTYKQVRTWFI****************************************************************************************************************************************************************************************************************************************************************************************************************KFPPNSVKMKQPFGTQPWDSSPETVKKLFKVFHFLCTYAGIVDICSFTLDEFAQAFHDKDSMLLGKIHVALLKLLLSDVE***************KFLALLHSVENQEFFVEFWNKSLNPLTWTEILRQVLVAAGFGSKQ************ILMLKYGLRPGTLKGELFRILLEQGNNGSKVC*********************L***S*********EKIAS********************************************************************************VWLSGLMEGEYSDLTIDEKLNALVGLIDLVSAG**************************************************************************************************SIYLGSDRRYNRYWLFLGPCN***PGHKRVYFESSEDGHWEVIDTEEALRALLSVLDDRGRQEALLIESLEKREAFL**********************************************EIGKESLPSCGAIVLDVGKKG*E*HRMWSRLQEFDAWIWNSFYLNLNAVKHGKRSYLDALARCERCHDLYWRDEKHCKICHTTFELDFDLEERYAVHAATCR**********KILSSQLQSLKAAVHAIESVMPEDALVGAWTKSAHKLWVKRLRRTSSLAELLQVVADFVSAINEGWLYQWNVQIADTVMGEIIAFFPTMPQTSSALALWLVKLDAIIA**********************FPQR***

********LQAKALLKFYSEEKYPTKSEMEGLAAALDLTYKQVRTWFIEKRRRDKGDNGIVIPSSSSKKLKGFHGRNRLGVVSAKIVKKQDSLIHNKHLSLMVCNGTGKKKNAVTVLQDLLTSDYILKKVFRKDGPPLGVEFDSLPSQAFFRSKDSINSCPPL**************HDELDHQECCTNTDHVRKHGMGKGLMTAWRVMNPNGGTVPTGIDVADRQVTVVPQMATPL***********QQIVSLLKQRRLANNLQS*************DKGERLRQPNKEKCELAPDSVISQERLDQIAMLVDDEELELRELEVGPNPPTCCDHISTKGLHGCSLCRDLLAKFPPNSVKMKQPFGTQPWDSSPETVKKLFKVFHFLCTYAGIVDICSFTLDEFAQAFHDKDSMLLGKIHVALLKLLLSDVEMELGRGCPPHLSVSCKFLALLHSVENQEFFVEFWNKSLNPLTWTEILRQVLVAAGF***********LSKEMILMLKYGLRPGTLKGELFRILLEQGNNGSKVCQLARSSQIAELNLESTTEEVELLISSTLSSDITLFEKIASSTYRLRINTSKEADDFESDAEDIGS***************************RPKYLNCCKSENNMLTVYMEIDESHRGDVWLSGLMEGEYSDLTIDEKLNALVGLIDLVSAGSSIRMEDPTKAIAESVPSVRHYGSGAKIKRALPNQHSLPRPSWVHAGDFHGVRETNTSRELHPLDSFSLISKS*****************STDLHPMQSIYLGSDRRYNRYWLFLGPCNEYDPGHKRVYFESSEDGHWEVIDTEEALRALLSVLDDRGRQEALLIESLEKREAFLCQAMSSGLVNNTEIRHVAQ********************DNNLALSEIGKESLPSCGAIVLDVGKKGEEQHRMWSRLQEFDAWIWNSFYLNLNAVKHGKRSYLDALARCERCHDLYWRDEKHCKICHTTFELDFDLEERYAVHAATCRGKGDHLVSKHKILSSQLQSLKAAVHAIESVMPEDALVGAWTKSAHKLWVKRLRRTSSLAELLQVVADFVSAINEGWLYQWNVQIADTVMGEIIAFFPTMPQTSSALALWLVKLDAIIAPYLERVNSGKEDARMRCRGIFLFPQRPFI

****RKTPLQAKALLKFYSEEKYPTKSEMEGLAAALDLTYKQVRTWFIEKRRRD********************************************************KNAVTVLQDLLTSDYILKKVFRKDGPPLGVEFDSLPSQAFFRSKDSINSCPPLQENQTAKRKRKVSIHDELDHQECCTNTDHVRKHGMGKGLMTAWRVMNPNGGTV*****VADR**************KPP*R*K***QIVSLLKQRRLANNLQSKRKPVAKGKQVKLDKGERLRQPNKEKCELAPDSVISQERLDQIAMLVDDEELELRELEVGPNPPTCCDHISTKGLHGCSLCRDLLAKFPPNSVKMKQPFGTQPWDSSPETVKKLFKVFHFLCTYAGIVDICSFTLDEFAQAFHDKDSMLLGKIHVALLKLLLSDVEMELGRGCPPHLSVSCKFLALLHSVENQEFFVEFWNKSLNPLTWTEILRQVLVAAGFGSKQGSSRKESLSKEMILMLKYGLRPGTLKGELFRILLEQGNNGSKVCQLARSSQIAELNLESTTEEVELLISSTLSSDITLFEKIASSTYRLRINT********************************************************MLTVYMEIDESHRGDVWLSGLMEGEYSDLTIDEKLNALVGLIDLVSAGSSIRMEDPTKAIAESVPSVRH*********************************************************SSSVKDAKATEVSTDLHPMQSIYLGSDRRYNRYWLFLGPCNEYDPGHKRVYFESSEDGHWEVIDTEEALRALLSVLDDRGRQEALLIESLEKREAFLCQAMSSGLVN******************************************LPSCGAIVLDVGKKGEEQHRMWSRLQEFDAWIWNSFYLNLNAVKHGKRSYLDALARCERCHDLYWRDEKHCKICHTTFELDFDLEERYAVHAATCRGKGDHLVSKHKILSSQLQSLKAAVHAIESVMPEDALVGAWTKSAHKLWVKRLRRTSSLAELLQVVADFVSAINEGWLYQWNVQIADTVMGEIIAFFPTMPQTSSALALWLVKLDAIIAPYLER************************

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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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		1159
224131970		1152	predicted protein [Populus trichocarpa]	0.976	0.982	0.649	0.0
255567182		1120	hypothetical protein RCOM_1211540 [Ricin	0.949	0.982	0.635	0.0
359494654		1154	PREDICTED: uncharacterized protein LOC10	0.961	0.965	0.610	0.0
297736146		1188	unnamed protein product [Vitis vinifera]	0.964	0.941	0.598	0.0
324388022		1116	sequence-specific DNA-binding transcript	0.851	0.884	0.573	0.0
356527716		1164	PREDICTED: uncharacterized protein LOC10	0.870	0.866	0.590	0.0
356511419		1108	PREDICTED: uncharacterized protein LOC10	0.904	0.945	0.570	0.0
221222542		1156	putative protein [Coffea canephora]	0.855	0.858	0.552	0.0
326367377		1156	sequence-specific DNA binding protein [C	0.855	0.858	0.550	0.0
334186462		1131	Homeodomain-like transcriptional regulat	0.947	0.970	0.527	0.0

>gi\|224131970\|ref\|XP_002321223.1\| predicted protein [Populus trichocarpa] gi\|222861996\|gb\|EEE99538.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

 Score = 1466 bits (3796), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 750/1154 (64%), Positives = 891/1154 (77%), Gaps = 22/1154 (1%)

Query: 3    VKRKTPLQAKALLKFYS-EEKYPTKSEMEGLAAALDLTYKQVRTWFIEKRRRDKGDNGIV 61
            +KRK+PLQ +ALLKFY+ E+KYP++  ME LA   +LT+KQVR WFIEKRR +K  N ++
Sbjct: 1    MKRKSPLQLQALLKFYAAEDKYPSQRAMEDLAVVSNLTFKQVRGWFIEKRRSEKSKNELI 60

Query: 62   IPSSSSKKLKGFHGRNRLGVVS-AKIVKKQDSLIHN-------------KHLSLMVCNGT 107
             P   +KKL  F GR    V S A+ + KQ  L  +             KH    V    
Sbjct: 61   EPPRLTKKLSVFKGRKGAAVASDARKMLKQLELSASSTDKSNKPSSSKYKHAPSEVQGRI 120

Query: 108  GKKKNAVTVLQDLLTSDYILKKVFRKDGPPLGVEFDSLPSQAFFRSKDSINSCPPLQENQ 167
            GK+K  + ++QDLLTSDYIL K+FRKDGPPLG+EFDS P++AF   +D  NS P  QENQ
Sbjct: 121  GKRKKKLVLVQDLLTSDYILGKIFRKDGPPLGLEFDSPPTRAFHGCEDFRNSHPAHQENQ 180

Query: 168  TAKRKRKVSIHDELDHQECCTNTDHVRKHGMGKGLMTAWRVMNPNGGTVPTGIDVADRQV 227
             A ++ KVS+    D Q C   +  V+KHGMGKGLMT WRV NP+GG  PTGI     Q+
Sbjct: 181  RANKRGKVSMCAAFDDQNC-NESAPVKKHGMGKGLMTVWRVTNPDGGDFPTGIHCGGSQI 239

Query: 228  TVVPQMATPLSQKPPL-RKKRAQQIVSLLKQRRLANNLQSKRKPVAKGKQVKLDKGERLR 286
            TV PQ++TP+ +K PL +KKR   + SL+KQR L   LQ KRKP  K ++V+  + E  +
Sbjct: 240  TVTPQISTPVPRKQPLQKKKRRPPVSSLVKQRMLQKELQEKRKPSVKRREVESKRDEIQK 299

Query: 287  QPNKEKCELAPDSVISQERLDQIAMLVDDEELELRELEVGPNPPTCCDHISTKGLHGCSL 346
            Q  +EKCELA + +++QERL+Q AMLVDDEELELREL  GPNP TC +H +   L GCSL
Sbjct: 300  QSFREKCELALERLMNQERLNQFAMLVDDEELELRELRAGPNPLTCTEHFAANRLFGCSL 359

Query: 347  CRDLLAKFPPNSVKMKQPFGTQPWDSSPETVKKLFKVFHFLCTYAGIVDICSFTLDEFAQ 406
            C+DLL KFPPNSVK+KQPF  QPWDSSPE VKKLFKVFHFL TY+  VDIC FTLDE AQ
Sbjct: 360  CKDLLVKFPPNSVKLKQPFAMQPWDSSPEAVKKLFKVFHFLYTYSVTVDICPFTLDELAQ 419

Query: 407  AFHDKDSMLLGKIHVALLKLLLSDVEMELGRGCPPHLSVSCKFLALLHSVENQEFFVEFW 466
            AFHDKDS LLGKIHVALLKLLLSDVE E+  G  PHLS+SCKFLALLHSVE+QEF VEFW
Sbjct: 420  AFHDKDSFLLGKIHVALLKLLLSDVETEISSGLLPHLSISCKFLALLHSVEDQEFVVEFW 479

Query: 467  NKSLNPLTWTEILRQVLVAAGFGSKQGSSRKESLSKEMILMLKYGLRPGTLKGELFRILL 526
              SLNPLTWTEIL QVL+AAGFGSKQG  R+E LSKEM LM+KYGL PGTLKGELF++L 
Sbjct: 480  KNSLNPLTWTEILCQVLIAAGFGSKQGGFRREVLSKEMSLMVKYGLHPGTLKGELFQLLS 539

Query: 527  EQGNNGSKVCQLARSSQIAELNLESTTEEVELLISSTLSSDITLFEKIASSTYRLRINT- 585
             QGNNG KV  LA+SSQI ELNL  TT+E+ELLI STLSSDITLFEKI+SST+RLRINT 
Sbjct: 540  VQGNNGLKVSDLAKSSQIVELNLAGTTDELELLICSTLSSDITLFEKISSSTFRLRINTL 599

Query: 586  SKEADDFESDAEDIGSVDDNSDDDDTCSNRDDSECNSENQRQRRPKYLNCCKSENNMLTV 645
            +KEA  F+SD ED G V ++  D+   S+  +S+C+SEN   R  K ++  K +N MLT 
Sbjct: 600  AKEASGFQSDTEDSGIVHEDFHDNGA-SSSSNSDCDSENSSPRNLKLIDYPKRKNKMLTF 658

Query: 646  YMEIDESHRGDVWLSGLMEGEYSDLTIDEKLNALVGLIDLVSAGSSIRMEDPTKAIAESV 705
              EIDES  G+VWL GLMEGEYSDL+I+EKLN LV LIDLVSAGSSIR+ED  K   ESV
Sbjct: 659  ENEIDESRPGEVWLLGLMEGEYSDLSIEEKLNGLVALIDLVSAGSSIRLEDLAKPTVESV 718

Query: 706  PSVRHYGSGAKIKRALPNQHSLPRPSWVHAGDFHGVRETNTSRELHPLDSFSLISKSCGK 765
            P++ H+ SGAKIKR+   + ++PRPSWVHAG  +  +E  TS +  P+DS  L SK  GK
Sbjct: 719  PNIYHHCSGAKIKRSSSTKDNVPRPSWVHAGQINVTKEAYTSSKFFPVDSSVLFSKFDGK 778

Query: 766  EK-SSSVKDAKATEVSTDLHPMQSIYLGSDRRYNRYWLFLGPCNEYDPGHKRVYFESSED 824
            +K S   K+ +   +  +LHPMQSI+LGSDRRYNRYWLFLGPCN YDPGHKRVYFESSED
Sbjct: 779  DKLSGKEKETEGMGLEINLHPMQSIFLGSDRRYNRYWLFLGPCNSYDPGHKRVYFESSED 838

Query: 825  GHWEVIDTEEALRALLSVLDDRGRQEALLIESLEKREAFLCQAMSSGLVNNTEIRHVAQS 884
            GHWEVIDTEEALRALLSVLDDRGR+EALLIESLEKRE FLCQ MSS +VN++ + +  QS
Sbjct: 839  GHWEVIDTEEALRALLSVLDDRGRREALLIESLEKRETFLCQEMSSKMVNDSGVGYFTQS 898

Query: 885  DQSELDLVREDSSSPVSDVDNNLALSEIGKESLPSCGAIVLDVGKKGEEQHRMWSRLQEF 944
            DQSEL+ VREDSSSPVSDVDNNL L++I  +SLP   AIVL+ GKKG+E+++ W+RL++F
Sbjct: 899  DQSELETVREDSSSPVSDVDNNLTLTDIANDSLPPMSAIVLETGKKGKEENQKWNRLRQF 958

Query: 945  DAWIWNSFYLNLNAVKHGKRSYLDALARCERCHDLYWRDEKHCKICHTTFELDFDLEERY 1004
            D WIWN FY +LNAVK  KRSYL++L RCE CHDLYWRDEKHCKICHTTFELDFDLEERY
Sbjct: 959  DTWIWNCFYCDLNAVKRSKRSYLESLRRCETCHDLYWRDEKHCKICHTTFELDFDLEERY 1018

Query: 1005 AVHAATCRGKGDHLV-SKHKILSSQLQSLKAAVHAIESVMPEDALVGAWTKSAHKLWVKR 1063
            A+H+ATCR K D+++  KHK+LSS+LQSLKAAV+AIE+VMPEDALVGAWTKSAH+LWV+R
Sbjct: 1019 AIHSATCRQKEDNVMCPKHKVLSSKLQSLKAAVYAIETVMPEDALVGAWTKSAHRLWVRR 1078

Query: 1064 LRRTSSLAELLQVVADFVSAINEGWLYQWNV-QIADTVMGEIIAFFPTMPQTSSALALWL 1122
            LRRTSSLAELLQVVADFV+AINE WL Q N+ Q + T M EII  FPTMPQTSSALALWL
Sbjct: 1079 LRRTSSLAELLQVVADFVAAINEDWLCQCNLAQGSSTYMEEIITCFPTMPQTSSALALWL 1138

Query: 1123 VKLDAIIAPYLERV 1136
            +KLD +I+PYLE++
Sbjct: 1139 MKLDELISPYLEKI 1152

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|255567182\|ref\|XP_002524572.1\| hypothetical protein RCOM_1211540 [Ricinus communis] gi\|223536125\|gb\|EEF37780.1\| hypothetical protein RCOM_1211540 [Ricinus communis]	Back alignment and taxonomy information

>gi\|359494654\|ref\|XP_002263797.2\| PREDICTED: uncharacterized protein LOC100241125 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|297736146\|emb\|CBI24184.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|324388022\|gb\|ADY38784.1\| sequence-specific DNA-binding transcription factor [Coffea arabica]	Back alignment and taxonomy information

>gi\|356527716\|ref\|XP_003532454.1\| PREDICTED: uncharacterized protein LOC100792062 [Glycine max]	Back alignment and taxonomy information

>gi\|356511419\|ref\|XP_003524424.1\| PREDICTED: uncharacterized protein LOC100802783 [Glycine max]	Back alignment and taxonomy information

>gi\|221222542\|gb\|ABZ89177.1\| putative protein [Coffea canephora]	Back alignment and taxonomy information

>gi\|326367377\|gb\|ADZ55295.1\| sequence-specific DNA binding protein [Coffea arabica]	Back alignment and taxonomy information

>gi\|334186462\|ref\|NP_193011.5\| Homeodomain-like transcriptional regulator [Arabidopsis thaliana] gi\|332657775\|gb\|AEE83175.1\| Homeodomain-like transcriptional regulator [Arabidopsis thaliana]	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		1159
TAIR\|locus:2032505		1705	HB-1 "homeobox-1" [Arabidopsis	0.193	0.131	0.353	9.6e-71
TAIR\|locus:2167628		1694	RLT2 "RINGLET 2" [Arabidopsis	0.122	0.083	0.442	2.4e-64

TAIR\|locus:2032505 HB-1 "homeobox-1" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 313 (115.2 bits), Expect = 9.6e-71, Sum P(6) = 9.6e-71
 Identities = 83/235 (35%), Positives = 119/235 (50%)

Query:   264 LQSKRKPVAKGKQVKLDKGERLRQPNKEKCELAPDSVISQERLDQIAMXXXXXXXXXXXX 323
             LQ + +   K KQ    + E+     K   E A    I++E +D I              
Sbjct:   443 LQRENERAEKKKQKDEIRREKDAIRRKLAIEKATARRIAKESMDLIEDEQLELMELAAIS 502

Query:   324 XXGPNPPTCCDHISTKGLHGCSLCRDLLAKFPPNSVKMKQPFGTQPWDSSPETVKKLFKV 383
                P+     DH + + L    + RD L+ FPP S+++K PF   PW  S ETV  L  V
Sbjct:   503 KGLPSVLQL-DHDTLQNLE---VYRDSLSTFPPKSLQLKMPFAISPWKDSDETVGNLLMV 558

Query:   384 FHFLCTYAGIVDICSFTLDEFAQAFHDKDSMLLGKIHVALLKLLLSDVEMEL-----GRG 438
             + FL +++ ++D+  FTLDEF QAFHD DS LLG+IHV LL+ ++ DVE        G G
Sbjct:   559 WRFLISFSDVLDLWPFTLDEFIQAFHDYDSRLLGEIHVTLLRSIIRDVEDVARTPFSGIG 618

Query:   439 CPPHLSVSCK--FLALLHSVENQEFFVEFWNKSLNPLTWTEILRQVLVAAGFGSK 491
                + + + +     ++       F +  W K LNPLTW EILRQ+ ++AGFG K
Sbjct:   619 NNQYTTANPEGGHPQIVEGAYAWGFDIRSWKKHLNPLTWPEILRQLALSAGFGPK 673

GO:0005634 "nucleus" evidence=ISM;ISS

GO:0006355 "regulation of transcription, DNA-dependent" evidence=ISS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0009630 "gravitropism" evidence=RCA

GO:0005515 "protein binding" evidence=IPI

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=IGI

TAIR\|locus:2167628 RLT2 "RINGLET 2" [Arabidopsis thaliana (taxid:3702)]	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

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		1159
pfam02791		61	pfam02791, DDT, DDT domain	2e-13
cd00086		59	cd00086, homeodomain, Homeodomain; DNA binding dom	6e-11
smart00389		57	smart00389, HOX, Homeodomain	1e-10
pfam00046		57	pfam00046, Homeobox, Homeobox domain	7e-09
smart00571		63	smart00571, DDT, domain in different transcription	2e-07
pfam05920		40	pfam05920, Homeobox_KN, Homeobox KN domain	1e-04

>gnl\|CDD\|202398 pfam02791, DDT, DDT domain	Back alignment and domain information

 Score = 65.7 bits (161), Expect = 2e-13
 Identities = 26/59 (44%), Positives = 38/59 (64%), Gaps = 1/59 (1%)

Query: 375 ETVKKLFKVFHFLCTYAGIVDICSFTLDEFAQAFHDKDS-MLLGKIHVALLKLLLSDVE 432
           E    L  V+ FL T+  ++ +  FTLD+F +A    DS  LLG++H+ALLKLL++D E
Sbjct: 2   EAFGDLLMVWEFLNTFGEVLGLSPFTLDDFEEALLCTDSEELLGEVHIALLKLLVADEE 60

This domain is approximately 60 residues in length, and is predicted to be a DNA binding domain. The DDT domain is named after (DNA binding homeobox and Different Transcription factors). It is exclusively associated with nuclear domains, and is thought to be arranged into three alpha helices. Length = 61

>gnl\|CDD\|238039 cd00086, homeodomain, Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner	Back alignment and domain information

>gnl\|CDD\|197696 smart00389, HOX, Homeodomain	Back alignment and domain information

>gnl\|CDD\|200956 pfam00046, Homeobox, Homeobox domain	Back alignment and domain information

>gnl\|CDD\|214726 smart00571, DDT, domain in different transcription and chromosome remodeling factors	Back alignment and domain information

>gnl\|CDD\|203350 pfam05920, Homeobox_KN, Homeobox KN domain	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		1159
KOG1473		1414	consensus Nucleosome remodeling factor, subunit NU	100.0
PF02791		61	DDT: DDT domain; InterPro: IPR004022 This domain i	99.62
smart00571		63	DDT domain in different transcription and chromoso	99.51
KOG0484		125	consensus Transcription factor PHOX2/ARIX, contain	99.31
KOG0843		197	consensus Transcription factor EMX1 and related HO	99.24
KOG2251		228	consensus Homeobox transcription factor [Transcrip	99.24
KOG0489		261	consensus Transcription factor zerknullt and relat	99.23
KOG0488		309	consensus Transcription factor BarH and related HO	99.23
KOG0850		245	consensus Transcription factor DLX and related pro	99.21
KOG0842		307	consensus Transcription factor tinman/NKX2-3, cont	99.18
KOG0487		308	consensus Transcription factor Abd-B, contains HOX	99.11
KOG0492		246	consensus Transcription factor MSH, contains HOX d	99.1
KOG0485		268	consensus Transcription factor NKX-5.1/HMX1, conta	99.08
KOG0494		332	consensus Transcription factor CHX10 and related H	99.07
PF00046		57	Homeobox: Homeobox domain not present here.; Inter	99.05
KOG0848		317	consensus Transcription factor Caudal, contains HO	99.05
PF15613		38	WHIM2: WSTF, HB1, Itc1p, MBD9 motif 2	98.93
KOG0493		342	consensus Transcription factor Engrailed, contains	98.93
KOG0844		408	consensus Transcription factor EVX1, contains HOX	98.91
KOG0491		194	consensus Transcription factor BSH, contains HOX d	98.89
smart00389		56	HOX Homeodomain. DNA-binding factors that are invo	98.88
TIGR01565		58	homeo_ZF_HD homeobox domain, ZF-HD class. This mod	98.85
cd00086		59	homeodomain Homeodomain; DNA binding domains invol	98.84
KOG0483		198	consensus Transcription factor HEX, contains HOX a	98.84
PF15614		46	WHIM3: WSTF, HB1, Itc1p, MBD9 motif 3	98.82
COG5576		156	Homeodomain-containing transcription factor [Trans	98.79
KOG0486		351	consensus Transcription factor PTX1, contains HOX	98.79
KOG0847		288	consensus Transcription factor, contains HOX domai	98.68
KOG4577		383	consensus Transcription factor LIM3, contains LIM	98.5
KOG3802		398	consensus Transcription factor OCT-1, contains POU	98.45
KOG0490		235	consensus Transcription factor, contains HOX domai	98.44
KOG1245		1404	consensus Chromatin remodeling complex WSTF-ISWI,	98.36
KOG0849		354	consensus Transcription factor PRD and related pro	98.12
KOG0775		304	consensus Transcription factor SIX and related HOX	97.78
PF05066		72	HARE-HTH: HB1, ASXL, restriction endonuclease HTH	97.61
PF15612		50	WHIM1: WSTF, HB1, Itc1p, MBD9 motif 1; PDB: 2Y9Z_B	97.47
KOG1168		385	consensus Transcription factor ACJ6/BRN-3, contain	97.44
KOG0774		334	consensus Transcription factor PBX and related HOX	97.0
PF05920		40	Homeobox_KN: Homeobox KN domain; InterPro: IPR0084	96.77
KOG2252		558	consensus CCAAT displacement protein and related h	96.54
KOG0490		235	consensus Transcription factor, contains HOX domai	96.01
KOG1146		1406	consensus Homeobox protein [General function predi	93.35
PF11569		56	Homez: Homeodomain leucine-zipper encoding, Homez;	84.7

>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]	Back alignment and domain information

Probab=100.00  E-value=2e-34  Score=346.04  Aligned_cols=299  Identities=23%  Similarity=0.262  Sum_probs=224.6

Q ss_pred             CCCCCCCCCChhHHHhHHHHHHHHhhccccccccCCCHHHHHHHhc-cCCcchHHHHHHHHHHHHHhhhhhhhcCCCCCC
Q 001088          364 PFGTQPWDSSPETVKKLFKVFHFLCTYAGIVDICSFTLDEFAQAFH-DKDSMLLGKIHVALLKLLLSDVEMELGRGCPPH  442 (1159)
Q Consensus       364 p~~~~p~~~s~e~V~~LL~Vw~FL~~F~~vL~L~pFTlDDFv~Al~-d~ds~LL~EIH~aLLk~ii~d~Ed~~~~~~~~~  442 (1159)
                      |-+.....++.++|.++|+||+|||+|+.+|.|+||+|+|||+||. ..+|.||+||||||||+|+++ ||..++.+++.
T Consensus       179 P~SSedi~IPne~Vm~alsIYevLRsF~~~LrisPF~feDFcaAL~~~~~ssLlaeVHvaLLrA~lr~-eD~~~Thfs~~  257 (1414)
T KOG1473|consen  179 PESSEDIGIPNEHVMDALSIYEVLRSFSRQLRISPFRFEDFCAALISHEQSSLLAEVHVALLRALLRE-EDRLSTHFSPL  257 (1414)
T ss_pred             CCcccccCCcHHHHHHHHHHHHHHHhhcceEEeCCccHHHHHHHHHhcCchhHHHHHHHHHHHHHhhh-hhhcccccCcc
Confidence            3333444455799999999999999999999999999999999998 899999999999999999999 78888888887


Q ss_pred             CCcchhhhhhhhhhcchhhhhHhhhhcCCCCcHHHHHHHHHHHhcC--CCCccchhhhhhhHHHHHHHhhccccccchhh
Q 001088          443 LSVSCKFLALLHSVENQEFFVEFWNKSLNPLTWTEILRQVLVAAGF--GSKQGSSRKESLSKEMILMLKYGLRPGTLKGE  520 (1159)
Q Consensus       443 ~~~~~~~~~~~~~v~~~~~~i~~w~~~Ln~lTWpEiLrq~~~~aG~--gp~~~~~~~~~~~~~~~~m~~~~L~pgTvK~a  520 (1159)
                      ..+++        |+.-       -.++|.||||||||||+-|.|+  ||.|..++.                       
T Consensus       258 d~Kds--------vnI~-------l~liD~lTWPevLrqY~ea~~~ad~~v~~~~n~-----------------------  299 (1414)
T KOG1473|consen  258 DSKDS--------VNID-------LYLIDTLTWPEVLRQYFEADKHADGPVWDIFNP-----------------------  299 (1414)
T ss_pred             ccccc--------eeee-------eehhccccHHHHHHHHHHhccccCcchhhhhcc-----------------------
Confidence            77776        3432       2458899999999999988766  555543220                       


Q ss_pred             HHHHHHhhCCCCCchhHhhhhhhhhhhccccchHHHHHhhhhccccchhhhhhhccccceeccccCCCcCccCCcccccC
Q 001088          521 LFRILLEQGNNGSKVCQLARSSQIAELNLESTTEEVELLISSTLSSDITLFEKIASSTYRLRINTSKEADDFESDAEDIG  600 (1159)
Q Consensus       521 af~vLs~~g~~gl~v~e~a~~iQk~~lr~l~tsk~~ea~i~~~LsrD~~LFer~apsty~vr~~~~k~~~d~esd~ed~~  600 (1159)
                                                                                                      
T Consensus       300 --------------------------------------------------------------------------------  299 (1414)
T KOG1473|consen  300 --------------------------------------------------------------------------------  299 (1414)
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             CCCCCCCCCCCCCCCCCCcccccccccccccccccccccccccccccccccccccccccccccccCCCCCCHHHHHHHHH
Q 001088          601 SVDDNSDDDDTCSNRDDSECNSENQRQRRPKYLNCCKSENNMLTVYMEIDESHRGDVWLSGLMEGEYSDLTIDEKLNALV  680 (1159)
Q Consensus       601 ~vded~d~~~~~~~~~~~e~~~~~~~~~~~~~~~~~K~~~~~~~~~~eIDEs~~ge~wl~~L~egeY~dLsiEERL~aLv  680 (1159)
                                                                                  =+.+.+|....|+.||++|.
T Consensus       300 ------------------------------------------------------------fv~~~eY~~~pv~~klkILQ  319 (1414)
T KOG1473|consen  300 ------------------------------------------------------------FVVEDEYPYRPVSNKLKILQ  319 (1414)
T ss_pred             ------------------------------------------------------------ccccccccccchhhhHHHHH
Confidence                                                                        02345899999999999999


Q ss_pred             HHHhhhccCCcccccchhhhhhhc--cccccccCccccccccCccccCCCCCCCCCCCCCCCccccccccCCCCCChhhh
Q 001088          681 GLIDLVSAGSSIRMEDPTKAIAES--VPSVRHYGSGAKIKRALPNQHSLPRPSWVHAGDFHGVRETNTSRELHPLDSFSL  758 (1159)
Q Consensus       681 aL~~l~l~g~sIR~~d~~r~~~E~--~~k~~~~~~~~~~K~~~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~p~e~~~~  758 (1159)
                      +||++++..+++|.+...+-.-+.  .=|.. +         ......+.    -+++.+.+.+|+.+  +.+.+....+
T Consensus       320 ~L~Dq~l~~~s~R~e~~se~~~~~ddhcrf~-~---------d~~~~lc~----Et~prvvhlEcv~h--P~~~~~s~~~  383 (1414)
T KOG1473|consen  320 FLCDQFLTVNSLRDEIDSEGEIEYDDHCRFC-H---------DLGDLLCC----ETCPRVVHLECVFH--PRFAVPSAFW  383 (1414)
T ss_pred             HHHHHHHHHHHHHHHHhcccceeeccccccc-C---------cccceeec----ccCCceEEeeecCC--ccccCCCccc
Confidence            999999999999993221100000  00000 0         00000000    11244445555544  4455666778


Q ss_pred             hhhhcccccccchhhHhhhhhhhhcCCcccccCcccCCCCeeEEEeCCCCCCCCCCcceEEecCCCCcEEEecCHHHHHH
Q 001088          759 ISKSCGKEKSSSVKDAKATEVSTDLHPMQSIYLGSDRRYNRYWLFLGPCNEYDPGHKRVYFESSEDGHWEVIDTEEALRA  838 (1159)
Q Consensus       759 ~~~~~~~ek~~~~~krEe~~~a~e~~~~R~~pLG~DR~~nRYW~F~~~~~~~dp~~grifVE~~~~g~W~~ydt~eeld~  838 (1159)
                      ++.+|..+|..+..+.- ....+....+|..|+|+||+++.||+..          +||+||+.+...-+||+|.-++..
T Consensus       384 e~evc~~hkvngvvd~v-l~~~K~~~~iR~~~iG~dr~gr~ywfi~----------rrl~Ie~~det~l~yysT~pqly~  452 (1414)
T KOG1473|consen  384 ECEVCNIHKVNGVVDCV-LPPSKNVDSIRHTPIGRDRYGRKYWFIS----------RRLRIEGMDETLLWYYSTCPQLYH  452 (1414)
T ss_pred             hhhhhhhhccCcccccc-cChhhcccceeccCCCcCccccchhcee----------eeeEEecCCCcEEEEecCcHHHHH
Confidence            88888777777655221 1112345558999999999999999998          899999988888889999999999


Q ss_pred             HHHhhccCChhHHHHHHHHHHHHHHHHHHHh
Q 001088          839 LLSVLDDRGRQEALLIESLEKREAFLCQAMS  869 (1159)
Q Consensus       839 Ll~~Ld~rG~RE~~Lk~~L~~~~~~I~~~m~  869 (1159)
                      ||..|| |.+=|..|...|..+.+.|...|.
T Consensus       453 ll~cLd-~~~~e~~L~d~i~~~~ee~~rqM~  482 (1414)
T KOG1473|consen  453 LLRCLD-RTYVEMYLCDGIWERREEIIRQMG  482 (1414)
T ss_pred             HHHHhc-hHHHHHhhccchhhhHHHHHHhcc
Confidence            999999 777799999999999999999995

>PF02791 DDT: DDT domain; InterPro: IPR004022 This domain is predicted to be a DNA binding domain	Back alignment and domain information

>smart00571 DDT domain in different transcription and chromosome remodeling factors	Back alignment and domain information

>KOG0484 consensus Transcription factor PHOX2/ARIX, contains HOX domain [Transcription]	Back alignment and domain information

>KOG0843 consensus Transcription factor EMX1 and related HOX domain proteins [Transcription]	Back alignment and domain information

>KOG2251 consensus Homeobox transcription factor [Transcription]	Back alignment and domain information

>KOG0489 consensus Transcription factor zerknullt and related HOX domain proteins [General function prediction only]	Back alignment and domain information

>KOG0488 consensus Transcription factor BarH and related HOX domain proteins [General function prediction only]	Back alignment and domain information

>KOG0850 consensus Transcription factor DLX and related proteins with LIM Zn-binding and HOX domains [Transcription]	Back alignment and domain information

>KOG0842 consensus Transcription factor tinman/NKX2-3, contains HOX domain [Transcription]	Back alignment and domain information

>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription]	Back alignment and domain information

>KOG0492 consensus Transcription factor MSH, contains HOX domain [General function prediction only]	Back alignment and domain information

>KOG0485 consensus Transcription factor NKX-5	Back alignment and domain information

>KOG0494 consensus Transcription factor CHX10 and related HOX domain proteins [General function prediction only]	Back alignment and domain information

>PF00046 Homeobox: Homeobox domain not present here	Back alignment and domain information

>KOG0848 consensus Transcription factor Caudal, contains HOX domain [Transcription]	Back alignment and domain information

>PF15613 WHIM2: WSTF, HB1, Itc1p, MBD9 motif 2	Back alignment and domain information

>KOG0493 consensus Transcription factor Engrailed, contains HOX domain [General function prediction only]	Back alignment and domain information

>KOG0844 consensus Transcription factor EVX1, contains HOX domain [Transcription]	Back alignment and domain information

>KOG0491 consensus Transcription factor BSH, contains HOX domain [General function prediction only]	Back alignment and domain information

>smart00389 HOX Homeodomain	Back alignment and domain information

>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class	Back alignment and domain information

>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner	Back alignment and domain information

>KOG0483 consensus Transcription factor HEX, contains HOX and HALZ domains [Transcription]	Back alignment and domain information

>PF15614 WHIM3: WSTF, HB1, Itc1p, MBD9 motif 3	Back alignment and domain information

>COG5576 Homeodomain-containing transcription factor [Transcription]	Back alignment and domain information

>KOG0486 consensus Transcription factor PTX1, contains HOX domain [Transcription]	Back alignment and domain information

>KOG0847 consensus Transcription factor, contains HOX domain [Transcription]	Back alignment and domain information

>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]	Back alignment and domain information

>KOG3802 consensus Transcription factor OCT-1, contains POU and HOX domains [Transcription]	Back alignment and domain information

>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]	Back alignment and domain information

>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]	Back alignment and domain information

>KOG0849 consensus Transcription factor PRD and related proteins, contain PAX and HOX domains [Transcription]	Back alignment and domain information

>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription]	Back alignment and domain information

>PF05066 HARE-HTH: HB1, ASXL, restriction endonuclease HTH domain; InterPro: IPR007759 DNA-directed RNA polymerases 2	Back alignment and domain information

>PF15612 WHIM1: WSTF, HB1, Itc1p, MBD9 motif 1; PDB: 2Y9Z_B 2Y9Y_B	Back alignment and domain information

>KOG1168 consensus Transcription factor ACJ6/BRN-3, contains POU and HOX domains [Transcription]	Back alignment and domain information

>KOG0774 consensus Transcription factor PBX and related HOX domain proteins [Transcription]	Back alignment and domain information

>PF05920 Homeobox_KN: Homeobox KN domain; InterPro: IPR008422 This entry represents a homeobox transcription factor KN domain conserved from fungi to human and plants []	Back alignment and domain information

>KOG2252 consensus CCAAT displacement protein and related homeoproteins [Transcription]	Back alignment and domain information

>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]	Back alignment and domain information

>KOG1146 consensus Homeobox protein [General function prediction only]	Back alignment and domain information

>PF11569 Homez: Homeodomain leucine-zipper encoding, Homez; PDB: 2YS9_A	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		1159
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-15
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-10
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-10
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-06
2dmp_A		89	Zinc fingers and homeoboxes protein 2; homeobox do	2e-11
2ecb_A		89	Zinc fingers and homeoboxes protein 1; homeobox do	2e-11
2da5_A		75	Zinc fingers and homeoboxes protein 3; homeobox do	5e-10
2dn0_A		76	Zinc fingers and homeoboxes protein 3; triple home	3e-09
3nau_A		66	Zinc fingers and homeoboxes protein 2; ZHX2, corep	2e-08
2cqx_A		72	LAG1 longevity assurance homolog 5; homeodomain, D	2e-08
1x2m_A		64	LAG1 longevity assurance homolog 6; homeobox domai	2e-07
2d5v_A		164	Hepatocyte nuclear factor 6; transcription factor,	3e-07
1k61_A		60	Mating-type protein alpha-2; protein-DNA complex,	5e-07
1akh_A		61	Protein (mating-type protein A-1); complex (TWO DN	6e-07
1mnm_C		87	Protein (MAT alpha-2 transcriptional repressor); t	1e-06
1le8_B		83	Mating-type protein alpha-2; matalpha2, isothermal	2e-06
2xsd_C		164	POU domain, class 3, transcription factor 1; trans	2e-06
1du6_A		64	PBX1, homeobox protein PBX1; homeodomain, gene reg	3e-06
1au7_A		146	Protein PIT-1, GHF-1; complex (DNA-binding protein	3e-06
1puf_B		73	PRE-B-cell leukemia transcription factor-1; homeod	9e-06
1b72_B		87	Protein (PBX1); homeodomain, DNA, complex, DNA-bin	9e-06
2vi6_A		62	Homeobox protein nanog; homeodomain, DNA-binding,	1e-05
2ecc_A		76	Homeobox and leucine zipper protein homez; homeobo	1e-05
2kt0_A		84	Nanog, homeobox protein nanog; homeodomain, struct	2e-05
3nar_A		96	ZHX1, zinc fingers and homeoboxes protein 1; corep	2e-05
1e3o_C		160	Octamer-binding transcription factor 1; transcript	2e-05
2lk2_A		89	Homeobox protein TGIF1; NESG, structural genomics,	4e-05
1x2n_A		73	Homeobox protein pknox1; homeobox domain, structur	5e-05
3l1p_A		155	POU domain, class 5, transcription factor 1; POU,	6e-05
3a03_A		56	T-cell leukemia homeobox protein 2; homeodomain, d	6e-05
3k2a_A		67	Homeobox protein MEIS2; homeobox domain, DNA-bindi	6e-05
1wi3_A		71	DNA-binding protein SATB2; homeodomain, helix-turn	8e-05
2dmn_A		83	Homeobox protein TGIF2LX; TGFB-induced factor 2-li	1e-04
1ftt_A		68	TTF-1 HD, thyroid transcription factor 1 homeodoma	1e-04
3rkq_A		58	Homeobox protein NKX-2.5; helix-turn-helix, DNA bi	2e-04
3d1n_I		151	POU domain, class 6, transcription factor 1; prote	2e-04
2da3_A		80	Alpha-fetoprotein enhancer binding protein; homeob	3e-04
1ig7_A		58	Homeotic protein MSX-1; helix-turn-helix, transcri	3e-04
1nk2_P		77	Homeobox protein VND; homeodomain, DNA-binding pro	6e-04
2djn_A		70	Homeobox protein DLX-5; structural genomics, NPPSF	8e-04
2l9r_A		69	Homeobox protein NKX-3.1; structural genomics, nor	8e-04

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

 Score = 79.5 bits (195), Expect = 5e-15
 Identities = 83/632 (13%), Positives = 182/632 (28%), Gaps = 193/632 (30%)

Query: 578  TYR--LRINTSKEADDFE-SDAEDI-GSVDDNSDDDDTCSNRDDSECNSENQRQRRPKYL 633
             Y+  L +      D+F+  D +D+  S+    + D    ++D            R  + 
Sbjct: 17   QYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVS------GTLRLFWT 70

Query: 634  NCCKSENNMLTVYMEIDESHRGDV-WLSGLMEGEYSDLTIDEKLNALVGLIDLVSAGSSI 692
               K E     V   ++E  R +  +L   ++ E    ++  ++      I+        
Sbjct: 71   LLSKQEE---MVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRM-----YIEQRD----- 117

Query: 693  RM-EDPTKAIAESVPSVRHYGSGAKIKRALPNQHSLPRPS-WVHAGDFHGVRETNTSREL 750
            R+  D       +V  ++ Y    K+++AL       RP+  V      GV         
Sbjct: 118  RLYNDNQVFAKYNVSRLQPY---LKLRQALLEL----RPAKNV---LIDGV--------- 158

Query: 751  HPLDSFSLISKSCGKEKSSSVKDAKATEVSTDLHPMQSIYLGSDRRYNR-YWLFLGPCNE 809
                         GK   + V    A +V    + +Q       +   + +WL L  CN 
Sbjct: 159  ----------LGSGK---TWV----ALDVCLS-YKVQ------CKMDFKIFWLNLKNCNS 194

Query: 810  YD---------------PGHKRVYFESSEDGHWEVIDTEEALRALLSVLDDRGRQEALLI 854
             +                   R   + S +    +   +  LR LL     +  +  LL+
Sbjct: 195  PETVLEMLQKLLYQIDPNWTSRS--DHSSNIKLRIHSIQAELRRLLK---SKPYENCLLV 249

Query: 855  ----ESLEKREAFL--CQAMSSGLVNNTEIRHVAQSDQSELDLVREDSSSPVSDVDNNLA 908
                ++ +   AF   C+ +            +    +   D +   +++ +S   +++ 
Sbjct: 250  LLNVQNAKAWNAFNLSCKIL------------LTTRFKQVTDFLSAATTTHISLDHHSMT 297

Query: 909  LSE------------IGKESLPS--CGAIVLDVGKKGEEQHRMWSRLQEFDAWIWNSFYL 954
            L+                + LP          +    E      +    +        ++
Sbjct: 298  LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWK-------HV 350

Query: 955  NLNAVKHGKRSYLDALARCE--RCHD-----------------LYWRD------EKHCKI 989
            N + +     S L+ L   E  +  D                 L W D            
Sbjct: 351  NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNK 410

Query: 990  CHTTFELDFDLEE-RYAVHAATC--RGKGDHLVSKHKILSSQLQSLKAAVHAIESVMPED 1046
             H    ++   +E   ++ +     + K ++  + H+ +       K            D
Sbjct: 411  LHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD 470

Query: 1047 A---------LVGAWTKSAHKL-----------WVKR-LRRT-------SSLAELLQVVA 1078
                      L     +   ++           ++++ +R          S+   LQ + 
Sbjct: 471  QYFYSHIGHHLKNI--EHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLK 528

Query: 1079 DFVSAINEGWLYQWNVQIADTVMGEIIAFFPT 1110
             +   I +      N    + ++  I+ F P 
Sbjct: 529  FYKPYICD------NDPKYERLVNAILDFLPK 554

PyMOL of 1vt4

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

>2dmp_A Zinc fingers and homeoboxes protein 2; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 89	Back alignment and structure

>2ecb_A Zinc fingers and homeoboxes protein 1; homeobox domain, transcription factor, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1 Length = 89	Back alignment and structure

>2da5_A Zinc fingers and homeoboxes protein 3; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 75	Back alignment and structure

>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein, KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 76	Back alignment and structure

>3nau_A Zinc fingers and homeoboxes protein 2; ZHX2, corepressor, homeodomain, domain swapping, structural oxford protein production facility, OPPF; 2.70A {Homo sapiens} Length = 66	Back alignment and structure

>2cqx_A LAG1 longevity assurance homolog 5; homeodomain, DNA binding domain, transcription, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.1 Length = 72	Back alignment and structure

>1x2m_A LAG1 longevity assurance homolog 6; homeobox domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: a.4.1.1 Length = 64	Back alignment and structure

>2d5v_A Hepatocyte nuclear factor 6; transcription factor, transcription-DNA complex; 2.00A {Rattus norvegicus} PDB: 1s7e_A Length = 164	Back alignment and structure

>1k61_A Mating-type protein alpha-2; protein-DNA complex, homeodomain, hoogsteen base PAIR, transcription/DNA complex; HET: 5IU; 2.10A {Synthetic} SCOP: a.4.1.1 Length = 60	Back alignment and structure

>1akh_A Protein (mating-type protein A-1); complex (TWO DNA-binding proteins/DNA), complex, DNA- binding protein, DNA; HET: DNA; 2.50A {Saccharomyces cerevisiae} SCOP: a.4.1.1 PDB: 1f43_A 1yrn_A* Length = 61	Back alignment and structure

>1mnm_C Protein (MAT alpha-2 transcriptional repressor); transcription regulation, transcriptional repression, DNA- binding protein; HET: DNA; 2.25A {Saccharomyces cerevisiae} SCOP: a.4.1.1 Length = 87	Back alignment and structure

>1le8_B Mating-type protein alpha-2; matalpha2, isothermal titration calorimetry, protein-DNA complex, transcription/DNA complex; 2.30A {Saccharomyces cerevisiae} SCOP: a.4.1.1 PDB: 1akh_B* 1apl_C* 1yrn_B* Length = 83	Back alignment and structure

>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA complex, SOX; 2.05A {Mus musculus} Length = 164	Back alignment and structure

>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR {Mus musculus} SCOP: a.4.1.1 Length = 64	Back alignment and structure

>1au7_A Protein PIT-1, GHF-1; complex (DNA-binding protein/DNA), pituitary, CPHD, POU domain, transcription factor, transcription/DNA complex; HET: DNA; 2.30A {Rattus norvegicus} SCOP: a.4.1.1 a.35.1.1 Length = 146	Back alignment and structure

>1puf_B PRE-B-cell leukemia transcription factor-1; homeodomian, protein-DNA complex, HOX hexapeptide, TALE homeodomain, homeodomain interaction; 1.90A {Homo sapiens} SCOP: a.4.1.1 PDB: 1b8i_B* 2r5y_B* 2r5z_B* Length = 73	Back alignment and structure

>1b72_B Protein (PBX1); homeodomain, DNA, complex, DNA-binding protein, protein/DNA complex; HET: DNA; 2.35A {Homo sapiens} SCOP: a.4.1.1 PDB: 1lfu_P Length = 87	Back alignment and structure

>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription, transcription facto developmental protein, transcription regulation, NUC homeobox; 2.6A {Mus musculus} Length = 62	Back alignment and structure

>2ecc_A Homeobox and leucine zipper protein homez; homeobox domain, transcription factor, leucine zipper- containing factor, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1 Length = 76	Back alignment and structure

>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics, protein structure initiative, PSI, center for eukaryotic structural genomics; NMR {Homo sapiens} Length = 84	Back alignment and structure

>3nar_A ZHX1, zinc fingers and homeoboxes protein 1; corepressor, homeodomain, structural genomics, oxford production facility, OPPF, transcription; 2.60A {Homo sapiens} Length = 96	Back alignment and structure

>1e3o_C Octamer-binding transcription factor 1; transcription factor, POU domain, dimer, DNA binding; 1.9A {Homo sapiens} SCOP: a.4.1.1 a.35.1.1 PDB: 1gt0_C 1hf0_A* 1cqt_A* 1o4x_A 1oct_C* 1pou_A 1pog_A 1hdp_A Length = 160	Back alignment and structure

>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast structural genomics CON PSI-biology, transcription; NMR {Homo sapiens} Length = 89	Back alignment and structure

>1x2n_A Homeobox protein pknox1; homeobox domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.1.1 Length = 73	Back alignment and structure

>3l1p_A POU domain, class 5, transcription factor 1; POU, transcription factor DNA complex, pore, stem cells; HET: DNA; 2.80A {Mus musculus} PDB: 1ocp_A Length = 155	Back alignment and structure

>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental protein, DNA-binding, N gene regulation; 1.54A {Homo sapiens} Length = 56	Back alignment and structure

>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding, transcription, nucleus, phosphoprotein, DNA bindi protein; 1.95A {Homo sapiens} Length = 67	Back alignment and structure

>1wi3_A DNA-binding protein SATB2; homeodomain, helix-turn-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: a.4.1.1 Length = 71	Back alignment and structure

>2dmn_A Homeobox protein TGIF2LX; TGFB-induced factor 2-like protein, X-linked TGF(beta) induced transcription factor 2-like protein, TGIF-like on the X; NMR {Homo sapiens} Length = 83	Back alignment and structure

>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding protein; NMR {Rattus norvegicus} SCOP: a.4.1.1 Length = 68	Back alignment and structure

>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus, transcription-DNA CO; 1.70A {Homo sapiens} Length = 58	Back alignment and structure

>3d1n_I POU domain, class 6, transcription factor 1; protein-DNA complex, helix-turn-helix (HTH), DNA-binding, homeobox, nucleus, transcription regulation; 2.51A {Homo sapiens} Length = 151	Back alignment and structure

>2da3_A Alpha-fetoprotein enhancer binding protein; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics; NMR {Homo sapiens} Length = 80	Back alignment and structure

>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA complex; 2.20A {Mus musculus} SCOP: a.4.1.1 Length = 58	Back alignment and structure

>1nk2_P Homeobox protein VND; homeodomain, DNA-binding protein, embryonic development, complex (homeodomain/DNA); HET: DNA; NMR {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 1nk3_P* 1vnd_A 1qry_A Length = 77	Back alignment and structure

>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 70	Back alignment and structure

>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens} Length = 69	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		1159
3a03_A		56	T-cell leukemia homeobox protein 2; homeodomain, d	99.41
2vi6_A		62	Homeobox protein nanog; homeodomain, DNA-binding,	99.39
3a02_A		60	Homeobox protein aristaless; homeodomain, developm	99.39
2cra_A		70	Homeobox protein HOX-B13; DNA-binding, transcripti	99.38
1ahd_P		68	Antennapedia protein mutant; DNA binding protein/D	99.38
2hdd_A		61	Protein (engrailed homeodomain Q50K); DNA binding,	99.37
2l7z_A		73	Homeobox protein HOX-A13; gene regulation; NMR {Ho	99.37
1ig7_A		58	Homeotic protein MSX-1; helix-turn-helix, transcri	99.37
2h1k_A		63	IPF-1, pancreatic and duodenal homeobox 1, homeodo	99.37
1bw5_A		66	ISL-1HD, insulin gene enhancer protein ISL-1; DNA-	99.36
2dmt_A		80	Homeobox protein BARH-like 1; homeobox domain, thr	99.36
2djn_A		70	Homeobox protein DLX-5; structural genomics, NPPSF	99.36
2da5_A		75	Zinc fingers and homeoboxes protein 3; homeobox do	99.36
2da2_A		70	Alpha-fetoprotein enhancer binding protein; homeob	99.35
1jgg_A		60	Segmentation protein EVEN-skipped; homeodomain, pr	99.35
2dn0_A		76	Zinc fingers and homeoboxes protein 3; triple home	99.35
2ecc_A		76	Homeobox and leucine zipper protein homez; homeobo	99.35
2dms_A		80	Homeobox protein OTX2; homeobox domain, three heli	99.35
2dmu_A		70	Homeobox protein goosecoid; homeobox domain, three	99.34
2kt0_A		84	Nanog, homeobox protein nanog; homeodomain, struct	99.34
2da1_A		70	Alpha-fetoprotein enhancer binding protein; homeob	99.34
1wh5_A		80	ZF-HD homeobox family protein; structural genomics	99.33
1uhs_A		72	HOP, homeodomain only protein; structural genomics	99.33
2ly9_A		74	Zinc fingers and homeoboxes protein 1; structural	99.33
1ftt_A		68	TTF-1 HD, thyroid transcription factor 1 homeodoma	99.33
2da3_A		80	Alpha-fetoprotein enhancer binding protein; homeob	99.33
2hi3_A		73	Homeodomain-only protein; transcription; NMR {Mus	99.33
3rkq_A		58	Homeobox protein NKX-2.5; helix-turn-helix, DNA bi	99.32
2e1o_A		70	Homeobox protein PRH; DNA binding protein, structu	99.32
2ecb_A		89	Zinc fingers and homeoboxes protein 1; homeobox do	99.32
2dmq_A		80	LIM/homeobox protein LHX9; homeobox domain, three	99.32
2k40_A		67	Homeobox expressed in ES cells 1; thermostable hom	99.32
1zq3_P		68	PRD-4, homeotic bicoid protein; protein-DNA comple	99.32
3a01_A		93	Homeodomain-containing protein; homeodomain, prote	99.31
2cue_A		80	Paired box protein PAX6; homeobox domain, transcri	99.31
1yz8_P		68	Pituitary homeobox 2; DNA binding protein, transcr	99.3
1b8i_A		81	Ultrabithorax, protein (ultrabithorax homeotic pro	99.3
1nk2_P		77	Homeobox protein VND; homeodomain, DNA-binding pro	99.3
1wh7_A		80	ZF-HD homeobox family protein; homeobox domain, st	99.3
1akh_A		61	Protein (mating-type protein A-1); complex (TWO DN	99.29
2dmp_A		89	Zinc fingers and homeoboxes protein 2; homeobox do	99.29
2r5y_A		88	Homeotic protein sex combs reduced; homeodomain; H	99.29
1puf_A		77	HOX-1.7, homeobox protein HOX-A9; homeodomian, pro	99.29
2da4_A		80	Hypothetical protein DKFZP686K21156; homeobox doma	99.29
2m0c_A		75	Homeobox protein aristaless-like 4; structural gen	99.29
1k61_A		60	Mating-type protein alpha-2; protein-DNA complex,	99.29
1fjl_A		81	Paired protein; DNA-binding protein, paired BOX, t	99.27
1du6_A		64	PBX1, homeobox protein PBX1; homeodomain, gene reg	99.26
2cqx_A		72	LAG1 longevity assurance homolog 5; homeodomain, D	99.26
2l9r_A		69	Homeobox protein NKX-3.1; structural genomics, nor	99.25
3nar_A		96	ZHX1, zinc fingers and homeoboxes protein 1; corep	99.25
1b72_A		97	Protein (homeobox protein HOX-B1); homeodomain, DN	99.23
1puf_B		73	PRE-B-cell leukemia transcription factor-1; homeod	99.21
3nau_A		66	Zinc fingers and homeoboxes protein 2; ZHX2, corep	99.21
1le8_B		83	Mating-type protein alpha-2; matalpha2, isothermal	99.2
2e19_A		64	Transcription factor 8; homeobox domain, structura	99.2
1x2n_A		73	Homeobox protein pknox1; homeobox domain, structur	99.18
1b72_B		87	Protein (PBX1); homeodomain, DNA, complex, DNA-bin	99.17
1x2m_A		64	LAG1 longevity assurance homolog 6; homeobox domai	99.17
1au7_A		146	Protein PIT-1, GHF-1; complex (DNA-binding protein	99.16
1mnm_C		87	Protein (MAT alpha-2 transcriptional repressor); t	99.16
1e3o_C		160	Octamer-binding transcription factor 1; transcript	99.15
2cuf_A		95	FLJ21616 protein; homeobox domain, hepatocyte tran	99.15
2xsd_C		164	POU domain, class 3, transcription factor 1; trans	99.13
1lfb_A		99	Liver transcription factor (LFB1); transcription r	99.11
1wi3_A		71	DNA-binding protein SATB2; homeodomain, helix-turn	99.11
3d1n_I		151	POU domain, class 6, transcription factor 1; prote	99.09
2dmn_A		83	Homeobox protein TGIF2LX; TGFB-induced factor 2-li	99.08
2d5v_A		164	Hepatocyte nuclear factor 6; transcription factor,	99.05
3l1p_A		155	POU domain, class 5, transcription factor 1; POU,	99.05
2da6_A		102	Hepatocyte nuclear factor 1-beta; homeobox domain,	99.04
3k2a_A		67	Homeobox protein MEIS2; homeobox domain, DNA-bindi	99.04
2da7_A		71	Zinc finger homeobox protein 1B; homeobox domain,	98.7
2lk2_A		89	Homeobox protein TGIF1; NESG, structural genomics,	98.62
2nzz_A		37	Penetratin conjugated GAS (374-394) peptide; confo	97.75
2h8r_A		221	Hepatocyte nuclear factor 1-beta; trasncription fa	92.5
1ic8_A		194	Hepatocyte nuclear factor 1-alpha; transcription r	91.89

>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental protein, DNA-binding, N gene regulation; 1.54A {Homo sapiens}	Back alignment and structure

Probab=99.41  E-value=2e-14  Score=121.96  Aligned_cols=55  Identities=29%  Similarity=0.420  Sum_probs=51.0

Q ss_pred             cccCCHHHHHHHHHhHhhCCCCCHHHHHHHHHHcCCCCCceeeeccccccccccC
Q 001088            3 VKRKTPLQAKALLKFYSEEKYPTKSEMEGLAAALDLTYKQVRTWFIEKRRRDKGD   57 (1159)
Q Consensus         3 rTrfT~~Ql~~LE~~Fq~~~YPs~~~R~eLA~~LgLse~QVqVWFQNRRaK~KR~   57 (1159)
                      +|.||..|+..|+..|..++||+...|.+||..+||++.+|++||||||+|+|++
T Consensus         1 ~T~ft~~Ql~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNRR~k~kr~   55 (56)
T 3a03_A            1 MTSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKWRRQ   55 (56)
T ss_dssp             ---CCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHH
T ss_pred             CCccCHHHHHHHHHHHHhcCCcCHHHHHHHHHHhCcCHHHhhHhhHHhhhhhccc
Confidence            5899999999999999999999999999999999999999999999999999985

PyMOL of 3a03

>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription, transcription facto developmental protein, transcription regulation, NUC homeobox; 2.6A {Mus musculus}	Back alignment and structure

>3a02_A Homeobox protein aristaless; homeodomain, developmental protein, DNA-binding, N gene regulation; 1.00A {Drosophila melanogaster} PDB: 3lnq_A 3cmy_A	Back alignment and structure

>2cra_A Homeobox protein HOX-B13; DNA-binding, transcription regulation, helix-turn-helix, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1	Back alignment and structure

>1ahd_P Antennapedia protein mutant; DNA binding protein/DNA; HET: DNA; NMR {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 2hoa_A 1hom_A 1ftz_A	Back alignment and structure

>2hdd_A Protein (engrailed homeodomain Q50K); DNA binding, complex (DNA binding protein/DNA), transcription/DNA complex; HET: DNA; 1.90A {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 1hdd_C* 2jwt_A 3hdd_A 1p7j_A* 1p7i_A* 2hos_A 2hot_A 1du0_A* 1ztr_A 1enh_A 2p81_A	Back alignment and structure

>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB: 2ld5_A*	Back alignment and structure

>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA complex; 2.20A {Mus musculus} SCOP: a.4.1.1	Back alignment and structure

>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA complex, transcription/DNA complex; 2.42A {Mesocricetus auratus}	Back alignment and structure

>1bw5_A ISL-1HD, insulin gene enhancer protein ISL-1; DNA-binding protein, homeodomain, LIM domain; NMR {Rattus norvegicus} SCOP: a.4.1.1	Back alignment and structure

>2dmt_A Homeobox protein BARH-like 1; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>2da5_A Zinc fingers and homeoboxes protein 3; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2da2_A Alpha-fetoprotein enhancer binding protein; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics; NMR {Homo sapiens}	Back alignment and structure

>1jgg_A Segmentation protein EVEN-skipped; homeodomain, protein-DNA complex, transcription/DNA complex; 2.00A {Drosophila melanogaster} SCOP: a.4.1.1	Back alignment and structure

>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein, KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2ecc_A Homeobox and leucine zipper protein homez; homeobox domain, transcription factor, leucine zipper- containing factor, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1	Back alignment and structure

>2dms_A Homeobox protein OTX2; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Mus musculus}	Back alignment and structure

>2dmu_A Homeobox protein goosecoid; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics, protein structure initiative, PSI, center for eukaryotic structural genomics; NMR {Homo sapiens}	Back alignment and structure

>2da1_A Alpha-fetoprotein enhancer binding protein; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics; NMR {Homo sapiens}	Back alignment and structure

>1wh5_A ZF-HD homeobox family protein; structural genomics, zinc finger homeobox family protein, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.4.1.1	Back alignment and structure

>1uhs_A HOP, homeodomain only protein; structural genomics, cardiac development, riken structural genomics/proteomics initiative, RSGI, transcription; NMR {Mus musculus} SCOP: a.4.1.1	Back alignment and structure

>2ly9_A Zinc fingers and homeoboxes protein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens}	Back alignment and structure

>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding protein; NMR {Rattus norvegicus} SCOP: a.4.1.1	Back alignment and structure

>2da3_A Alpha-fetoprotein enhancer binding protein; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics; NMR {Homo sapiens}	Back alignment and structure

>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP: a.4.1.1	Back alignment and structure

>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus, transcription-DNA CO; 1.70A {Homo sapiens}	Back alignment and structure

>2e1o_A Homeobox protein PRH; DNA binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.1.1	Back alignment and structure

>2ecb_A Zinc fingers and homeoboxes protein 1; homeobox domain, transcription factor, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1	Back alignment and structure

>2dmq_A LIM/homeobox protein LHX9; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2k40_A Homeobox expressed in ES cells 1; thermostable homeodomain variant, DNA binding protein, developmental protein, disease mutation, DNA-binding; NMR {Homo sapiens}	Back alignment and structure

>1zq3_P PRD-4, homeotic bicoid protein; protein-DNA complex, double helix, helix-turn-helix; NMR {Drosophila melanogaster} SCOP: a.4.1.1	Back alignment and structure

>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex, DNA-binding, homeobox, NUC developmental protein; 2.70A {Drosophila melanogaster}	Back alignment and structure

>2cue_A Paired box protein PAX6; homeobox domain, transcription factor, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1	Back alignment and structure

>1yz8_P Pituitary homeobox 2; DNA binding protein, transcription/DNA complex; NMR {Homo sapiens} SCOP: a.4.1.1 PDB: 2l7f_P 2lkx_A* 2l7m_P	Back alignment and structure

>1b8i_A Ultrabithorax, protein (ultrabithorax homeotic protein IV); DNA binding, homeodomain, homeotic proteins, development, specificity; HET: DNA; 2.40A {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 9ant_A*	Back alignment and structure

>1nk2_P Homeobox protein VND; homeodomain, DNA-binding protein, embryonic development, complex (homeodomain/DNA); HET: DNA; NMR {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 1nk3_P* 1vnd_A 1qry_A	Back alignment and structure

>1wh7_A ZF-HD homeobox family protein; homeobox domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: a.4.1.1	Back alignment and structure

>1akh_A Protein (mating-type protein A-1); complex (TWO DNA-binding proteins/DNA), complex, DNA- binding protein, DNA; HET: DNA; 2.50A {Saccharomyces cerevisiae} SCOP: a.4.1.1 PDB: 1f43_A 1yrn_A*	Back alignment and structure

>2dmp_A Zinc fingers and homeoboxes protein 2; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A {Drosophila melanogaster} PDB: 2r5z_A*	Back alignment and structure

>1puf_A HOX-1.7, homeobox protein HOX-A9; homeodomian, protein-DNA complex, HOX hexapeptide, TALE homeodomain, homeodomain interaction; 1.90A {Mus musculus} SCOP: a.4.1.1 PDB: 1san_A	Back alignment and structure

>2da4_A Hypothetical protein DKFZP686K21156; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2m0c_A Homeobox protein aristaless-like 4; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens}	Back alignment and structure

>1k61_A Mating-type protein alpha-2; protein-DNA complex, homeodomain, hoogsteen base PAIR, transcription/DNA complex; HET: 5IU; 2.10A {Synthetic} SCOP: a.4.1.1	Back alignment and structure

>1fjl_A Paired protein; DNA-binding protein, paired BOX, transcription regulation; HET: DNA; 2.00A {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 3a01_B	Back alignment and structure

>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR {Mus musculus} SCOP: a.4.1.1	Back alignment and structure

>2cqx_A LAG1 longevity assurance homolog 5; homeodomain, DNA binding domain, transcription, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.1	Back alignment and structure

>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens}	Back alignment and structure

>3nar_A ZHX1, zinc fingers and homeoboxes protein 1; corepressor, homeodomain, structural genomics, oxford production facility, OPPF, transcription; 2.60A {Homo sapiens}	Back alignment and structure

>1b72_A Protein (homeobox protein HOX-B1); homeodomain, DNA, complex, DNA-binding protein, protein/DNA complex; HET: DNA; 2.35A {Homo sapiens} SCOP: a.4.1.1	Back alignment and structure

>1puf_B PRE-B-cell leukemia transcription factor-1; homeodomian, protein-DNA complex, HOX hexapeptide, TALE homeodomain, homeodomain interaction; 1.90A {Homo sapiens} SCOP: a.4.1.1 PDB: 1b8i_B* 2r5y_B* 2r5z_B*	Back alignment and structure

>3nau_A Zinc fingers and homeoboxes protein 2; ZHX2, corepressor, homeodomain, domain swapping, structural oxford protein production facility, OPPF; 2.70A {Homo sapiens}	Back alignment and structure

>1le8_B Mating-type protein alpha-2; matalpha2, isothermal titration calorimetry, protein-DNA complex, transcription/DNA complex; 2.30A {Saccharomyces cerevisiae} SCOP: a.4.1.1 PDB: 1akh_B* 1apl_C* 1yrn_B*	Back alignment and structure

>2e19_A Transcription factor 8; homeobox domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>1x2n_A Homeobox protein pknox1; homeobox domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.1.1	Back alignment and structure

>1b72_B Protein (PBX1); homeodomain, DNA, complex, DNA-binding protein, protein/DNA complex; HET: DNA; 2.35A {Homo sapiens} SCOP: a.4.1.1 PDB: 1lfu_P	Back alignment and structure

>1x2m_A LAG1 longevity assurance homolog 6; homeobox domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: a.4.1.1	Back alignment and structure

>1au7_A Protein PIT-1, GHF-1; complex (DNA-binding protein/DNA), pituitary, CPHD, POU domain, transcription factor, transcription/DNA complex; HET: DNA; 2.30A {Rattus norvegicus} SCOP: a.4.1.1 a.35.1.1	Back alignment and structure

>1mnm_C Protein (MAT alpha-2 transcriptional repressor); transcription regulation, transcriptional repression, DNA- binding protein; HET: DNA; 2.25A {Saccharomyces cerevisiae} SCOP: a.4.1.1	Back alignment and structure

>1e3o_C Octamer-binding transcription factor 1; transcription factor, POU domain, dimer, DNA binding; 1.9A {Homo sapiens} SCOP: a.4.1.1 a.35.1.1 PDB: 1gt0_C 1hf0_A* 1cqt_A* 1o4x_A 1oct_C* 1pou_A 1pog_A 1hdp_A	Back alignment and structure

>2cuf_A FLJ21616 protein; homeobox domain, hepatocyte transcription factor, structural genomics, loop insertion, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1	Back alignment and structure

>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA complex, SOX; 2.05A {Mus musculus}	Back alignment and structure

>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A	Back alignment and structure

>1wi3_A DNA-binding protein SATB2; homeodomain, helix-turn-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: a.4.1.1	Back alignment and structure

>3d1n_I POU domain, class 6, transcription factor 1; protein-DNA complex, helix-turn-helix (HTH), DNA-binding, homeobox, nucleus, transcription regulation; 2.51A {Homo sapiens}	Back alignment and structure

>2dmn_A Homeobox protein TGIF2LX; TGFB-induced factor 2-like protein, X-linked TGF(beta) induced transcription factor 2-like protein, TGIF-like on the X; NMR {Homo sapiens}	Back alignment and structure

>2d5v_A Hepatocyte nuclear factor 6; transcription factor, transcription-DNA complex; 2.00A {Rattus norvegicus} PDB: 1s7e_A	Back alignment and structure

>3l1p_A POU domain, class 5, transcription factor 1; POU, transcription factor DNA complex, pore, stem cells; HET: DNA; 2.80A {Mus musculus} PDB: 1ocp_A	Back alignment and structure

>2da6_A Hepatocyte nuclear factor 1-beta; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding, transcription, nucleus, phosphoprotein, DNA bindi protein; 1.95A {Homo sapiens} SCOP: a.4.1.1	Back alignment and structure

>2da7_A Zinc finger homeobox protein 1B; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast structural genomics CON PSI-biology, transcription; NMR {Homo sapiens}	Back alignment and structure

>2nzz_A Penetratin conjugated GAS (374-394) peptide; conformational analysis, G protein, GAS subunit, A2A adenosine receptor, cell-penetrating peptides; NMR {Synthetic} PDB: 2o00_A	Back alignment and structure

>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo, protein-DNA, human disease; 3.20A {Homo sapiens}	Back alignment and structure

>1ic8_A Hepatocyte nuclear factor 1-alpha; transcription regulation, DNA-binding, POU domain, diabetes, disease mutation, MODY3, transcription/DNA comple; 2.60A {Homo sapiens} SCOP: a.4.1.1 a.35.1.1	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Alignment Graph	Length	Definition	E-value
Query		1159
d1k61a_		60	a.4.1.1 (A:) mat alpha2 Homeodomain {Baker's yeast	2e-09
d2cqxa1		59	a.4.1.1 (A:8-66) LAG1 longevity assurance homolog	2e-08
d9anta_		56	a.4.1.1 (A:) Antennapedia Homeodomain {Drosophila	2e-08
d1le8a_		53	a.4.1.1 (A:) Mating type protein A1 Homeodomain {B	3e-08
d2craa1		58	a.4.1.1 (A:7-64) Homeobox protein hox-b13 {Human (	6e-08
d2cuea1		68	a.4.1.1 (A:7-74) Paired box protein pax6 {Human (H	8e-08
d1x2na1		62	a.4.1.1 (A:6-67) Homeobox protein pknox1 {Human (H	8e-08
d1bw5a_		66	a.4.1.1 (A:) Insulin gene enhancer protein isl-1 {	9e-08
d2e1oa1		57	a.4.1.1 (A:8-64) Homeobox protein prh {Human (Homo	1e-07
d1x2ma1		52	a.4.1.1 (A:8-59) Lag1 longevity assurance homolog	1e-07
d1fjla_		65	a.4.1.1 (A:) Paired protein {Fruit fly (Drosophila	1e-07
d2ecba1		76	a.4.1.1 (A:8-83) Zinc fingers and homeoboxes prote	2e-07
d1yz8p1		60	a.4.1.1 (P:1-60) Pituitary homeobox 2 {Human (Homo	4e-07
d1ftta_		68	a.4.1.1 (A:) Thyroid transcription factor 1 homeod	5e-07
d1b72a_		88	a.4.1.1 (A:) Homeobox protein hox-b1 {Human (Homo	5e-07
d1p7ia_		53	a.4.1.1 (A:) Engrailed Homeodomain {Drosophila mel	7e-07
d1jgga_		57	a.4.1.1 (A:) Even-skipped homeodomain {Fruit fly (	7e-07
d1pufa_		77	a.4.1.1 (A:) Homeobox protein hox-a9 {Mouse (Mus m	8e-07
d1au7a1		58	a.4.1.1 (A:103-160) Pit-1 POU homeodomain {Rat (Ra	9e-07
d1pufb_		73	a.4.1.1 (B:) pbx1 {Human (Homo sapiens) [TaxId: 96	1e-06
d1s7ea1		50	a.4.1.1 (A:103-152) Hepatocyte nuclear factor 6 {M	2e-06
d1ig7a_		58	a.4.1.1 (A:) Msx-1 homeodomain {Mouse (Mus musculu	2e-06
d1zq3p1		67	a.4.1.1 (P:2-68) Homeotic bicoid protein {Fruit fl	6e-06
d1e3oc1		57	a.4.1.1 (C:104-160) Oct-1 POU Homeodomain {Human (	7e-06
d1wh7a_		80	a.4.1.1 (A:) ZF-HD homeobox protein At4g24660 {Tha	1e-05
d1ocpa_		67	a.4.1.1 (A:) Oct-3 POU Homeodomain {Mouse (Mus mus	2e-05
d1wi3a_		71	a.4.1.1 (A:) DNA-binding protein SATB2 {Human (Hom	2e-05
d1vnda_		77	a.4.1.1 (A:) VND/NK-2 protein {Fruit fly (Drosophi	5e-05
d1lfba_		78	a.4.1.1 (A:) Hepatocyte nuclear factor 1a (LFB1/HN	7e-05
d1uhsa_		72	a.4.1.1 (A:) Homeodomain-only protein, Hop {Mouse	9e-05
d2cufa1		82	a.4.1.1 (A:8-89) Homeobox-containing protein 1, HM	2e-04
d2ecca1		76	a.4.1.1 (A:1-76) Homeobox-leucine zipper protein H	2e-04

>d1k61a_ a.4.1.1 (A:) mat alpha2 Homeodomain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 60	Back information, alignment and structure


class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: mat alpha2 Homeodomain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 52.5 bits (126), Expect = 2e-09
 Identities = 12/55 (21%), Positives = 24/55 (43%), Gaps = 3/55 (5%)

Query: 4  KRKTPLQAKALLKFYSEEK---YPTKSEMEGLAAALDLTYKQVRTWFIEKRRRDK 55
           R T    + L  ++++     Y     +E L     L+  Q++ W   +RR++K
Sbjct: 3  HRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEK 57

PyMOL of d1k61a_

>d2cqxa1 a.4.1.1 (A:8-66) LAG1 longevity assurance homolog 5, LASS5 {Mouse (Mus musculus) [TaxId: 10090]} Length = 59	Back information, alignment and structure

>d9anta_ a.4.1.1 (A:) Antennapedia Homeodomain {Drosophila melanogaster [TaxId: 7227]} Length = 56	Back information, alignment and structure

>d1le8a_ a.4.1.1 (A:) Mating type protein A1 Homeodomain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 53	Back information, alignment and structure

>d2craa1 a.4.1.1 (A:7-64) Homeobox protein hox-b13 {Human (Homo sapiens) [TaxId: 9606]} Length = 58	Back information, alignment and structure

>d2cuea1 a.4.1.1 (A:7-74) Paired box protein pax6 {Human (Homo sapiens) [TaxId: 9606]} Length = 68	Back information, alignment and structure

>d1x2na1 a.4.1.1 (A:6-67) Homeobox protein pknox1 {Human (Homo sapiens) [TaxId: 9606]} Length = 62	Back information, alignment and structure

>d1bw5a_ a.4.1.1 (A:) Insulin gene enhancer protein isl-1 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 66	Back information, alignment and structure

>d2e1oa1 a.4.1.1 (A:8-64) Homeobox protein prh {Human (Homo sapiens) [TaxId: 9606]} Length = 57	Back information, alignment and structure

>d1x2ma1 a.4.1.1 (A:8-59) Lag1 longevity assurance homolog 6, LASS6 {Mouse (Mus musculus) [TaxId: 10090]} Length = 52	Back information, alignment and structure

>d1fjla_ a.4.1.1 (A:) Paired protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 65	Back information, alignment and structure

>d2ecba1 a.4.1.1 (A:8-83) Zinc fingers and homeoboxes protein 1, ZHX1 {Human (Homo sapiens) [TaxId: 9606]} Length = 76	Back information, alignment and structure

>d1yz8p1 a.4.1.1 (P:1-60) Pituitary homeobox 2 {Human (Homo sapiens) [TaxId: 9606]} Length = 60	Back information, alignment and structure

>d1ftta_ a.4.1.1 (A:) Thyroid transcription factor 1 homeodomain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 68	Back information, alignment and structure

>d1b72a_ a.4.1.1 (A:) Homeobox protein hox-b1 {Human (Homo sapiens) [TaxId: 9606]} Length = 88	Back information, alignment and structure

>d1p7ia_ a.4.1.1 (A:) Engrailed Homeodomain {Drosophila melanogaster [TaxId: 7227]} Length = 53	Back information, alignment and structure

>d1jgga_ a.4.1.1 (A:) Even-skipped homeodomain {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 57	Back information, alignment and structure

>d1pufa_ a.4.1.1 (A:) Homeobox protein hox-a9 {Mouse (Mus musculus) [TaxId: 10090]} Length = 77	Back information, alignment and structure

>d1au7a1 a.4.1.1 (A:103-160) Pit-1 POU homeodomain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 58	Back information, alignment and structure

>d1pufb_ a.4.1.1 (B:) pbx1 {Human (Homo sapiens) [TaxId: 9606]} Length = 73	Back information, alignment and structure

>d1s7ea1 a.4.1.1 (A:103-152) Hepatocyte nuclear factor 6 {Mouse (Mus musculus) [TaxId: 10090]} Length = 50	Back information, alignment and structure

>d1ig7a_ a.4.1.1 (A:) Msx-1 homeodomain {Mouse (Mus musculus) [TaxId: 10090]} Length = 58	Back information, alignment and structure

>d1zq3p1 a.4.1.1 (P:2-68) Homeotic bicoid protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 67	Back information, alignment and structure

>d1e3oc1 a.4.1.1 (C:104-160) Oct-1 POU Homeodomain {Human (Homo sapiens) [TaxId: 9606]} Length = 57	Back information, alignment and structure

>d1wh7a_ a.4.1.1 (A:) ZF-HD homeobox protein At4g24660 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 80	Back information, alignment and structure

>d1ocpa_ a.4.1.1 (A:) Oct-3 POU Homeodomain {Mouse (Mus musculus) [TaxId: 10090]} Length = 67	Back information, alignment and structure

>d1wi3a_ a.4.1.1 (A:) DNA-binding protein SATB2 {Human (Homo sapiens) [TaxId: 9606]} Length = 71	Back information, alignment and structure

>d1vnda_ a.4.1.1 (A:) VND/NK-2 protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 77	Back information, alignment and structure

>d1lfba_ a.4.1.1 (A:) Hepatocyte nuclear factor 1a (LFB1/HNF1) {Rat (Rattus rattus) [TaxId: 10117]} Length = 78	Back information, alignment and structure

>d1uhsa_ a.4.1.1 (A:) Homeodomain-only protein, Hop {Mouse (Mus musculus) [TaxId: 10090]} Length = 72	Back information, alignment and structure

>d2cufa1 a.4.1.1 (A:8-89) Homeobox-containing protein 1, HMBOX1 (Flj21616) {Human (Homo sapiens) [TaxId: 9606]} Length = 82	Back information, alignment and structure

>d2ecca1 a.4.1.1 (A:1-76) Homeobox-leucine zipper protein Homez {Human (Homo sapiens) [TaxId: 9606]} Length = 76	Back information, alignment and structure

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		1159
d9anta_		56	Antennapedia Homeodomain {Drosophila melanogaster	99.54
d2craa1		58	Homeobox protein hox-b13 {Human (Homo sapiens) [Ta	99.51
d1jgga_		57	Even-skipped homeodomain {Fruit fly (Drosophila me	99.49
d1ig7a_		58	Msx-1 homeodomain {Mouse (Mus musculus) [TaxId: 10	99.48
d1p7ia_		53	Engrailed Homeodomain {Drosophila melanogaster [Ta	99.48
d2e1oa1		57	Homeobox protein prh {Human (Homo sapiens) [TaxId:	99.47
d1zq3p1		67	Homeotic bicoid protein {Fruit fly (Drosophila mel	99.44
d1vnda_		77	VND/NK-2 protein {Fruit fly (Drosophila melanogast	99.43
d1le8a_		53	Mating type protein A1 Homeodomain {Baker's yeast	99.41
d1uhsa_		72	Homeodomain-only protein, Hop {Mouse (Mus musculus	99.4
d1ftta_		68	Thyroid transcription factor 1 homeodomain {Rat (R	99.4
d1pufa_		77	Homeobox protein hox-a9 {Mouse (Mus musculus) [Tax	99.39
d1au7a1		58	Pit-1 POU homeodomain {Rat (Rattus norvegicus) [Ta	99.38
d1fjla_		65	Paired protein {Fruit fly (Drosophila melanogaster	99.37
d2cuea1		68	Paired box protein pax6 {Human (Homo sapiens) [Tax	99.36
d1yz8p1		60	Pituitary homeobox 2 {Human (Homo sapiens) [TaxId:	99.36
d1e3oc1		57	Oct-1 POU Homeodomain {Human (Homo sapiens) [TaxId	99.35
d1bw5a_		66	Insulin gene enhancer protein isl-1 {Rat (Rattus n	99.34
d1b72a_		88	Homeobox protein hox-b1 {Human (Homo sapiens) [Tax	99.33
d1ocpa_		67	Oct-3 POU Homeodomain {Mouse (Mus musculus) [TaxId	99.33
d1s7ea1		50	Hepatocyte nuclear factor 6 {Mouse (Mus musculus)	99.29
d2cufa1		82	Homeobox-containing protein 1, HMBOX1 (Flj21616) {	99.27
d1wi3a_		71	DNA-binding protein SATB2 {Human (Homo sapiens) [T	99.26
d2ecba1		76	Zinc fingers and homeoboxes protein 1, ZHX1 {Human	99.24
d1lfba_		78	Hepatocyte nuclear factor 1a (LFB1/HNF1) {Rat (Rat	99.19
d2ecca1		76	Homeobox-leucine zipper protein Homez {Human (Homo	99.19
d1x2ma1		52	Lag1 longevity assurance homolog 6, LASS6 {Mouse (	99.14
d1wh7a_		80	ZF-HD homeobox protein At4g24660 {Thale cress (Ara	99.13
d1pufb_		73	pbx1 {Human (Homo sapiens) [TaxId: 9606]}	99.08
d2cqxa1		59	LAG1 longevity assurance homolog 5, LASS5 {Mouse (	99.04
d1k61a_		60	mat alpha2 Homeodomain {Baker's yeast (Saccharomyc	99.02
d1x2na1		62	Homeobox protein pknox1 {Human (Homo sapiens) [Tax	98.8
d2dlqa4		27	GLI-Krueppel family member HKR3 {Mouse (Mus muscul	90.02

>d9anta_ a.4.1.1 (A:) Antennapedia Homeodomain {Drosophila melanogaster [TaxId: 7227]}	Back information, alignment and structure

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Antennapedia Homeodomain
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.54  E-value=3.6e-16  Score=131.48  Aligned_cols=55  Identities=29%  Similarity=0.393  Sum_probs=53.8

Q ss_pred             cccCCHHHHHHHHHhHhhCCCCCHHHHHHHHHHcCCCCCceeeeccccccccccC
Q 001088            3 VKRKTPLQAKALLKFYSEEKYPTKSEMEGLAAALDLTYKQVRTWFIEKRRRDKGD   57 (1159)
Q Consensus         3 rTrfT~~Ql~~LE~~Fq~~~YPs~~~R~eLA~~LgLse~QVqVWFQNRRaK~KR~   57 (1159)
                      ||+||++|+..|+..|..++||+...|.+||..+||++++|+|||||||+|+|++
T Consensus         1 Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~~V~iWFQNrRak~kk~   55 (56)
T d9anta_           1 RQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKE   55 (56)
T ss_dssp             CCCCCHHHHHHHHHHHTTCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHC
T ss_pred             CCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCChhHeeeccccchhhhhhc
Confidence            7999999999999999999999999999999999999999999999999999985

PyMOL of d9anta_

>d2craa1 a.4.1.1 (A:7-64) Homeobox protein hox-b13 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1jgga_ a.4.1.1 (A:) Even-skipped homeodomain {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}	Back information, alignment and structure

>d1ig7a_ a.4.1.1 (A:) Msx-1 homeodomain {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1p7ia_ a.4.1.1 (A:) Engrailed Homeodomain {Drosophila melanogaster [TaxId: 7227]}	Back information, alignment and structure

>d2e1oa1 a.4.1.1 (A:8-64) Homeobox protein prh {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1zq3p1 a.4.1.1 (P:2-68) Homeotic bicoid protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}	Back information, alignment and structure

>d1vnda_ a.4.1.1 (A:) VND/NK-2 protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}	Back information, alignment and structure

>d1le8a_ a.4.1.1 (A:) Mating type protein A1 Homeodomain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d1uhsa_ a.4.1.1 (A:) Homeodomain-only protein, Hop {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1ftta_ a.4.1.1 (A:) Thyroid transcription factor 1 homeodomain {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

>d1pufa_ a.4.1.1 (A:) Homeobox protein hox-a9 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1au7a1 a.4.1.1 (A:103-160) Pit-1 POU homeodomain {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

>d1fjla_ a.4.1.1 (A:) Paired protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}	Back information, alignment and structure

>d2cuea1 a.4.1.1 (A:7-74) Paired box protein pax6 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1yz8p1 a.4.1.1 (P:1-60) Pituitary homeobox 2 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1e3oc1 a.4.1.1 (C:104-160) Oct-1 POU Homeodomain {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1bw5a_ a.4.1.1 (A:) Insulin gene enhancer protein isl-1 {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

>d1b72a_ a.4.1.1 (A:) Homeobox protein hox-b1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1ocpa_ a.4.1.1 (A:) Oct-3 POU Homeodomain {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1s7ea1 a.4.1.1 (A:103-152) Hepatocyte nuclear factor 6 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d2cufa1 a.4.1.1 (A:8-89) Homeobox-containing protein 1, HMBOX1 (Flj21616) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1wi3a_ a.4.1.1 (A:) DNA-binding protein SATB2 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2ecba1 a.4.1.1 (A:8-83) Zinc fingers and homeoboxes protein 1, ZHX1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1lfba_ a.4.1.1 (A:) Hepatocyte nuclear factor 1a (LFB1/HNF1) {Rat (Rattus rattus) [TaxId: 10117]}	Back information, alignment and structure

>d2ecca1 a.4.1.1 (A:1-76) Homeobox-leucine zipper protein Homez {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1x2ma1 a.4.1.1 (A:8-59) Lag1 longevity assurance homolog 6, LASS6 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1wh7a_ a.4.1.1 (A:) ZF-HD homeobox protein At4g24660 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}	Back information, alignment and structure

>d1pufb_ a.4.1.1 (B:) pbx1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2cqxa1 a.4.1.1 (A:8-66) LAG1 longevity assurance homolog 5, LASS5 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1k61a_ a.4.1.1 (A:) mat alpha2 Homeodomain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d1x2na1 a.4.1.1 (A:6-67) Homeobox protein pknox1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2dlqa4 g.37.1.1 (A:8-34) GLI-Krueppel family member HKR3 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure