Citrus Sinensis ID: 001101

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

MAPTRRSKSVNKRVAYTSEVASKKKAENADRSGKRKRKLSDMLGPQWSKEELERFYEAYRKYGKDWKKIAAAVRNRTAEMVEALFTMNRAYLSLPEGTASVVGLIAMMTDHYGILAGSDGEQESDEATGSSQKSQKCAGGKFQNPPPKGSDGPSPDLLNFQSAAPNYGCLSLLKKRRSGSRPRAVAKRTPRVPVSYSYDKDNTEKYISPIKQGLKPRLGSIDDDVAHEIALALTEASQRGGSLLVSQTPKRKRGKPSPVQKGSRTCDVSEMNSSKPHGSEMDEDGRELSLGSTDADNGYYSRDKIYLMDAETADTVEIQQKGKRYHSKKLKQEESVSNHLDDIKEACSGTEEGQDMVVMKGKFAMEIADEKNSRSYSKGSKKRSKKVLFKRDESSEFDALQTLADLSLMMPETTADTELSLQLKEEKPEAVNESKLKGNRSSTGVKDTAIKTSKLGKDCTDDVSVIPESEEGNHLTNSGNRTKRQKFLPIKLRMDATEELKKFISKGKRSLSASQSKHGKLVKPPEHTSSTDHEKEGNNSASSTAHVRTANQVNLPTKVRSRRKMNMQKLLIERDKMSSEDILKSSEDIFNDQNRTNSSFFDRAIKQKEQLSNCLSWYQVRVWCVSEWFYSTIDYPWFAKREFVEYLDHVGLSHVPRLTRVEWGVIRSSLGRPRRFSEQFLKEEKEKLNQYRESVRNHYSELRSGTKEGLPTDLARPLYVGQRIIAVHPRTREICDGSVLTVEHSRYRVQFDKRELGIEFVQDIDCMPLNPLENMPASLTRPNVAFGKFMDNFTELQMNGQPRERDIEGYMKFTPCENLETAYAPSHISPSTNYPINNLLQQHKGVSYTDSEVHVGSTGQAKEEDVLALSHLRHALDKKEAIVSELRCMNDEILENQKDGDNSFKDSELFKKHYAAILLQLNDINEQVASALFCLRQRNTYQGNTCLTGLKPMSGLGNLGGGLPNSFDHSAYQTPESGPHVVEVVESSRSKAQKMVDVAVQALSSLEKEGNGIERIEEAMDYVNNKLAGNDSGMPSIRSSTSADLVHSSRNSQDQQLETHTTNLLANSRAPDSTLNNSSDENSAHIPLELIAHCVAALFMIQRCTERDFPPADVALVLDSAVTSLQPCCSQNLPVYAEIQKCMGIIRNQILALIPTST

ccccccccccccccccccHHHHccccccccccHHccccccccccccccHHHHHHHHHHHHHHcccHHHHHHHHccccHHHHHHHHHHHHcccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHccccccccccccccccccccHHHHHHccccccccccccccccccHHHHHccccccccccccccccccccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccHHHHccccccccccccccccHHHHHHHHHHHHHHHccccccccEEEEEcccccccHHHHcccHHHHHHHHHcccccccccHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccEEEEEcccccccccEEEEEEEccEEEEEEccccccEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHcccccccccccccccccccccccccccccHHccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHcccccc

ccccccccEEcEEEEEEcccccccccccccccHHHHHHHHHHccccccHHHHHHHHHHHHHHcccHHHHHHHHccccHHHHHHHHHHHHHHHccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccHcccccccccccccHHHHccccccccccccccccccEEEEccccccHHccccccHHccccccccccccccHEEEEHHHHHcccccccccccccccccccccccccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccHEHHHHHHHHcccHHHcccHHHHHHHHHHcccccccccHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccHccccHHcccccEcccEEEEEccccccccccEEEEEccccEEEEEcccccccEEEcccHcccccccccccHHHHHccccccHHcccccHccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHcccccccccccccccEccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHccccc

maptrrsksvnKRVAYTSEVASKkkaenadrsgkrkrklsdmlgpqwsKEELERFYEAYRKYGKDWKKIAAAVRNRTAEMVEALFTMNRAylslpegtASVVGLIAMMTDHYgilagsdgeqesdeatgssqksqkcaggkfqnpppkgsdgpspdllnfqsaapnygCLSLLkkrrsgsrpravakrtprvpvsysydkdntekyispikqglkprlgsiddDVAHEIALALTEASqrggsllvsqtpkrkrgkpspvqkgsrtcdvsemnsskphgsemdedgrelslgstdadngyysrdkiylmdaetaDTVEIQQKgkryhskklkqeeSVSNHLDDikeacsgteegqDMVVMKGKFAMEIAdeknsrsyskgskkrskkvlfkrdessefdALQTLAdlslmmpettaDTELSLQLkeekpeavnesklkgnrsstgvkdtaiktsklgkdctddvsvipeseegnhltnsgnrtkrqkflpikLRMDATEELKKFISKGKrslsasqskhgklvkppehtsstdhekegnnsasstaHVRTanqvnlptkVRSRRKMNMQKLLIERDKMSSEDILKSSEdifndqnrtnssfFDRAIKQKEQLSNCLSWYQVRVWCVSEWFystidypwfaKREFVEYLDHvglshvprltrVEWGVirsslgrprrfSEQFLKEEKEKLNQYRESVRNHYSElrsgtkeglptdlarplyvGQRIIavhprtreicdgsvltvEHSRYrvqfdkrelgiefvqdidcmplnplenmpasltrpnvafgKFMDNFTElqmngqprerdiegymkftpcenletayapshispstnypinnllqqhkgvsytdsevhvgstgqakEEDVLALSHLRHALDKKEAIVSELRCMNDEilenqkdgdnsfkdsELFKKHYAAILLQLNDINEQVASALFCLRqrntyqgntcltglkpmsglgnlggglpnsfdhsayqtpesgpHVVEVVESSRSKAQKMVDVAVQALSSLEKEGNGIERIEEAMDYVNnklagndsgmpsirsstsadlvhssrnsqdqqLETHTtnllansrapdstlnnssdensahiPLELIAHCVAALFMIQrcterdfppaDVALVLDSAVtslqpccsqnlpvYAEIQKCMGIIRNQILALIPTST

maptrrsksvnkrvaytsevaskkkaenadrsgkrkrklsdmlgpqwskeeLERFYEAYRKYGKDWKKIAAAVRNRTAEMVEALFTMNRAYLSLPEGTASVVGLIAMMTDHYGILAGSDGEQESDEATGSSQKSQKCAGGKFQNPPPKGSDGPSPDLLNFQSAAPNYGCLSLlkkrrsgsrpravakrtprvpvsysydkdntekyispikqglkPRLGSIDDDVAHEIALALteasqrggsllvsqtpkrkrgkpspvqkgsrtcdvsemnsskphgsemdedgreLSLGSTDADNGYYSRDKIYLMDAETADTVEiqqkgkryhskklkqeesvsnhLDDIKEAcsgteegqdMVVMKGKFAMEIadeknsrsyskgskkrskkvlfkrdessefdALQTLADLSLMMPETTADTELSLQLKEEkpeavnesklkgnrsstgvkdtaiktsklgkdctddvsvipeseegnhltnsgnrtkrqkflpiKLRMDATEELKKFISkgkrslsasqskhgklvkppehtsstdhekegnnsasstahvrtanqvnlptkvrsrrKMNMQKLlierdkmsseDILKSSedifndqnrtnSSFFDRAIKQKEQLSNCLSWYQVRVWCVSEWFYSTIDYPWFAKREFVEYLDHVGlshvprltrvewgvirsslgrprrfseqfLKEEKEKLNQYRESVRNHYselrsgtkeglptdlarpLYVGQRIIAVHPRTREICdgsvltvehsryrvqfdkreLGIEFVQDIDCMPLNPLENMPASLTRPNVAFGKFMDNFTELQMNGQPRERDIEGYMKFTPCENLETAYAPSHISPSTNYPINNLLQQHKGVSYTDSEVHVGSTGQAKEEDVLALSHLRHALDKKEAIVSELRCMNDEILENQKDGDNSFKDSELFKKHYAAILLQLNDINEQVASALFCLRQRNTYQGNTCLTGLKPMSGLGNLGGGLPNSFDHSAYQTPESGPHVVEVVESSRSKAQKMVDVAVQALsslekegngIERIEEAMDYVNNKLAGNDSGMPSIRSSTSADLVHSSRNSQDQQLETHTtnllansrapdsTLNNSSDENSAHIPLELIAHCVAALFMIQRCTERDFPPADVALVLDSAVTSLQPCCSQNLPVYAEIQKCMGIIRNQILALIPTST

MAPTRRSKSVNKRVAYTSEVASKKKAENADRSGKRKRKLSDMLGPQWSKEELERFYEAYRKYGKDWKKIAAAVRNRTAEMVEALFTMNRAYLSLPEGTASVVGLIAMMTDHYGILAGSDGEQESDEATGSSQKSQKCAGGKFQNpppkgsdgpspdLLNFQSAAPNYGCLSLLKKRRSGSRPRAVAKRTPRVPVSYSYDKDNTEKYISPIKQGLKPRLGSIDDDVAHEIALALTEASQRGGSLLVSQTPKRKRGKPSPVQKGSRTCDVSEMNSSKPHGSEMDEDGRELSLGSTDADNGYYSRDKIYLMDAETADTVEIQQKGKRYHSKKLKQEESVSNHLDDIKEACSGTEEGQDMVVMKGKFAMEIADEknsrsyskgskkrskkvlfkrDESSEFDALQTLADLSLMMPETTADTELSLQLKEEKPEAVNESKLKGNRSSTGVKDTAIKTSKLGKDCTDDVSVIPESEEGNHLTNSGNRTKRQKFLPIKLRMDATEELKKFISKGKRSLSASQSKHGKLVKPPEHTSSTDHEKEGNNSASSTAHVRTANQVNLPTKVRSRRKMNMQKLLIERDKMSSEDILKSSEDIFNDQNRTNSSFFDRAIKQKEQLSNCLSWYQVRVWCVSEWFYSTIDYPWFAKREFVEYLDHVGLSHVPRLTRVEWGVIRSSLGRPRRFSEQFLKEEKEKLNQYRESVRNHYSELRSGTKEGLPTDLARPLYVGQRIIAVHPRTREICDGSVLTVEHSRYRVQFDKRELGIEFVQDIDCMPLNPLENMPASLTRPNVAFGKFMDNFTELQMNGQPRERDIEGYMKFTPCENLETAYAPSHISPSTNYPINNLLQQHKGVSYTDSEVHVGSTGQAKEEDVLALSHLRHALDKKEAIVSELRCMNDEILENQKDGDNSFKDSELFKKHYAAILLQLNDINEQVASALFCLRQRNTYQGNTCLTGLKPMSglgnlggglPNSFDHSAYQTPESGPHVVEVVESSRSKAQKMVDVAVQALSSLEKEGNGIERIEEAMDYVNNKLAGNDSGMPSIRSSTSADLVHSSRNSQDQQLETHTTNLLANSRAPDSTLNNSSDENSAHIPLELIAHCVAALFMIQRCTERDFPPADVALVLDSAVTSLQPCCSQNLPVYAEIQKCMGIIRNQILALIPTST

**************************************************ELERFYEAYRKYGKDWKKIAAAVRNRTAEMVEALFTMNRAYLSLPEGTASVVGLIAMMTDHYGILA**************************************************YGCLS*************************************************IDDDVAHEIALAL*****************************************************************YYSRDKIYLMDA**************************************************************************************************************************************************************************************************************************************************************************************************FDRAIKQKEQLSNCLSWYQVRVWCVSEWFYSTIDYPWFAKREFVEYLDHVGLSHVPRLTRVEWGVIRSSL*****************************************TDLARPLYVGQRIIAVHPRTREICDGSVLTVEHSRYRVQFDKRELGIEFVQDIDCMPLNPLENMPASLTRPNVAFGKFMDNFTEL**********IEGYMKFTPCENLETAYAPSHI***TNYPINNLLQQHKGVSY*****************VLALSHLRHALDKKEAIVSELRCMNDEIL*************ELFKKHYAAILLQLNDINEQVASALFCLRQRNTYQGNTCLTGLKPMSGLGNL*****************************************************************************************************************************HIPLELIAHCVAALFMIQRCTERDFPPADVALVLDSAVTSLQPCCSQNLPVYAEIQKCMGIIRNQILALI****

***************************************************LERFYEAYRKYGKDWKKIA*******AEMVEALFTMNRA******************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************NCLSWYQVRVWCVSEWFYSTIDYPWFAKREFVEYLDHVGLSHVPRLTRVEWGVIRSSLGRPRRFSEQFLKEEKEKLNQYRESVRN*********KEGLPTDLARPLYVGQRIIAVHPRTREICDGSVLTVEHSRYRVQFDKRELGIEFVQDIDCMPLNPLENMPASLTRPNVA*******************************************************************************DVLALSHLRHALDKKEAIVSELR**********************FKKHYAAILLQLNDINEQVASALFCLRQRN****************************************************AQKMVDVAVQAL*************EEAMD***************************************************************HIPLELIAHCVAALFMIQRCTERDFPPADVALVLDSAVTSLQPCCSQNLPVYAEIQKCMGIIRNQILALIPT**

*************VAYTSE***********************LGPQWSKEELERFYEAYRKYGKDWKKIAAAVRNRTAEMVEALFTMNRAYLSLPEGTASVVGLIAMMTDHYGILAGSD**********************************SPDLLNFQSAAPNYGCLSLLKK****************VPVSYSYDKDNTEKYISPIKQGLKPRLGSIDDDVAHEIALALTEASQRGGSLL******************************************ELSLGSTDADNGYYSRDKIYLMDAETADTVEIQQKGKRYHSKKLKQEESVSNHLDDIKEACSGTEEGQDMVVMKGKFAMEIAD********************KRDESSEFDALQTLADLSLMMPETTADTELSLQL***********************DTAIKTSKLGKDCTDDVSVIPESEEGNHLTNSGNRTKRQKFLPIKLRMDATEELKKFI****************************************AHVRTANQVNLPTKVRSRRKMNMQKLLIERDKMSSEDILKSSEDIFNDQNRTNSSFFDRAIKQKEQLSNCLSWYQVRVWCVSEWFYSTIDYPWFAKREFVEYLDHVGLSHVPRLTRVEWGVIRSSLGRPRRFSEQFLKEEKEKLNQYRESVRNHYSELRSGTKEGLPTDLARPLYVGQRIIAVHPRTREICDGSVLTVEHSRYRVQFDKRELGIEFVQDIDCMPLNPLENMPASLTRPNVAFGKFMDNFTELQMNGQPRERDIEGYMKFTPCENLETAYAPSHISPSTNYPINNLLQQHKGVSYTDSEVHVGSTGQAKEEDVLALSHLRHALDKKEAIVSELRCMNDEILENQKDGDNSFKDSELFKKHYAAILLQLNDINEQVASALFCLRQRNTYQGNTCLTGLKPMSGLGNLGGGLPNSFDHSAYQTPESGPHVVEVVESSRSKAQKMVDVAVQALSSLEKEGNGIERIEEAMDYVNNKLAGNDSGMP**********************ETHTTNLLANSRAPDSTLNNSSDENSAHIPLELIAHCVAALFMIQRCTERDFPPADVALVLDSAVTSLQPCCSQNLPVYAEIQKCMGIIRNQILALIPTST

*******KSVNKRVAYTSEV*************K*KRKLSDMLGPQWSKEELERFYEAYRKYGKDWKKIAAAVRNRTAEMVEALFTMNRAYLSLPEGTASVVGLIAMMTDHYGI*****************************************************GCLSL***********AVAKRTPRVPVSYSYDKDN**KY***************DDDVAHEIALALTEAS***************************************************************************************************************************************************************FDA*Q***DLSL************************************************************************************************************************************************************************************************FDRAIKQKEQLSNCLSWYQVRVWCVSEWFYSTIDYPWFAKREFVEYLDHVGLSHVPRLTRVEWGVIRSSLGRPRRFSEQFLKEEKEKLNQYRESVRNHYSELRSGTKEGLPTDLARPLYVGQRIIAVHPRTREICDGSVLTVEHSRYRVQFDKRELGIEFVQDIDCMPLNPLENMPASLTRPNVAFGKFMDNFTELQMNGQPRERDIEGYMKFTPCENLE***APSHISPSTNYPINNLLQQHKGVSY**********GQAKEEDVLALSHLRHALDKKEAIVSELRCMNDEILENQKDGDNSFKDSELFKKHYAAILLQLNDINEQVASALFCLRQRNTYQGNTCLTGLKP**************************PHVV*VVE*SRSKAQKMVDVAVQALSSLEKEGNGIERIEEAMDYVNNKLA*NDSGM*S**********************************************SAHIPLELIAHCVAALFMIQRCTERDFPPADVALVLDSAVTSLQPCCSQNLPVYAEIQKCMGIIRNQILALIPT**

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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MAPTRRSKSVNKRVAYTSEVASKKKAENADRSGKRKRKLSDMLGPQWSKEELERFYEAYRKYGKDWKKIAAAVRNRTAEMVEALFTMNRAYLSLPEGTASVVGLIAMMTDHYGILAGSDGEQESDEATGSSQKSQKCAGGKFQNPPPKGSDGPSPDLLNFQSAAPNYGCLSLLKKRRSGSRPRAVAKRTPRVPVSYSYDKDNTEKYISPIKQGLKPRLGSIDDDVAHEIALALTEASQRGGSLLVSQTPKRKRGKPSPVQKGSRTCDVSEMNSSKPHGSEMDEDGRELSLGSTDADNGYYSRDKIYLMDAETADTVEIQQKGKRYHSKKLKQEESVSNHLDDIKEACSGTEEGQDMVVMKGKFAMEIADEKNSRSYSKGSKKRSKKVLFKRDESSEFDALQTLADLSLMMPETTADTELSLQLKEEKPEAVNESKLKGNRSSTGVKDTAIKTSKLGKDCTDDVSVIPESEEGNHLTNSGNRTKRQKFLPIKLRMDATEELKKFISKGKRSLSASQSKHGKLVKPPEHTSSTDHEKEGNNSASSTAHVRTANQVNLPTKVRSRRKMNMQKLLIERDKMSSEDILKSSEDIFNDQNRTNSSFFDRAIKQKEQLSNCLSWYQVRVWCVSEWFYSTIDYPWFAKREFVEYLDHVGLSHVPRLTRVEWGVIRSSLGRPRRFSEQFxxxxxxxxxxxxxxxxxxxxxLRSGTKEGLPTDLARPLYVGQRIIAVHPRTREICDGSVLTVEHSRYRVQFDKRELGIEFVQDIDCMPLNPLENMPASLTRPNVAFGKFMDNFTELQMNGQPRERDIEGYMKFTPCENLETAYAPSHISPSTNYPINNLLQQHKGVSYTDSEVHVGSTGQAKEEDVLALSHLRHALDKKEAIVSELRCMNDEILENQKDGDNSFKDSELFKKHYAAILLQLNDINEQVASALFCLRQRNTYQGNTCLTGLKPMSGLGNLGGGLPNSFDHSAYQTPESGPHVVEVVESSRSKAQKMVDVAVQALSSLEKEGNGIERIEEAMDYVNNKLAGNDSGMPSIRSSTSADLVHSSRNSQDQQLETHTTNLLANSRAPDSTLNNSSDENSAHIPLELIAHCVAALFMIQRCTERDFPPADVALVLDSAVTSLQPCCSQNLPVYAEIQKCMGIIRNQILALIPTST

no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		1158	2.2.26 [Sep-21-2011]
Q6A332		1132	Protein ALWAYS EARLY 3 OS	yes	no	0.943	0.964	0.490	0.0
Q6A333		1051	Protein ALWAYS EARLY 2 OS	no	no	0.749	0.825	0.402	1e-159
Q6A331		971	Protein ALWAYS EARLY 1 OS	no	no	0.594	0.708	0.378	1e-125
Q8C735		542	Protein lin-9 homolog OS=	yes	no	0.253	0.540	0.294	3e-22
Q5TKA1		542	Protein lin-9 homolog OS=	yes	no	0.253	0.540	0.289	6e-22
Q4R8N2		542	Protein lin-9 homolog OS=	N/A	no	0.253	0.540	0.286	2e-21
Q5RHQ8		543	Protein lin-9 homolog OS=	yes	no	0.156	0.333	0.35	1e-19
P30630		644	Protein lin-9 OS=Caenorha	yes	no	0.149	0.268	0.324	3e-14

>sp\|Q6A332\|ALY3_ARATH Protein ALWAYS EARLY 3 OS=Arabidopsis thaliana GN=ALY3 PE=1 SV=1	Back alignment and function desciption

 Score = 1008 bits (2607), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 587/1196 (49%), Positives = 769/1196 (64%), Gaps = 104/1196 (8%)

Query: 1    MAPTRRSKSVNKRVAYTSEVASKKKAENADRSGKRKRKLSDMLGPQWSKEELERFYEAYR 60
            MAP+R  KS  K+      V+  K  E+  ++ +RKRKLSDMLGPQWSKEELERFYE YR
Sbjct: 1    MAPSRSKKSKYKKKPRAKAVSPHKDEESMSKTKQRKRKLSDMLGPQWSKEELERFYEGYR 60

Query: 61   KYGKDWKKIAAAVRNRTAEMVEALFTMNRAYLSLPEGTASVVGLIAMMTDHYGIL-AGSD 119
            K+GK+WKK+A  V +R+AEMVEAL+TMN+AYLSLPEGTASVVGL AMMTDHY +L  GSD
Sbjct: 61   KFGKEWKKVAGFVHSRSAEMVEALYTMNKAYLSLPEGTASVVGLTAMMTDHYSVLHGGSD 120

Query: 120  GEQESDEATGSSQKSQKCAGGKFQNPPPKGSDGPSPDLLNFQSAAPNYGCLSLLKKRRSG 179
             EQE++E   + + + K +  K  + P  G +G S D L F+S++   G +  LKKRR+ 
Sbjct: 121  SEQENNEGIETPRSAPKRSRVKSSDHPSIGLEGLS-DRLQFRSSS---GFMPSLKKRRTE 176

Query: 180  SRPRAVAKRTPRVPVSYSYDKDNTEKYISPIKQGLKPRLGSIDDDVAHEIALALTEASQR 239
            + PRAV KRTPR+P+SY+ +KD  E+Y+SP+K+GL  +    DDD+ HEIALAL EASQR
Sbjct: 177  TMPRAVGKRTPRIPISYTLEKDTRERYLSPVKRGLNQKGDDTDDDMEHEIALALAEASQR 236

Query: 240  GGSLLVSQTPKRKRGKPSPVQKGSRTCDVSEMNSSKPHGSEMDEDGRELSLGSTDADNGY 299
            GGS   S TP RK     P +KG R     ++  +K H ++M++   E SLGST+ADN  
Sbjct: 237  GGSTKNSHTPNRKAKMYPPDKKGERMRADIDLAIAKLHATDMEDVRCEPSLGSTEADNAD 296

Query: 300  YSRDKIYLMDAETADTVEIQQKGKRYHSKKLKQEESVSNHLDDIKEACSGTEEGQDMVVM 359
            YS  +  L   E +  VE QQKG+ Y+ +++  +E      +D KEACSGT+E   +   
Sbjct: 297  YSGGRNDLTHGEGSSAVEKQQKGRTYYRRRVGIKE------EDAKEACSGTDEAPSLGAP 350

Query: 360  KGKFAMEIADEKNSRSYSKGSKKRSKKVLFKRDESSEFDALQTLADLSLMMPETTADTEL 419
              KF  E   +    +Y K S+++SKK LF  DE +  DAL TLADLSLMMPET  DTE 
Sbjct: 351  DEKFEQEREGKALKFTY-KVSRRKSKKSLFTADEDTACDALHTLADLSLMMPETATDTES 409

Query: 420  SLQLKEEKPEAVNESKLKGNRSSTGVKDTAIKTSKLGKDCTDDVSVIPESEEGNHLTNSG 479
            S+Q +E+K      S  KG   ++  K ++++ SK  +  ++D+   PE E  +  ++S 
Sbjct: 410  SVQAEEKKAGEAYVSDFKGTDPASMSKSSSLRNSKQRRYGSNDL-CNPELERKSP-SSSL 467

Query: 480  NRTKRQKFLPIKLRMDATE-------------------ELKKFISKGKRSLSASQSKHGK 520
             + +RQK LP K+R +  +                   E  K + +GKRS S   S   K
Sbjct: 468  IQKRRQKALPAKVRENVLKDELAASSQVIEPCNSKGIGEEYKPVGRGKRSASIRNSHEKK 527

Query: 521  LVKPPEHTSSTDHEKEGNNSASSTAHVRTANQVNLPTKVRSRRKMNMQKLLIERDKMSSE 580
              K  +HTSS+++  E + SA S A ++   QVNLPTKVRSRRK+  +K L   D   SE
Sbjct: 528  SAKSHDHTSSSNNIVEEDESAPSNAVIK--KQVNLPTKVRSRRKIVTEKPLTIDDGKISE 585

Query: 581  DILKSSEDIFNDQNRTNSSFFDRAIKQKEQLSNCLSWYQVRVWCVSEWFYSTIDYPWFAK 640
             I                          E+ S+C+S ++ R WC+ EWFYS IDYPWFA+
Sbjct: 586  TI--------------------------EKFSHCISSFRARRWCIFEWFYSAIDYPWFAR 619

Query: 641  REFVEYLDHVGLSHVPRLTRVEWGVIRSSLGRPRRFSEQFLKEEKEKLNQYRESVRNHYS 700
            +EFVEYLDHVGL HVPRLTRVEWGVIRSSLG+PRRFSEQFLKEEKEKL  YR+SVR HY 
Sbjct: 620  QEFVEYLDHVGLGHVPRLTRVEWGVIRSSLGKPRRFSEQFLKEEKEKLYLYRDSVRKHYD 679

Query: 701  ELRSGTKEGLPTDLARPLYVGQRIIAVHPRTREICDGSVLTVEHSRYRVQFDKRELGIEF 760
            EL +G +EGLP DLARPL V QR+I +HP++REI DG+VLTV+H RYR+QFD  ELG+EF
Sbjct: 680  ELNTGMREGLPMDLARPLNVSQRVICLHPKSREIHDGNVLTVDHCRYRIQFDNPELGVEF 739

Query: 761  VQDIDCMPLNPLENMPASLTRPNVAFGKF-MDNFTELQMNGQPRERDIEGYMKFTPCENL 819
            V+D +CMPLNPLENMPASL R + AF  + + N  E +M+ + +E  +EGY K + CE  
Sbjct: 740  VKDTECMPLNPLENMPASLAR-HYAFSNYHIQNPIEEKMHERAKESMLEGYPKLS-CET- 796

Query: 820  ETAYAPSHISPSTNYPINNLLQQHK-GVSYTDSEVHVG---------------STG--QA 861
                   H+  S NY I+N L+Q K  +S ++ +   G               S G  QA
Sbjct: 797  ------GHLLSSPNYNISNSLKQEKVDISSSNPQAQDGVDEALALQLFNSQPSSIGQIQA 850

Query: 862  KEEDVLALSHLRHALDKKEAIVSELRCMNDEILENQKDG-DNSFKDSELFKKHYAAILLQ 920
            +E DV ALS L  ALDKKE ++ EL+CMNDE++E+QKDG +N+ KDSE FKK YAA+L Q
Sbjct: 851  READVQALSELTRALDKKELVLRELKCMNDEVVESQKDGHNNALKDSESFKKQYAAVLFQ 910

Query: 921  LNDINEQVASALFCLRQRNTYQGNTCLTGLKPMSGLGNLGGGLPNSFDHSAYQTPESGPH 980
            L++INEQV+ AL  LRQRNTYQ N   + ++ MS  G   G L    D++A  T  +G H
Sbjct: 911  LSEINEQVSLALLGLRQRNTYQENVPYSSIRRMSKSGEPDGQLTYE-DNNASDT--NGFH 967

Query: 981  VVEVVESSRSKAQKMVDVAVQALSSLEKEGNGIERIEEAMDYVNNKLAGNDSGMPSIRSS 1040
            V E+VESSR KA+KMV  AVQAL  L K+ N    +EEA+D+VNN+L+ +          
Sbjct: 968  VSEIVESSRIKARKMVYRAVQALELLRKDENNNVNMEEAIDFVNNQLSID---------Q 1018

Query: 1041 TSADLVHSSRNSQDQQLETHTTNLLANSRAPDSTLNNSSDENSAHIPLELIAHCVAALFM 1100
            T    V  ++  QDQ+L + T N  +++ A DS LN   D+N   +P +L++ C+A L M
Sbjct: 1019 TEGSSVQQTQGGQDQRLPS-TPNPPSSTPANDSHLNQ-PDQNDLQVPSDLVSRCIATLLM 1076

Query: 1101 IQRCTERDFPPADVALVLDSAVTSLQPCCSQNLPVYAEIQKCMGIIRNQILALIPT 1156
            IQ+CTER FPP++VA VLDSAV SLQPCCSQNLP+Y EIQKCMGIIRNQILAL+P+
Sbjct: 1077 IQKCTERQFPPSEVAQVLDSAVASLQPCCSQNLPIYTEIQKCMGIIRNQILALVPS 1132

Arabidopsis thaliana (taxid: 3702)

>sp\|Q6A333\|ALY2_ARATH Protein ALWAYS EARLY 2 OS=Arabidopsis thaliana GN=ALY2 PE=1 SV=1	Back alignment and function description

>sp\|Q6A331\|ALY1_ARATH Protein ALWAYS EARLY 1 OS=Arabidopsis thaliana GN=ALY1 PE=2 SV=2	Back alignment and function description

>sp\|Q8C735\|LIN9_MOUSE Protein lin-9 homolog OS=Mus musculus GN=Lin9 PE=2 SV=2	Back alignment and function description

>sp\|Q5TKA1\|LIN9_HUMAN Protein lin-9 homolog OS=Homo sapiens GN=LIN9 PE=1 SV=1	Back alignment and function description

>sp\|Q4R8N2\|LIN9_MACFA Protein lin-9 homolog OS=Macaca fascicularis GN=LIN9 PE=2 SV=1	Back alignment and function description

>sp\|Q5RHQ8\|LIN9_DANRE Protein lin-9 homolog OS=Danio rerio GN=lin9 PE=2 SV=1	Back alignment and function description

>sp\|P30630\|LIN9_CAEEL Protein lin-9 OS=Caenorhabditis elegans GN=lin-9 PE=1 SV=3	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		1158
255551695		1119	always early, putative [Ricinus communis	0.948	0.981	0.585	0.0
449432828		1161	PREDICTED: LOW QUALITY PROTEIN: protein	0.968	0.966	0.558	0.0
449495452		1161	PREDICTED: protein ALWAYS EARLY 3-like [	0.968	0.966	0.558	0.0
297736887		1127	unnamed protein product [Vitis vinifera]	0.936	0.962	0.548	0.0
356563900		1181	PREDICTED: protein ALWAYS EARLY 3-like [	0.981	0.961	0.512	0.0
356519986		1155	PREDICTED: protein ALWAYS EARLY 3-like [	0.955	0.958	0.501	0.0
224123182		980	predicted protein [Populus trichocarpa]	0.814	0.962	0.580	0.0
297835114		1131	always early protein 3 [Arabidopsis lyra	0.942	0.964	0.494	0.0
9294690		1128	unnamed protein product [Arabidopsis tha	0.943	0.968	0.492	0.0
186510286		1132	protein ALWAYS EARLY 3 [Arabidopsis thal	0.943	0.964	0.490	0.0

>gi\|255551695\|ref\|XP_002516893.1\| always early, putative [Ricinus communis] gi\|223543981\|gb\|EEF45507.1\| always early, putative [Ricinus communis]	Back alignment and taxonomy information

 Score = 1316 bits (3407), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 689/1177 (58%), Positives = 841/1177 (71%), Gaps = 79/1177 (6%)

Query: 1    MAPTRRSKSVNKRVAYTSEVASKKKAENADRSGKRKRKLSDMLGPQWSKEELERFYEAYR 60
            MAP+R+S+SVNKR +Y +E  S K  EN +R  +RKRKLSDMLGPQWSKEELERFY AYR
Sbjct: 1    MAPSRKSRSVNKRFSYINEATSNKTGENDNRRRQRKRKLSDMLGPQWSKEELERFYRAYR 60

Query: 61   KYGKDWKKIAAAVRNRTAEMVEALFTMNRAYLSLPEGTASVVGLIAMMTDHYGILAGSDG 120
            K+GKDW K+AAAVR+R+ EMVEAL+TMNRAYL+LP+G AS  GLIAMMTDHY  L  SD 
Sbjct: 61   KHGKDWGKVAAAVRDRSVEMVEALYTMNRAYLNLPKGYASAAGLIAMMTDHYTNLEESDS 120

Query: 121  EQESDEATGSSQKSQKCAGGKFQNPPPKGSDG-PSPDLLNFQSAAPNYGCLSLLKKRRSG 179
            EQE  E   + +K QK + G       K  D  P PDL+  QSAA N+GCLSLLKKRRSG
Sbjct: 121  EQEITEPVVAPRKPQKRSRGT------KELDASPVPDLMQSQSAASNFGCLSLLKKRRSG 174

Query: 180  SRPRAVAKRTPRVPVSYSYDKDNTEKYISPIKQGLKPRLGSIDDDVAHEIALALTEASQR 239
             RP AV KRTPRVPVS+SYDK + +KYISPI+  LK +  ++DDDVAHEIAL LTEASQR
Sbjct: 175  GRPWAVGKRTPRVPVSFSYDKASGQKYISPIRPDLKLKADALDDDVAHEIALVLTEASQR 234

Query: 240  GGSLLVSQTPKRKRGKPSPVQKGSRTCDVSEMNSSKPHGSEMDEDGRELSLGSTDADNGY 299
             GS   SQTP  K   PS  + G      SEM SSKP GSEMDE G ELSLGST+AD  +
Sbjct: 235  AGSPQASQTPNGKAETPSLTRNGEHMHVESEMTSSKPRGSEMDEGGCELSLGSTEADMEH 294

Query: 300  YSRDKIYLMDAETADTVEIQQKGKRYHSKKLKQEESVSNHLDDIKEACSGTEEGQDMVVM 359
            Y+RDK                KGK YH +K + E+++ N  DDIKEACSGTEEGQ +  +
Sbjct: 295  YARDKRLT-------------KGKGYHGRKPEVEDNIDNSSDDIKEACSGTEEGQKLGAI 341

Query: 360  KGKFAMEIADEKNSRSYSKGSKKRSKKVLFKRDESSEFDALQTLADLSLMMPETTADTEL 419
            +GKF +E+   K +RS +KG +KRSKKVLF   E+   DALQTLAD+SL +PE   DTE 
Sbjct: 342  RGKFEVEVVGTKFARSSNKGPRKRSKKVLFGEGEADAVDALQTLADMSLRLPEALVDTES 401

Query: 420  SLQLKEEKPEAVNESKLKGNRSSTGVKDTAIKTSKLGKDCTDDVSVIPESEEGNHLTNSG 479
            S+ + ++K + V +SKLKGN S+ GVK  + KT+K G+    DVS IP+ ++  H  ++G
Sbjct: 402  SVHVDDQKTKIVAKSKLKGNHSTAGVKVASPKTTK-GRVFLHDVSPIPKVKDAVHQISAG 460

Query: 480  NRTKRQKFLPIKLRMDATEELKKFISKGKRSLSASQSKHGKLVKPPEHTSSTDHEKEGNN 539
               +R+K  P K    AT+++   ISKGK S      K G+ VKP E  SSTDH +E N+
Sbjct: 461  IGKRRKKSQPSK----ATDDVGDLISKGKSSHDTGYQKQGRPVKPSELNSSTDHGRESND 516

Query: 540  SASSTAHVRTANQVNLPTKVRSRRKMNMQKLLIERDKMSSEDILKSSEDIFNDQNRTNSS 599
            SA S+  V ++ Q NLPTKVRSRRK+N  K L+++D  SSEDI K               
Sbjct: 517  SAPSSIPVLSSKQFNLPTKVRSRRKINTPKPLLDKDNQSSEDIKK--------------- 561

Query: 600  FFDRAIKQKEQLSNCLSWYQVRVWCVSEWFYSTIDYPWFAKREFVEYLDHVGLSHVPRLT 659
                       LSNCLS Y VR W + EWFYS IDYPWFAKREFVEYLDHVGL H+PRLT
Sbjct: 562  -----------LSNCLSSYLVRRWSIFEWFYSAIDYPWFAKREFVEYLDHVGLGHIPRLT 610

Query: 660  RVEWGVIRSSLGRPRRFSEQFLKEEKEKLNQYRESVRNHYSELRSGTKEGLPTDLARPLY 719
            RVEWGVIRSSLG+PRRFSEQFL EEKEKLNQYRESVR HY+ELR+GT++GLPTDLARPL 
Sbjct: 611  RVEWGVIRSSLGKPRRFSEQFLSEEKEKLNQYRESVRKHYTELRAGTRDGLPTDLARPLS 670

Query: 720  VGQRIIAVHPRTREICDGSVLTVEHSRYRVQFDKRELGIEFVQDIDCMPLNPLENMPASL 779
            VGQRIIA+HP+TREI DGSVLTV+H+R R+QFD+ ELG+E V D+DCMPLNPLENMPASL
Sbjct: 671  VGQRIIALHPKTREIHDGSVLTVDHNRCRIQFDQPELGVELVMDVDCMPLNPLENMPASL 730

Query: 780  TRPNVAFGKFMDNFTELQMNGQPRERDIEGYMKFTPCENLETAYAPSHISPSTNYPINNL 839
            TR  V F +F++N  EL+MNGQP ER++EGY+KF  CEN+E      H SPST++ I+NL
Sbjct: 731  TRQTVVFNRFIENLNELKMNGQPVERNMEGYIKFASCENMENTDGLLHSSPSTHH-ISNL 789

Query: 840  LQQHKGVSYTDSEVHVGSTG--------------------QAKEEDVLALSHLRHALDKK 879
            +Q  KG    +   HV +                      QAK+ D+ ALS L  ALDKK
Sbjct: 790  MQHGKGY-LANYSTHVATESGESVINQQAVNTQPFILAHIQAKDADIQALSDLTRALDKK 848

Query: 880  EAIVSELRCMNDEILENQKDGDNSFKDSELFKKHYAAILLQLNDINEQVASALFCLRQRN 939
            EA+VSEL+ MNDE+ EN+KDG+NS KDSELFKKHYAA+L QLN++NEQV+SAL CLRQRN
Sbjct: 849  EAVVSELKRMNDEV-ENEKDGENSLKDSELFKKHYAAVLFQLNEVNEQVSSALLCLRQRN 907

Query: 940  TYQGNTCLTGLKPMSGLGNLGGGLPNSFDHSAYQTPESGPHVVEVVESSRSKAQKMVDVA 999
            TYQGN     +KPM+ +G   G   + FD SA +T ESG HV E+VE+SR+KAQ MVD A
Sbjct: 908  TYQGNNPQMWMKPMTYIGEPVGHC-SLFDRSADETQESGSHVAEIVETSRAKAQTMVDAA 966

Query: 1000 VQALSSLEKEGNGIERIEEAMDYVNNKLAGNDSGMPSIRSSTSADLVHSSRNSQDQQLET 1059
            +QA+SSL+KEG+    IEEA+D+VNN+L+ +D    ++RSS  A+ VHS+  SQDQ   +
Sbjct: 967  MQAMSSLKKEGSN---IEEAIDFVNNQLSADDLSTSAVRSSIPANSVHSTVASQDQS-SS 1022

Query: 1060 HTTNLLANSRAPDSTLNNSSDENSAHIPLELIAHCVAALFMIQRCTERDFPPADVALVLD 1119
             TTNL  NS AP++ +++S +++ A IP E+I  CVA L MIQ+CTER FPP+DVA VLD
Sbjct: 1023 CTTNLGPNSHAPETDMDHSPEQSEAQIPSEIITQCVATLLMIQKCTERQFPPSDVAQVLD 1082

Query: 1120 SAVTSLQPCCSQNLPVYAEIQKCMGIIRNQILALIPT 1156
            SAVTSL+PCCSQNLP+YA+IQKCMGIIRNQILALIPT
Sbjct: 1083 SAVTSLKPCCSQNLPIYADIQKCMGIIRNQILALIPT 1119

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|449432828\|ref\|XP_004134200.1\| PREDICTED: LOW QUALITY PROTEIN: protein ALWAYS EARLY 3-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|449495452\|ref\|XP_004159845.1\| PREDICTED: protein ALWAYS EARLY 3-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|297736887\|emb\|CBI26088.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|356563900\|ref\|XP_003550195.1\| PREDICTED: protein ALWAYS EARLY 3-like [Glycine max]	Back alignment and taxonomy information

>gi\|356519986\|ref\|XP_003528649.1\| PREDICTED: protein ALWAYS EARLY 3-like [Glycine max]	Back alignment and taxonomy information

>gi\|224123182\|ref\|XP_002330359.1\| predicted protein [Populus trichocarpa] gi\|222871563\|gb\|EEF08694.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|297835114\|ref\|XP_002885439.1\| always early protein 3 [Arabidopsis lyrata subsp. lyrata] gi\|297331279\|gb\|EFH61698.1\| always early protein 3 [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi\|9294690\|dbj\|BAB03056.1\| unnamed protein product [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|186510286\|ref\|NP_001078197.2\| protein ALWAYS EARLY 3 [Arabidopsis thaliana] gi\|75323048\|sp\|Q6A332.1\|ALY3_ARATH RecName: Full=Protein ALWAYS EARLY 3; Short=AtALY3 gi\|50539422\|emb\|CAE47462.1\| always early protein 3 [Arabidopsis thaliana] gi\|332642987\|gb\|AEE76508.1\| protein ALWAYS EARLY 3 [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		1158
TAIR\|locus:2089438		1132	ALY3 "ALWAYS EARLY 3" [Arabido	0.664	0.680	0.461	9.1e-171
TAIR\|locus:2143666		971	ALY1 "ALWAYS EARLY 1" [Arabido	0.398	0.474	0.370	3.3e-145
UNIPROTKB\|Q5ZMF8		450	LIN9 "Uncharacterized protein"	0.148	0.382	0.336	2.1e-20
UNIPROTKB\|Q5TKA1		542	LIN9 "Protein lin-9 homolog" [	0.148	0.317	0.336	4.4e-20
UNIPROTKB\|C9J5J4		489	LIN9 "Protein lin-9 homolog" [	0.148	0.351	0.336	1e-19
MGI\|MGI:1919818		542	Lin9 "lin-9 homolog (C. elegan	0.150	0.321	0.343	1.2e-19
UNIPROTKB\|H0Y322		613	LIN9 "Protein lin-9 homolog" [	0.148	0.280	0.336	4e-19
UNIPROTKB\|F1MIQ3		541	LOC534587 "Uncharacterized pro	0.148	0.317	0.336	5.8e-19
UNIPROTKB\|F1PWI7		490	LIN9 "Uncharacterized protein"	0.148	0.351	0.336	1.1e-18
ZFIN\|ZDB-GENE-030131-1747		543	lin9 "lin-9 homolog (C. elegan	0.210	0.449	0.324	1.4e-18

TAIR\|locus:2089438 ALY3 "ALWAYS EARLY 3" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1660 (589.4 bits), Expect = 9.1e-171, P = 9.1e-171
 Identities = 391/847 (46%), Positives = 524/847 (61%)

Query:   341 DDIKEACSGTEEGQDMVVMKGKFAMEIADEXXXXXXXXXXXXXXXXXXXXXDESSEFDAL 400
             +D KEACSGT+E   +     KF  E  +                      DE +  DAL
Sbjct:   332 EDAKEACSGTDEAPSLGAPDEKFEQE-REGKALKFTYKVSRRKSKKSLFTADEDTACDAL 390

Query:   401 QTLADLSLMMPETTADTELSLQLKEEKPEAVNESKLKGNRSSTGVKDTAIKTSKLGKDCT 460
              TLADLSLMMPET  DTE S+Q +E+K      S  KG   ++  K ++++ SK  +  +
Sbjct:   391 HTLADLSLMMPETATDTESSVQAEEKKAGEAYVSDFKGTDPASMSKSSSLRNSKQRRYGS 450

Query:   461 DDVSVIPESEEGNHLTNSGNRTKRQKFLPIKLRMDATEELKKFISKGKRSLSASQSKH-G 519
             +D+   PE E  +  ++S  + +RQK LP K+R +    LK  ++   + +    SK  G
Sbjct:   451 NDLCN-PELERKSP-SSSLIQKRRQKALPAKVRENV---LKDELAASSQVIEPCNSKGIG 505

Query:   520 KLVKPP---EHTSS--TDHEKEGNNSASSTAHVRTANQV-----NLPTKVRSRRKMNMQK 569
             +  KP    + ++S    HEK+   SA S  H  ++N +     + P+    ++++N+  
Sbjct:   506 EEYKPVGRGKRSASIRNSHEKK---SAKSHDHTSSSNNIVEEDESAPSNAVIKKQVNLPT 562

Query:   570 LLIERDKMSSEDILKSSEDIFNDQNRTNSSFFDRAIKQKEQLSNCLSWYQVRVWCVSEWF 629
              +  R K+ +E  L        D  + + +         E+ S+C+S ++ R WC+ EWF
Sbjct:   563 KVRSRRKIVTEKPLTI------DDGKISETI--------EKFSHCISSFRARRWCIFEWF 608

Query:   630 YSTIDYPWFAKREFVEYLDHVGLSHVPRLTRVEWGVIRSSLGRPRRFSEQFLKEEKEKLN 689
             YS IDYPWFA++EFVEYLDHVGL HVPRLTRVEWGVIRSSLG+PRRFSEQFLKEEKEKL 
Sbjct:   609 YSAIDYPWFARQEFVEYLDHVGLGHVPRLTRVEWGVIRSSLGKPRRFSEQFLKEEKEKLY 668

Query:   690 QYRESVRNHYSELRSGTKEGLPTDLARPLYVGQRIIAVHPRTREICDGSVLTVEHSRYRV 749
              YR+SVR HY EL +G +EGLP DLARPL V QR+I +HP++REI DG+VLTV+H RYR+
Sbjct:   669 LYRDSVRKHYDELNTGMREGLPMDLARPLNVSQRVICLHPKSREIHDGNVLTVDHCRYRI 728

Query:   750 QFDKRELGIEFVQDIDCMPLNPLENMPASLTRPNVAFGKF-MDNFTELQMNGQPRERDIE 808
             QFD  ELG+EFV+D +CMPLNPLENMPASL R + AF  + + N  E +M+ + +E  +E
Sbjct:   729 QFDNPELGVEFVKDTECMPLNPLENMPASLAR-HYAFSNYHIQNPIEEKMHERAKESMLE 787

Query:   809 GYMKFTPCENLETAYAPSHISPSTNYPINNLLQQHK-GVSYTDSEVHVG----------- 856
             GY K + CE         H+  S NY I+N L+Q K  +S ++ +   G           
Sbjct:   788 GYPKLS-CET-------GHLLSSPNYNISNSLKQEKVDISSSNPQAQDGVDEALALQLFN 839

Query:   857 ----STGQ--AKEEDVLALSHLRHALDKKEAIVSELRCMNDEILENQKDG-DNSFKDSEL 909
                 S GQ  A+E DV ALS L  ALDKKE ++ EL+CMNDE++E+QKDG +N+ KDSE 
Sbjct:   840 SQPSSIGQIQAREADVQALSELTRALDKKELVLRELKCMNDEVVESQKDGHNNALKDSES 899

Query:   910 FKKHYAAILLQLNDINEQVASALFCLRQRNTYQGNTCLTGLKPMSXXXXXXXXXPNSFDH 969
             FKK YAA+L QL++INEQV+ AL  LRQRNTYQ N   + ++ MS             D+
Sbjct:   900 FKKQYAAVLFQLSEINEQVSLALLGLRQRNTYQENVPYSSIRRMSKSGEPDGQLTYE-DN 958

Query:   970 SAYQTPESGPHVVEVVESSRSKAQKMVDVAVQALSSLEKEGNGIERIEEAMDYVNNKLAG 1029
             +A  T  +G HV E+VESSR KA+KMV  AVQAL  L K+ N    +EEA+D+VNN+L  
Sbjct:   959 NASDT--NGFHVSEIVESSRIKARKMVYRAVQALELLRKDENNNVNMEEAIDFVNNQL-- 1014

Query:  1030 NDSGMPSIRSSTSADLVHSSRNSQDQQLETHTTNLLANSRAPDSTLNNSSDENSAHIPLE 1089
                   SI   T    V  ++  QDQ+L + T N  +++ A DS LN   D+N   +P +
Sbjct:  1015 ------SI-DQTEGSSVQQTQGGQDQRLPS-TPNPPSSTPANDSHLNQP-DQNDLQVPSD 1065

Query:  1090 LIAHCVAALFMIQRCTERDFPPADVALVLDSAVTSLQPCCSQNLPVYAEIQKCMGIIRNQ 1149
             L++ C+A L MIQ+CTER FPP++VA VLDSAV SLQPCCSQNLP+Y EIQKCMGIIRNQ
Sbjct:  1066 LVSRCIATLLMIQKCTERQFPPSEVAQVLDSAVASLQPCCSQNLPIYTEIQKCMGIIRNQ 1125

Query:  1150 ILALIPT 1156
             ILAL+P+
Sbjct:  1126 ILALVPS 1132

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005515 "protein binding" evidence=IPI

GO:0009630 "gravitropism" evidence=RCA

GO:0010413 "glucuronoxylan metabolic process" evidence=RCA

GO:0045492 "xylan biosynthetic process" evidence=RCA

TAIR\|locus:2143666 ALY1 "ALWAYS EARLY 1" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

UNIPROTKB\|Q5ZMF8 LIN9 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

UNIPROTKB\|Q5TKA1 LIN9 "Protein lin-9 homolog" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|C9J5J4 LIN9 "Protein lin-9 homolog" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

MGI\|MGI:1919818 Lin9 "lin-9 homolog (C. elegans)" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

UNIPROTKB\|H0Y322 LIN9 "Protein lin-9 homolog" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|F1MIQ3 LOC534587 "Uncharacterized protein" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

UNIPROTKB\|F1PWI7 LIN9 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

ZFIN\|ZDB-GENE-030131-1747 lin9 "lin-9 homolog (C. elegans)" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q6A332	ALY3_ARATH	No assigned EC number	0.4908	0.9430	0.9646	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

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		1158
pfam06584		109	pfam06584, DIRP, DIRP	2e-44
cd00167		45	cd00167, SANT, 'SWI3, ADA2, N-CoR and TFIIIB' DNA-	2e-07
smart00717		49	smart00717, SANT, SANT SWI3, ADA2, N-CoR and TFIII	3e-07
pfam00249		47	pfam00249, Myb_DNA-binding, Myb-like DNA-binding d	5e-07
pfam13921		59	pfam13921, Myb_DNA-bind_6, Myb-like DNA-binding do	0.003

>gnl\|CDD\|148285 pfam06584, DIRP, DIRP	Back alignment and domain information

 Score =  155 bits (395), Expect = 2e-44
 Identities = 59/109 (54%), Positives = 70/109 (64%), Gaps = 7/109 (6%)

Query: 629 FYSTIDYPWFAKREFVEYL-DHVGLSHVPRLTRVEWGVIRSSLGRPRRFSEQFLKEEKEK 687
           FYS ID PWF   +FV YL +H  L H  RLTR EW +IR S+G+PRRFS  FLKEE+EK
Sbjct: 1   FYSAIDKPWFEDNDFVRYLREHFPLLHTRRLTRAEWRLIRRSMGKPRRFSAAFLKEEREK 60

Query: 688 LNQYRESVRN------HYSELRSGTKEGLPTDLARPLYVGQRIIAVHPR 730
           L + RE +R       HY EL  G  E LP D+  PL VGQ++ A HPR
Sbjct: 61  LERKREKIRQLQQLKLHYKELNVGLLEDLPKDVPLPLAVGQKVTARHPR 109

DIRP (Domain in Rb-related Pathway) is postulated to be involved in the Rb-related pathway, which is encoded by multiple eukaryotic genomes and is present in proteins including lin-9 of Caenorhabditis elegans, aly of fruit fly and mustard weed. Studies of lin-9 and aly of fruit fly proteins containing DIRP suggest that this domain might be involved in development. Aly, lin-9, act in parallel to, or downstream of, activation of MAPK by the RTK-Ras signalling pathway. Length = 109

>gnl\|CDD\|238096 cd00167, SANT, 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains	Back alignment and domain information

>gnl\|CDD\|197842 smart00717, SANT, SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains	Back alignment and domain information

>gnl\|CDD\|215818 pfam00249, Myb_DNA-binding, Myb-like DNA-binding domain	Back alignment and domain information

>gnl\|CDD\|206092 pfam13921, Myb_DNA-bind_6, Myb-like DNA-binding 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		1158
KOG1019		837	consensus Retinoblastoma pathway protein LIN-9/chr	100.0
PF06584		109	DIRP: DIRP; InterPro: IPR010561 DIRP (Domain in Rb	100.0
KOG1019		837	consensus Retinoblastoma pathway protein LIN-9/chr	99.94
TIGR01557		57	myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF c	98.98
PF00249		48	Myb_DNA-binding: Myb-like DNA-binding domain; Inte	98.8
smart00717		49	SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-bindi	98.25
cd00167		45	SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding do	98.22
PF13921		60	Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB:	97.84
COG5259		531	RSC8 RSC chromatin remodeling complex subunit RSC8	97.48
KOG1279		506	consensus Chromatin remodeling factor subunit and	96.87
PLN03212		249	Transcription repressor MYB5; Provisional	96.63
KOG0457		438	consensus Histone acetyltransferase complex SAGA/A	95.9
PLN03091		459	hypothetical protein; Provisional	95.57
PLN03212		249	Transcription repressor MYB5; Provisional	94.87
PLN03091		459	hypothetical protein; Provisional	94.29
KOG4329		445	consensus DNA-binding protein [General function pr	92.63
KOG4468		782	consensus Polycomb-group transcriptional regulator	92.5
COG5118		507	BDP1 Transcription initiation factor TFIIIB, Bdp1	92.24
KOG0724		335	consensus Zuotin and related molecular chaperones	91.44
COG5114		432	Histone acetyltransferase complex SAGA/ADA, subuni	90.91
smart00333		57	TUDOR Tudor domain. Domain of unknown function pre	89.22
KOG0048		238	consensus Transcription factor, Myb superfamily [T	86.87
PF07039		130	DUF1325: SGF29 tudor-like domain; InterPro: IPR010	85.84
PF09465		55	LBR_tudor: Lamin-B receptor of TUDOR domain; Inter	84.83
PF15057		124	DUF4537: Domain of unknown function (DUF4537)	83.88
KOG1194		534	consensus Predicted DNA-binding protein, contains	81.96
smart00743		61	Agenet Tudor-like domain present in plant sequence	80.77
PF15057		124	DUF4537: Domain of unknown function (DUF4537)	80.2

>KOG1019 consensus Retinoblastoma pathway protein LIN-9/chromatin-associated protein Aly [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]	Back alignment and domain information

Probab=100.00  E-value=6.9e-84  Score=753.72  Aligned_cols=787  Identities=34%  Similarity=0.424  Sum_probs=650.9

Q ss_pred             CCCCc--CccccccccccccccccccccccccccccccccccccCCCCCCHHHHHHHHHHHHHcCCChHHHHHHHh-cch
Q 001101            1 MAPTR--RSKSVNKRVAYTSEVASKKKAENADRSGKRKRKLSDMLGPQWSKEELERFYEAYRKYGKDWKKIAAAVR-NRT   77 (1158)
Q Consensus         1 Map~r--~srsv~k~~~~~~e~~~~~~~~~~~k~k~rk~k~~~~l~~~Ws~eEh~rF~ea~r~~Gk~Wkkva~~v~-tRt   77 (1158)
                      |||.|  |++.++|+++  |+++|+.+....+|.++||++++|+++++|+..|+++||++|++||+.|+++++.++ +|+
T Consensus         1 ~a~vRkrk~~~~~~~~~--ndtsp~~~~~~~sKt~qR~~~~~d~l~pq~s~~~~e~~~k~~~k~~~~~r~~~~~~~~~R~   78 (837)
T KOG1019|consen    1 MAAVRKRKSKSVDKRFT--NDTSPRYDSGSTSKTPQRKRKLADKLSPQWSKLELERFYKAYRKRGREWRKSPAAVRSTRS   78 (837)
T ss_pred             CCccccccccccccccc--ccccccccccccccCCCCCcccccccCcchhHhhhhhhhhcccccccccccccccccchhh
Confidence            89999  8889999999  999999999999999999999999999999999999999999999999999999999 599


Q ss_pred             HHHHHHHHhhhhhhcccCcccccccceeeeeeccccccCCCCCCccccccccCccccccccCCcc-CCCCCCCCCCCCCc
Q 001101           78 AEMVEALFTMNRAYLSLPEGTASVVGLIAMMTDHYGILAGSDGEQESDEATGSSQKSQKCAGGKF-QNPPPKGSDGPSPD  156 (1158)
Q Consensus        78 ~~~v~s~y~~~k~~l~lpeg~as~~gliammtdhy~~l~~s~S~~es~~~~~~~~k~~kr~~~~~-~~~~~~~~~~~~~~  156 (1158)
                      +.||+.||.||+||+++|+|+++++|+|+||||||+++.||.++.|++++++..++.+|++|+++ +.+.      ....
T Consensus        79 s~~vell~~~n~Ay~S~~~~~~si~G~~~~~t~~ys~~~gs~~~~e~~d~sE~e~k~~k~kr~~va~~~D------~~eg  152 (837)
T KOG1019|consen   79 SNMVELLKAMNKAYLSLSEGTESILGLIEPMTDHYSVLEGSGPEGESNDASEKERKAIKRKRAKVAKRSD------FDEG  152 (837)
T ss_pred             hhHHHHHHhhhcccccccccccccccccccCCCccchhcCCCCCCccchhhhhhHHHHHHHhhccccccc------cccc
Confidence            99999999999999999999999999999999999999999999999999999999999999988 4443      2222


Q ss_pred             ccccccCCCCCCccccccccccCCCCcccccCCCccccccccccCCcccccCccccCCCCCCCCCChhhHHHHHHHHHHH
Q 001101          157 LLNFQSAAPNYGCLSLLKKRRSGSRPRAVAKRTPRVPVSYSYDKDNTEKYISPIKQGLKPRLGSIDDDVAHEIALALTEA  236 (1158)
Q Consensus       157 ~~~~~~~~s~~g~~s~lkk~r~~~~~~avgKRTPRvpv~~~~~kd~~e~~i~p~~~~~k~~~d~~ddd~~h~~AlAltea  236 (1158)
                      +---..+.|..||+++||+.++   -++.++++|++++-..+..+|.+.+..|..|..++. +..|            ++
T Consensus       153 ~~l~n~~~s~~~~~~~~~q~~~---~~~~k~~~~~~~~~~~~~aed~~~~s~~n~r~~~ql-~r~~------------~k  216 (837)
T KOG1019|consen  153 LRLTNEAKSLSGHLWFFKQFRT---SQADKPTLKQFLVYKNQTAEDAPTLSRPNIRALWQL-DRRD------------GK  216 (837)
T ss_pred             ccchhhhccccchHHHHHHHHh---hhhccccchhhhHHHhhhhhhhhhccchhhhhhhhh-hccc------------cc
Confidence            2334456788999999999997   569999999999999999999999988888887773 4333            68


Q ss_pred             hhcCCCCcccCCCCCCCCCC--CCCCCCCCccccccccCCCCCCCCccccccccCCCCCCCCCCcccccchhhhccccch
Q 001101          237 SQRGGSLLVSQTPKRKRGKP--SPVQKGSRTCDVSEMNSSKPHGSEMDEDGRELSLGSTDADNGYYSRDKIYLMDAETAD  314 (1158)
Q Consensus       237 sqRggSp~vs~tp~r~~~~~--Sp~~~~~~~~~~se~~~sk~~g~~~de~~~e~Slgs~~a~~~~y~~d~s~l~~~eg~~  314 (1158)
                      ++|||.      |.++.+..  .|-+.+.++.+--+ -.+++.+++|.+.|++    +....-|+-.++++.||+|++..
T Consensus       217 sRr~~~------~~f~~e~~E~~~~~~~~~~~~sr~-~~~~~~nss~~~~~~~----~i~~~l~~~~~~Ss~L~~~er~~  285 (837)
T KOG1019|consen  217 SRRGSA------PFFREELSEQIPKRERIKTSQSRE-KFSKLKNSSMLRIGPR----SIPKPLGKPDRVSSLLMDMERMG  285 (837)
T ss_pred             chhccc------hhhHhHHhhhhHHHHhhhhhhhhc-ccCCCCchHHhhhhhh----hcccccccCccchhhhhchhhcc
Confidence            899998      66766543  56565555543222 3455579999999999    66667789999999999999985


Q ss_pred             hHHHHhhccccccccchhhhcccCCcchhhhhccCccccchhhhhcccchhhhcccccccCCcccccccccccccCCCcc
Q 001101          315 TVEIQQKGKRYHSKKLKQEESVSNHLDDIKEACSGTEEGQDMVVMKGKFAMEIADEKNSRSYSKGSKKRSKKVLFKRDES  394 (1158)
Q Consensus       315 ~v~~~~K~k~~~~~k~~ve~~~~~~~dD~~EAcSgteeg~~~~~~k~~~e~~v~~~k~~~~~~~~~~kRs~~lf~~~~e~  394 (1158)
                      .++.         +-+++|.+.+++++|                                                    
T Consensus       286 ~~~~---------kv~~~e~ae~sy~~d----------------------------------------------------  304 (837)
T KOG1019|consen  286 LEEA---------KVVKDELAEGSYLDD----------------------------------------------------  304 (837)
T ss_pred             cccc---------eeEeechhhhhhhhh----------------------------------------------------
Confidence            5543         224566666666654                                                    


Q ss_pred             hhhhHHHHHHHhh-ccCCCccccccccccccccCc------cccccccccCCCCCCCCccc-------------hhhhcc
Q 001101          395 SEFDALQTLADLS-LMMPETTADTELSLQLKEEKP------EAVNESKLKGNRSSTGVKDT-------------AIKTSK  454 (1158)
Q Consensus       395 ~~lDaL~tLadls-l~~p~~~~esess~q~~~e~~------k~~~~~~~s~~~~~~~~~~~-------------~~k~sk  454 (1158)
                       +|||++++|.++ +|+|...++++++.+.++++.      +++.+..+++.++.+...+.             .+.+.|
T Consensus       305 -~~~~~~~~ae~~~s~~p~~~l~S~~~t~~~~~~s~~i~d~~ss~~~iv~~~~~~~~~nv~~~ke~L~~~l~a~~~~k~k  383 (837)
T KOG1019|consen  305 -GLDALKLPAEESVSMLPGNRLESESSTHYKEERSGIIMDVNSSGFEIVETSPHIPKNNVSDTKELLDGKLRALSKRKIK  383 (837)
T ss_pred             -hhhhhccchhhcccccccccchhhcccccccccccceeccCcCCceeeccCcCCccccchhhhhhhhhhhhhhhhhccc
Confidence             499999999999 999999999999999999882      33333445555544444333             233677


Q ss_pred             cCCCCCCCCCccCccccCcccCCccccccccccchhhh------------hhhhHHHhhhhhccccccccccccccCccc
Q 001101          455 LGKDCTDDVSVIPESEEGNHLTNSGNRTKRQKFLPIKL------------RMDATEELKKFISKGKRSLSASQSKHGKLV  522 (1158)
Q Consensus       455 ~~k~~~~d~~~~~e~~~~~~~~~~~~~k~k~k~~~~~~------------k~~~~~~~~~~~~kgk~~~~~~~~~~~~~v  522 (1158)
                      +.|..+.|+..+++....+.+     ++++++.+.++.            +......+.++.+++++....+..+|...+
T Consensus       384 ~~k~~s~d~~~v~~~il~~ls-----~~~~~~v~D~et~~ei~q~~S~~~~~~~~~~e~~s~v~~~r~~~~~a~~q~~t~  458 (837)
T KOG1019|consen  384 PSKPLSTDGVRVSVAILMDLS-----RKRKLLVLDVETPKEISQSKSRNRGESTERLEKKSLVKGRRYSAVPANLQRLTK  458 (837)
T ss_pred             ccccccCCCccchhHHhhhhc-----ccCccccccccchhhhhcccccccccchhhhhhhhhhhhhhhhhhhHHHHHhhh
Confidence            788889999999998775444     566666666653            111222236788889999888777999999


Q ss_pred             CCCCC-CCCCcccccCCCCCCCcccccccCCCCCCccccchhhhhhchhhhhhhccchhhhhcccccccccCCCCCcccc
Q 001101          523 KPPEH-TSSTDHEKEGNNSASSTAHVRTANQVNLPTKVRSRRKMNMQKLLIERDKMSSEDILKSSEDIFNDQNRTNSSFF  601 (1158)
Q Consensus       523 ~~~e~-~~ssd~~~~~~~~~~~~~~~~~~~q~~l~~k~rsrRK~~~~k~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~  601 (1158)
                      +..+- .+-+|......|....+.++..-+..-++.|.+.+|++.+++.+.++.++..-+-..+...  |+    ++.  
T Consensus       459 ~i~~~~~l~~d~~~~~~d~~~~~~q~s~~~~~~~~Qk~~n~rd~elk~a~~e~~~~~e~~h~~~~s~--n~----~Sq--  530 (837)
T KOG1019|consen  459 KIGEESRLTRDKKELGADADIQPRQVSKSGPAFQEQKAPNIRDIELKNALQEKALSGEQDHHMYFSR--ND----LSQ--  530 (837)
T ss_pred             hccchhhhhhhhhhcccccccccchhcccchhhhhhhcchhHHHHHHhHHHHHHhhcccchhhhccc--cc----hhH--
Confidence            99854 7888988888888999999998888899999999999999999999887644443333321  10    000  


Q ss_pred             ccHHHHHHHHHhhhccccccceeeeeccccCCChhhhccchHHHHHhhcCCCCCCccchhhHHHHHhhcCCCCCCcHHHH
Q 001101          602 DRAIKQKEQLSNCLSWYQVRVWCVSEWFYSTIDYPWFAKREFVEYLDHVGLSHVPRLTRVEWGVIRSSLGRPRRFSEQFL  681 (1158)
Q Consensus       602 ~~~~~l~~rL~n~L~~pkarRW~~~EwFYS~IDkp~F~~neF~~~L~~~~l~~~~rLtR~EW~~IRr~mGKPRRfS~aFl  681 (1158)
                       ....++.++.+|+..+...+||++||||+++|.+||..-+|..||.+++|++++++++++|.+|-..+|.||  |..|.
T Consensus       531 -~~l~~~~kre~c~~~~~~~vd~i~~~~~~~~~~l~~~k~~~Td~L~~v~lg~~p~~s~V~~~vl~~~lqepr--s~~~~  607 (837)
T KOG1019|consen  531 -SELLPKAKREECSSQAGRTVDHINEGFYSANPHLGFLKMEFTDYLNHVRLGGTPRLSAVEWSVLKSSLQEPR--STRIL  607 (837)
T ss_pred             -HHhcchhHHHhhhccCchhHHHHHhHHhhcCcchhHHHhhhhhhhhccccccccchhhhhHHHHHHHhhcch--hhhhh
Confidence             112236799999999999999999999999999999999999999999999999999999999999999999  99999


Q ss_pred             HHHHHHHHHHHHHHHHHhhhhcccccCCCCcccCCCccCCCEEEEEcCCCCCcccceEEEEecCeeEEEeccCCCceeEe
Q 001101          682 KEEKEKLNQYRESVRNHYSELRSGTKEGLPTDLARPLYVGQRIIAVHPRTREICDGSVLTVEHSRYRVQFDKRELGIEFV  761 (1158)
Q Consensus       682 ~EER~kLE~~R~~IR~~q~~~~~~~~~~LP~dIP~PL~VG~kV~A~hp~~r~l~~GtVlavd~~~YrV~FdrpeLGv~~V  761 (1158)
                      .+||+.|+.|++.+|.+|.++...-.+.++.++.+||.||    |.||.|+++|||.|++++++.|-|-|+.  ||++.|
T Consensus       608 ~~er~~lq~yvE~~~k~~~~l~s~~~~~~~t~~~r~~d~~----~s~p~t~e~~d~~~~~~~~n~~~~~~~~--~~a~~~  681 (837)
T KOG1019|consen  608 QEEREKLQDYVESVRKTYHELRSEAGELLGTDLARKLDVG----ASHPKTREIHDGKILTVDHNKCNVLFDK--LGAELV  681 (837)
T ss_pred             hhHHHHHHHHHHhhhcchhhhhccccccccchhccccccc----cCCcchhhhhhhhhhhcccccCccchhh--hccccc
Confidence            9999999999999999999999888899999999999999    9999999999999999999999999995  999999


Q ss_pred             cccccccCCCCCCCccccccccccccccchhhhhhhhcCCCCccccccccCCCCcccccccCCCCCCCCCCCCCcchhhh
Q 001101          762 QDIDCMPLNPLENMPASLTRPNVAFGKFMDNFTELQMNGQPRERDIEGYMKFTPCENLETAYAPSHISPSTNYPINNLLQ  841 (1158)
Q Consensus       762 pD~dvmp~~plEnmP~sl~~~~~~~n~~~~~~~~~~~~~rp~~~~~~g~~~f~~~~~~~~~~~~~~~sPs~~~p~~~ll~  841 (1158)
                      ||++|||+||++-||+.+++                                                            
T Consensus       682 ~~q~~~~ln~~~dk~e~~~r------------------------------------------------------------  701 (837)
T KOG1019|consen  682 MDQDCMPLNPLEDKPEGLRR------------------------------------------------------------  701 (837)
T ss_pred             chhhccccChhhhhhhhhhh------------------------------------------------------------
Confidence            99999999999888855532                                                            


Q ss_pred             ccCCccCCCccccccCccchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhccCCCCCC-CCcHHHHHHHHHHHHH
Q 001101          842 QHKGVSYTDSEVHVGSTGQAKEEDVLALSHLRHALDKKEAIVSELRCMNDEILENQKDGDNSF-KDSELFKKHYAAILLQ  920 (1158)
Q Consensus       842 ~~k~~~~~~~~~q~~~~~q~~eadi~aL~eLsKiLd~Ke~lV~eLr~MN~EAE~~~~~G~~s~-~~se~FQrrYA~vVlq  920 (1158)
                                                                 +|..||++.++.+++|.+.. ..++.|+..|+.|..|
T Consensus       702 -------------------------------------------~~d~~~~~~~e~q~~g~~na~~~s~~~~~~~~~v~fq  738 (837)
T KOG1019|consen  702 -------------------------------------------QIDKCLEKEKEAQLGGHENAGYSSLFRPDELENVEFQ  738 (837)
T ss_pred             -------------------------------------------hhhHHHHHHHHHHhCCCCCcCchhhcCchhHHHHHHH
Confidence                                                       23345566666666666544 5568899999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhccccCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCchhHHhHhhHHHHHHHHHHHH
Q 001101          921 LNDINEQVASALFCLRQRNTYQGNTCLTGLKPMSGLGNLGGGLPNSFDHSAYQTPESGPHVVEVVESSRSKAQKMVDVAV 1000 (1158)
Q Consensus       921 Le~vN~~l~~aL~~LRqrn~y~~~~~~~~~k~~~~~~~~~~g~~~~~d~~~~~~~Esgs~v~eiv~~Sr~kA~~mVd~A~ 1000 (1158)
                      +.+.|..++-.|.+++|+|+-.     .. +  .-++. +.+....  .++...+|++.+++|||..|+.+|++|||+||
T Consensus       739 ~~~~~d~~~~~L~g~~q~~~~~-----~~-~--~~~~E-~~~~l~~--qh~~~~~~~~~~~~eiv~~s~i~a~kmvd~a~  807 (837)
T KOG1019|consen  739 MNQQLDPEEPHLDGKVQHNTIE-----IQ-K--LKLEE-IQRELAL--QHLDDEEEMEPEMVEIVTQSKIEAQKMVDAAI  807 (837)
T ss_pred             HHhccCchhhhhhhhhhccchH-----hh-h--ccccc-hhhHHHh--hcCChhhhcCcchhhhhhhhHHHHHHHHHHHH
Confidence            9999999999999999999821     11 1  12222 2222221  45677999999999999999999999999999


Q ss_pred             HHHhhhhhcCC-chhhHHHHHH
Q 001101         1001 QALSSLEKEGN-GIERIEEAMD 1021 (1158)
Q Consensus      1001 QA~~~~~kege-~~~~i~~a~d 1021 (1158)
                      ||.+ +++||| ....|+||++
T Consensus       808 qaa~-~~~~de~~~~~meea~~  828 (837)
T KOG1019|consen  808 QAAS-STKEDEDVNLMMEEALE  828 (837)
T ss_pred             HHHH-hhcccchhhHHHHHHHh
Confidence            9999 999999 8899999998

>PF06584 DIRP: DIRP; InterPro: IPR010561 DIRP (Domain in Rb-related Pathway) is postulated to be involved in the Rb-related pathway, which is encoded by multiple eukaryotic genomes and is present in proteins including lin-9 of Caenorhabditis elegans, aly of Drosophila melanogaster and mustard weed	Back alignment and domain information

>KOG1019 consensus Retinoblastoma pathway protein LIN-9/chromatin-associated protein Aly [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]	Back alignment and domain information

>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class	Back alignment and domain information

>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins	Back alignment and domain information

>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains	Back alignment and domain information

>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains	Back alignment and domain information

>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A	Back alignment and domain information

>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]	Back alignment and domain information

>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]	Back alignment and domain information

>PLN03212 Transcription repressor MYB5; Provisional	Back alignment and domain information

>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]	Back alignment and domain information

>PLN03091 hypothetical protein; Provisional	Back alignment and domain information

>PLN03212 Transcription repressor MYB5; Provisional	Back alignment and domain information

>PLN03091 hypothetical protein; Provisional	Back alignment and domain information

>KOG4329 consensus DNA-binding protein [General function prediction only]	Back alignment and domain information

>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]	Back alignment and domain information

>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]	Back alignment and domain information

>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]	Back alignment and domain information

>smart00333 TUDOR Tudor domain	Back alignment and domain information

>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]	Back alignment and domain information

>PF07039 DUF1325: SGF29 tudor-like domain; InterPro: IPR010750 SAGA-associated factor 29 is involved in transcriptional regulation, probably through association with histone acetyltransferase (HAT) complexes like the TFTC-HAT or STAGA complexes	Back alignment and domain information

>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane	Back alignment and domain information

>PF15057 DUF4537: Domain of unknown function (DUF4537)	Back alignment and domain information

>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]	Back alignment and domain information

>smart00743 Agenet Tudor-like domain present in plant sequences	Back alignment and domain information

>PF15057 DUF4537: Domain of unknown function (DUF4537)	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		1158
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-13
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-04
2ltp_A		89	Nuclear receptor corepressor 2; SMRT, TRAC, SGC, s	4e-12
2yus_A		79	SWI/SNF-related matrix-associated actin- dependent	1e-10
2cu7_A		72	KIAA1915 protein; nuclear protein, SANT domain, DN	4e-10
2eqr_A		61	N-COR1, N-COR, nuclear receptor corepressor 1; SAN	4e-08
2iw5_B		235	Protein corest, REST corepressor 1; oxidoreductase	1e-07
4a69_C		94	Nuclear receptor corepressor 2; transcription, hyd	2e-07
1x41_A		60	Transcriptional adaptor 2-like, isoform B; transcr	3e-06
2yqk_A		63	Arginine-glutamic acid dipeptide repeats protein;	9e-06
2xag_B		482	REST corepressor 1; amine oxidase, chromatin regul	4e-05
2cqr_A		73	RSGI RUH-043, DNAJ homolog subfamily C member 1; m	4e-05
2yum_A		75	ZZZ3 protein, zinc finger ZZ-type-containing prote	5e-05
2crg_A		70	Metastasis associated protein MTA3; transcription	6e-04
1vf9_A		64	Telomeric repeat binding factor 2; MYB, helix-turn	7e-04
2cjj_A		93	Radialis; plant development, DNA-binding protein,	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 = 72.2 bits (176), Expect = 8e-13
 Identities = 92/684 (13%), Positives = 183/684 (26%), Gaps = 207/684 (30%)

Query: 416 DTELS-LQLKEEKPEAVNESKLKGNRSSTGVKDTAIKTSKLGKDCTDDVSVIPESEEGNH 474
           D E    Q + +   +V E           V +   K      D  D    I   EE +H
Sbjct: 8   DFETGEHQYQYKDILSVFEDAF--------VDNFDCK------DVQDMPKSILSKEEIDH 53

Query: 475 LTNSGNRTKRQKFLPIKLRMDATEELKKFISKGKRSLSASQSKHGKLVKPPEHTSSTDHE 534
           +  S +       L   L     E ++KF+          +  +  L+ P     +   +
Sbjct: 54  IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVE------EVLRINYKFLMSP---IKTEQRQ 104

Query: 535 KEGNNSASSTAHVRTANQVNLPTK---VRSRRKMNMQKLLIERDKMSSEDIL-------- 583
                        R  N   +  K    R +  + +++ L+E   +     +        
Sbjct: 105 PSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE---LRPAKNVLIDGVLGS 161

Query: 584 -KSS-----------EDIFNDQ------NRTNSSFFDRAIKQKEQLSNCLSWYQVR-VWC 624
            K+            +   + +         NS   +  ++  ++L      YQ+   W 
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSP--ETVLEMLQKL-----LYQIDPNWT 214

Query: 625 VSEWFYSTIDYP----------WFAKREFVEYL---DHVGLSHVPR----------LTRV 661
                 S I                 + +   L    +V  +               TR 
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTR- 273

Query: 662 EWGVIR--SSLGRPRRFSEQFLK--EEKEKLNQYRESVRNHYSELRSGTKEGLPTDLARP 717
              V    S+        +         E  +   + +     +L        P  L+  
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS-- 331

Query: 718 LYVGQRIIA----VHPRT------------REICDGSVLTVEHSRYRVQFDKRELGIEFV 761
                 IIA        T              I + S+  +E + YR  FD   L + F 
Sbjct: 332 ------IIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFD--RLSV-FP 382

Query: 762 QDIDCMPLNPLE----NMPASLTRPNVAFGKFMDNFTELQM-NGQPRER-----DIEGYM 811
                +P   L     ++  S           ++   +  +   QP+E       I  Y+
Sbjct: 383 PSAH-IPTILLSLIWFDVIKSDVM------VVVNKLHKYSLVEKQPKESTISIPSI--YL 433

Query: 812 KFT-PCENLET-------------AYAPSHISPSTNYPINNLLQQHKGVSYTDSEVHVGS 857
           +     EN                 +    + P     ++     H G  +     H+ +
Sbjct: 434 ELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPP---YLDQYFYSHIG--H-----HLKN 483

Query: 858 TGQAKEEDVLALSHLR-HALDKKEAIVSELRCMNDEILENQKDG-DNSFKDSELFKKHYA 915
               +   +  +  L    L++K      +R  +D    N      N+ +  + +K +  
Sbjct: 484 IEHPERMTLFRMVFLDFRFLEQK------IR--HDSTAWNASGSILNTLQQLKFYKPY-- 533

Query: 916 AILLQLND-INEQVASAL--FCLR-QRNTYQG-NTCLTGLKPMSGLGNLGGGLPNSFDHS 970
              +  ND   E++ +A+  F  + + N      T L                       
Sbjct: 534 ---ICDNDPKYERLVNAILDFLPKIEENLICSKYTDLL--------------------RI 570

Query: 971 AYQTPESGPHVVEVVESSRSKAQK 994
           A    +       + E +  + Q+
Sbjct: 571 ALMAEDEA-----IFEEAHKQVQR 589

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

>2ltp_A Nuclear receptor corepressor 2; SMRT, TRAC, SGC, structural genomics consortium, NESG, north structural genomics consortium; NMR {Homo sapiens} Length = 89	Back alignment and structure

>2yus_A SWI/SNF-related matrix-associated actin- dependent regulator of chromatin subfamily...; SWI/SNF complex 155 kDa subunit, BRG1-associated factor 155; NMR {Homo sapiens} Length = 79	Back alignment and structure

>2cu7_A KIAA1915 protein; nuclear protein, SANT domain, DNA binding, regulation of transcription, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3 Length = 72	Back alignment and structure

>2eqr_A N-COR1, N-COR, nuclear receptor corepressor 1; SANT domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 61	Back alignment and structure

>2iw5_B Protein corest, REST corepressor 1; oxidoreductase-transcription regulator complex, oxidoreductase/repressor complex, histone demethylase, FAD; HET: FAD; 2.57A {Homo sapiens} SCOP: a.4.1.3 PDB: 2uxn_B* 2uxx_B* 2y48_B* 2v1d_B* 2x0l_B* Length = 235	Back alignment and structure

>4a69_C Nuclear receptor corepressor 2; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens} PDB: 1xc5_A Length = 94	Back alignment and structure

>1x41_A Transcriptional adaptor 2-like, isoform B; transcriptional adaptor protein2, transcriptional activation, MYB domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1 Length = 60	Back alignment and structure

>2yqk_A Arginine-glutamic acid dipeptide repeats protein; structure genomics, SANT domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 63	Back alignment and structure

>2xag_B REST corepressor 1; amine oxidase, chromatin regulator, histone inhibitor binding, methylation, nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A {Homo sapiens} PDB: 2xaf_B* 2xah_B* 2xaj_B* 2xaq_B* 2xas_B* Length = 482	Back alignment and structure

>2cqr_A RSGI RUH-043, DNAJ homolog subfamily C member 1; membrane protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3 Length = 73	Back alignment and structure

>2yum_A ZZZ3 protein, zinc finger ZZ-type-containing protein 3; transcription, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 75	Back alignment and structure

>2crg_A Metastasis associated protein MTA3; transcription factor, helix turn helix, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.3 Length = 70	Back alignment and structure

>1vf9_A Telomeric repeat binding factor 2; MYB, helix-turn-helix, telomere, DNA binding protein; NMR {Homo sapiens} SCOP: a.4.1.4 PDB: 1xg1_A 1vfc_A Length = 64	Back alignment and structure

>2cjj_A Radialis; plant development, DNA-binding protein, MYB transcription FA DNA-binding, nuclear protein, floral asymmetry; 1.9A {Antirrhinum majus} SCOP: a.4.1.3 Length = 93	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		1158
2yus_A		79	SWI/SNF-related matrix-associated actin- dependent	99.13
2iw5_B		235	Protein corest, REST corepressor 1; oxidoreductase	98.94
2xag_B		482	REST corepressor 1; amine oxidase, chromatin regul	98.93
2eqr_A		61	N-COR1, N-COR, nuclear receptor corepressor 1; SAN	98.91
2yqk_A		63	Arginine-glutamic acid dipeptide repeats protein;	98.79
2cu7_A		72	KIAA1915 protein; nuclear protein, SANT domain, DN	98.6
2yum_A		75	ZZZ3 protein, zinc finger ZZ-type-containing prote	98.5
2elk_A		58	SPCC24B10.08C protein; hypothetical protein, struc	98.5
2crg_A		70	Metastasis associated protein MTA3; transcription	98.49
1x41_A		60	Transcriptional adaptor 2-like, isoform B; transcr	98.46
1wgx_A		73	KIAA1903 protein; MYB DNA-binding domain, human cD	98.42
2cqr_A		73	RSGI RUH-043, DNAJ homolog subfamily C member 1; m	98.31
4a69_C		94	Nuclear receptor corepressor 2; transcription, hyd	98.29
2ltp_A		89	Nuclear receptor corepressor 2; SMRT, TRAC, SGC, s	97.54
1guu_A		52	C-MYB, MYB proto-oncogene protein; transcription,	98.13
2d9a_A		60	B-MYB, MYB-related protein B; DNA binding, structu	98.05
2cqq_A		72	RSGI RUH-037, DNAJ homolog subfamily C member 1; m	98.05
1gvd_A		52	MYB proto-oncogene protein; transcription, transcr	98.04
2dim_A		70	Cell division cycle 5-like protein; MYB_DNA-bindin	97.94
1irz_A		64	ARR10-B; helix-turn-helix, DNA binding protein; NM	97.89
2din_A		66	Cell division cycle 5-like protein; MYB_DNA-bindin	97.89
2cjj_A		93	Radialis; plant development, DNA-binding protein,	97.87
1w0t_A		53	Telomeric repeat binding factor 1; telomere, DNA-b	97.86
3osg_A		126	MYB21; transcription-DNA complex, MYB2, R2R3 domai	97.84
2k9n_A		107	MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind	97.7
4eef_G		74	F-HB80.4, designed hemagglutinin binding protein;	97.7
2llk_A		73	Cyclin-D-binding MYB-like transcription factor 1;	97.69
1gv2_A		105	C-MYB, MYB proto-oncogene protein; transcription,	97.65
1ity_A		69	TRF1; helix-turn-helix, telomeres, DNA binding, MY	97.65
3osg_A		126	MYB21; transcription-DNA complex, MYB2, R2R3 domai	97.55
3sjm_A		64	Telomeric repeat-binding factor 2; human telomeric	97.54
1gv2_A		105	C-MYB, MYB proto-oncogene protein; transcription,	97.49
1h8a_C		128	AMV V-MYB, MYB transforming protein; transcription	97.48
2k9n_A		107	MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind	97.46
1h8a_C		128	AMV V-MYB, MYB transforming protein; transcription	97.35
3zqc_A		131	MYB3; transcription-DNA complex, DNA-binding prote	97.34
1h89_C		159	C-MYB, MYB proto-oncogene protein; transcription/D	97.17
3zqc_A		131	MYB3; transcription-DNA complex, DNA-binding prote	97.08
1x58_A		62	Hypothetical protein 4930532D21RIK; MUS musculus a	97.01
1h89_C		159	C-MYB, MYB proto-oncogene protein; transcription/D	96.74
2ckx_A		83	NGTRF1, telomere binding protein TBP1; nuclear pro	96.71
2xag_B		482	REST corepressor 1; amine oxidase, chromatin regul	96.27
2aje_A		105	Telomere repeat-binding protein; DNA-binding, Trp,	96.02
2roh_A		122	RTBP1, telomere binding protein-1; plant, nucleus,	95.97
2juh_A		121	Telomere binding protein TBP1; helix, nucleus, nuc	95.89
1ofc_X		304	ISWI protein; nuclear protein, chromatin remodelin	94.36
1ign_A		246	Protein (RAP1); RAP1,yeast,telomeres,homoeodomain,	94.09
3hm5_A		93	DNA methyltransferase 1-associated protein 1; DNA	93.45
2equ_A		74	PHD finger protein 20-like 1; tudor domain, struct	92.37
2qqr_A		118	JMJC domain-containing histone demethylation prote	91.85
2xdp_A		123	Lysine-specific demethylase 4C; oxidoreductase, hi	91.84
4b4c_A		211	Chromodomain-helicase-DNA-binding protein 1; chrom	91.64
4hcz_A		58	PHD finger protein 1; protein-peptide complex, tud	90.73
3p8d_A		67	Medulloblastoma antigen MU-MB-50.72; tudor domain,	90.57
3qii_A		85	PHD finger protein 20; tudor domain, structural ge	90.07
1mhn_A		59	SurviVal motor neuron protein; SMN, SMA, spinal mu	89.66
4a4f_A		64	SurviVal of motor neuron-related-splicing factor;	88.84
2ldm_A		81	Uncharacterized protein; PHF20, tudor domain, epig	88.48
3mea_A		180	SAGA-associated factor 29 homolog; structural geno	88.47
1g5v_A		88	SurviVal motor neuron protein 1; mRNA processing,	88.18
2l8d_A		66	Lamin-B receptor; DNA binding protein; NMR {Gallus	87.98
2dig_A		68	Lamin-B receptor; tudor domain, integral nuclear e	85.17
2ebi_A		86	DNA binding protein GT-1; DNA-binding domain, phos	83.64
2m0o_A		79	PHD finger protein 1; tudor domain, H3K36ME3 bindi	83.55
2xk0_A		69	Polycomb protein PCL; transcription, aromatic CAGE	83.43
2e5p_A		68	Protein PHF1, PHD finger protein 1; tudor domain,	82.81
2y9y_A		374	Imitation switch protein 1 (DEL_ATPase); transcrip	82.18
4iej_A		93	DNA methyltransferase 1-associated protein 1; DNA	81.33
2g3r_A		123	Tumor suppressor P53-binding protein 1; tandem tud	81.31
2eqj_A		66	Metal-response element-binding transcription facto	80.01

>2yus_A SWI/SNF-related matrix-associated actin- dependent regulator of chromatin subfamily...; SWI/SNF complex 155 kDa subunit, BRG1-associated factor 155; NMR {Homo sapiens}	Back alignment and structure

Probab=99.13  E-value=5.5e-11  Score=107.51  Aligned_cols=57  Identities=26%  Similarity=0.464  Sum_probs=51.3

Q ss_pred             cccccccccccccCCCCCCHHHHHHHHHHHHHcCCChHHHHHHHhcchHHHHHHHHh
Q 001101           30 DRSGKRKRKLSDMLGPQWSKEELERFYEAYRKYGKDWKKIAAAVRNRTAEMVEALFT   86 (1158)
Q Consensus        30 ~k~k~rk~k~~~~l~~~Ws~eEh~rF~ea~r~~Gk~Wkkva~~v~tRt~~~v~s~y~   86 (1158)
                      .-+|.+|++......+.||.||+++|++|+.+||.+|.+||.+|++||..||+.+|.
T Consensus         4 g~~~~~~~~~~~~~~~~WT~eEd~~Ll~~v~~~G~~W~~IA~~v~~RT~~qcr~r~~   60 (79)
T 2yus_A            4 GSSGTLAKSKGASAGREWTEQETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFL   60 (79)
T ss_dssp             SSSCCCCCCCSSCCSCCCCHHHHHHHHHHHHHSSSCHHHHHHHHSSCCHHHHHHHHT
T ss_pred             cccCccCCccccccCCCcCHHHHHHHHHHHHHhCCCHHHHHHHcCCCCHHHHHHHHH
Confidence            344566777888899999999999999999999999999999999999999999864

PyMOL of 2yus

>2iw5_B Protein corest, REST corepressor 1; oxidoreductase-transcription regulator complex, oxidoreductase/repressor complex, histone demethylase, FAD; HET: FAD; 2.57A {Homo sapiens} SCOP: a.4.1.3 PDB: 2uxn_B* 2uxx_B* 2y48_B* 2v1d_B* 2x0l_B*	Back alignment and structure

>2xag_B REST corepressor 1; amine oxidase, chromatin regulator, histone inhibitor binding, methylation, nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A {Homo sapiens} PDB: 2xaf_B* 2xah_B* 2xaj_B* 2xaq_B* 2xas_B*	Back alignment and structure

>2eqr_A N-COR1, N-COR, nuclear receptor corepressor 1; SANT domain, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2yqk_A Arginine-glutamic acid dipeptide repeats protein; structure genomics, SANT domain, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2cu7_A KIAA1915 protein; nuclear protein, SANT domain, DNA binding, regulation of transcription, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3	Back alignment and structure

>2yum_A ZZZ3 protein, zinc finger ZZ-type-containing protein 3; transcription, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2elk_A SPCC24B10.08C protein; hypothetical protein, structural genomics, NPPSFA; NMR {Schizosaccharomyces pombe}	Back alignment and structure

>2crg_A Metastasis associated protein MTA3; transcription factor, helix turn helix, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.3	Back alignment and structure

>1x41_A Transcriptional adaptor 2-like, isoform B; transcriptional adaptor protein2, transcriptional activation, MYB domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1	Back alignment and structure

>1wgx_A KIAA1903 protein; MYB DNA-binding domain, human cDNA, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: a.4.1.3	Back alignment and structure

>2cqr_A RSGI RUH-043, DNAJ homolog subfamily C member 1; membrane protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3	Back alignment and structure

>4a69_C Nuclear receptor corepressor 2; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens} PDB: 1xc5_A	Back alignment and structure

>2ltp_A Nuclear receptor corepressor 2; SMRT, TRAC, SGC, structural genomics consortium, NESG, north structural genomics consortium; NMR {Homo sapiens}	Back alignment and structure

>1guu_A C-MYB, MYB proto-oncogene protein; transcription, transcription regulation, DNA binding, ION bindi proto-oncogene, nuclear protein, activator; 1.6A {Mus musculus} SCOP: a.4.1.3 PDB: 1mbe_A 1mbf_A	Back alignment and structure

>2d9a_A B-MYB, MYB-related protein B; DNA binding, structural genomics, unknown function, NPPSFA; NMR {Mus musculus}	Back alignment and structure

>2cqq_A RSGI RUH-037, DNAJ homolog subfamily C member 1; membrane protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3	Back alignment and structure

>1gvd_A MYB proto-oncogene protein; transcription, transcription regulation, C-MYB, DNA binding, ION binding, nuclear protein; 1.45A {Mus musculus} SCOP: a.4.1.3 PDB: 1gv5_A 1mbg_A 1mbh_A	Back alignment and structure

>2dim_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>1irz_A ARR10-B; helix-turn-helix, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.11	Back alignment and structure

>2din_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2cjj_A Radialis; plant development, DNA-binding protein, MYB transcription FA DNA-binding, nuclear protein, floral asymmetry; 1.9A {Antirrhinum majus} SCOP: a.4.1.3	Back alignment and structure

>1w0t_A Telomeric repeat binding factor 1; telomere, DNA-binding protein, homeodomain, mitosis, cell cycle; 2.00A {Homo sapiens} SCOP: a.4.1.4 PDB: 1ba5_A	Back alignment and structure

>3osg_A MYB21; transcription-DNA complex, MYB2, R2R3 domain, DNA binding PR transcription factor; 2.00A {Trichomonas vaginalis} PDB: 3osf_A	Back alignment and structure

>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_A	Back alignment and structure

>4eef_G F-HB80.4, designed hemagglutinin binding protein; immunoglobulin, fusion of virus membrane with membrane, membrane fusion, sialic acid, virion; HET: NAG BMA; 2.70A {Artificial gene}	Back alignment and structure

>2llk_A Cyclin-D-binding MYB-like transcription factor 1; helix bundle, SGC, structural genomics consortium, NESG, NOR structural genomics consortium; NMR {Homo sapiens}	Back alignment and structure

>1gv2_A C-MYB, MYB proto-oncogene protein; transcription, DNA binding, ION binding; 1.68A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 PDB: 1mse_C* 1msf_C* 1a5j_A 1idy_A 1idz_A 1mbj_A 1mbk_A	Back alignment and structure

>1ity_A TRF1; helix-turn-helix, telomeres, DNA binding, MYB domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: a.4.1.4 PDB: 1iv6_A	Back alignment and structure

>3osg_A MYB21; transcription-DNA complex, MYB2, R2R3 domain, DNA binding PR transcription factor; 2.00A {Trichomonas vaginalis} PDB: 3osf_A	Back alignment and structure

>3sjm_A Telomeric repeat-binding factor 2; human telomeric repeat binding protein 2, telomere, telomeri homeodomain proteins amino acid sequence; HET: DNA; 1.35A {Homo sapiens} PDB: 1xg1_A 1vfc_A 1vf9_A 1w0u_A	Back alignment and structure

>1gv2_A C-MYB, MYB proto-oncogene protein; transcription, DNA binding, ION binding; 1.68A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 PDB: 1mse_C* 1msf_C* 1a5j_A 1idy_A 1idz_A 1mbj_A 1mbk_A	Back alignment and structure

>1h8a_C AMV V-MYB, MYB transforming protein; transcription/DNA; 2.23A {Avian myeloblastosis virus} SCOP: a.4.1.3 a.4.1.3	Back alignment and structure

>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_A	Back alignment and structure

>1h8a_C AMV V-MYB, MYB transforming protein; transcription/DNA; 2.23A {Avian myeloblastosis virus} SCOP: a.4.1.3 a.4.1.3	Back alignment and structure

>3zqc_A MYB3; transcription-DNA complex, DNA-binding protein, nucleus; 2.90A {Trichomonas vaginalis}	Back alignment and structure

>1h89_C C-MYB, MYB proto-oncogene protein; transcription/DNA; 2.45A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 a.4.1.3 PDB: 1h88_C	Back alignment and structure

>3zqc_A MYB3; transcription-DNA complex, DNA-binding protein, nucleus; 2.90A {Trichomonas vaginalis}	Back alignment and structure

>1x58_A Hypothetical protein 4930532D21RIK; MUS musculus adult MALE testis cDNA, riken FULL-length enriched library, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.1	Back alignment and structure

>1h89_C C-MYB, MYB proto-oncogene protein; transcription/DNA; 2.45A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 a.4.1.3 PDB: 1h88_C	Back alignment and structure

>2ckx_A NGTRF1, telomere binding protein TBP1; nuclear protein; 1.9A {Nicotiana tabacum} SCOP: a.4.1.3 PDB: 2qhb_A	Back alignment and structure

>2xag_B REST corepressor 1; amine oxidase, chromatin regulator, histone inhibitor binding, methylation, nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A {Homo sapiens} PDB: 2xaf_B* 2xah_B* 2xaj_B* 2xaq_B* 2xas_B*	Back alignment and structure

>2aje_A Telomere repeat-binding protein; DNA-binding, Trp, MYB motif, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.3	Back alignment and structure

>2roh_A RTBP1, telomere binding protein-1; plant, nucleus, DNA binding protein; NMR {Oryza sativa}	Back alignment and structure

>2juh_A Telomere binding protein TBP1; helix, nucleus, nuclear protein; NMR {Nicotiana glutinosa}	Back alignment and structure

>1ofc_X ISWI protein; nuclear protein, chromatin remodeling factor, ATPase, SANT domain, nucleosome recognition; HET: GLC G4D; 1.9A {Drosophila melanogaster} SCOP: a.4.1.3 a.4.1.13 a.187.1.1 PDB: 2nog_A	Back alignment and structure

>1ign_A Protein (RAP1); RAP1,yeast,telomeres,homoeodomain, DNA binding protein/DNA complex; HET: DNA; 2.25A {Saccharomyces cerevisiae} SCOP: a.4.1.6 a.4.1.6 PDB: 3ukg_A	Back alignment and structure

>3hm5_A DNA methyltransferase 1-associated protein 1; DNA methylation, chromatin, structural genomics consortium, SGC, activator, chromatin regulator; HET: DNA; 1.80A {Homo sapiens}	Back alignment and structure

>2equ_A PHD finger protein 20-like 1; tudor domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>2qqr_A JMJC domain-containing histone demethylation protein 3A; histone lysine demethylase, tandem hybrid tudor domains, metal binding protein; 1.80A {Homo sapiens} SCOP: b.34.9.1 b.34.9.1 PDB: 2qqs_A* 2gfa_A* 2gf7_A*	Back alignment and structure

>2xdp_A Lysine-specific demethylase 4C; oxidoreductase, histone modification; 1.56A {Homo sapiens}	Back alignment and structure

>4b4c_A Chromodomain-helicase-DNA-binding protein 1; chromatin-remodeling, histone acetylation COMP chromatin regulation, transcription; 1.62A {Homo sapiens}	Back alignment and structure

>4hcz_A PHD finger protein 1; protein-peptide complex, tudor, histone binding, H3K36ME3, N nucleus, transcription; HET: M3L; 1.85A {Homo sapiens}	Back alignment and structure

>3p8d_A Medulloblastoma antigen MU-MB-50.72; tudor domain, lysine-methylated P53 binding, histone binding binding; 2.00A {Homo sapiens}	Back alignment and structure

>3qii_A PHD finger protein 20; tudor domain, structural genomics, structural GE consortium, SGC, transcription regulator; 2.30A {Homo sapiens}	Back alignment and structure

>1mhn_A SurviVal motor neuron protein; SMN, SMA, spinal muscular atrophy, RNA binding protein; 1.80A {Homo sapiens} SCOP: b.34.9.1 PDB: 4a4e_A* 4a4g_A*	Back alignment and structure

>4a4f_A SurviVal of motor neuron-related-splicing factor; RNA binding protein; HET: 2MR; NMR {Homo sapiens} PDB: 4a4h_A*	Back alignment and structure

>2ldm_A Uncharacterized protein; PHF20, tudor domain, epigenetics, methylated P53, transcript factor, transcription-protein binding complex; HET: M2L; NMR {Homo sapiens}	Back alignment and structure

>3mea_A SAGA-associated factor 29 homolog; structural genomics consortium, SGC, nucleus, transcription, transcription regulation, chromosomal protein, DNA-binding; HET: M3L; 1.26A {Homo sapiens} PDB: 3meu_A* 3met_A* 3me9_A* 3mev_A* 3lx7_A 3mew_A	Back alignment and structure

>1g5v_A SurviVal motor neuron protein 1; mRNA processing, translation; NMR {Homo sapiens} SCOP: b.34.9.1	Back alignment and structure

>2l8d_A Lamin-B receptor; DNA binding protein; NMR {Gallus gallus}	Back alignment and structure

>2dig_A Lamin-B receptor; tudor domain, integral nuclear envelope inner membrane protein, nuclear protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: b.34.9.1	Back alignment and structure

>2ebi_A DNA binding protein GT-1; DNA-binding domain, phosphorylation; HET: DNA; NMR {Arabidopsis thaliana} PDB: 2jmw_A*	Back alignment and structure

>2m0o_A PHD finger protein 1; tudor domain, H3K36ME3 binding, peptide binding protein; HET: M3L; NMR {Homo sapiens}	Back alignment and structure

>2xk0_A Polycomb protein PCL; transcription, aromatic CAGE; NMR {Drosophila melanogaster}	Back alignment and structure

>2e5p_A Protein PHF1, PHD finger protein 1; tudor domain, PHF1 protein, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2y9y_A Imitation switch protein 1 (DEL_ATPase); transcription, nuclear protein complex, chromatin remodeling nucleosome remodeling; 3.25A {Saccharomyces cerevisiae} PDB: 2y9z_A	Back alignment and structure

>4iej_A DNA methyltransferase 1-associated protein 1; DNA methylation, chromatin regulator, repressor, structural joint center for structural genomics; HET: DNA; 1.45A {Homo sapiens} PDB: 3hm5_A*	Back alignment and structure

>2g3r_A Tumor suppressor P53-binding protein 1; tandem tudor domains, cell cycle-transcription complex; 1.25A {Homo sapiens} SCOP: b.34.9.1 b.34.9.1 PDB: 2ig0_A* 3lgf_A* 3lgl_A* 3lh0_A* 1xni_A	Back alignment and structure

>2eqj_A Metal-response element-binding transcription factor 2; structure genomics,tudor domain, zinc-regulated factor 1, ZIRF1; NMR {Mus musculus}	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		1158
d1xc5a1		68	a.4.1.3 (A:413-480) Nuclear receptor corepressor 2	2e-08
d2iw5b1		65	a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Hu	5e-08
d2crga1		57	a.4.1.3 (A:8-64) Metastasis associated protein MTA	2e-06
d1irza_		64	a.4.1.11 (A:) Arr10-B {Thale cress (Arabidopsis th	4e-05
d2cu7a1		65	a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sap	8e-05
d2cqqa1		59	a.4.1.3 (A:8-66) DnaJ homolog subfamily C member 1	8e-05
d2cqra1		60	a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1	3e-04
d2cjja1		63	a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Anti	0.003
d1guua_		50	a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus	0.004

>d1xc5a1 a.4.1.3 (A:413-480) Nuclear receptor corepressor 2 {Human (Homo sapiens) [TaxId: 9606]} Length = 68	Back information, alignment and structure


class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Nuclear receptor corepressor 2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.9 bits (119), Expect = 2e-08
 Identities = 12/60 (20%), Positives = 30/60 (50%), Gaps = 4/60 (6%)

Query: 35 RKRKLSDMLGPQWSKEELERFYEAYRKYGKDWKKIAAAVRNRTAEMVEALFTMNRAYLSL 94
          + R++ +M    WS++E E F E + ++ K++  IA+ +  +T       + + +   + 
Sbjct: 12 KDRQVMNM----WSEQEKETFREKFMQHPKNFGLIASFLERKTVAECVLYYYLTKKNENY 67

PyMOL of d1xc5a1

>d2iw5b1 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Human (Homo sapiens) [TaxId: 9606]} Length = 65	Back information, alignment and structure

>d2crga1 a.4.1.3 (A:8-64) Metastasis associated protein MTA3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 57	Back information, alignment and structure

>d1irza_ a.4.1.11 (A:) Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 64	Back information, alignment and structure

>d2cu7a1 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 9606]} Length = 65	Back information, alignment and structure

>d2cqqa1 a.4.1.3 (A:8-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 59	Back information, alignment and structure

>d2cqra1 a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 60	Back information, alignment and structure

>d2cjja1 a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Antirrhinum majus) [TaxId: 4151]} Length = 63	Back information, alignment and structure

>d1guua_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 50	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		1158
d2iw5b1		65	REST corepressor 1, CoREST {Human (Homo sapiens) [	99.0
d1xc5a1		68	Nuclear receptor corepressor 2 {Human (Homo sapien	98.85
d1irza_		64	Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId	98.8
d2cu7a1		65	MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 960	98.76
d1x41a1		47	Transcriptional adaptor 2-like, TADA2L, isoform b	98.68
d2crga1		57	Metastasis associated protein MTA3 {Mouse (Mus mus	98.65
d2cjja1		63	Radialis {Garden snapdragon (Antirrhinum majus) [T	98.39
d2cqra1		60	DnaJ homolog subfamily C member 1 {Human (Homo sap	98.22
d1guua_		50	c-Myb, DNA-binding domain {Mouse (Mus musculus) [T	98.08
d1gv2a2		47	c-Myb, DNA-binding domain {Mouse (Mus musculus) [T	97.98
d1gvda_		52	c-Myb, DNA-binding domain {Mouse (Mus musculus) [T	97.76
d2cqqa1		59	DnaJ homolog subfamily C member 1 {Human (Homo sap	97.56
d1w0ua_		55	Telomeric repeat binding factor 2, TRF2 {Human (Ho	97.28
d1w0ta_		52	DNA-binding domain of human telomeric protein, hTR	97.25
d1igna1		86	DNA-binding domain of rap1 {Baker's yeast (Sacchar	96.72
d1wgxa_		73	Hypothetical protein C14orf106 (KIAA1903) {Human (	95.7
d1ofcx1		52	SANT domain of the nucleosome remodeling ATPase IS	95.08
d1ug2a_		95	2610100b20rik gene product {Mouse (Mus musculus) [	94.98
d2ckxa1		83	Telomere binding protein TBP1 {Tobacco (Nicotiana	94.81
d2qqra1		59	Jumonji domain-containing protein 2A {Human (Homo	88.79
d2d9ta1		60	Tudor domain-containing protein 3, TDRD3 {Mouse (M	81.02

>d2iw5b1 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: REST corepressor 1, CoREST
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.00  E-value=1.4e-10  Score=98.47  Aligned_cols=53  Identities=26%  Similarity=0.508  Sum_probs=48.4

Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCChHHHHHHHhcchHHHHHHHHhhhhhhcccC
Q 001101           43 LGPQWSKEELERFYEAYRKYGKDWKKIAAAVRNRTAEMVEALFTMNRAYLSLP   95 (1158)
Q Consensus        43 l~~~Ws~eEh~rF~ea~r~~Gk~Wkkva~~v~tRt~~~v~s~y~~~k~~l~lp   95 (1158)
                      ...+||.||.+.|++++.+||++|.+||.+|++||..||+..|.+.+--++++
T Consensus         4 ~~~~WT~eE~~~f~~~~~~~G~~w~~Ia~~~~~kt~~q~~~~y~~~~k~~~~~   56 (65)
T d2iw5b1           4 CNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVNYRRRFNID   56 (65)
T ss_dssp             CCSSCCHHHHHHHHHHHHHHSSCHHHHHHHHSSCCHHHHHHHHHHTTTTTTHH
T ss_pred             CCCCCCHHHHHHHHHHHHHhCchHHHHHHHcCCCCHHHHHHHHHHHHhhcCHH
Confidence            56799999999999999999999999999999999999999999887666554

PyMOL of d2iw5b1

>d1xc5a1 a.4.1.3 (A:413-480) Nuclear receptor corepressor 2 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1irza_ a.4.1.11 (A:) Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}	Back information, alignment and structure

>d2cu7a1 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1x41a1 a.4.1.1 (A:8-54) Transcriptional adaptor 2-like, TADA2L, isoform b {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2crga1 a.4.1.3 (A:8-64) Metastasis associated protein MTA3 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d2cjja1 a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Antirrhinum majus) [TaxId: 4151]}	Back information, alignment and structure

>d2cqra1 a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1guua_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1gv2a2 a.4.1.3 (A:144-190) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1gvda_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d2cqqa1 a.4.1.3 (A:8-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1w0ua_ a.4.1.4 (A:) Telomeric repeat binding factor 2, TRF2 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1w0ta_ a.4.1.4 (A:) DNA-binding domain of human telomeric protein, hTRF1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1igna1 a.4.1.6 (A:360-445) DNA-binding domain of rap1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d1wgxa_ a.4.1.3 (A:) Hypothetical protein C14orf106 (KIAA1903) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1ofcx1 a.4.1.3 (X:799-850) SANT domain of the nucleosome remodeling ATPase ISWI {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}	Back information, alignment and structure

>d1ug2a_ a.4.1.3 (A:) 2610100b20rik gene product {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d2ckxa1 a.4.1.3 (A:578-660) Telomere binding protein TBP1 {Tobacco (Nicotiana tabacum) [TaxId: 4097]}	Back information, alignment and structure

>d2qqra1 b.34.9.1 (A:897-955) Jumonji domain-containing protein 2A {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2d9ta1 b.34.9.1 (A:8-67) Tudor domain-containing protein 3, TDRD3 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure