Citrus Sinensis ID: 041430

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820-------830-------840-------850-------860-------870-------880-------890-------900-------910-------920-------930-------940-------950-------960-------970-------980-------990------1000------1010------1020------1030------1040------1050------1060------1070------1080------1090------1100------1110------1120------1130------1140------1150------1160------1170------1180------1190------120
MEPEGREKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVDAAGRTELFLNGRALKVSLGPENPFRLNQRGRTSTPFKLPDVCVEIGTLVSRDEFFVAWRGPASGTDFLVDPFDGTCKFCFTRDIAFALKSSTEHAVIKCEFKVEFLVREINLVKQYSEFSCVAILLQLASSPRVWYRTADDDILVLVPFDMLDDDDPWIRTTDFTPSGAIGRCNSYRISISSRHRGKLSKVITYLGERRVQVDSLSRPITIREEPDFEVPMSDPFFCIHYEEGISFEIMFLVNAVMHKGIINQHQLSDSFFDLLRGQSREVNVAALKHIYSYKWPVFDACKRLKLVQEWLLKDPELYKGPKQIDDIVEVRRLVITPTKAYCLPPEVELSNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIAPIVRDITLNSFSQKTRVFKRVRSILSGGFYLCGRKFSFLAFSSSQLRDCSAWFFSEDGKTSVLDIKKWMGRFTDKNIAKCAARMGQCFSSTYATVEVPPTEVDPELPDIKRNGYVFSDGIGKITPDLAMEVAQKLKLDVNPPPCAYQIRYAGCKGVVACWPAKGDGIRMSLRESMNKFQSHHTTLEICSWTRFQPGFLNRQIITLLSTLNVPDEMFWSMQDSMLSKLNQMLVDSDVAFEVLTAACAEQGNTAAIMLSAGFNPQTEPHLRGMLTCIRAAQLWGLREKARIFVPAGRWLMGCLDELGVLEGGQCFIQVSEPFLGNCFSKHGSRFAETKKLQVIKGFVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEASGSDLDGDLYFVTWDENLIPPSKKSWPPMEYNAAEAKTLTRPVDQRDIIEFFAKHMVNENLGTICNAHVVHADHSEYGALDENCILLAELAATAVDFPKTGKIVTMPAHLKPKLYPDFMGKEAYQSYKSNKILGRLYRQSKDAYDEDISVSSEVDINPVDIHYDTDLEVPESVDFIADAWNQKCSYDGQLNGLLEQYKVNREEELVTGHIWSMPKYNSRKQGELKERLKHSYSALRKEFRQVFEKMDSDCELLSEDEKNALFERKASAWYQVTYHPEWVKKSLDLQEQDSARSVVLLSFAWIANDYLARIKIRCREMANIDTSKPVNYLARYVADRI
cccccccccEEEEEEEEEcccccccHHHHHHHHHHccccEEEEEccccccccccccccccccEEEEEcccccccccccEEEEEcccHHHHHHHHHHcccEEEEccccccccccccccccccccccccccEEEccEEEEEEEEEcccEEEEEEEcccccccEEEcccccEEEEEEEEEEEEEEEccccccEEEEEEEEEEEEccEEEEEEEcccccEEEEEEccccccEEEEcccccccccccccccccccccEEEcccccccccccEEEEEEEEEccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHcccccHHcccHHHHHHHHcccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHccccccccccccccEEEEEEEEEEccEEEEcccccccHHHHHHHcccccccEEEEEEEccccccccccccccccccEEEccccccccccHHHHHHHHHHHcccEEEccEEEEEEEEcccccccccEEEEEccccccHHHHHHHHcccccHHHHHHHHHHHccccccccEEEEccccEEEcccccccccccccccEEEccHHHHHHHHHHHcccccccccEEEEEEcccccEEEEccccccccEEEEcccccccccccccEEEEEccccccccccHHHHHHHccccccHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHcccccHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHcccEEccccEEEEEEEcccccccccEEEEEEcccccccccccccccccccccEEEEEEEEEEEccccccccccEEEEEEccccccccccEEEEccccccccccccccccccccEEEEEEccccccccccccccccccHHHHccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccEEEEEEEccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHccHHHHHccHHHHHcccccccccEEEHHcHHHHHHHHHHHccccccccccccccHHHHHHHHcc
cccccccccEEEEEEEEccccccccHHHHHHHHHHHccEEEEEEEEEccccccccccEEccccccccccccccccccccEEEEccHHHHHHHHHHHccccEEEcccEEEEccccccccccccccccccccEcccEEEEEEcEcccccEEEEEEcccccEEEEEEccccEEEEEEEEEEEEEccccccccEEEEEEEEEEEEcEEEEEEEEccccccEEEEEEccccEEEEEcccccccccccccccccccccEEEEEccccccccEEEEEEEEEcccccHHHHHHHHHHHHccccEEEcccccEccccccccccccccccccccccccccHHHHHHHHHHHcccccHHHccHHHHHHHHHccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHccccccccccccccEEEEEEEEcccEEEEcccccccccEEEEEcccccccEEEEEEEccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccEEcccEEEEEEEccHHHHcccEEEEcccccccHHHHHHHHcccccccHHHHHHHHHHHcccccccEEcccccEEEEccccccccEEEccccccccHHHHHHHHHHccccccccccEEEEEEcccEEEEEEccccccccEEEEEcccHHcccccccEEEEEcccccccHHcHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHccccccHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHccEEcccccEEEEEEcccccccccEEEEEEcccccccccccccccccccccEEEEEEEEEEEEccccccccEEEEEEcccHHHHHccEEEEEccccccccccccccccccccEEEEEEccccccccccccccccccccccccccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHccccccccccccccccccccccHcccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccHEEEEEHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHccHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHcc
MEPEGREKLLVDAQVSFGGFDRNVKAAELVKYLENEVggvwrcrlktsctpsesypdfyvtntaevrktddyekvephafvhfamptyVTRAVDAAGRTELFLNGRALkvslgpenpfrlnqrgrtstpfklpdVCVEIGtlvsrdeffvawrgpasgtdflvdpfdgtckfcfTRDIAFALKSSTEHAVIKCEFKVEFLVREINLVKQYSEFSCVAILLQLAssprvwyrtadddilvlvpfdmlddddpwirttdftpsgaigrcnSYRISISSRHRGKLSKVITYLGErrvqvdslsrpitireepdfevpmsdpffcihyeegiSFEIMFLVNAVMHKGIINQHQLSDSFFDLLRGQSREVNVAALKHIYsykwpvfdaCKRLKLVQEWLlkdpelykgpkqidDIVEVRRLVitptkayclppevelsNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIAPIVRDITLNSFSQKTRVFKRVRSILSGgfylcgrkfsflafsssqlrdcsawffsedgktsVLDIKKWMGRFTDKNIAKCAARMgqcfsstyatvevpptevdpelpdikrngyvfsdgigkitPDLAMEVAQKLkldvnpppcayqiryagckgvvacwpakgdgiRMSLRESMNKFqshhttleicswtrfqpgflNRQIITLLstlnvpdeMFWSMQDSMLSKLNQMLVDSDVAFEVLTAACAEQGNTAAIMLSagfnpqtephlRGMLTCIRAAQLWGLREKARIFVPAGRWLMGCldelgvleggqcfiqvsepflgncfskhgsrfaetkKLQVIKGFVVIaknpclhpgdirileavdhpelhhlydclvfpqkgdrphtneasgsdldgdlyfvtwdenlippskkswppmeynaaeaktltrpvdqRDIIEFFAKHMVNENLGTICNAHVVhadhseygaldeNCILLAELAATavdfpktgkivtmpahlkpklypdfmgkeayQSYKSNKILGRLYRqskdaydedisvssevdinpvdihydtdlevpesVDFIADAWNQKCSYDGQLNGLLEQYKvnreeelvtghiwsmpkynsrkqgELKERLKHSYSALRKEFRQVFEKMDSDCELLSEDEKNALFERKASawyqvtyhpewvkksldlqeqdSARSVVLLSFAWIANDYLARIKIRCREmanidtskpvNYLARYVADRI
MEPEGREKLLVdaqvsfggfdrNVKAAELVKYlenevggvwrcrlktsctpsesypdfyVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVDAAGRTELFLNGRALkvslgpenpfrlnqrgrtstpfklpdVCVEIGTLVSRDEFFVAWRGPASGTDFLVDPFDGTCKFCFTRDIAFALKSSTEHAVIKCEFKVEFLVREINLVKQYSEFSCVAILLQLASSPRVWYRTADDDILVLVPFDMLDDDDPWIRttdftpsgaigrcnsyrisissrhrgklskvitylgerrvqvdslsrpitireepdfevpmsdPFFCIHYEEGISFEIMFLVNAVMHKGIINQHQLSDSFFDLLRGQSREVNVAALKHIYSYKWPVFDACKRLKLVQEWLlkdpelykgpkqiddIVEVRRLVItptkayclppevelsnrvLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIAPIVRDITLNSFSQKTRVFKRVRSILSGGFYLCGRKFSFLAFSSSQLRDCSAWFFSEDGKTSVLDIKKWMGRFTDKNIAKCAARMGQCFSStyatvevpptevdpelpdiKRNGYVFSDGIGKITPDLAMEVAQKLKLDVNPPPCAYQIRYAGCKGVVACWPAKGDGIRMSLRESMNKFQSHHTTLEICSWTRFQPGFLNRQIITLLSTLNVPDEMFWSMQDSMLSKLNQMLVDSDVAFEVLTAACAEQGNTAAIMLSAGFNPQTEPHLRGMLTCIRAAQLWGLREKARIFVPAGRWLMGCLDELGVLEGGQCFIQVSEPFLGNCFSKHGSRFAETKKLQVIKGFVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEASGSDLDGDLYFVTWDENLIppskkswppMEYNAAeaktltrpvDQRDIIEFFAKHMVNENLGTICNAHVVHADHSEYGALDENCILLAELAATAVDFPKTGKIVTMPAHLKPKLYPDFMGKEAYQSYKSNKILGRLYRQSKDAYDEDisvssevdinpvDIHYDTDLEVPESVDFIADAWNQKCSYDGQLNGLLEQYKVNREEELvtghiwsmpkynsrkqgelKERLKHSYSALRKEFRQVFEKMDSDCELLSEDEKNALFERKASAWYQVTYHPEWVKKSLDLQEQDSARSVVLLSFAWIANDYLARIKIRCRemanidtskpvnyLARYVADRI
MEPEGREKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVDAAGRTELFLNGRALKVSLGPENPFRLNQRGRTSTPFKLPDVCVEIGTLVSRDEFFVAWRGPASGTDFLVDPFDGTCKFCFTRDIAFALKSSTEHAVIKCEFKVEFLVREINLVKQYSEFSCVAILLQLASSPRVWYRTADDDILVLVPFDMLDDDDPWIRTTDFTPSGAIGRCNSYRISISSRHRGKLSKVITYLGERRVQVDSLSRPITIREEPDFEVPMSDPFFCIHYEEGISFEIMFLVNAVMHKGIINQHQLSDSFFDLLRGQSREVNVAALKHIYSYKWPVFDACKRLKLVQEWLLKDPELYKGPKQIDDIVEVRRLVITPTKAYCLPPEVELSNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIAPIVRDITLNSFSQKTRVFKRVRSILSGGFYLCGRKFSFLAFSSSQLRDCSAWFFSEDGKTSVLDIKKWMGRFTDKNIAKCAARMGQCFSSTYATVEVPPTEVDPELPDIKRNGYVFSDGIGKITPDLAMEVAQKLKLDVNPPPCAYQIRYAGCKGVVACWPAKGDGIRMSLRESMNKFQSHHTTLEICSWTRFQPGFLNRQIITLLSTLNVPDEMFWSMQDSMLSKLNQMLVDSDVAFEVLTAACAEQGNTAAIMLSAGFNPQTEPHLRGMLTCIRAAQLWGLREKARIFVPAGRWLMGCLDELGVLEGGQCFIQVSEPFLGNCFSKHGSRFAETKKLQVIKGFVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEASGSDLDGDLYFVTWDENLIPPSKKSWPPMEYNAAEAKTLTRPVDQRDIIEFFAKHMVNENLGTICNAHVVHADHSEYGALDENCILLAELAATAVDFPKTGKIVTMPAHLKPKLYPDFMGKEAYQSYKSNKILGRLYRQSKDAYDEDISVSSEVDINPVDIHYDTDLEVPESVDFIADAWNQKCSYDGQLNGLLEQYKVNREEELVTGHIWSMPKYNSRKQGELKERLKHSYSALRKEFRQVFEKMDSDCELLSEDEKNALFERKASAWYQVTYHPEWVKKSLDLQEQDSARSVVLLSFAWIANDYLARIKIRCREMANIDTSKPVNYLARYVADRI
********LLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVDAAGRTELFLNGRALKVSLGPENPFRL*****TSTPFKLPDVCVEIGTLVSRDEFFVAWRGPASGTDFLVDPFDGTCKFCFTRDIAFALKSSTEHAVIKCEFKVEFLVREINLVKQYSEFSCVAILLQLASSPRVWYRTADDDILVLVPFDMLDDDDPWIRTTDFTPSGAIGRCNSYRISISSRHRGKLSKVITYLGERRVQVDSLSRPITIREEPDFEVPMSDPFFCIHYEEGISFEIMFLVNAVMHKGIINQHQLSDSFFDLLRGQSREVNVAALKHIYSYKWPVFDACKRLKLVQEWLLKDPELYKGPKQIDDIVEVRRLVITPTKAYCLPPEVELSNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIAPIVRDITLNSFSQKTRVFKRVRSILSGGFYLCGRKFSFLAFSSSQLRDCSAWFFSEDGKTSVLDIKKWMGRFTDKNIAKCAARMGQCFSSTYATVEVPPTEVDPELPDIKRNGYVFSDGIGKITPDLAMEVAQKLKLDVNPPPCAYQIRYAGCKGVVACWPAKGDGIRMSLRESMNKFQSHHTTLEICSWTRFQPGFLNRQIITLLSTLNVPDEMFWSMQDSMLSKLNQMLVDSDVAFEVLTAACAEQGNTAAIMLSAGFNPQTEPHLRGMLTCIRAAQLWGLREKARIFVPAGRWLMGCLDELGVLEGGQCFIQVSEPFLGNCFSKHGSRFAETKKLQVIKGFVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFP***************LDGDLYFVTWDENLIP***************AKTLTRPVDQRDIIEFFAKHMVNENLGTICNAHVVHADHSEYGALDENCILLAELAATAVDFPKTGKIVTMPAHLKPKLYPDFMGKEAYQSYKSNKILGRLYRQSKDAYDEDISVSSEVDINPVDIHYDTDLEVPESVDFIADAWNQKCSYDGQLNGLLEQYKVNREEELVTGHIWSMP************************FRQVF******C*L******NALFERKASAWYQVTYHPEWVKKSLDLQEQDSARSVVLLSFAWIANDYLARIKIRCREMANIDTSKPVNYLARYV****
************AQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRK*****KVEPHAFVHFAMPTYVTRAVDAAGRTELFLNGRALK****************TSTPFKLPDVCVEIGTLVSRDEFFVAWRGPASGTDFLVDPFDGTCKFCFTRDIAFALKSSTEHAVIKCEFKVEFLVREINLVKQYSEFSCVAILLQLASSPRVWYRTADD****LVPFDMLDDDDPWIRTTDFTPSGAIGRCNSYRISISSRHRGKLSKVITYLGERRVQVDSLSRPITIREEPDFEVPMSDPFFCIHYEEGISFEIMFLVNAVMHKGIINQHQLSDSFFDLLRGQSREVNVAALKHIYSYKWPVFDACKRLKLVQEWLLKD*******KQIDDIVEVRRLVITPTKAYCLPPEVELSNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIAPIVRDITLNSFSQKTRVFKRVRSILSGGFYLCGRKFSFLAF****LRDCSAWFFSEDGKTSVLDIKKWMGRFTDKNIAKCAARMGQCFSSTYATVEVPPTEVDPELPDIKRNGYVFSDGIGKITPDLAMEVAQKLKLDVNPPPCAYQIRYAGCKGVVACWPAKGDGIRMSLRESMNKFQSHHTTLEICSWTRFQPGFLNRQIITLLSTLNVPDEMFWSMQDSMLSKLNQMLVDSDVAFEVLTAACAEQGNTAAIMLSAGFNPQTEPHLRGMLTCIRAAQLWGLREKARIFVPAGRWLMGCLDELGVLEGGQCFIQVSEPFLGNCFSKHGS*FAETKKLQVIKGFVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEASGSDLDGDLYFVTWDENLIPPSKKSWPPMEYN**********VDQRDIIEFFAKHMVNENLGTICNAHVVHADHSEYGALDENCILLAELAATAVDFPKTGKIVTMPAHLKPKLYPDFMGKE****YKSNKILGRLYRQSKDAYDEDISVSSEVDINPVDIHYDTDLEVPESVDFIADAWNQKCSYDGQLNGLLEQYKVNREEELVTGHI*****************LKHSYSALRKEFRQVFEKMDS********EKNALFERKASAWYQVTYHPEWV************RSVVLLSFAWIANDYLARIK********************YV****
MEPEGREKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVDAAGRTELFLNGRALKVSLGPENPFRLNQRGRTSTPFKLPDVCVEIGTLVSRDEFFVAWRGPASGTDFLVDPFDGTCKFCFTRDIAFALKSSTEHAVIKCEFKVEFLVREINLVKQYSEFSCVAILLQLASSPRVWYRTADDDILVLVPFDMLDDDDPWIRTTDFTPSGAIGRCNSYRISISSRHRGKLSKVITYLGERRVQVDSLSRPITIREEPDFEVPMSDPFFCIHYEEGISFEIMFLVNAVMHKGIINQHQLSDSFFDLLRGQSREVNVAALKHIYSYKWPVFDACKRLKLVQEWLLKDPELYKGPKQIDDIVEVRRLVITPTKAYCLPPEVELSNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIAPIVRDITLNSFSQKTRVFKRVRSILSGGFYLCGRKFSFLAFSSSQLRDCSAWFFSEDGKTSVLDIKKWMGRFTDKNIAKCAARMGQCFSSTYATVEVPPTEVDPELPDIKRNGYVFSDGIGKITPDLAMEVAQKLKLDVNPPPCAYQIRYAGCKGVVACWPAKGDGIRMSLRESMNKFQSHHTTLEICSWTRFQPGFLNRQIITLLSTLNVPDEMFWSMQDSMLSKLNQMLVDSDVAFEVLTAACAEQGNTAAIMLSAGFNPQTEPHLRGMLTCIRAAQLWGLREKARIFVPAGRWLMGCLDELGVLEGGQCFIQVSEPFLGNCFSKHGSRFAETKKLQVIKGFVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEASGSDLDGDLYFVTWDENLIPPSKKSWPPMEYNAAEAKTLTRPVDQRDIIEFFAKHMVNENLGTICNAHVVHADHSEYGALDENCILLAELAATAVDFPKTGKIVTMPAHLKPKLYPDFMGKEAYQSYKSNKILGRLYRQSKDAYDEDISVSSEVDINPVDIHYDTDLEVPESVDFIADAWNQKCSYDGQLNGLLEQYKVNREEELVTGHIWSMPKYNSRKQGELKERLKHSYSALRKEFRQVFEKMDSDCELLSEDEKNALFERKASAWYQVTYHPEWVKKSLDLQEQDSARSVVLLSFAWIANDYLARIKIRCREMANIDTSKPVNYLARYVADRI
*******KLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVDAAGRTELFLNGRALKVSLGPENPFRLNQRGRTSTPFKLPDVCVEIGTLVSRDEFFVAWRGPASGTDFLVDPFDGTCKFCFTRDIAFALKSSTEHAVIKCEFKVEFLVREINLVKQYSEFSCVAILLQLASSPRVWYRTADDDILVLVPFDMLDDDDPWIRTTDFTPSGAIGRCNSYRISISSRHRGKLSKVITYLGERRVQVDSLSRPITIREEPDFEVPMSDPFFCIHYEEGISFEIMFLVNAVMHKGIINQHQLSDSFFDLLRGQSREVNVAALKHIYSYKWPVFDACKRLKLVQEWLLKDPELYKGPKQIDDIVEVRRLVITPTKAYCLPPEVELSNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIAPIVRDITLNSFSQKTRVFKRVRSILSGGFYLCGRKFSFLAFSSSQLRDCSAWFFSEDGKTSVLDIKKWMGRFTDKNIAKCAARMGQCFSSTYATVEVPPTEVDPELPDIKRNGYVFSDGIGKITPDLAMEVAQKLKLDVNPPPCAYQIRYAGCKGVVACWPAKGDGIRMSLRESMNKFQSHHTTLEICSWTRFQPGFLNRQIITLLSTLNVPDEMFWSMQDSMLSKLNQMLVDSDVAFEVLTAACAEQGNTAAIMLSAGFNPQTEPHLRGMLTCIRAAQLWGLREKARIFVPAGRWLMGCLDELGVLEGGQCFIQVSEPFLGNCFSKHGSRFAETKKLQVIKGFVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEASGSDLDGDLYFVTWDENLIPPSKKSWPPMEYNAAEAKTLTRPVDQRDIIEFFAKHMVNENLGTICNAHVVHADHSEYGALDENCILLAELAATAVDFPKTGKIVTMPAHLKPKLYPDFMGKEAYQSYKSNKILGRLYRQSKDAYD****VSSEVDINPVDIHYDTDLEVPESVDFIADAWNQKCSYDGQLNGLLEQYKVNREEELVTGHIWSMPKYNSRKQGELKERLKHSYSALRKEFRQVFEKMDSDCELLSEDEKNALFERKASAWYQVTYHPEWVKKSLDLQEQDSARSVVLLSFAWIANDYLARIKIRCR*********PVNY*********
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MEPEGREKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVDAAGRTELFLNGRALKVSLGPENPFRLNQRGRTSTPFKLPDVCVEIGTLVSRDEFFVAWRGPASGTDFLVDPFDGTCKFCFTRDIAFALKSSTEHAVIKCEFKVEFLVREINLVKQYSEFSCVAILLQLASSPRVWYRTADDDILVLVPFDMLDDDDPWIRTTDFTPSGAIGRCNSYRISISSRHRGKLSKVITYLGERRVQVDSLSRPITIREEPDFEVPMSDPFFCIHYEEGISFEIMFLVNAVMHKGIINQHQLSDSFFDLLRGQSREVNVAALKHIYSYKWPVFDACKRLKLVQEWLLKDPELYKGPKQIDDIVEVRRLVITPTKAYCLPPEVELSNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIAPIVRDITLNSFSQKTRVFKRVRSILSGGFYLCGRKFSFLAFSSSQLRDCSAWFFSEDGKTSVLDIKKWMGRFTDKNIAKCAARMGQCFSSTYATVEVPPTEVDPELPDIKRNGYVFSDGIGKITPDLAMEVAQKLKLDVNPPPCAYQIRYAGCKGVVACWPAKGDGIRMSLRESMNKFQSHHTTLEICSWTRFQPGFLNRQIITLLSTLNVPDEMFWSMQDSMLSKLNQMLVDSDVAFEVLTAACAEQGNTAAIMLSAGFNPQTEPHLRGMLTCIRAAQLWGLREKARIFVPAGRWLMGCLDELGVLEGGQCFIQVSEPFLGNCFSKHGSRFAETKKLQVIKGFVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEASGSDLDGDLYFVTWDENLIPPSKKSWPPMEYNAAEAKTLTRPVDQRDIIEFFAKHMVNENLGTICNAHVVHADHSEYGALDENCILLAELAATAVDFPKTGKIVTMPAHLKPKLYPDFMGKEAYQSYKSNKILGRLYRQSKDAYDEDISVSSEVDINPVDIHYDTDLEVPESVDFIADAWNQKCSYDGQLNGLLEQYKVNREEELVTGHIWSMPKYNSRKQGELKERLKHSYSALRKEFRQVFEKMDSDCELLSEDEKNALFERKASAWYQVTYHPEWVKKSLDLQEQDSARSVVLLSFAWIANDYLARIKIRCREMANIDTSKPVNYLARYVADRI
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 ?
Query1197 2.2.26 [Sep-21-2011]
Q9SG021196 RNA-dependent RNA polymer yes no 0.998 0.999 0.696 0.0
Q8LHH91218 Probable RNA-dependent RN yes no 0.986 0.969 0.614 0.0
Q9LQV21107 RNA-dependent RNA polymer no no 0.751 0.812 0.365 1e-162
Q7XM311136 Probable RNA-dependent RN yes no 0.759 0.800 0.366 1e-158
Q0DXS3740 Probable RNA-dependent RN yes no 0.593 0.960 0.433 1e-155
O825041133 RNA-dependent RNA polymer no no 0.861 0.909 0.342 1e-153
O142271215 RNA-dependent RNA polymer yes no 0.725 0.715 0.287 4e-92
O82188977 Probable RNA-dependent RN no no 0.339 0.415 0.245 3e-22
Q5QMN51153 Probable RNA-dependent RN no no 0.292 0.303 0.251 6e-20
Q5QMN41183 Probable RNA-dependent RN no no 0.281 0.284 0.244 7e-19
>sp|Q9SG02|RDR6_ARATH RNA-dependent RNA polymerase 6 OS=Arabidopsis thaliana GN=RDR6 PE=1 SV=1 Back     alignment and function desciption
 Score = 1719 bits (4452), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 835/1198 (69%), Positives = 989/1198 (82%), Gaps = 3/1198 (0%)

Query: 1    MEPEGREKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYV 60
            M  EG  K  V  QVS GGF  +  A +L  YLE+EVG VWRCRLKTS TP  SYP+F +
Sbjct: 1    MGSEGNMKKSVVTQVSIGGFGESTTAKQLTDYLEDEVGIVWRCRLKTSWTPPGSYPNFEI 60

Query: 61   TNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVDAAGRTELFLNGRALKVSLGPENPFRL 120
             +T+ +   D+Y+KVEPHAFVHFA+     RA+DAAG+  L L+G+ LKVSLGP+NP+ L
Sbjct: 61   ADTSNIPSIDEYKKVEPHAFVHFAVFESAGRAMDAAGQCNLILDGQPLKVSLGPKNPYSL 120

Query: 121  NQRGRTSTPFKLPDVCVEIGTLVSRDEFFVAWRGPASGTDFLVDPFDGTCKFCFTRDIAF 180
            NQR RT+ P+KL  + +EIGTLVSRD+FFV+WR  A G DFLVDPFD TCKFCF +  AF
Sbjct: 121  NQRRRTTVPYKLAGITLEIGTLVSRDDFFVSWR--AEGVDFLVDPFDNTCKFCFRKSTAF 178

Query: 181  ALKSSTEHAVIKCEFKVEFLVREINLVKQYSEFSCVAILLQLASSPRVWYRTADDDILVL 240
            + K +  HAVI C++K+E LVR+I  V+QY       ++LQLASSPRVWYRTADDDI   
Sbjct: 179  SFKDAVMHAVINCDYKLELLVRDIQTVRQYKTLHGFVLILQLASSPRVWYRTADDDIYDT 238

Query: 241  VPFDMLDDDDPWIRTTDFTPSGAIGRCNSYRISISSRHRGKLSKVITYLGERRVQVDSLS 300
            VP D+LDDDDPWIRTTDFT  GAIGRC+SYR+ IS R+  KL   + Y   RRVQ + + 
Sbjct: 239  VPGDLLDDDDPWIRTTDFTQVGAIGRCHSYRVLISPRYENKLRTALDYFRMRRVQEERVR 298

Query: 301  RPITIREEPDFEVPMSDPFFCIHYEEGISFEIMFLVNAVMHKGIINQHQLSDSFFDLLRG 360
             P  IR EP F  P+SD FFCIH++EGISFEIMFLVN+V+H+G+ NQ QL++ FFDLLR 
Sbjct: 299  WPPRIRNEPCFGEPVSDHFFCIHHKEGISFEIMFLVNSVLHRGVFNQFQLTERFFDLLRN 358

Query: 361  QSREVNVAALKHIYSYKWPVFDACKRLKLVQEWLLKDPELYKGPKQIDDIVEVRRLVITP 420
            Q ++VN+A+LKH+ +YK PVFDA KRLKLVQEW+ K+P+L    +Q +DI E+RRLVITP
Sbjct: 359  QPKDVNIASLKHLCTYKRPVFDAYKRLKLVQEWIQKNPKLLGSHEQSEDISEIRRLVITP 418

Query: 421  TKAYCLPPEVELSNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIAPIVRDITLNS 480
            T+AYCLPPEVELSNRVLR+YK +A+RFLRVTFMDE +QT+N+NVLSYF+APIV+D+T +S
Sbjct: 419  TRAYCLPPEVELSNRVLRRYKAVAERFLRVTFMDESMQTINSNVLSYFVAPIVKDLTSSS 478

Query: 481  FSQKTRVFKRVRSILSGGFYLCGRKFSFLAFSSSQLRDCSAWFFSEDGKTSVLDIKKWMG 540
            FSQKT VFKRV+SIL+ GF LCGRK+SFLAFS++QLRD SAWFF+EDGKT V DIK WMG
Sbjct: 479  FSQKTYVFKRVKSILTDGFKLCGRKYSFLAFSANQLRDRSAWFFAEDGKTRVSDIKTWMG 538

Query: 541  RFTDKNIAKCAARMGQCFSSTYATVEVPPTEVDPELPDIKRNGYVFSDGIGKITPDLAME 600
            +F DKN+AKCAARMG CFSSTYATV+V P EVD E+PDI+RNGYVFSDGIG ITPDLA E
Sbjct: 539  KFKDKNVAKCAARMGLCFSSTYATVDVMPHEVDTEVPDIERNGYVFSDGIGTITPDLADE 598

Query: 601  VAQKLKLDVNPPPCAYQIRYAGCKGVVACWPAKGDGIRMSLRESMNKFQSHHTTLEICSW 660
            V +KLKLDV+  PCAYQIRYAG KGVVA WP+K DGIR++LR+SM KF S HT LEICSW
Sbjct: 599  VMEKLKLDVHYSPCAYQIRYAGFKGVVARWPSKSDGIRLALRDSMKKFFSKHTILEICSW 658

Query: 661  TRFQPGFLNRQIITLLSTLNVPDEMFWSMQDSMLSKLNQMLVDSDVAFEVLTAACAEQGN 720
            TRFQPGFLNRQIITLLS L VPDE+FW MQ+SML KLN++L D+DVAFEVLTA+CAEQGN
Sbjct: 659  TRFQPGFLNRQIITLLSVLGVPDEIFWDMQESMLYKLNRILDDTDVAFEVLTASCAEQGN 718

Query: 721  TAAIMLSAGFNPQTEPHLRGMLTCIRAAQLWGLREKARIFVPAGRWLMGCLDELGVLEGG 780
            TAAIMLSAGF P+TEPHLRGML+ +R AQLWGLREK+RIFV +GRWLMGCLDE G+LE G
Sbjct: 719  TAAIMLSAGFKPKTEPHLRGMLSSVRIAQLWGLREKSRIFVTSGRWLMGCLDEAGILEHG 778

Query: 781  QCFIQVSEPFLGNCFSKHGSRFAETKK-LQVIKGFVVIAKNPCLHPGDIRILEAVDHPEL 839
            QCFIQVS+P + NCFSKHGSRF ETK  L+V+KG+V IAKNPCLHPGD+RILEAVD P+L
Sbjct: 779  QCFIQVSKPSIENCFSKHGSRFKETKTDLEVVKGYVAIAKNPCLHPGDVRILEAVDVPQL 838

Query: 840  HHLYDCLVFPQKGDRPHTNEASGSDLDGDLYFVTWDENLIPPSKKSWPPMEYNAAEAKTL 899
            HH+YDCL+FPQKGDRPHTNEASGSDLDGDLYFV WD+ LIPP++KS+P M Y+AAE K+L
Sbjct: 839  HHMYDCLIFPQKGDRPHTNEASGSDLDGDLYFVAWDQKLIPPNRKSYPAMHYDAAEEKSL 898

Query: 900  TRPVDQRDIIEFFAKHMVNENLGTICNAHVVHADHSEYGALDENCILLAELAATAVDFPK 959
             R V+ +DII+FFA+++ NE LGTICNAHVVHAD SEYGA+DE C+LLAELAATAVDFPK
Sbjct: 899  GRAVNHQDIIDFFARNLANEQLGTICNAHVVHADRSEYGAMDEECLLLAELAATAVDFPK 958

Query: 960  TGKIVTMPAHLKPKLYPDFMGKEAYQSYKSNKILGRLYRQSKDAYDEDISVSSEVDINPV 1019
            TGKIV+MP HLKPKLYPDFMGKE YQ+YKSNKILGRLYR+ K+ YDED   SSE   +P 
Sbjct: 959  TGKIVSMPFHLKPKLYPDFMGKEDYQTYKSNKILGRLYRRVKEVYDEDAEASSEESTDPS 1018

Query: 1020 DIHYDTDLEVPESVDFIADAWNQKCSYDGQLNGLLEQYKVNREEELVTGHIWSMPKYNSR 1079
             I YD  LE+P   D I +AW  KC YDGQL GLL QYKV +EEE+VTGHIWSMPKY S+
Sbjct: 1019 AIPYDAVLEIPGFEDLIPEAWGHKCLYDGQLIGLLGQYKVQKEEEIVTGHIWSMPKYTSK 1078

Query: 1080 KQGELKERLKHSYSALRKEFRQVFEKMDSDCELLSEDEKNALFERKASAWYQVTYHPEWV 1139
            KQGELKERLKHSY++L+KEFR+VFE+   D E LSE+EKN L+E+KASAWY VTYHPEWV
Sbjct: 1079 KQGELKERLKHSYNSLKKEFRKVFEETIPDHENLSEEEKNILYEKKASAWYHVTYHPEWV 1138

Query: 1140 KKSLDLQEQDSARSVVLLSFAWIANDYLARIKIRCREMANIDTSKPVNYLARYVADRI 1197
            KKSL+LQ+ D +    +LSFAWIA DYLARIKIR REM +ID++KPV+ LA+++A R+
Sbjct: 1139 KKSLELQDPDESSHAAMLSFAWIAADYLARIKIRSREMGSIDSAKPVDSLAKFLAQRL 1196
RNA-dependent RNA polymerase involved in post-transcriptional gene silencing (PTGS). Possesses ssRNA and ssDNA-dependent polymerase activity, but does not have priming activity. Possesses in vitro 3' nucleotidyltransferase activity in the presence of UTP as single nucleotide. Required for the production of 21 nucleotide trans-acting small interfering RNAs (ta-siRNAs) derived from TAS1, TAS2 and TAS3 endogenous transcripts. Acts in the RDR6/SGS3/DCL4/AGO7 ta-siRNA pathway involved in leaf developmental timing. Required for the production of natural siRNAs (nat-siRNAs) derived from cis-natural antisense transcripts. Required for the production of 24 nucleotide nat-siRNAs derived from the stress-related P5CDH-SRO5 antisense gene pair. Required for PTGS induced by transgene direct repeats. Plays an essential role in transitive silencing of transgenes by processing secondary siRNAs. This pathway, which requires DCL2 and DCL4, amplifies silencing by using the target RNA as substrate to generate secondary siRNAs, providing an efficient mechanism for long-distance silencing. Involved in the biogenesis of secondary siRNAs which require 22 nucleotide miRNAs associated to AGO1. Participates synergistically with AS1 and AS2 to proper plant development by repressing the miR165 and miR166 microRNAs (independently of AGO10) that may lead to mRNA degradation of genes in the class III HD-ZIP family. Required for the production of some small RNAs derived from the crucifer-infecting tobamovirus (TMV-cg). Required for sense virus-induced post-transcriptional gene silencing (S-PTGS).
Arabidopsis thaliana (taxid: 3702)
EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 4EC: 8
>sp|Q8LHH9|SHL2_ORYSJ Probable RNA-dependent RNA polymerase SHL2 OS=Oryza sativa subsp. japonica GN=SHL2 PE=2 SV=1 Back     alignment and function description
>sp|Q9LQV2|RDR1_ARATH RNA-dependent RNA polymerase 1 OS=Arabidopsis thaliana GN=RDR1 PE=2 SV=1 Back     alignment and function description
>sp|Q7XM31|RDR2_ORYSJ Probable RNA-dependent RNA polymerase 2 OS=Oryza sativa subsp. japonica GN=RDR2 PE=2 SV=1 Back     alignment and function description
>sp|Q0DXS3|RDR1_ORYSJ Probable RNA-dependent RNA polymerase 1 OS=Oryza sativa subsp. japonica GN=RDR1 PE=2 SV=2 Back     alignment and function description
>sp|O82504|RDR2_ARATH RNA-dependent RNA polymerase 2 OS=Arabidopsis thaliana GN=RDR2 PE=3 SV=1 Back     alignment and function description
>sp|O14227|RDR1_SCHPO RNA-dependent RNA polymerase 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rdr1 PE=1 SV=1 Back     alignment and function description
>sp|O82188|RDR5_ARATH Probable RNA-dependent RNA polymerase 5 OS=Arabidopsis thaliana GN=RDR5 PE=2 SV=2 Back     alignment and function description
>sp|Q5QMN5|RDR3_ORYSJ Probable RNA-dependent RNA polymerase 3 OS=Oryza sativa subsp. japonica GN=RDR3 PE=2 SV=2 Back     alignment and function description
>sp|Q5QMN4|RDR4_ORYSJ Probable RNA-dependent RNA polymerase 4 OS=Oryza sativa subsp. japonica GN=RDR4 PE=2 SV=2 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 ?
Query1197
2555489281203 RNA-dependent RNA polymerase, putative [ 0.999 0.994 0.769 0.0
2241418931200 rna-dependent RNA polymerase [Populus tr 0.999 0.996 0.753 0.0
2240892391198 rna-dependent RNA polymerase [Populus tr 0.999 0.998 0.755 0.0
2958850301196 RNA-dependent RNA polymerase 6 [Gossypiu 0.998 0.999 0.742 0.0
2254302811197 PREDICTED: RNA-dependent RNA polymerase 0.997 0.997 0.734 0.0
3565077321204 PREDICTED: RNA-dependent RNA polymerase 0.996 0.990 0.711 0.0
3565154441204 PREDICTED: RNA-dependent RNA polymerase 0.996 0.990 0.710 0.0
4494992341197 PREDICTED: RNA-dependent RNA polymerase 0.998 0.998 0.701 0.0
4494419141197 PREDICTED: RNA-dependent RNA polymerase 0.998 0.998 0.700 0.0
2978195961197 RNA-dependent RNA polymerase 6 [Arabidop 0.998 0.998 0.699 0.0
>gi|255548928|ref|XP_002515520.1| RNA-dependent RNA polymerase, putative [Ricinus communis] gi|223545464|gb|EEF46969.1| RNA-dependent RNA polymerase, putative [Ricinus communis] Back     alignment and taxonomy information
 Score = 1922 bits (4978), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 926/1204 (76%), Positives = 1045/1204 (86%), Gaps = 8/1204 (0%)

Query: 1    MEPEGREKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYV 60
            ME + REK  V  QVSFGGFD++V A +LV YL+NE+G VWRCRLKTS TP ESYP+F +
Sbjct: 1    METKRREKETVVTQVSFGGFDKDVTARDLVAYLDNEIGQVWRCRLKTSWTPPESYPNFEI 60

Query: 61   TNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVDAAGRTELFLNGRALKVSLGPENPFRL 120
            T+TA +++ D Y +VEPHAFVHFA P   T A +AAG  ELF NGR +KVSLGPENPF L
Sbjct: 61   TDTAVIQRVDAYRRVEPHAFVHFASPDSATWAKNAAGHCELFFNGRPVKVSLGPENPFHL 120

Query: 121  NQRGRTSTPFKLPDVCVEIGTLVSRDEFFVAWRGPASGTDFLVDPFDGTCKFCFTRDIAF 180
            NQR RT+ PFKL DV VEIGTLVSRDEF V WRGP SG DFLVDPFDG CKFCFTRD AF
Sbjct: 121  NQRRRTTIPFKLSDVHVEIGTLVSRDEFLVGWRGPPSGVDFLVDPFDGKCKFCFTRDTAF 180

Query: 181  ALKSSTEHAVIKCEFKVEFLVREINLVKQYSEFSCVAILLQLASSPRVWYRTADDDILVL 240
            + K +TEHAVI+C+FK+EFLVR+IN +KQY++ SC+ ILLQLAS+P VWYRTADDDI VL
Sbjct: 181  SFKGTTEHAVIRCDFKLEFLVRDINEIKQYTDTSCLVILLQLASAPSVWYRTADDDIEVL 240

Query: 241  VPFDMLDDDDPWIRTTDFTPSGAIGRCNSYRISISSRHRGKLSKVITYLGERRVQVDSLS 300
            VPFD+LDDDDPWIRTTDFTPSGAIGRCNSYR+SI  RH  KL + + +L ERRVQ D L 
Sbjct: 241  VPFDLLDDDDPWIRTTDFTPSGAIGRCNSYRVSIPPRHGAKLKRALNFLRERRVQEDCLR 300

Query: 301  RPITIREEPDFEVPMSDPFFCIHYEEGISFEIMFLVNAVMHKGIINQHQLSDSFFDLLRG 360
            RP+ +  EP++E+PMSDPFFCIH+EEG+ F +MFLVNAVMHKGI NQHQLSDSFFDLLR 
Sbjct: 301  RPLHVTAEPEYEMPMSDPFFCIHHEEGVDFNLMFLVNAVMHKGIFNQHQLSDSFFDLLRN 360

Query: 361  QSREVNVAALKHIYSYKWPVFDACKRLKLVQEWLLKDPELYKGPKQIDDIVEVRRLVITP 420
            Q  +VN+AAL+HI SYK PVFDA KRLK VQ+WLLK+P+L++  KQ+DDIVE+RRL ITP
Sbjct: 361  QPLDVNIAALRHICSYKHPVFDAHKRLKAVQQWLLKNPKLFRSSKQLDDIVEIRRLAITP 420

Query: 421  TKAYCLPPEVELSNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIAPIVRDITLNS 480
            T+AYCLPPEVELSNRVLR+YKD+AD+FLRVTFMDEGLQTMNAN L+Y+ APIVRDIT NS
Sbjct: 421  TRAYCLPPEVELSNRVLRRYKDIADQFLRVTFMDEGLQTMNANTLTYYCAPIVRDITSNS 480

Query: 481  FSQKTRVFKRVRSILSGGFYLCGRKFSFLAFSSSQLRDCSAWFFSEDGKTSVLDIKKWMG 540
            FSQKTR+FKRV+SIL+ GFYLCGRK+SFLAFSS+QLRD SAWFF+EDGKTSV  I+ WMG
Sbjct: 481  FSQKTRIFKRVKSILTDGFYLCGRKYSFLAFSSNQLRDRSAWFFAEDGKTSVSKIRNWMG 540

Query: 541  RFTDKNIAKCAARMGQCFSSTYATVEVPPTEVDPELPDIKRNGYVFSDGIGKITPDLAME 600
            +FT++NIAKCAARMGQCFSSTYATVEVP  E   +LPDI+RN Y+FSDGIG ITPDLA E
Sbjct: 541  KFTNRNIAKCAARMGQCFSSTYATVEVPSAEAILDLPDIERNNYIFSDGIGMITPDLAKE 600

Query: 601  VAQKLKLDVNPPPCAYQIRYAGCKGVVACWPAKGDGIRMSLRESMNKFQSHHTTLEICSW 660
            VA+KLKL+VN PPCAYQIRYAGCKGVVACWPA  DGIR+SLR SMNKF S+HTTLEICSW
Sbjct: 601  VAEKLKLEVN-PPCAYQIRYAGCKGVVACWPAHIDGIRLSLRVSMNKFHSNHTTLEICSW 659

Query: 661  TRFQPGFLNRQIITLLSTLNVPDEMFWSMQDSMLSKLNQMLVDSDVAFEVLTAACAEQGN 720
            TRFQPGFLNRQIITLLSTL+VPDE+FW MQ  M+SKLNQM +D+DVAF+V+TA+CAEQGN
Sbjct: 660  TRFQPGFLNRQIITLLSTLDVPDEIFWKMQIVMVSKLNQMFMDADVAFDVVTASCAEQGN 719

Query: 721  TAAIMLSAGFNPQTEPHLRGMLTCIRAAQLWGLREKARIFVPAGRWLMGCLDELGVLEGG 780
            TAAIMLSAGFNP+TEPHL GMLTCIRAAQLWGLREK RIFVP+GRWLMGCLDELGVLE G
Sbjct: 720  TAAIMLSAGFNPKTEPHLCGMLTCIRAAQLWGLREKTRIFVPSGRWLMGCLDELGVLEHG 779

Query: 781  QCFIQVSEPFLGNCFSKHGSRFAET-KKLQVIKGFVVIAKNPCLHPGDIRILEAVDHPEL 839
            QCFIQVS P L +CF KHGSRF+E+ KKLQV+KG VV+AKNPCLHPGDIRILEAVD PEL
Sbjct: 780  QCFIQVSNPSLESCFWKHGSRFSESKKKLQVVKGTVVVAKNPCLHPGDIRILEAVDAPEL 839

Query: 840  HHLYDCLVFPQKGDRPHTNEASGSDLDGDLYFVTWDENLIPPSKKSWPPMEYNAAEAKTL 899
            HHL+DCLVFPQKGDRPHTNEASGSDLDGDLYFVTWDENLIPPSK+SW PM+Y+AAEAK L
Sbjct: 840  HHLHDCLVFPQKGDRPHTNEASGSDLDGDLYFVTWDENLIPPSKRSWLPMQYDAAEAKQL 899

Query: 900  TRPVDQRDIIEFFAKHMVNENLGTICNAHVVHADHSEYGALDENCILLAELAATAVDFPK 959
             RPV+ +DII+FFAK+MVNENLG ICNAHVVHAD SEYGALDENCI LAELAATAVDFPK
Sbjct: 900  NRPVNHQDIIDFFAKNMVNENLGAICNAHVVHADLSEYGALDENCIKLAELAATAVDFPK 959

Query: 960  TGKIVTMPAHLKPKLYPDFMGKEAYQSYKSNKILGRLYRQSKDAYDEDI------SVSSE 1013
            TGK+VTMP HLKPKLYPDFMGKE YQSY SNKILGRLYRQ KD Y++D       + SSE
Sbjct: 960  TGKLVTMPPHLKPKLYPDFMGKEDYQSYNSNKILGRLYRQVKDDYNDDDDDDDDAATSSE 1019

Query: 1014 VDINPVDIHYDTDLEVPESVDFIADAWNQKCSYDGQLNGLLEQYKVNREEELVTGHIWSM 1073
            +++   DI YD DLEV  S D+I DAW+QKCSYDGQL GLL QYKV REEE+VTGHIWSM
Sbjct: 1020 LNLVRGDIPYDKDLEVSGSSDYILDAWDQKCSYDGQLKGLLAQYKVKREEEVVTGHIWSM 1079

Query: 1074 PKYNSRKQGELKERLKHSYSALRKEFRQVFEKMDSDCELLSEDEKNALFERKASAWYQVT 1133
            PK NSRKQGELKERLK SY +L+KEFRQVFEKMDSD E L+EDEKN L+E+KASAWYQV 
Sbjct: 1080 PKCNSRKQGELKERLKQSYHSLKKEFRQVFEKMDSDFEQLTEDEKNLLYEQKASAWYQVA 1139

Query: 1134 YHPEWVKKSLDLQEQDSARSVVLLSFAWIANDYLARIKIRCREMANIDTSKPVNYLARYV 1193
            YHP+WV KS++LQE D+A    +LSFAWIA DYLARIKIRCR    +DTSKPVN L +Y+
Sbjct: 1140 YHPKWVNKSMELQEPDAAGCASMLSFAWIAADYLARIKIRCRGFDGVDTSKPVNSLVKYL 1199

Query: 1194 ADRI 1197
            ADRI
Sbjct: 1200 ADRI 1203

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224141893|ref|XP_002324295.1| rna-dependent RNA polymerase [Populus trichocarpa] gi|222865729|gb|EEF02860.1| rna-dependent RNA polymerase [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224089239|ref|XP_002308662.1| rna-dependent RNA polymerase [Populus trichocarpa] gi|222854638|gb|EEE92185.1| rna-dependent RNA polymerase [Populus trichocarpa] Back     alignment and taxonomy information
>gi|295885030|gb|ADG57590.1| RNA-dependent RNA polymerase 6 [Gossypium hirsutum] gi|295885034|gb|ADG57592.1| RNA-dependent RNA polymerase 6 [Gossypium hirsutum] Back     alignment and taxonomy information
>gi|225430281|ref|XP_002282647.1| PREDICTED: RNA-dependent RNA polymerase 6 [Vitis vinifera] Back     alignment and taxonomy information
>gi|356507732|ref|XP_003522618.1| PREDICTED: RNA-dependent RNA polymerase 6-like [Glycine max] Back     alignment and taxonomy information
>gi|356515444|ref|XP_003526410.1| PREDICTED: RNA-dependent RNA polymerase 6-like [Glycine max] Back     alignment and taxonomy information
>gi|449499234|ref|XP_004160762.1| PREDICTED: RNA-dependent RNA polymerase 6-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449441914|ref|XP_004138727.1| PREDICTED: RNA-dependent RNA polymerase 6-like [Cucumis sativus] gi|316989907|gb|ADU77019.1| RNA-dependent RNA polymerase 6 [Cucumis sativus] Back     alignment and taxonomy information
>gi|297819596|ref|XP_002877681.1| RNA-dependent RNA polymerase 6 [Arabidopsis lyrata subsp. lyrata] gi|297323519|gb|EFH53940.1| RNA-dependent RNA polymerase 6 [Arabidopsis lyrata subsp. lyrata] 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 ?
Query1197
TAIR|locus:21146331196 RDR6 "AT3G49500" [Arabidopsis 0.998 0.999 0.696 0.0
UNIPROTKB|Q8LHH91218 SHL2 "Probable RNA-dependent R 0.984 0.967 0.617 0.0
TAIR|locus:21360681133 RDR2 "RNA-dependent RNA polyme 0.843 0.891 0.347 7.7e-146
TAIR|locus:20068221107 RDR1 "AT1G14790" [Arabidopsis 0.527 0.570 0.421 7.4e-145
UNIPROTKB|G4NJ50 1407 MGG_02748 "RNA-dependent RNA p 0.606 0.515 0.353 1.2e-106
POMBASE|SPAC6F12.091215 rdp1 "RNA-directed RNA polymer 0.676 0.666 0.300 6.1e-86
WB|WBGene00004510 1765 rrf-3 [Caenorhabditis elegans 0.598 0.406 0.288 1.2e-66
DICTYBASE|DDB_G0291249 2403 rrpB "RNA-directed RNA polymer 0.326 0.162 0.288 9.5e-65
DICTYBASE|DDB_G0289659 2417 rrpA "RNA-directed RNA polymer 0.522 0.258 0.299 1.7e-64
WB|WBGene00001214 1632 ego-1 [Caenorhabditis elegans 0.301 0.221 0.317 6.7e-60
TAIR|locus:2114633 RDR6 "AT3G49500" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 4468 (1577.9 bits), Expect = 0., P = 0.
 Identities = 835/1198 (69%), Positives = 989/1198 (82%)

Query:     1 MEPEGREKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYV 60
             M  EG  K  V  QVS GGF  +  A +L  YLE+EVG VWRCRLKTS TP  SYP+F +
Sbjct:     1 MGSEGNMKKSVVTQVSIGGFGESTTAKQLTDYLEDEVGIVWRCRLKTSWTPPGSYPNFEI 60

Query:    61 TNTAEVRKTDDYEKVEPHAFVHFAMPTYVTRAVDAAGRTELFLNGRALKVSLGPENPFRL 120
              +T+ +   D+Y+KVEPHAFVHFA+     RA+DAAG+  L L+G+ LKVSLGP+NP+ L
Sbjct:    61 ADTSNIPSIDEYKKVEPHAFVHFAVFESAGRAMDAAGQCNLILDGQPLKVSLGPKNPYSL 120

Query:   121 NQRGRTSTPFKLPDVCVEIGTLVSRDEFFVAWRGPASGTDFLVDPFDGTCKFCFTRDIAF 180
             NQR RT+ P+KL  + +EIGTLVSRD+FFV+WR  A G DFLVDPFD TCKFCF +  AF
Sbjct:   121 NQRRRTTVPYKLAGITLEIGTLVSRDDFFVSWR--AEGVDFLVDPFDNTCKFCFRKSTAF 178

Query:   181 ALKSSTEHAVIKCEFKVEFLVREINLVKQYSEFSCVAILLQLASSPRVWYRTADDDILVL 240
             + K +  HAVI C++K+E LVR+I  V+QY       ++LQLASSPRVWYRTADDDI   
Sbjct:   179 SFKDAVMHAVINCDYKLELLVRDIQTVRQYKTLHGFVLILQLASSPRVWYRTADDDIYDT 238

Query:   241 VPFDMLDDDDPWIRTTDFTPSGAIGRCNSYRISISSRHRGKLSKVITYLGERRVQVDSLS 300
             VP D+LDDDDPWIRTTDFT  GAIGRC+SYR+ IS R+  KL   + Y   RRVQ + + 
Sbjct:   239 VPGDLLDDDDPWIRTTDFTQVGAIGRCHSYRVLISPRYENKLRTALDYFRMRRVQEERVR 298

Query:   301 RPITIREEPDFEVPMSDPFFCIHYEEGISFEIMFLVNAVMHKGIINQHQLSDSFFDLLRG 360
              P  IR EP F  P+SD FFCIH++EGISFEIMFLVN+V+H+G+ NQ QL++ FFDLLR 
Sbjct:   299 WPPRIRNEPCFGEPVSDHFFCIHHKEGISFEIMFLVNSVLHRGVFNQFQLTERFFDLLRN 358

Query:   361 QSREVNVAALKHIYSYKWPVFDACKRLKLVQEWLLKDPELYKGPKQIDDIVEVRRLVITP 420
             Q ++VN+A+LKH+ +YK PVFDA KRLKLVQEW+ K+P+L    +Q +DI E+RRLVITP
Sbjct:   359 QPKDVNIASLKHLCTYKRPVFDAYKRLKLVQEWIQKNPKLLGSHEQSEDISEIRRLVITP 418

Query:   421 TKAYCLPPEVELSNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIAPIVRDITLNS 480
             T+AYCLPPEVELSNRVLR+YK +A+RFLRVTFMDE +QT+N+NVLSYF+APIV+D+T +S
Sbjct:   419 TRAYCLPPEVELSNRVLRRYKAVAERFLRVTFMDESMQTINSNVLSYFVAPIVKDLTSSS 478

Query:   481 FSQKTRVFKRVRSILSGGFYLCGRKFSFLAFSSSQLRDCSAWFFSEDGKTSVLDIKKWMG 540
             FSQKT VFKRV+SIL+ GF LCGRK+SFLAFS++QLRD SAWFF+EDGKT V DIK WMG
Sbjct:   479 FSQKTYVFKRVKSILTDGFKLCGRKYSFLAFSANQLRDRSAWFFAEDGKTRVSDIKTWMG 538

Query:   541 RFTDKNIAKCAARMGQCFSSTYATVEVPPTEVDPELPDIKRNGYVFSDGIGKITPDLAME 600
             +F DKN+AKCAARMG CFSSTYATV+V P EVD E+PDI+RNGYVFSDGIG ITPDLA E
Sbjct:   539 KFKDKNVAKCAARMGLCFSSTYATVDVMPHEVDTEVPDIERNGYVFSDGIGTITPDLADE 598

Query:   601 VAQKLKLDVNPPPCAYQIRYAGCKGVVACWPAKGDGIRMSLRESMNKFQSHHTTLEICSW 660
             V +KLKLDV+  PCAYQIRYAG KGVVA WP+K DGIR++LR+SM KF S HT LEICSW
Sbjct:   599 VMEKLKLDVHYSPCAYQIRYAGFKGVVARWPSKSDGIRLALRDSMKKFFSKHTILEICSW 658

Query:   661 TRFQPGFLNRQIITLLSTLNVPDEMFWSMQDSMLSKLNQMLVDSDVAFEVLTAACAEQGN 720
             TRFQPGFLNRQIITLLS L VPDE+FW MQ+SML KLN++L D+DVAFEVLTA+CAEQGN
Sbjct:   659 TRFQPGFLNRQIITLLSVLGVPDEIFWDMQESMLYKLNRILDDTDVAFEVLTASCAEQGN 718

Query:   721 TAAIMLSAGFNPQTEPHLRGMLTCIRAAQLWGLREKARIFVPAGRWLMGCLDELGVLEGG 780
             TAAIMLSAGF P+TEPHLRGML+ +R AQLWGLREK+RIFV +GRWLMGCLDE G+LE G
Sbjct:   719 TAAIMLSAGFKPKTEPHLRGMLSSVRIAQLWGLREKSRIFVTSGRWLMGCLDEAGILEHG 778

Query:   781 QCFIQVSEPFLGNCFSKHGSRFAETKK-LQVIKGFVVIAKNPCLHPGDIRILEAVDHPEL 839
             QCFIQVS+P + NCFSKHGSRF ETK  L+V+KG+V IAKNPCLHPGD+RILEAVD P+L
Sbjct:   779 QCFIQVSKPSIENCFSKHGSRFKETKTDLEVVKGYVAIAKNPCLHPGDVRILEAVDVPQL 838

Query:   840 HHLYDCLVFPQKGDRPHTNEASGSDLDGDLYFVTWDENLIPPSKKSWPPMEYNAAEAKTL 899
             HH+YDCL+FPQKGDRPHTNEASGSDLDGDLYFV WD+ LIPP++KS+P M Y+AAE K+L
Sbjct:   839 HHMYDCLIFPQKGDRPHTNEASGSDLDGDLYFVAWDQKLIPPNRKSYPAMHYDAAEEKSL 898

Query:   900 TRPVDQRDIIEFFAKHMVNENLGTICNAHVVHADHSEYGALDENCILLAELAATAVDFPK 959
              R V+ +DII+FFA+++ NE LGTICNAHVVHAD SEYGA+DE C+LLAELAATAVDFPK
Sbjct:   899 GRAVNHQDIIDFFARNLANEQLGTICNAHVVHADRSEYGAMDEECLLLAELAATAVDFPK 958

Query:   960 TGKIVTMPAHLKPKLYPDFMGKEAYQSYKSNKILGRLYRQSKDAYDEDISVSSEVDINPV 1019
             TGKIV+MP HLKPKLYPDFMGKE YQ+YKSNKILGRLYR+ K+ YDED   SSE   +P 
Sbjct:   959 TGKIVSMPFHLKPKLYPDFMGKEDYQTYKSNKILGRLYRRVKEVYDEDAEASSEESTDPS 1018

Query:  1020 DIHYDTDLEVPESVDFIADAWNQKCSYDGQLNGLLEQYKVNREEELVTGHIWSMPKYNSR 1079
              I YD  LE+P   D I +AW  KC YDGQL GLL QYKV +EEE+VTGHIWSMPKY S+
Sbjct:  1019 AIPYDAVLEIPGFEDLIPEAWGHKCLYDGQLIGLLGQYKVQKEEEIVTGHIWSMPKYTSK 1078

Query:  1080 KQGELKERLKHSYSALRKEFRQVFEKMDSDCELLSEDEKNALFERKASAWYQVTYHPEWV 1139
             KQGELKERLKHSY++L+KEFR+VFE+   D E LSE+EKN L+E+KASAWY VTYHPEWV
Sbjct:  1079 KQGELKERLKHSYNSLKKEFRKVFEETIPDHENLSEEEKNILYEKKASAWYHVTYHPEWV 1138

Query:  1140 KKSLDLQEQDSARSVVLLSFAWIANDYLARIKIRCREMANIDTSKPVNYLARYVADRI 1197
             KKSL+LQ+ D +    +LSFAWIA DYLARIKIR REM +ID++KPV+ LA+++A R+
Sbjct:  1139 KKSLELQDPDESSHAAMLSFAWIAADYLARIKIRSREMGSIDSAKPVDSLAKFLAQRL 1196
GO:0003676 "nucleic acid binding" evidence=ISS
GO:0003968 "RNA-directed RNA polymerase activity" evidence=IEA;ISS
GO:0005634 "nucleus" evidence=ISM;IDA
GO:0016246 "RNA interference" evidence=IMP
GO:0016441 "posttranscriptional gene silencing" evidence=TAS
GO:0030422 "production of siRNA involved in RNA interference" evidence=TAS
GO:0048366 "leaf development" evidence=IGI
GO:0010267 "production of ta-siRNAs involved in RNA interference" evidence=IMP
GO:0051607 "defense response to virus" evidence=IMP
GO:0035196 "production of miRNAs involved in gene silencing by miRNA" evidence=IMP
GO:0009616 "virus induced gene silencing" evidence=IMP
GO:0031047 "gene silencing by RNA" evidence=IMP
GO:0048440 "carpel development" evidence=IGI
GO:0048467 "gynoecium development" evidence=IMP
GO:0048544 "recognition of pollen" evidence=IMP
UNIPROTKB|Q8LHH9 SHL2 "Probable RNA-dependent RNA polymerase SHL2" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
TAIR|locus:2136068 RDR2 "RNA-dependent RNA polymerase 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2006822 RDR1 "AT1G14790" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|G4NJ50 MGG_02748 "RNA-dependent RNA polymerase 1" [Magnaporthe oryzae 70-15 (taxid:242507)] Back     alignment and assigned GO terms
POMBASE|SPAC6F12.09 rdp1 "RNA-directed RNA polymerase Rdp1" [Schizosaccharomyces pombe (taxid:4896)] Back     alignment and assigned GO terms
WB|WBGene00004510 rrf-3 [Caenorhabditis elegans (taxid:6239)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0291249 rrpB "RNA-directed RNA polymerase" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0289659 rrpA "RNA-directed RNA polymerase" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
WB|WBGene00001214 ego-1 [Caenorhabditis elegans (taxid:6239)] 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) ?
Q9SG02RDR6_ARATH2, ., 7, ., 7, ., 4, 80.69690.99830.9991yesno
Q8LHH9SHL2_ORYSJ2, ., 7, ., 7, ., 4, 80.61460.98660.9696yesno

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 ?
Query1197
pfam05183508 pfam05183, RdRP, RNA dependent RNA polymerase 1e-161
>gnl|CDD|218483 pfam05183, RdRP, RNA dependent RNA polymerase Back     alignment and domain information 
 Score =  488 bits (1259), Expect = e-161
 Identities = 236/596 (39%), Positives = 318/596 (53%), Gaps = 96/596 (16%)

Query: 421  TKAYCLPPEVELSNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIAPIVRDITLNS 480
            T+     PE+E SNRVLRKY   ADRFLRV F DE L    +N                 
Sbjct: 1    TRVILELPELERSNRVLRKYGA-ADRFLRVKFPDEDLSGAISNDED-------------- 45

Query: 481  FSQKTRVFKRVRSILSGGFYLCGRKFSFLAFSSSQLRDCSAWFFSEDGKTSVLDIKKWMG 540
                  V  RV+ +L  G  +  R   +LAFS+SQLR+ SAWFF+ED  T   DI+ W+G
Sbjct: 46   ------VGDRVKRVLKNGIIIGDR---YLAFSNSQLREHSAWFFAEDRLT-AEDIRNWLG 95

Query: 541  RFTDKNI--AKCAARMGQCFSSTYATVEVPPTEVDPELPDIKRN-GYVFSDGIGKITPDL 597
             F +     AK AAR+GQCFS+T  T  +   ++   +PDI    GY+F+DG+GKI+ DL
Sbjct: 96   DFENIEQVPAKYAARIGQCFSTTRPTTGIRIRKI-ERIPDIPERNGYIFTDGVGKISRDL 154

Query: 598  AMEVAQKLKLDVNPPPCAYQIRYAGCKGVVACWPAKGDGIRMSLRESMNKFQ----SHHT 653
            A ++A +L       P AYQIR+ G KGV+   P    G  + +R SM KF     +   
Sbjct: 155  ARKIADELGTL-EEDPSAYQIRFGGYKGVLVVDP-DLPGNEIHIRPSMLKFDLLGDAAVN 212

Query: 654  TLEICSWTRFQPGFLNRQIITLLSTLNVPDEMFWSMQDSMLSKLNQMLVDSDVAFEVLTA 713
            +LEI   ++  P +LNRQ+IT+LSTL VPDE+F  +    L +L + L D D A ++L  
Sbjct: 213  SLEIIRSSKPTPAYLNRQLITVLSTLGVPDEVFIELLREALKELAEALTDWDQALDLLR- 271

Query: 714  ACAEQGNTAAIMLSAGFNPQTEPHLRGMLTCIRAAQLWGLREKARIFVPAGRWLMGCLDE 773
               +Q +     L+  F P  +P LR +L  +    L  L+EK RI VP    L G +DE
Sbjct: 272  ---KQADENDFTLTLRFMPSEDPFLRKLLRALVKHTLKKLKEKLRIPVPKSAALFGVVDE 328

Query: 774  LGVLEGGQCFIQVSEPFLGNCFSKHGSRFAETKKLQVIKGFVVIAKNPCLHPGDIRILEA 833
             GVL+ G+ F+QVS+   G  +             + ++G V++A+NPCLHPGDIR++ A
Sbjct: 329  TGVLKEGEVFVQVSDGNDGGQY-------------EYLEGDVLVARNPCLHPGDIRVVRA 375

Query: 834  VDHPELHHLYDCLVFPQKGDRPHTNEASGSDLDGDLYFVTWDENLIPPSKKSWPPMEYNA 893
            VD PEL HL D +VFP KGDRP  +E SG DLDGD+YFV WD +L               
Sbjct: 376  VDVPELRHLKDVVVFPSKGDRPLASELSGGDLDGDIYFVCWDPDL--------------- 420

Query: 894  AEAKTLTRPVDQRDIIEFFAKHMVNENLGTICNAHVVHADHSEYGALDENCILLAELAAT 953
                                       LG I N+H+  AD    G  D  C+ LA+L + 
Sbjct: 421  ---------------------------LGRISNSHLAIAD--PEGVGDPECLRLAKLHSQ 451

Query: 954  AVDFPKTGKIVTMPAHLKPKLYPDFMGKEAYQSYKSNKILGRLYRQSKDAYDEDIS 1009
            AVD+PKTG  V M   L+PK +PDFM K+  +SYKS +ILG+LYR     Y  + +
Sbjct: 452  AVDYPKTGLPVEMKRLLRPKEWPDFMEKDEGKSYKSTRILGKLYRSVLANYKGEST 507

This family of proteins are eukaryotic RNA dependent RNA polymerases. These proteins are involved in post transcriptional gene silencing where they are thought to amplify dsRNA templates. Length = 508

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 1197
KOG09881145 consensus RNA-directed RNA polymerase QDE-1 requir 100.0
PF05183579 RdRP: RNA dependent RNA polymerase; InterPro: IPR0 100.0
PLN03134144 glycine-rich RNA-binding protein 4; Provisional 98.54
PF1425970 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or 98.42
PLN03120260 nucleic acid binding protein; Provisional 98.37
PF0007670 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or 98.37
TIGR01661352 ELAV_HUD_SF ELAV/HuD family splicing factor. These 98.14
smart0036071 RRM RNA recognition motif. 98.13
TIGR01659346 sex-lethal sex-lethal family splicing factor. This 98.13
TIGR01661352 ELAV_HUD_SF ELAV/HuD family splicing factor. These 98.11
smart0036272 RRM_2 RNA recognition motif. 98.1
TIGR01659346 sex-lethal sex-lethal family splicing factor. This 97.97
cd0059074 RRM RRM (RNA recognition motif), also known as RBD 97.94
PLN03121243 nucleic acid binding protein; Provisional 97.94
KOG0117506 consensus Heterogeneous nuclear ribonucleoprotein 97.91
TIGR01622457 SF-CC1 splicing factor, CC1-like family. A homolog 97.87
TIGR01645612 half-pint poly-U binding splicing factor, half-pin 97.8
TIGR01645612 half-pint poly-U binding splicing factor, half-pin 97.72
TIGR01628562 PABP-1234 polyadenylate binding protein, human typ 97.68
TIGR01648578 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein 97.66
TIGR01622457 SF-CC1 splicing factor, CC1-like family. A homolog 97.61
TIGR01628562 PABP-1234 polyadenylate binding protein, human typ 97.6
TIGR01642509 U2AF_lg U2 snRNP auxilliary factor, large subunit, 97.55
COG0724306 RNA-binding proteins (RRM domain) [General functio 97.53
TIGR01649481 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor 97.51
TIGR01642509 U2AF_lg U2 snRNP auxilliary factor, large subunit, 97.44
KOG4208214 consensus Nucleolar RNA-binding protein NIFK [Gene 97.37
KOG0149247 consensus Predicted RNA-binding protein SEB4 (RRM 97.36
TIGR01649481 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor 97.3
smart0036170 RRM_1 RNA recognition motif. 97.18
KOG0148321 consensus Apoptosis-promoting RNA-binding protein 97.06
PLN03213759 repressor of silencing 3; Provisional 96.92
KOG0122270 consensus Translation initiation factor 3, subunit 96.72
KOG0117506 consensus Heterogeneous nuclear ribonucleoprotein 96.65
TIGR01648578 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein 96.64
KOG4212608 consensus RNA-binding protein hnRNP-M [RNA process 96.61
PF1389356 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or 96.56
KOG0105241 consensus Alternative splicing factor ASF/SF2 (RRM 96.44
KOG0153377 consensus Predicted RNA-binding protein (RRM super 96.39
KOG0127678 consensus Nucleolar protein fibrillarin NOP77 (RRM 96.09
KOG0148321 consensus Apoptosis-promoting RNA-binding protein 96.08
KOG0108435 consensus mRNA cleavage and polyadenylation factor 95.93
KOG0131203 consensus Splicing factor 3b, subunit 4 [RNA proce 95.84
KOG0123369 consensus Polyadenylate-binding protein (RRM super 95.69
KOG0124544 consensus Polypyrimidine tract-binding protein PUF 95.26
KOG0127678 consensus Nucleolar protein fibrillarin NOP77 (RRM 94.98
KOG0107195 consensus Alternative splicing factor SRp20/9G8 (R 94.97
KOG0111298 consensus Cyclophilin-type peptidyl-prolyl cis-tra 94.81
KOG0144510 consensus RNA-binding protein CUGBP1/BRUNO (RRM su 94.43
KOG0116419 consensus RasGAP SH3 binding protein rasputin, con 94.33
KOG4205311 consensus RNA-binding protein musashi/mRNA cleavag 94.12
KOG0113335 consensus U1 small nuclear ribonucleoprotein (RRM 93.42
PF0405997 RRM_2: RNA recognition motif 2; InterPro: IPR00720 93.32
KOG4206221 consensus Spliceosomal protein snRNP-U1A/U2B [RNA 93.3
KOG0125376 consensus Ataxin 2-binding protein (RRM superfamil 93.04
KOG4207256 consensus Predicted splicing factor, SR protein su 92.9
KOG0123369 consensus Polyadenylate-binding protein (RRM super 92.89
KOG0121153 consensus Nuclear cap-binding protein complex, sub 92.75
KOG4205311 consensus RNA-binding protein musashi/mRNA cleavag 92.27
KOG0145360 consensus RNA-binding protein ELAV/HU (RRM superfa 91.97
KOG4211510 consensus Splicing factor hnRNP-F and related RNA- 91.52
KOG0110725 consensus RNA-binding protein (RRM superfamily) [G 91.51
KOG0129520 consensus Predicted RNA-binding protein (RRM super 91.09
KOG0132894 consensus RNA polymerase II C-terminal domain-bind 90.88
KOG0109346 consensus RNA-binding protein LARK, contains RRM a 90.56
KOG4211510 consensus Splicing factor hnRNP-F and related RNA- 90.5
KOG4209231 consensus Splicing factor RNPS1, SR protein superf 90.28
KOG0144510 consensus RNA-binding protein CUGBP1/BRUNO (RRM su 89.81
PF1460553 Nup35_RRM_2: Nup53/35/40-type RNA recognition moti 89.69
KOG1457284 consensus RNA binding protein (contains RRM repeat 88.76
KOG0114124 consensus Predicted RNA-binding protein (RRM super 87.14
PF1160890 Limkain-b1: Limkain b1; InterPro: IPR024582 This e 86.47
PF08777105 RRM_3: RNA binding motif; InterPro: IPR014886 This 86.42
KOG0147549 consensus Transcriptional coactivator CAPER (RRM s 86.2
KOG0147549 consensus Transcriptional coactivator CAPER (RRM s 86.01
KOG0109346 consensus RNA-binding protein LARK, contains RRM a 84.14
PF05172100 Nup35_RRM: Nup53/35/40-type RNA recognition motif; 82.91
KOG0130170 consensus RNA-binding protein RBM8/Tsunagi (RRM su 82.87
KOG1365508 consensus RNA-binding protein Fusilli, contains RR 80.7
>KOG0988 consensus RNA-directed RNA polymerase QDE-1 required for posttranscriptional gene silencing and RNA interference [RNA processing and modification] Back     alignment and domain information 
Probab=100.00  E-value=1e-187  Score=1690.97  Aligned_cols=1106  Identities=34%  Similarity=0.485  Sum_probs=892.7

Q ss_pred             cccccccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCC-CCCCccccccccccccCCCCCccceEEEEe
Q 041430            5 GREKLLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSE-SYPDFYVTNTAEVRKTDDYEKVEPHAFVHF   83 (1197)
Q Consensus         5 ~~~~~~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F   83 (1197)
                      +.+...++.++.++||+++.+|.++.+|+|..+|.+|+|.++.+||+|- +|++|.+.|...++....+ ...|+|+|+|
T Consensus         3 ~~~~~~~~~~~~~~~f~e~~~~~~~~~f~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~f~~i~l~~~~-~~~~~a~v~f   81 (1145)
T KOG0988|consen    3 SNAQLQVVEEQDCNGFPESNSAVELGDFLELLIGAITVYLLKMNTTKPYRPNRVYHGSDFTSIALDCSG-IETPLAKVYF   81 (1145)
T ss_pred             cccceeeeeeeeccCcccchhHHHhhhHHHHHhcchHHHHHhcCCCCCCCCcccccccccccccccccc-chhhHHHHhh
Confidence            4455668999999999999999999999999999999999999999996 9999999999999998865 8899999999


Q ss_pred             cChHHHHHHHHhccCCceeecCeeeeeecCCCCCccccCCCCCCCceeecCcEEEEeeeecC---CeEEEEEecCCCCee
Q 041430           84 AMPTYVTRAVDAAGRTELFLNGRALKVSLGPENPFRLNQRGRTSTPFKLPDVCVEIGTLVSR---DEFFVAWRGPASGTD  160 (1197)
Q Consensus        84 ~~~~~a~~a~~~a~~~~l~~~~~~lkv~~~~~~~~~~~~~~~~~~~~~~~~~~l~~G~~~~~---~~~~~~~~~~~~~v~  160 (1197)
                      ....+ ..+.+.++        ...+++....++..+||........+...+++.|+++...   +...|-|..   .++
T Consensus        82 ~~~~~-~~~~e~~~--------~~~~l~~~a~~~~~l~~i~~~~~F~~~~~~t~~~~~~~~~~v~~~v~V~~~~---~~~  149 (1145)
T KOG0988|consen   82 KHNQG-LNPWEVET--------SRRILSSLAVIRESLNQIVLEKVFDKPDGITKTFDCLESYKVNDQVTVRGSP---VRR  149 (1145)
T ss_pred             ccCCC-CCccchhh--------hhhhccccccchHHHhhHHHhhccCcccceeeeecceEEEeecceEEEeccc---eee
Confidence            99987 33344433        1223332233566677776666667777889999999999   899998876   478


Q ss_pred             EEecCCCCceeEeeeccchhhccCCccccccccceEEEEeeceeeeEEEEecCCceEEEEEeccCCeeeeeccCCCcccc
Q 041430          161 FLVDPFDGTCKFCFTRDIAFALKSSTEHAVIKCEFKVEFLVREINLVKQYSEFSCVAILLQLASSPRVWYRTADDDILVL  240 (1197)
Q Consensus       161 ~~v~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~k~~~~~~~i~~~~~~~~~~~~~l~~~l~~~P~i~~~~~~~~~~~~  240 (1197)
                      +.++|+...|+++.-    |.+.-...++...||++..-... +-....+... .....+++...|..+....+     .
T Consensus       150 ~~~~p~~~~~~~~v~----f~~~~~~~i~~~~~D~~~~s~~~-~~~~~~~~~~-G~~k~~~~~~~p~~~~~~~~-----~  218 (1145)
T KOG0988|consen  150 IVESPVVEYCKLCVP----FEHSCRVLIETVSLDLDKPSIIR-YPKSRRYLDN-GGSKYFRFAFSPLLLALGDS-----E  218 (1145)
T ss_pred             eeecccccccccccc----hhhcchhheeeEEeccCcchhcc-Ccchhhhhhc-CccceeecccccHHHhhccc-----e
Confidence            999999888884432    11112222223344444333222 1222222222 22347788888877755433     1


Q ss_pred             cccCCCC-CCCCceeecCCCCCCCccceEEEEEEEecCCcccHHHHHHHHhcccceeecCCCCceeccCCCCCCCCCCcc
Q 041430          241 VPFDMLD-DDDPWIRTTDFTPSGAIGRCNSYRISISSRHRGKLSKVITYLGERRVQVDSLSRPITIREEPDFEVPMSDPF  319 (1197)
Q Consensus       241 ~~~~~~~-~~~~w~R~td~~~~~~ig~~~~y~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (1197)
                      .-|.... .+.+|+|+|||++..++|+|+++++++...    +-..++|.+.++......+..+.+..++.++.+.. .+
T Consensus       219 ~Ef~k~~~~~~~~i~~~~~~~~~~v~~eta~~~eI~~~----i~~~lP~~r~~~~~~~~~~~s~~ir~~~~~~~~~~-~~  293 (1145)
T KOG0988|consen  219 LEFKKDFLADLLYIRTTDLRSRTGVGIETASCDEIRVP----IWKDLPYNRYNGSTAEEFRLSVWIRLGSKYDVSSA-QL  293 (1145)
T ss_pred             eeeecccccccceeeecceeccccccceeeccceecch----hhccCCcccccccchhhhhhhhheecccccccccc-ee
Confidence            1122222 488999999999999999999999999874    22223444443322111233455556666653222 22


Q ss_pred             ccccccCCCcchHHHHHHHHHHcCCCCcc------cchHHHHHHHhcCCh---hHHHHHHHHHHcCCCCccchHHHHHHH
Q 041430          320 FCIHYEEGISFEIMFLVNAVMHKGIINQH------QLSDSFFDLLRGQSR---EVNVAALKHIYSYKWPVFDACKRLKLV  390 (1197)
Q Consensus       320 ~~~~~~~~l~f~v~fql~~Lv~~g~l~~~------~~~~~f~~~l~~~~~---~~~~~al~~l~~~~~~~~d~~~~l~~~  390 (1197)
                      ..+.  ...+|.+.|.+|+|+++|-|..+      +...+|+.++.....   .+..+.|++|+....+||||..+.+..
T Consensus       294 ~~l~--~~~~~git~~~e~l~~r~slv~dq~~~~~~~~~~f~~l~~~~~~~d~~v~~a~LekL~~~~~~cfd~~~~~k~i  371 (1145)
T KOG0988|consen  294 VPLN--DERDFGITHLYECLVSRGSLVKDQVLLEEAHLLEFLGLLRHKVLGDDNVLEAKLEKLLKLSTKCFDPYCQYKKI  371 (1145)
T ss_pred             eecc--ccccccceeehhhhhcccchhhhhHHhhhhHHHHHHHHHhhhhccchhHHHHHHHHHhhhhhhhhhHHHHHHHH
Confidence            2222  24566777777777775554444      455778888876543   667788999999999999999999988


Q ss_pred             HHHHhcCCCCCCCCCCCCCeEEEEEEEEcCCeeEecCCcccccchhhccCCCCCCcEEEEEEecCCcccccccccccccc
Q 041430          391 QEWLLKDPELYKGPKQIDDIVEVRRLVITPTKAYCLPPEVELSNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIA  470 (1197)
Q Consensus       391 ~~~~~~~~~~~~~~~~~~~~~~v~rv~vTPtri~~~~P~~e~sNRvlR~f~~~~D~FLRV~F~DE~~~~l~~~~~~~~~~  470 (1197)
                      +++...|.++.....+.++++.|+||+|||||+||.+||++++|||+|+|.+++++||||+|+||+++ +..+.++    
T Consensus       372 ~~~~~~ng~~~~~~~~~~g~~~vrk~v~TPtrv~~~~PE~~~gNRVlR~f~~~~t~~lRvtF~De~~~-~~ir~~S----  446 (1145)
T KOG0988|consen  372 AKLNPSNGKLVTTKEIMEGLRRVRKVVFTPTRVYLLAPEVEMGNRVLRKFDKDSTRFLRVTFRDEDNK-LKIRTLS----  446 (1145)
T ss_pred             HHHhcccCccccchhhhhcceeEEEEEEcCceeEecCchhhhcchhheeccccCceEEEEEEEccccc-cccccCC----
Confidence            87655666643333467899999999999999999999999999999999999999999999999986 4332222    


Q ss_pred             ccccccccccccchhhHHHHHHHHhhCCeEEeeEEEEEEEeecCCCCcCceEEEeCCCCCCHHHHHHHhCCCC-CCCHhH
Q 041430          471 PIVRDITLNSFSQKTRVFKRVRSILSGGFYLCGRKFSFLAFSSSQLRDCSAWFFSEDGKTSVLDIKKWMGRFT-DKNIAK  549 (1197)
Q Consensus       471 ~~~r~~~~~~~~~~~~i~~rv~~~L~~Gi~I~gR~y~FLa~S~SqlR~~s~wFfa~~~~lt~~~Ir~wmG~F~-~~~~aK  549 (1197)
                                ...++.+|.||..+|++||.||+|.|+||||||||||+||.||++.+...++++||.|||+|. +.|++|
T Consensus       447 ----------~~~~t~l~~rv~~~L~~Gi~v~~r~y~FL~~s~sQlRdngy~m~~~s~~~~i~~iR~wmG~F~~i~nv~K  516 (1145)
T KOG0988|consen  447 ----------TGSRTKLDMRVNSYLTDGISVANRRYEFLAFSNSQLRDNGYFMARFSDKTKIEDIREWMGDFRDIDNVPK  516 (1145)
T ss_pred             ----------cchhhHHHHHHHHHHhcccEEccceeEEEEecccccccCceEEeecCCCccHHHHHHHhcchhhccCHHH
Confidence                      123689999999999999999999999999999999999999999998899999999999997 799999


Q ss_pred             HHHHhhccCCCCccceee-CCCcccccCCCccCC----CcccccccccccHHHHHHHHHHcCCCCCCCCcEEEEeccCce
Q 041430          550 CAARMGQCFSSTYATVEV-PPTEVDPELPDIKRN----GYVFSDGIGKITPDLAMEVAQKLKLDVNPPPCAYQIRYAGCK  624 (1197)
Q Consensus       550 ~aARigq~FSsT~~tv~v-~~~~i~~~I~DI~~~----g~~FTDG~G~IS~~lA~~I~~~l~l~~~~~PSAfQiR~gG~K  624 (1197)
                      ||||||||||+|+.|..+ +...+ ..+|||+++    +||||||||+||.++|++|++++++.. .+||||||||||+|
T Consensus       517 ~aARmGqCFs~Sr~T~~~~~~~~~-~~~~DI~~g~~g~~y~FSDGvG~iS~~~a~~vsq~~~~~~-~vPsaFQiR~~G~K  594 (1145)
T KOG0988|consen  517 LAARMGQCFSQSRGTGYVLERLDR-MCPPDIEGGKRGNNYCFSDGVGMISLQFAREVSQKRKFGK-AVPSAFQIRYGGYK  594 (1145)
T ss_pred             HHhhcCcceecccccccccccccc-ccCCcccccccCCceeecCCcccccHHHHHHHHHHHcccc-cCChheeeeccCCc
Confidence            999999999999999877 55566 589999977    899999999999999999999999974 59999999999999


Q ss_pred             eEEEecCCCCCCceeEecccccccccCCceEEEeeecCCccccccHHHHHHHhcCCCChHHHHHHHHHHHHHH--HHhhC
Q 041430          625 GVVACWPAKGDGIRMSLRESMNKFQSHHTTLEICSWTRFQPGFLNRQIITLLSTLNVPDEMFWSMQDSMLSKL--NQMLV  702 (1197)
Q Consensus       625 GvL~vdp~~~~g~~I~lR~Sm~KF~s~~~~LEI~~~S~~~p~~LNRQlI~iL~~lGVp~evF~~lq~~~l~~l--~~~l~  702 (1197)
                      |||+|||...  ..+.+|.||.||.|.+..++|+.|++++||+||||+|++|+.+||++++|+++|+..++.-  ...+.
T Consensus       595 GVvav~Ps~~--~~~~~~~~~~~s~S~n~~~~v~~~~~f~~~~lnr~lI~Lls~~gv~n~~F~~il~~vle~~r~~~n~~  672 (1145)
T KOG0988|consen  595 GVVAVDPSMD--KVLKLRDSMNKSQSFNSLLEVTPSSKFQPAFLNRQLITLLSYLGVLNKPFINILDQVLEKQRRITNRI  672 (1145)
T ss_pred             ceEEeCccHh--hhhhhhhhhhhhhhhcceeeeeeccCCccccccHHHHHHHHhcCccchHHHHHHHHHHHHHHhhhhhh
Confidence            9999999864  3788999999999999999999999999999999999999999999999999999999843  33344


Q ss_pred             CHHHHHHHHHHhh-ccccchHHHHHHCCCCCCCchHHHHHHHHHHHHHHHhhccceeeeccCceeEeeecCCCCCCCCCc
Q 041430          703 DSDVAFEVLTAAC-AEQGNTAAIMLSAGFNPQTEPHLRGMLTCIRAAQLWGLREKARIFVPAGRWLMGCLDELGVLEGGQ  781 (1197)
Q Consensus       703 d~~~A~~~L~~~~-~~~~~~~~~ml~~Gf~~~~ePfl~~ll~~~~~~~L~~Lk~K~RI~Vp~s~~L~GV~DetG~L~~GE  781 (1197)
                      ....+..+|.-.+ .+++++++.++..++.+.+|||+++||...+++.++.+|+|.||||+.||+||||+||||.||+||
T Consensus       673 e~~~~~~~l~~~~~m~~en~a~~~l~~~~~~D~EPflr~mL~~~~k~~~~~~kek~ripv~~Gr~lmGvvDETG~L~ygQ  752 (1145)
T KOG0988|consen  673 EELLDRAALNYGEQMDDENIAAMILKGFPRIDSEPFLRSMLSSLLKFTLQLLKEKIRIPVDLGRSLMGVVDETGILKYGQ  752 (1145)
T ss_pred             hHHHHHHHhhhhhhccchHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHhcccccCcCCceeEeeeccccccccCe
Confidence            4444555554333 334555666666666677899999999999999999999999999999999999999999999999


Q ss_pred             EEEEecCCccccccccCCCccccccceeEEeeeEEEEeCCCCCCCcceEEEEecCCCCCcCCCeEEeCCCCCCCcccccC
Q 041430          782 CFIQVSEPFLGNCFSKHGSRFAETKKLQVIKGFVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEAS  861 (1197)
Q Consensus       782 Vfvq~s~~~~~~~~~~~g~~~~~~~~~~vi~G~VlV~RnP~lHPGDIr~v~AVd~P~L~hL~dvIVFp~kG~Rplps~lS  861 (1197)
                      ||||++.+..+          +..++..|++|+|+|||||||||||||+++||++|+||||+|||||||||+||||+|||
T Consensus       753 VfVq~t~~~~~----------~~~~~~~vitG~VlvtKNPcLhpGDVRVl~AV~vp~L~h~~dvVvFPQkGpRphpdE~a  822 (1145)
T KOG0988|consen  753 VFVQYTKTIRN----------SDSGRKEVITGKVLVTKNPCLHPGDVRVLKAVYVPALEHMVDVVVFPQKGPRPHPDEMA  822 (1145)
T ss_pred             EEEEEcccccc----------cccCCceEEEeeEEEecCCCCCCCceEEEEeeccHHHHhhcCEEEcCCCCCCCCccccc
Confidence            99999986321          12234589999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCeEEEeecCCcCCCCCCCCCCCCCChhhhcccCCCCChhHHHHHHHHhhccchhHhHHHHHHHHhccccCCCCC
Q 041430          862 GSDLDGDLYFVTWDENLIPPSKKSWPPMEYNAAEAKTLTRPVDQRDIIEFFAKHMVNENLGTICNAHVVHADHSEYGALD  941 (1197)
Q Consensus       862 GGDLDGD~y~ViWD~~Lvp~~~~~~~P~~Y~~~~~~~l~r~vt~~di~dffv~ym~~d~LG~Ian~Hl~~aD~~~~G~~d  941 (1197)
                      |||||||+|||||||+|+|+.++  +||+|++.+++.+.+.++.++|.+||++||++|+||+|||||+++||+  +|+.+
T Consensus       823 GsDLDGDeYfViWDqkLL~~~~~--epmd~~~~~sk~~~~~~~~~~m~effv~yL~~DslG~isnAhl~~aD~--~G~~~  898 (1145)
T KOG0988|consen  823 GSDLDGDEYFVIWDQKLLPPRNE--EPMDSSSEKSKILDGRVPLDEMSEFFVEYLKEDSLGLISNAHLANADV--YGLFS  898 (1145)
T ss_pred             cCCCCCceEEEEeChhhccCcCC--CccccCccccccccCCCCHHHHHHHHHHHHHHHHHHHHhhccccchhh--cchhh
Confidence            99999999999999999998743  999999999999999999999999999999999999999999999998  99999


Q ss_pred             HHHHHHHHHHHhccCCCCCCCeeecCCCCCCCCCCCCCCCcccCCcccCChhcHHHHHhHhhhccccccccccccCCCCC
Q 041430          942 ENCILLAELAATAVDFPKTGKIVTMPAHLKPKLYPDFMGKEAYQSYKSNKILGRLYRQSKDAYDEDISVSSEVDINPVDI 1021 (1197)
Q Consensus       942 ~~Cl~LA~L~S~AVDf~KTG~~v~~p~~l~pk~~PdFM~k~~~~~Y~S~kiLG~LYr~v~~~~~~~~~~~~~~~~~~~~~ 1021 (1197)
                      +.|+.||++||+||||||||+.+.||.+++|++|||||++.++++|.|++++|||||+++.+ ++.. ..++....+.++
T Consensus       899 ~~Cl~LA~k~~~AVDF~KsG~d~~~~~~ek~e~~PDfm~~~d~p~Y~S~~l~GkLfR~~~ai-d~~~-~~~e~~~~~~~i  976 (1145)
T KOG0988|consen  899 DVCLELAKKHSQAVDFPKSGADESMPEKEKPERYPDFMEKTDKPTYYSERLCGKLFREAKAI-DAPL-KGSEERSEQVEV  976 (1145)
T ss_pred             HHHHHHHHhhcccccccccCCcccccchhchhhcchhhhCCCCceeecchhhhHHHHHHHhh-cchh-hcCccccCcccc
Confidence            99999999999999999999999999999999999999999999999999999999988553 2221 122222233348


Q ss_pred             CCCCccCcCchhhHHHHHHHHHHHHHHHHHHHHHhcCCCchhhhhhc--ccccCCCcccchhHHHHHHHHHHHHHHHHHH
Q 041430         1022 HYDTDLEVPESVDFIADAWNQKCSYDGQLNGLLEQYKVNREEELVTG--HIWSMPKYNSRKQGELKERLKHSYSALRKEF 1099 (1197)
Q Consensus      1022 ~~D~~l~~~g~~~~l~~A~~~k~~Y~~~l~~lm~~y~i~tE~Ev~sG--~I~~~~~~~~~~~~d~~e~i~~~~~~L~~ef 1099 (1197)
                      +||++++++||++|++.|+++++.|+.+|++||.+|||.+|+||+||  .+..|+.+++.+..+  +++...+.+|++.|
T Consensus       977 ~yD~~l~v~gFe~yme~a~~~~~~y~~qL~slm~~ygi~~E~eI~sG~~~~ddms~~~t~~~~e--~~~~~l~~~~r~~~ 1054 (1145)
T KOG0988|consen  977 EYDEDLEVDGFEHYMERAKKQVASYNGQLRSLMDFYGISTEGEIFSGILDQDDMSFYNTERMIE--LKLERLVLKLREKF 1054 (1145)
T ss_pred             cCCcccCcCCcHHHHHHHHHHHhhhhhHHHHHHHHhCccchhhhhccCccccchhhhcccccch--hhhHHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999  666777776654443  57777888888888


Q ss_pred             HHHHhccc------CCccccchhhhhHHHHHHHHHHHH-HhcchhhhhhhhhhhcccccCCcceeeecchHHHHHHHHHh
Q 041430         1100 RQVFEKMD------SDCELLSEDEKNALFERKASAWYQ-VTYHPEWVKKSLDLQEQDSARSVVLLSFAWIANDYLARIKI 1172 (1197)
Q Consensus      1100 r~~f~~~~------~~~~~~~~~~~~~~~~~kAsA~Y~-Vty~~~~~~~~~~~~~~~~~~~~~~lSFpWi~~d~L~~I~~ 1172 (1197)
                      .++|....      +.++..+.+   +.+.+||+|||+ ++|+...           ..+..+.+||||||+|+|++||.
T Consensus      1055 ~qef~~y~~~~e~l~~fe~~~~e---E~~~kKa~aWY~v~~ye~~~-----------~~~~~~~~SF~wia~Dvl~~iK~ 1120 (1145)
T KOG0988|consen 1055 FQEFGAYKLEIEKLSCFEDSPEE---EFIMKKASAWYRVYRYEMAQ-----------AMRETRKLSFAWIAYDVLARIKQ 1120 (1145)
T ss_pred             HHHhhhhcchhhhccccccCchh---HHHHHHHHHHHHHHHhhhhc-----------ccccCcccchHHHHHHHHHHHHH
Confidence            88885221      223332222   226689999999 7776432           22445677999999999999999


Q ss_pred             hcccccccCCCchHHHHHHHhh
Q 041430         1173 RCREMANIDTSKPVNYLARYVA 1194 (1197)
Q Consensus      1173 ~~~~~~~~~~~~~~~~~~~~~~ 1194 (1197)
                      . .. ..+...+|+.++.+-..
T Consensus      1121 ~-~~-~~~g~a~p~~tl~e~~~ 1140 (1145)
T KOG0988|consen 1121 T-FL-GAIGGANPVYTLEELHR 1140 (1145)
T ss_pred             H-HH-HhhcccCchHHHHHhhH
Confidence            8 33 37889999999876544

>PF05183 RdRP: RNA dependent RNA polymerase; InterPro: IPR007855 This entry represents various eukaryotic RNA-dependent RNA polymerases (RDRP; 2 Back     alignment and domain information
>PLN03134 glycine-rich RNA-binding protein 4; Provisional Back     alignment and domain information
>PF14259 RRM_6: RNA recognition motif (a Back     alignment and domain information
>PLN03120 nucleic acid binding protein; Provisional Back     alignment and domain information
>PF00076 RRM_1: RNA recognition motif Back     alignment and domain information
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor Back     alignment and domain information
>smart00360 RRM RNA recognition motif Back     alignment and domain information
>TIGR01659 sex-lethal sex-lethal family splicing factor Back     alignment and domain information
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor Back     alignment and domain information
>smart00362 RRM_2 RNA recognition motif Back     alignment and domain information
>TIGR01659 sex-lethal sex-lethal family splicing factor Back     alignment and domain information
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability Back     alignment and domain information
>PLN03121 nucleic acid binding protein; Provisional Back     alignment and domain information
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification] Back     alignment and domain information
>TIGR01622 SF-CC1 splicing factor, CC1-like family Back     alignment and domain information
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family Back     alignment and domain information
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family Back     alignment and domain information
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family Back     alignment and domain information
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family Back     alignment and domain information
>TIGR01622 SF-CC1 splicing factor, CC1-like family Back     alignment and domain information
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family Back     alignment and domain information
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor Back     alignment and domain information
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only] Back     alignment and domain information
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family Back     alignment and domain information
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor Back     alignment and domain information
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only] Back     alignment and domain information
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only] Back     alignment and domain information
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family Back     alignment and domain information
>smart00361 RRM_1 RNA recognition motif Back     alignment and domain information
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PLN03213 repressor of silencing 3; Provisional Back     alignment and domain information
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification] Back     alignment and domain information
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family Back     alignment and domain information
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification] Back     alignment and domain information
>PF13893 RRM_5: RNA recognition motif Back     alignment and domain information
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification] Back     alignment and domain information
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only] Back     alignment and domain information
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification] Back     alignment and domain information
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification] Back     alignment and domain information
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification] Back     alignment and domain information
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification] Back     alignment and domain information
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification] Back     alignment and domain information
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification] Back     alignment and domain information
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification] Back     alignment and domain information
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms] Back     alignment and domain information
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification] Back     alignment and domain information
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification] Back     alignment and domain information
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2 Back     alignment and domain information
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification] Back     alignment and domain information
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only] Back     alignment and domain information
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification] Back     alignment and domain information
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification] Back     alignment and domain information
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification] Back     alignment and domain information
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification] Back     alignment and domain information
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification] Back     alignment and domain information
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only] Back     alignment and domain information
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription] Back     alignment and domain information
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only] Back     alignment and domain information
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification] Back     alignment and domain information
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification] Back     alignment and domain information
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification] Back     alignment and domain information
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif Back     alignment and domain information
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only] Back     alignment and domain information
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only] Back     alignment and domain information
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes Back     alignment and domain information
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation Back     alignment and domain information
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription] Back     alignment and domain information
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription] Back     alignment and domain information
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only] Back     alignment and domain information
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT [] Back     alignment and domain information
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only] Back     alignment and domain information
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query1197
2j7n_A1022 Structure Of The Rnai Polymerase From Neurospora Cr 2e-18
>pdb|2J7N|A Chain A, Structure Of The Rnai Polymerase From Neurospora Crassa Length = 1022 Back     alignment and structure 
Iteration: 1

 Score = 92.0 bits (227), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 93/372 (25%), Positives = 155/372 (41%), Gaps = 57/372 (15%)
Query: 549 KCAARMGQCFSSTYATVEVPPTEVDPELPDI---KRNGYVFSDGIGKITPDLAMEVAQKL 605
           K  +R+    S TYA + + P ++     D+      G V +DG+G+++  +A  +   L
Sbjct: 287 KLFSRIQLGLSKTYAIMTLEPHQIRHHKTDLLSPSGTGEVMNDGVGRMSRSVAKRIRDVL 346
Query: 606 KL-DVNPPPCAYQIRYAGCKGV-VACWPAKGDGIRMSLRESMNKFQ-----SHHTTLEIC 658
            L DV   P A Q R+   KG+ V      GD   +    S  K++      H  TLE+ 
Sbjct: 347 GLGDV---PSAVQGRFGSAKGMWVIDVDDTGDEDWIETYPSQRKWECDFVDKHQRTLEVR 403
Query: 659 S-WTRFQPGFLNRQIITLLS------------------------------TLNVPDEMFW 687
           S  +  +   LN Q++ +L                                LN P E   
Sbjct: 404 SVASELKSAGLNLQLLPVLEDRARDKVKMRQAIGDRLINDLQRQFSEQKHALNRPVEFRQ 463
Query: 688 SMQDSMLSKLNQMLVDSDVAFEVLTAACAEQGNTAAIMLSAGFNPQTEPHLRGMLTCIRA 747
            + +S  S+  ++   S      L      Q  T   ++++GF+P+ + +L+ +   ++ 
Sbjct: 464 WVYESYSSRATRV---SHGRVPFLAGLPDSQEETLNFLMNSGFDPKKQKYLQDIAWDLQK 520
Query: 748 AQLWGLREKARIFVPAGRWLMGCLDELGVLEGGQCFIQVSEPFLGNCFSKHGSRFAETKK 807
            +   L+ K  I V    ++    D  GVLE  +  +  S  F          R  E   
Sbjct: 521 RKCDTLKSKLNIRVGRSAYIYMIADFWGVLEENEVHVGFSSKF----------RDEEESF 570
Query: 808 LQVIKGFVVIAKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEASGSDLDG 867
             +    V++A++P   P DI+ + AV  PELH L D ++F  KGD P   + SG D DG
Sbjct: 571 TLLSDCDVLVARSPAHFPSDIQRVRAVFKPELHSLKDVIIFSTKGDVPLAKKLSGGDYDG 630
Query: 868 DLYFVTWDENLI 879
           D+ +V WD  ++
Sbjct: 631 DMAWVCWDPEIV 642

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query1197
2j7n_A1022 RNA-dependent RNA polymerase; RNAI response, RNA-d 1e-177
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-15
1vt4_I1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-09
1vt4_I1221 APAF-1 related killer DARK; drosophila apoptosome, 8e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 6e-08
>2j7n_A RNA-dependent RNA polymerase; RNAI response, RNA-directed RNA polymerase, hydrolase; 2.30A {Neurospora crassa} PDB: 2j7o_A Length = 1022 Back     alignment and structure
 Score =  549 bits (1414), Expect = e-177
 Identities = 149/862 (17%), Positives = 286/862 (33%), Gaps = 132/862 (15%)

Query: 427  PPEVELSNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIAPIVRDITLNSFSQKTR 486
            P   E   R+ R++    DRF  +        + +   +       V ++       +  
Sbjct: 137  PLMFEQGCRLTRRFG--PDRFFEILIPSPTSTSPSVPPVVSKQPAAVEEVIQWLTMGQHS 194

Query: 487  VFKRV---RSILSGGFYLCGRKFSFLAFSSSQLRDCSAWFFSEDGKT------------- 530
            +  R          G+    R+F   A     +      FF+E G T             
Sbjct: 195  LVGRQWRAFFAKDAGYRKPLREFQLRAEDPKPIIKERVHFFAETGITFRPDVFKTRSVVP 254

Query: 531  -----------SVLDIKKWMGRFT---DKNIAKCAARMGQCFSSTYATVEVPPTEVDPEL 576
                        V  +  W+ +      +   K  +R+    S TYA + + P ++    
Sbjct: 255  AEEPVEQRTEFKVSQMLDWLLQLDNNTWQPHLKLFSRIQLGLSKTYAIMTLEPHQIRHHK 314

Query: 577  PDI---KRNGYVFSDGIGKITPDLAMEVAQKLKLDVNPPPCAYQIRYAGCKGVVACWP-A 632
             D+      G V +DG+G+++  +A  +   L L     P A Q R+   KG+       
Sbjct: 315  TDLLSPSGTGEVMNDGVGRMSRSVAKRIRDVLGLG--DVPSAVQGRFGSAKGMWVIDVDD 372

Query: 633  KGDGIRMSLRESMNKFQS-----HHTTLEICS-WTRFQPGFLNRQIITLLSTLNVP---- 682
             GD   +    S  K++      H  TLE+ S  +  +   LN Q++ +L          
Sbjct: 373  TGDEDWIETYPSQRKWECDFVDKHQRTLEVRSVASELKSAGLNLQLLPVLEDRARDKVKM 432

Query: 683  -----DEMFWSMQDSMLSK---LNQMLVDSDVAFEVLTAACA---------------EQG 719
                 D +   +Q     +   LN+ +      +E  ++                   Q 
Sbjct: 433  RQAIGDRLINDLQRQFSEQKHALNRPVEFRQWVYESYSSRATRVSHGRVPFLAGLPDSQE 492

Query: 720  NTAAIMLSAGFNPQTEPHLRGMLTCIRAAQLWGLREKARIFVPAGRWLMGCLDELGVLEG 779
             T   ++++GF+P+ + +L+ +   ++  +   L+ K  I V    ++    D  GVLE 
Sbjct: 493  ETLNFLMNSGFDPKKQKYLQDIAWDLQKRKCDTLKSKLNIRVGRSAYIYMIADFWGVLEE 552

Query: 780  GQCFIQVSEPFLGNCFSKHGSRFAETKKLQVIKGFVVIAKNPCLHPGDIRILEAVDHPEL 839
             +  +  S  F          R  E     +    V++A++P   P DI+ + AV  PEL
Sbjct: 553  NEVHVGFSSKF----------RDEEESFTLLSDCDVLVARSPAHFPSDIQRVRAVFKPEL 602

Query: 840  HHLYDCLVFPQKGDRPHTNEASGSDLDGDLYFVTWDENLIPPSKKSWPPMEYNAAE---- 895
            H L D ++F  KGD P   + SG D DGD+ +V WD  ++     +  P+E + +     
Sbjct: 603  HSLKDVIIFSTKGDVPLAKKLSGGDYDGDMAWVCWDPEIVDGFVNAEMPLEPDLSRYLKK 662

Query: 896  --------------AKTLTRPVDQRDIIEFFAKHMVNENLGTICNAHVVHADHSEYGALD 941
                                      I + F   +    LG   N              +
Sbjct: 663  DKTTFKQLMASHGTGSAAKEQTTYDMIQKSFHFALQPNFLGMCTNYKERLCYI-NNSVSN 721

Query: 942  ENCILLAELAATAVDFPKTGKIVTMPA--HLKPKLYPDFMGKEAYQSYKSNKILGRLYRQ 999
            +  I+L+ L    VD  K G +    +   L+ +L    +       YKS+  LGR    
Sbjct: 722  KPAIILSSLVGNLVDQSKQGIVFNEASWAQLRRELLGGALSLPD-PMYKSDSWLGR---- 776

Query: 1000 SKDAYDEDISVSSEVDINPVDIHYDTDLE-VPESVDFIADAWNQKCSYDGQLNGLLEQYK 1058
                  E   +   +  +      D +LE    ++    D  +    +D  L      +K
Sbjct: 777  -----GEPTHIIDYLKFSIARPAIDKELEAFHNAMKAAKDTEDGAHFWDPDLASYYTFFK 831

Query: 1059 VNREEELVTGHIWSMPK-------------YNSRKQGELKERLKHSYSALRKEFRQVFEK 1105
               ++   +  +++  K               +++  + K+      + + +++  +  +
Sbjct: 832  EISDKSRSSALLFTTLKNRIGEVEKEYGRLVKNKEMRDSKDPYPVRVNQVYEKWCAITPE 891

Query: 1106 MDSDCELLSEDEKNALFERKASAWYQVTYHPEWVKKSLDLQEQDSARSVVLLSFAW-IAN 1164
                     + +   L E  +    +       ++ S   +            F W +A 
Sbjct: 892  AMDKSGANYDSKVIRLLEL-SFLADREMNTWALLRASTAFKLYYHKSP----KFVWQMAG 946

Query: 1165 DYLARIKIRCREMANIDTSKPV 1186
              LA IK +            +
Sbjct: 947  RQLAYIKAQMTSRPGEGAPALM 968
>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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query1197
2j7n_A1022 RNA-dependent RNA polymerase; RNAI response, RNA-d 100.0
2lxi_A91 RNA-binding protein 10; NMR {Homo sapiens} 98.85
4fxv_A99 ELAV-like protein 1; RNA recognition motif, putati 98.81
3s7r_A87 Heterogeneous nuclear ribonucleoprotein A/B; ferre 98.8
3md1_A83 Nuclear and cytoplasmic polyadenylated RNA-bindin 98.76
3ucg_A89 Polyadenylate-binding protein 2; ferredoxin-like, 98.76
1s79_A103 Lupus LA protein; RRM, alpha/beta, RNA binding pro 98.75
3bs9_A87 Nucleolysin TIA-1 isoform P40; RNA recognition mot 98.72
1whw_A99 Hypothetical protein riken cDNA 1200009A02; RNA re 98.71
2cqc_A95 Arginine/serine-rich splicing factor 10; RNA recog 98.7
2x1f_A96 MRNA 3'-END-processing protein RNA15; transcriptio 98.69
2jwn_A124 Embryonic polyadenylate-binding protein 2-B; epabp 98.69
1x4h_A111 RNA-binding protein 28; structural genomics, RRM d 98.69
1uaw_A77 Mouse-musashi-1; RNP-type structure, RNA binding p 98.69
2dgs_A99 DAZ-associated protein 1; RRM domain, structural g 98.68
2cqd_A116 RNA-binding region containing protein 1; RNA recog 98.68
1x5u_A105 Splicing factor 3B subunit 4 (spliceosome associat 98.66
2dng_A103 Eukaryotic translation initiation factor 4H; RRM d 98.66
2cqg_A103 TDP-43, TAR DNA-binding protein-43; RNA recognitio 98.66
2dh8_A105 DAZ-associated protein 1; RRM domain, structural g 98.66
2dnz_A95 Probable RNA-binding protein 23; RNA recognition m 98.65
2lkz_A95 RNA-binding protein 5; RRM; NMR {Homo sapiens} 98.65
4f25_A115 Polyadenylate-binding protein 1; RRM fold, transla 98.65
3mdf_A85 Peptidyl-prolyl CIS-trans isomerase E; RRM domain, 98.65
2mss_A75 Protein (musashi1); RNA-binding domain, RNA bindin 98.65
2dnm_A103 SRP46 splicing factor; RRM domain, RBD, structural 98.64
2cq4_A114 RNA binding motif protein 23; RRM domain, structur 98.64
1iqt_A75 AUF1, heterogeneous nuclear ribonucleoprotein D0; 98.64
3s8s_A110 Histone-lysine N-methyltransferase SETD1A; chromat 98.62
2e5h_A94 Zinc finger CCHC-type and RNA-binding motif- conta 98.62
2rs2_A109 Musashi-1, RNA-binding protein musashi homolog 1; 98.62
1p27_B106 RNA-binding protein 8A; nuclear protein, mRNA spli 98.61
2dhg_A104 TRNA selenocysteine associated protein (SECP43); R 98.61
2dgv_A92 HnRNP M, heterogeneous nuclear ribonucleoprotein M 98.61
4a8x_A88 RNA-binding protein with serine-rich domain 1; tra 98.6
2ywk_A95 Putative RNA-binding protein 11; RRM-domain, struc 98.6
1oo0_B110 CG8781-PA, drosophila Y14; RNA recognition motif, 98.6
2cq0_A103 Eukaryotic translation initiation factor 3 subunit 98.6
3p5t_L90 Cleavage and polyadenylation specificity factor S; 98.6
2cq3_A103 RNA-binding protein 9; RRM domain, structural geno 98.59
2dgo_A115 Cytotoxic granule-associated RNA binding protein 1 98.59
1x5t_A96 Splicing factor 3B subunit 4; structure genomics, 98.59
1wi8_A104 EIF-4B, eukaryotic translation initiation factor 4 98.59
2do4_A100 Squamous cell carcinoma antigen recognized by T- c 98.59
1x4b_A116 Heterogeneous nuclear ribonucleoproteins A2/B1; st 98.58
1x4a_A109 Splicing factor, arginine/serine-rich 1 (splicing 98.58
2cpf_A98 RNA binding motif protein 19; RNA recognition moti 98.58
2cqb_A102 Peptidyl-prolyl CIS-trans isomerase E; RNA recogni 98.57
1x4e_A85 RNA binding motif, single-stranded interacting pro 98.57
1u6f_A139 Tcubp1, RNA-binding protein UBP1; trypanosome, mRN 98.57
3ns6_A100 Eukaryotic translation initiation factor 3 subuni; 98.57
2jrs_A108 RNA-binding protein 39; RNA binding motif of RBM39 98.57
2cqi_A103 Nucleolysin TIAR; RNA recognition motif, RRM, RNA 98.57
2d9p_A103 Polyadenylate-binding protein 3; RRM domain, struc 98.56
1x5s_A102 Cold-inducible RNA-binding protein; structure geno 98.56
2nlw_A105 Eukaryotic translation initiation factor 3 subunit 98.55
2cpe_A113 RNA-binding protein EWS; RNA recognition motif, RR 98.55
2xs2_A102 Deleted in azoospermia-like; RNA binding protein-R 98.55
2err_A109 Ataxin-2-binding protein 1; protein-RNA complex, R 98.55
2dnh_A105 Bruno-like 5, RNA binding protein; RRM domain, RBD 98.55
2fy1_A116 RNA-binding motif protein, Y chromosome, family 1 98.55
2la6_A99 RNA-binding protein FUS; structural genomics, nort 98.54
2ku7_A140 MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio 98.54
2dgp_A106 Bruno-like 4, RNA binding protein; RRM domain, str 98.54
1p1t_A104 Cleavage stimulation factor, 64 kDa subunit; RNA r 98.53
2lmi_A107 GRSF-1, G-rich sequence factor 1; G-rich RNA seque 98.53
3r27_A100 HnRNP L, heterogeneous nuclear ribonucleoprotein L 98.53
2khc_A118 Testis-specific RNP-type RNA binding protein; RRM, 98.53
2cpy_A114 RNA-binding protein 12; RRM domain, structural gen 98.53
2cpz_A115 CUG triplet repeat RNA-binding protein 1; RRM doma 98.52
1l3k_A196 Heterogeneous nuclear ribonucleoprotein A1; nuclea 98.52
2dis_A109 Unnamed protein product; structural genomics, RRM 98.52
2j76_E100 EIF-4B, EIF4B, eukaryotic translation initiation f 98.52
2div_A99 TRNA selenocysteine associated protein; structural 98.52
2cph_A107 RNA binding motif protein 19; RNA recognition moti 98.51
2krb_A81 Eukaryotic translation initiation factor 3 subunit 98.51
3ulh_A107 THO complex subunit 4; nuclear protein, RNA bindin 98.5
2do0_A114 HnRNP M, heterogeneous nuclear ribonucleoprotein M 98.49
1sjq_A105 Polypyrimidine tract-binding protein 1; babbab mot 98.49
2ki2_A90 SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA 98.49
3ex7_B126 RNA-binding protein 8A; protein-RNA complex, mRNA 98.49
2kn4_A158 Immunoglobulin G-binding protein G, splicing FACT 98.49
2ek1_A95 RNA-binding protein 12; RNA recognition motif, dim 98.48
2dnn_A109 RNA-binding protein 12; RRM domain, RBD, structura 98.47
2cq1_A101 PTB-like protein L; RRM domain, structural genomic 98.47
3n9u_C156 Cleavage and polyadenylation specificity factor S; 98.47
2kxn_B129 Transformer-2 protein homolog beta; SR protein, RR 98.47
2dgw_A91 Probable RNA-binding protein 19; RRM domain, struc 98.47
1wez_A102 HnRNP H', FTP-3, heterogeneous nuclear ribonucleop 98.47
1wg5_A104 Heterogeneous nuclear ribonucleoprotein H; structu 98.46
2kt5_A124 RNA and export factor-binding protein 2; chaperone 98.46
2cpi_A111 CCR4-NOT transcription complex subunit 4; RNA reco 98.45
1fjc_A96 Nucleolin RBD2, protein C23; RNP, RRM, RNA binding 98.45
1wex_A104 Hypothetical protein (riken cDNA 2810036L13); stru 98.44
3lqv_A115 PRE-mRNA branch site protein P14; cysless mutant, 98.44
2dgx_A96 KIAA0430 protein; RRM domain, structural genomics, 98.43
2db1_A118 Heterogeneous nuclear ribonucleoprotein F; RRM dom 98.43
1h2v_Z156 20 kDa nuclear CAP binding protein; CAP-binding-co 98.42
2lea_A135 Serine/arginine-rich splicing factor 2; SR protein 98.42
1nu4_A97 U1A RNA binding domain; RNA recognition motif, U1 98.42
2hgm_A126 HNRPF protein, heterogeneous nuclear ribonucleopro 98.41
1fxl_A167 Paraneoplastic encephalomyelitis antigen HUD; prot 98.41
2ytc_A85 PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s 98.4
2cqp_A98 RNA-binding protein 12; RNA recognition motif, RRM 98.4
2hgl_A136 HNRPF protein, heterogeneous nuclear ribonucleopro 98.39
2e5g_A94 U6 snRNA-specific terminal uridylyltransferase 1; 98.38
2ad9_A119 Polypyrimidine tract-binding protein 1; RBD, RRM, 98.38
2jvr_A111 Nucleolar protein 3; RNA recognition motif, nucleu 98.36
1b7f_A168 Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP 98.36
2e5j_A97 Methenyltetrahydrofolate synthetase domain contain 98.36
2cjk_A167 Nuclear polyadenylated RNA-binding protein 4; HRP1 98.35
1rk8_A165 CG8781-PA, CG8781-PA protein; mRNA processing, RRM 98.35
2hzc_A87 Splicing factor U2AF 65 kDa subunit; RNA splicing, 98.35
3md3_A166 Nuclear and cytoplasmic polyadenylated RNA-bindin 98.34
4f02_A213 Polyadenylate-binding protein 1; mRNA, eukaryotic 98.34
2hvz_A101 Splicing factor, arginine/serine-rich 7; RRM, RNA 98.33
3d2w_A89 TAR DNA-binding protein 43; DP-43 proteinopathy, T 98.33
2dnq_A90 RNA-binding protein 4B; RRM domain,RBD, structural 98.32
3md3_A166 Nuclear and cytoplasmic polyadenylated RNA-bindin 98.32
1x4d_A102 Matrin 3; structural genomics, RRM domain, NPPSFA, 98.31
2j8a_A136 Histone-lysine N-methyltransferase, H3 lysine-4 sp 98.3
1l3k_A196 Heterogeneous nuclear ribonucleoprotein A1; nuclea 98.3
1fj7_A101 Nucleolin RBD1, protein C23; RNP, RRM, RNA binding 98.3
2fc9_A101 NCL protein; structure genomics, RRM_1 domain, str 98.3
2g4b_A172 Splicing factor U2AF 65 kDa subunit; protein-RNA c 98.3
1x5o_A114 RNA binding motif, single-stranded interacting pro 98.28
2dha_A123 FLJ20171 protein; RRM domain, structural genomics, 98.28
2voo_A193 Lupus LA protein; RNA-binding protein, RNA recogni 98.28
2fc8_A102 NCL protein; structure genomics, RRM_1 domain, str 98.28
1wel_A124 RNA-binding protein 12; structural genomics, NPPSF 98.27
2qfj_A216 FBP-interacting repressor; protein-DNA complex; HE 98.27
2qfj_A216 FBP-interacting repressor; protein-DNA complex; HE 98.27
2dgu_A103 Heterogeneous nuclear ribonucleoprotein Q; RRM dom 98.27
2cjk_A167 Nuclear polyadenylated RNA-binding protein 4; HRP1 98.27
2cpx_A115 Hypothetical protein FLJ11016; RRM domain, structu 98.26
1wg1_A88 KIAA1579 protein, homolog EXC-7; RBD, structural g 98.26
2m2b_A131 RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio 98.26
2dnl_A114 Cytoplasmic polyadenylation element binding protei 98.25
3q2s_C229 Cleavage and polyadenylation specificity factor S; 98.24
1x4g_A109 Nucleolysin TIAR; structural genomics, RRM domain, 98.24
2a3j_A127 U1 small nuclear ribonucleoprotein A; computationa 98.24
1why_A97 Hypothetical protein riken cDNA 1810017N16; RNA re 98.24
2hgn_A139 Heterogeneous nuclear ribonucleoprotein F; RNA rec 98.24
2cqh_A93 IGF-II mRNA-binding protein 2 isoform A; RNA recog 98.23
1x4f_A112 Matrin 3; structural genomics, RRM domain, NPPSFA, 98.22
1x4c_A108 Splicing factor, arginine/serine-rich 1; structura 98.22
2la4_A101 Nuclear and cytoplasmic polyadenylated RNA-bindin 98.22
2jvo_A108 Nucleolar protein 3; nucleus, phosphorylation, rib 98.21
1whx_A111 Hypothetical protein riken cDNA 1200009A02; RNA re 98.21
3nmr_A175 Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl 98.21
2f3j_A177 RNA and export factor binding protein 2; RRM domai 98.2
2cpj_A99 Non-POU domain-containing octamer-binding protein; 98.18
2xnq_A97 Nuclear polyadenylated RNA-binding protein 3; tran 98.17
3nmr_A175 Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl 98.17
2cpd_A99 Apobec-1 stimulating protein; RNA recognition moti 98.17
2dgt_A92 RNA-binding protein 30; RRM domain, structural gen 98.17
2i2y_A150 Fusion protein consists of immunoglobin G- binding 98.16
2yh0_A198 Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli 98.15
1wf0_A88 TDP-43, TAR DNA-binding protein-43; structural gen 98.14
2dnp_A90 RNA-binding protein 14; RRM domain, RBD, structura 98.13
2lcw_A116 RNA-binding protein FUS; RRM, nucleic acid binding 97.41
1wf1_A110 RNA-binding protein RALY; structural genomics, RRM 98.12
1b7f_A168 Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP 98.1
3egn_A143 RNA-binding protein 40; RNA recognition motif (RRM 98.09
4f02_A213 Polyadenylate-binding protein 1; mRNA, eukaryotic 98.09
2ghp_A292 U4/U6 snRNA-associated splicing factor PRP24; RNA 98.07
1x5p_A97 Negative elongation factor E; structure genomics, 98.05
1fje_B175 Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin 98.04
3pgw_S437 U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM 98.03
1fxl_A167 Paraneoplastic encephalomyelitis antigen HUD; prot 98.02
2e44_A96 Insulin-like growth factor 2 mRNA binding protein 98.02
2kvi_A96 Nuclear polyadenylated RNA-binding protein 3; RNA- 98.0
2g4b_A172 Splicing factor U2AF 65 kDa subunit; protein-RNA c 97.98
1fje_B175 Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin 97.96
3u1l_A240 PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 97.96
3smz_A284 Protein raver-1, ribonucleoprotein PTB-binding 1; 97.93
2adc_A229 Polypyrimidine tract-binding protein 1; RBD, RRM, 97.92
2wbr_A89 GW182, gawky, LD47780P; DNA-binding protein, RRM, 97.9
2yh0_A198 Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli 97.88
3tyt_A205 Heterogeneous nuclear ribonucleoprotein L; ferredo 97.88
3pgw_A282 U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c 97.88
2ghp_A292 U4/U6 snRNA-associated splicing factor PRP24; RNA 97.87
3beg_B115 Splicing factor, arginine/serine-rich 1; kinase, S 97.86
1qm9_A198 Polypyrimidine tract-binding protein; ribonucleopr 97.85
1sjr_A164 Polypyrimidine tract-binding protein 1; extended b 97.81
2cq2_A114 Hypothetical protein LOC91801; RRM domain, structu 97.79
3smz_A284 Protein raver-1, ribonucleoprotein PTB-binding 1; 97.77
2pe8_A105 Splicing factor 45; RRM, protein binding; 2.00A {H 97.76
3sde_A261 Paraspeckle component 1; RRM, anti parallel right 97.75
3sde_A261 Paraspeckle component 1; RRM, anti parallel right 97.69
1jmt_A104 Splicing factor U2AF 35 kDa subunit; RRM, RNA spli 97.69
2bz2_A121 Negative elongation factor E; NELF E, RNA recognit 97.63
1qm9_A198 Polypyrimidine tract-binding protein; ribonucleopr 97.58
2adc_A229 Polypyrimidine tract-binding protein 1; RBD, RRM, 97.56
3pgw_A282 U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c 97.54
3zzy_A130 Polypyrimidine tract-binding protein 1; protein bi 97.35
2e5i_A124 Heterogeneous nuclear ribonucleoprotein L-like; RR 97.35
2dit_A112 HIV TAT specific factor 1 variant; structural geno 97.33
3tyt_A205 Heterogeneous nuclear ribonucleoprotein L; ferredo 97.29
2diu_A96 KIAA0430 protein; structural genomics, RRM domain, 97.18
2d9o_A100 DNAJ (HSP40) homolog, subfamily C, member 17; RRM 97.12
3v4m_A105 Splicing factor U2AF 65 kDa subunit; canonical RNA 97.1
3ue2_A118 Poly(U)-binding-splicing factor PUF60; RNA recogni 96.83
3tht_A345 Alkylated DNA repair protein ALKB homolog 8; struc 96.8
1owx_A121 Lupus LA protein, SS-B, LA; RRM, transcription; NM 96.01
3s6e_A114 RNA-binding protein 39; ferredoxin-like, structura 95.95
2dhx_A104 Poly (ADP-ribose) polymerase family, member 10 var 95.48
3dxb_A222 Thioredoxin N-terminally fused to PUF60(UHM); spli 93.97
2dnr_A91 Synaptojanin-1; RRM domain, RBD, structural genomi 93.07
1ufw_A95 Synaptojanin 2; RNP domain, structural genomics, r 91.9
1wwh_A119 Nucleoporin 35, nucleoporin; structural genomics, 82.58
>2j7n_A RNA-dependent RNA polymerase; RNAI response, RNA-directed RNA polymerase, hydrolase; 2.30A {Neurospora crassa} PDB: 2j7o_A Back     alignment and structure
Probab=100.00  E-value=3.7e-121  Score=1142.60  Aligned_cols=543  Identities=24%  Similarity=0.350  Sum_probs=442.5

Q ss_pred             CeeEecCCcccccchhhccCCCCCCcEEEEEEecCCccccccccccccccccccccccccccchhhHHHHHHHHhhCC-e
Q 041430          421 TKAYCLPPEVELSNRVLRKYKDLADRFLRVTFMDEGLQTMNANVLSYFIAPIVRDITLNSFSQKTRVFKRVRSILSGG-F  499 (1197)
Q Consensus       421 tri~~~~P~~e~sNRvlR~f~~~~D~FLRV~F~DE~~~~l~~~~~~~~~~~~~r~~~~~~~~~~~~i~~rv~~~L~~G-i  499 (1197)
                      .++.|.+|++++|||++|+||  +||||||+|++++...       ++..+..+.        ....+++|.++|.+| +
T Consensus       131 ~~l~L~p~~l~~s~R~~RrfG--sDrFL~V~fp~~~~~~-------~~~~~~~~~--------~~~~~~~v~~~l~~~~~  193 (1022)
T 2j7n_A          131 YLVKLKPLMFEQGCRLTRRFG--PDRFFEILIPSPTSTS-------PSVPPVVSK--------QPAAVEEVIQWLTMGQH  193 (1022)
T ss_dssp             EEEEECCCEEEECBHHHHHHC--GGGEEEEEEECTTCCC-------SSSCTTSSS--------SSSCHHHHHHHHHSSCE
T ss_pred             eEEEecCCccCCCceEEEeeC--CceeEEEEecCCcccc-------ccccchhcc--------chHHHHHHHHHHhcCcE
Confidence            589999999999999999999  9999999999886431       111122211        112478899999877 5


Q ss_pred             EEeeEEEEEEEeec---------CCCC--------cCceEEEeCCC------------------------CCCHHHHHHH
Q 041430          500 YLCGRKFSFLAFSS---------SQLR--------DCSAWFFSEDG------------------------KTSVLDIKKW  538 (1197)
Q Consensus       500 ~I~gR~y~FLa~S~---------SqlR--------~~s~wFfa~~~------------------------~lt~~~Ir~w  538 (1197)
                      .++||+|+.+..-.         .|+|        .+.||||+++|                        .+|+++||+|
T Consensus       194 ~~~gr~~r~f~~~d~~~r~~~~~~~l~~~~~~~~~~~Rv~~f~~~G~~i~~~~f~fl~~s~lre~s~~~~~ls~~~ir~w  273 (1022)
T 2j7n_A          194 SLVGRQWRAFFAKDAGYRKPLREFQLRAEDPKPIIKERVHFFAETGITFRPDVFKTRSVVPAEEPVEQRTEFKVSQMLDW  273 (1022)
T ss_dssp             EETTEEEEEEEEEECC--------------CCCCCEEEEEEEEEEETTCBCCCC-------------CCBCCCHHHHHHH
T ss_pred             EEecceeEEEeeccccccccccccccccccccccccceEEEEeccCccccCccccccccccccccccccCCCCHHHHHHh
Confidence            68899988764421         2333        24688888543                        2799999999


Q ss_pred             hCCCC-C--CCHhHHHHHhhccCCCCccceeeCCCcccccCCCccC---CCcccccccccccHHHHHHHHHHcCCCCCCC
Q 041430          539 MGRFT-D--KNIAKCAARMGQCFSSTYATVEVPPTEVDPELPDIKR---NGYVFSDGIGKITPDLAMEVAQKLKLDVNPP  612 (1197)
Q Consensus       539 mG~F~-~--~~~aK~aARigq~FSsT~~tv~v~~~~i~~~I~DI~~---~g~~FTDG~G~IS~~lA~~I~~~l~l~~~~~  612 (1197)
                      ||+|+ +  +++||||||||||||+|.+++.+++++|...+|||++   |||+||||||+||++||++|++++++.  ..
T Consensus       274 mg~f~~n~~q~~aK~aARigq~FS~T~~tv~v~~~~I~~~~dDI~~~~g~g~vFTDGvG~IS~~lA~~I~~~l~l~--~~  351 (1022)
T 2j7n_A          274 LLQLDNNTWQPHLKLFSRIQLGLSKTYAIMTLEPHQIRHHKTDLLSPSGTGEVMNDGVGRMSRSVAKRIRDVLGLG--DV  351 (1022)
T ss_dssp             HHCGGGCTTSBHHHHHHTTHHHHSBCEEEEECCGGGEEECSSCCBCTTSSCCBSSTTEEEECHHHHHHHHHHHTCS--SC
T ss_pred             ccChhhcccchHHHHHHHhhhhhcCccCcEEechHHEEEcCCccccCCCCCCeecCCchHhhHHHHHHHHHHcCCC--CC
Confidence            99998 4  5699999999999999999999999999533589986   779999999999999999999999997  48


Q ss_pred             CcEEEEeccCceeEEEecCCCC-CCceeEeccccccccc-----CCceEEEeeec-CCccccccHHHHHHHhcCCCChHH
Q 041430          613 PCAYQIRYAGCKGVVACWPAKG-DGIRMSLRESMNKFQS-----HHTTLEICSWT-RFQPGFLNRQIITLLSTLNVPDEM  685 (1197)
Q Consensus       613 PSAfQiR~gG~KGvL~vdp~~~-~g~~I~lR~Sm~KF~s-----~~~~LEI~~~S-~~~p~~LNRQlI~iL~~lGVp~ev  685 (1197)
                      |||||||||||||||+|||++. ++.+|+|||||.||++     .+++||||++| ++.|++||||+|+||+++||+.++
T Consensus       352 PSAfQiR~gGaKGvl~vdp~~~~~~~~I~lRpSm~KF~~~~~d~~~~~LEIv~~s~~~~~~~LNRQlI~lL~~lGV~~~~  431 (1022)
T 2j7n_A          352 PSAVQGRFGSAKGMWVIDVDDTGDEDWIETYPSQRKWECDFVDKHQRTLEVRSVASELKSAGLNLQLLPVLEDRARDKVK  431 (1022)
T ss_dssp             CSEEEEEETTEEEEEEECTTCCSCCCCEEECTTTBCSCCCCCSGGGSEEEEEEECCCCCCCCBCTTTHHHHHHTBSSHHH
T ss_pred             CcEEEEEeccceEEEEECcccCCCcceEEeCCcceeecCCCCCcccCeEEEEeecCCCCCceecHHHHHHHHhCCcCHHH
Confidence            9999999999999999999863 3356999999999986     46899999998 689999999999999999999999


Q ss_pred             HHHHHHHH-HHHH-------HHhhCCHHHHHHHHHHhhc-------------------cccchHHHHHHCCCCCCCchHH
Q 041430          686 FWSMQDSM-LSKL-------NQMLVDSDVAFEVLTAACA-------------------EQGNTAAIMLSAGFNPQTEPHL  738 (1197)
Q Consensus       686 F~~lq~~~-l~~l-------~~~l~d~~~A~~~L~~~~~-------------------~~~~~~~~ml~~Gf~~~~ePfl  738 (1197)
                      |++++.++ .+.|       ..++.++..+...+.....                   ...+++..|+.+||+|.++|||
T Consensus       432 f~~~i~~~~~~~L~~~l~~~~~al~~~~~~r~~l~~~~~~~~~r~~~g~~~~~~glp~s~~~~l~~Ll~aGf~p~~epfL  511 (1022)
T 2j7n_A          432 MRQAIGDRLINDLQRQFSEQKHALNRPVEFRQWVYESYSSRATRVSHGRVPFLAGLPDSQEETLNFLMNSGFDPKKQKYL  511 (1022)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTSHHHHHHHHHHHSCCHHHHHHHTSCCEETTEESSHHHHHHHHHHTTCCTTTBHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHhhccccccccccccchhhccCccchHHHHHHHHHcCCCccccHHH
Confidence            98865444 2333       3456666655555432110                   0124567899999999999999


Q ss_pred             HHHHHHHHHHHHHhhccceeeeccCceeEeeecCCCCCCCCCcEEEEecCCccccccccCCCccccccceeEEe-eeEEE
Q 041430          739 RGMLTCIRAAQLWGLREKARIFVPAGRWLMGCLDELGVLEGGQCFIQVSEPFLGNCFSKHGSRFAETKKLQVIK-GFVVI  817 (1197)
Q Consensus       739 ~~ll~~~~~~~L~~Lk~K~RI~Vp~s~~L~GV~DetG~L~~GEVfvq~s~~~~~~~~~~~g~~~~~~~~~~vi~-G~VlV  817 (1197)
                      +++++.++..+|+.||+|+||+||+|++||||+||||+|+||||||+++....      ++     .+...++. |+|+|
T Consensus       512 ~~~l~~~~~~~l~~LK~k~rI~V~~s~~L~GV~DetG~L~eGEVfv~~s~~~~------~~-----~~~~~~l~gg~VlV  580 (1022)
T 2j7n_A          512 QDIAWDLQKRKCDTLKSKLNIRVGRSAYIYMIADFWGVLEENEVHVGFSSKFR------DE-----EESFTLLSDCDVLV  580 (1022)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCBCCSSEEEEEEEECTTSCCCTTEEEEEEEEEEE------ET-----TEEEEEECSEEEEE
T ss_pred             HHHHHHHHHHHHHHHHHhhccccccceEEEEEecCCCccCCCeEEEEeccccc------cC-----CCCceeecCceEEE
Confidence            99999999999999999999999999999999999999999999999985321      00     11245565 69999


Q ss_pred             EeCCCCCCCcceEEEEecCCCCCcCCCeEEeCCCCCCCcccccCCCCCCCCeEEEeecCCcCCCCCCCCCCCC-----CC
Q 041430          818 AKNPCLHPGDIRILEAVDHPELHHLYDCLVFPQKGDRPHTNEASGSDLDGDLYFVTWDENLIPPSKKSWPPME-----YN  892 (1197)
Q Consensus       818 ~RnP~lHPGDIr~v~AVd~P~L~hL~dvIVFp~kG~Rplps~lSGGDLDGD~y~ViWD~~Lvp~~~~~~~P~~-----Y~  892 (1197)
                      +|||||||||||+|+||++|+||||+|||||||+|+|||||||||||||||+|||||||+|||++.+...|..     |.
T Consensus       581 tRnP~lhPGDIrvv~AV~~PeL~hL~DvIVFp~kG~Rplps~lSGGDLDGD~Y~ViWD~~Lv~~f~na~~p~~p~~~~y~  660 (1022)
T 2j7n_A          581 ARSPAHFPSDIQRVRAVFKPELHSLKDVIIFSTKGDVPLAKKLSGGDYDGDMAWVCWDPEIVDGFVNAEMPLEPDLSRYL  660 (1022)
T ss_dssp             ECSSCCSGGGEEEEEECCCGGGTTCCSEEEECSCSSSCHHHHTTTCCSSSCEEEEECCHHHHHTBCCCCCCCCCCCTTTS
T ss_pred             EeCCCcCcCceeEEEeccChhhhccCCeEEccCCCCCCChhHhcCCCCCCCeEEEEechhhcccccCCCCCCCCchhhhc
Confidence            9999999999999999999999999999999999999999999999999999999999999998765333322     32


Q ss_pred             hhhhc---cc------C---CCCChhH-HHHHHHHhhccchhHhHHHHHHHHhccccCCCCCHHHHHHHHHHHhccCCCC
Q 041430          893 AAEAK---TL------T---RPVDQRD-IIEFFAKHMVNENLGTICNAHVVHADHSEYGALDENCILLAELAATAVDFPK  959 (1197)
Q Consensus       893 ~~~~~---~l------~---r~vt~~d-i~dffv~ym~~d~LG~Ian~Hl~~aD~~~~G~~d~~Cl~LA~L~S~AVDf~K  959 (1197)
                      +..+.   ++      +   ++++.+| +.+||+.||++|.||+|||+|+..+|. +.|+.|++|++||+|||+||||||
T Consensus       661 ~k~~~~~~~~~~~~~~g~~~~~~~~~d~i~~ff~~~m~~d~LG~is~~h~~~~~~-~~g~~~~~cl~LA~L~S~AVD~~K  739 (1022)
T 2j7n_A          661 KKDKTTFKQLMASHGTGSAAKEQTTYDMIQKSFHFALQPNFLGMCTNYKERLCYI-NNSVSNKPAIILSSLVGNLVDQSK  739 (1022)
T ss_dssp             EECCCBHHHHHTTTCSSHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-HTCSSSHHHHHHHHHHHHHTTHHH
T ss_pred             cccccchhhhhhccccccccCchhHHHHHHHHHHHhcCcchHHHHHHHHHHHHhh-cCCCCCHHHHHHHHHHHHhhCccc
Confidence            11111   11      0   1233444 456889999999999999999877765 689999999999999999999999


Q ss_pred             CCCeeec--CCCCCCCCCCCCCCCcccCCcccCChhcH
Q 041430          960 TGKIVTM--PAHLKPKLYPDFMGKEAYQSYKSNKILGR  995 (1197)
Q Consensus       960 TG~~v~~--p~~l~pk~~PdFM~k~~~~~Y~S~kiLG~  995 (1197)
                      ||++|++  ++.|+|+.|||||+ .++++|+|++++|+
T Consensus       740 tG~pv~~~~~~~lr~~~~p~~m~-~~~p~Y~s~~~~g~  776 (1022)
T 2j7n_A          740 QGIVFNEASWAQLRRELLGGALS-LPDPMYKSDSWLGR  776 (1022)
T ss_dssp             HTEECCHHHHHHHHHHHSCCSSC-CCCCGGGSSSCCSS
T ss_pred             cCcccChhhhhhhhHhhCCCCCC-CCCCccccCcccCC
Confidence            9999998  77899999999999 56689999765443
>2lxi_A RNA-binding protein 10; NMR {Homo sapiens} Back     alignment and structure
>4fxv_A ELAV-like protein 1; RNA recognition motif, putative RNA-binding domain, transcri structural genomics, joint center for structural genomics; 1.90A {Homo sapiens} Back     alignment and structure
>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A Back     alignment and structure
>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} SCOP: d.58.7.0 Back     alignment and structure
>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A Back     alignment and structure
>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens} Back     alignment and structure
>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B Back     alignment and structure
>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis} Back     alignment and structure
>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Back     alignment and structure
>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens} Back     alignment and structure
>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A Back     alignment and structure
>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ISO mRNA processing, mRNA splicing, nucleus; 1.85A {Homo sapiens} SCOP: d.58.7.1 PDB: 2kyx_A 3lpy_A* Back     alignment and structure
>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A Back     alignment and structure
>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A Back     alignment and structure
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens} Back     alignment and structure
>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus} Back     alignment and structure
>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A Back     alignment and structure
>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens} Back     alignment and structure
>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens} Back     alignment and structure
>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D* Back     alignment and structure
>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C Back     alignment and structure
>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A Back     alignment and structure
>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1 Back     alignment and structure
>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A Back     alignment and structure
>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens} Back     alignment and structure
>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic initiation factor 3 complex, RNA recognition motif; NMR {Homo sapiens} Back     alignment and structure
>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A Back     alignment and structure
>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A Back     alignment and structure
>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA binding protein, structure, protein-RNA complex, RNA stem-loop, structural protein/RNA complex; NMR {Homo sapiens} Back     alignment and structure
>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens} Back     alignment and structure
>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens} Back     alignment and structure
>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A Back     alignment and structure
>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens} Back     alignment and structure
>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens} Back     alignment and structure
>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster} Back     alignment and structure
>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A Back     alignment and structure
>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A Back     alignment and structure
>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens} Back     alignment and structure
>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3, eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo sapiens} Back     alignment and structure
>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A Back     alignment and structure
>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori} Back     alignment and structure
>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D* Back     alignment and structure
>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP} Back     alignment and structure
>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A Back     alignment and structure
>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens} Back     alignment and structure
>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A Back     alignment and structure
>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus} Back     alignment and structure
>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Back     alignment and structure
>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} SCOP: d.58.7.1 PDB: 2f9d_A 2f9j_A 2fho_B Back     alignment and structure
>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Back     alignment and structure
>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X Back     alignment and structure
>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A Back     alignment and structure
>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ... Back     alignment and structure
>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A Back     alignment and structure
>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A Back     alignment and structure
>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A Back     alignment and structure
>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A Back     alignment and structure
>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Back     alignment and structure
>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Back     alignment and structure
>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A Back     alignment and structure
>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A Back     alignment and structure
>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Back     alignment and structure
>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Back     alignment and structure
>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens} Back     alignment and structure
>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus musculus} Back     alignment and structure
>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Back     alignment and structure
>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae} Back     alignment and structure
>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A Back     alignment and structure
>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Back     alignment and structure
>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Back     alignment and structure
>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A Back     alignment and structure
>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Back     alignment and structure
>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Back     alignment and structure
>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A Back     alignment and structure
>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Back     alignment and structure
>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A Back     alignment and structure
>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens} Back     alignment and structure
>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C Back     alignment and structure
>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens} Back     alignment and structure
>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A Back     alignment and structure
>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae} Back     alignment and structure
>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A Back     alignment and structure
>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Back     alignment and structure
>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus} Back     alignment and structure
>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription termination, RNA processi recognition, RRM; HET: CAF; 1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A Back     alignment and structure
>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Back     alignment and structure
>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A Back     alignment and structure
>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Back     alignment and structure
>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM domain, riken structural genomics/proteomics initiative RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens} Back     alignment and structure
>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A Back     alignment and structure
>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Back     alignment and structure
>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens} Back     alignment and structure
>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Back     alignment and structure
>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Back     alignment and structure
>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Back     alignment and structure
>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A* Back     alignment and structure
>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A Back     alignment and structure
>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae} Back     alignment and structure
>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Back     alignment and structure
>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Back     alignment and structure
>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A Back     alignment and structure
>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E Back     alignment and structure
>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A Back     alignment and structure
>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster} Back     alignment and structure
>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Back     alignment and structure
>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A Back     alignment and structure
>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A Back     alignment and structure
>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Back     alignment and structure
>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A Back     alignment and structure
>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Back     alignment and structure
>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A Back     alignment and structure
>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E Back     alignment and structure
>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A Back     alignment and structure
>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Back     alignment and structure
>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Back     alignment and structure
>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline, PPII helix, peptide recognition, RNA binding protein; 2.20A {Homo sapiens} SCOP: d.58.7.3 Back     alignment and structure
>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Back     alignment and structure
>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A Back     alignment and structure
>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A Back     alignment and structure
>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A Back     alignment and structure
>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Back     alignment and structure
>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1 domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A Back     alignment and structure
>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>3v4m_A Splicing factor U2AF 65 kDa subunit; canonical RNA binding protein, RNA splicing, structural GENO joint center for structural genomics, JCSG; HET: MSE; 1.80A {Mus musculus} PDB: 1o0p_A 1opi_A Back     alignment and structure
>3ue2_A Poly(U)-binding-splicing factor PUF60; RNA recognition motif, RRM, RNA binding domain, ST genomics, joint center for structural genomics, JCSG; HET: MSE; 1.23A {Homo sapiens} SCOP: d.58.7.0 PDB: 3us5_A 2dny_A Back     alignment and structure
>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A* Back     alignment and structure
>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>3s6e_A RNA-binding protein 39; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative, PSI-biology; HET: MSE CIT; 0.95A {Mus musculus} PDB: 2lq5_A Back     alignment and structure
>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>3dxb_A Thioredoxin N-terminally fused to PUF60(UHM); splicing, FBP interacting repressor, RRM, electron TRAN redox-active center, transport; 2.20A {Escherichia coli O157} Back     alignment and structure
>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>1ufw_A Synaptojanin 2; RNP domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query1197
d2cq4a1101 RNA binding protein 23 {Human (Homo sapiens) [TaxI 98.92
d1l3ka184 Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human 98.91
d1hd0a_75 Heterogeneous nuclear ribonucleoprotein d0 {Human 98.9
d1l3ka279 Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human 98.9
d2cqda1103 RNA-binding region containing protein 1 {Human (Ho 98.87
d2cqga190 TAR DNA-binding protein 43, TDP-43 {Human (Homo sa 98.85
d1cvja180 Poly(A)-binding protein {Human (Homo sapiens) [Tax 98.84
d2ghpa275 U4/U6 snRNA-associated-splicing factor PRP24 {Bake 98.82
d1b7fa182 Sex-lethal protein {Drosophila melanogaster [TaxId 98.81
d1zh5a285 Lupus LA protein {Human (Homo sapiens) [TaxId: 960 98.81
d1b7fa285 Sex-lethal protein {Drosophila melanogaster [TaxId 98.8
d2cqia190 Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960 98.79
d2cqca183 Arginine/serine-rich splicing factor 10 {Human (Ho 98.79
d1fxla182 Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9 98.78
d1uawa_77 Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} 98.78
d1whwa_99 Probable RNA-binding protein 19, Rbm19 {Mouse (Mus 98.77
d1x4ha198 RNA-binding protein 28 {Mouse (Mus musculus) [TaxI 98.77
d1x0fa175 Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s 98.76
d2cqba189 Peptidyl-prolyl cis-trans isomerase E, N-terminal 98.75
d2cq3a193 RNA-binding protein 9 {Human (Homo sapiens) [TaxId 98.75
d1h2vz_93 CBP20, 20KDa nuclear cap-binding protein {Human (H 98.74
d2u2fa_85 Splicing factor U2AF 65 KDa subunit {Human (Homo s 98.73
d1x5sa190 Cold-inducible RNA-binding protein {Human (Homo sa 98.73
d1x4ba1103 Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu 98.73
d1x5ua193 Splicing factor 3B subunit 4 {Human (Homo sapiens) 98.73
d2cq0a190 Eukaryotic translation initiation factor 3 subunit 98.72
d2msta_75 Neural RNA-binding protein Musashi-1 {Mouse (Mus m 98.72
d1cvja289 Poly(A)-binding protein {Human (Homo sapiens) [Tax 98.71
d1no8a_78 Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1 98.71
d1p1ta_104 Cleavage stimulation factor, 64 kda subunit {Human 98.71
d1rk8a_88 RNA-binding protein 8 {Fruit fly (Drosophila melan 98.71
d2ghpa386 U4/U6 snRNA-associated-splicing factor PRP24 {Bake 98.68
d2ghpa181 U4/U6 snRNA-associated-splicing factor PRP24 {Bake 98.68
d2cpha194 Probable RNA-binding protein 19, Rbm19 {Mouse (Mus 98.67
d2cpza1102 CUG triplet repeat RNA-binding protein 1 {Human (H 98.66
d1u6fa1139 RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId 98.65
d2cpea1101 RNA-binding protein EWS {Human (Homo sapiens) [Tax 98.65
d2f9da1114 Pre-mRNA branch site protein p14 {Human (Homo sapi 98.63
d1fxla285 Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9 98.63
d2cpfa185 Probable RNA-binding protein 19, Rbm19 {Mouse (Mus 98.63
d1x5ta183 Splicing factor 3B subunit 4 {Human (Homo sapiens) 98.6
d2cpia189 E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc 98.59
d2disa196 Hypothetical protein FLJ20273 {Human (Homo sapiens 98.58
d1x5oa1101 RNA-binding motif, single-stranded-interacting pro 98.55
d2cq1a188 Polypyrimidine tract-binding protein 2, PTBP2 {Hum 98.54
d2cpya1103 RNA-binding protein 12 {Human (Homo sapiens) [TaxI 98.54
d1fjeb191 Nucleolin {Golden hamster (Mesocricetus auratus) [ 98.53
d2adca288 Polypyrimidine tract-binding protein {Human (Homo 98.53
d1x4ea172 RNA-binding motif, single-stranded-interacting pro 98.51
d1wexa_104 Heterogeneous nuclear ribonucleoprotein L-like {Mo 98.5
d1wi8a_104 Eukaryotic translation initiation factor 4B {Human 98.49
d1x4aa195 Splicing factor, arginine/serine-rich 1, SFRS1 {Hu 98.49
d2cqpa186 RNA-binding protein 12 {Mouse (Mus musculus) [TaxI 98.48
d1x4fa199 Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]} 98.47
d1x4da189 Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]} 98.46
d1wg5a_104 Heterogeneous nuclear ribonucleoprotein H' {Human 98.46
d2b0ga183 Splicesomal U1A protein {Drosophila melanogaster [ 98.46
d1x4ga196 Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960 98.43
d1wf0a_88 TAR DNA-binding protein 43, TDP-43 {Human (Homo sa 98.43
d2cpxa1102 RNA-binding protein 41, RBM41 {Human (Homo sapiens 98.43
d1nu4a_91 Splicesomal U1A protein {Human (Homo sapiens) [Tax 98.42
d2cpda186 APOBEC1 stimulating protein {Human (Homo sapiens) 98.39
d1whxa_111 Probable RNA-binding protein 19, Rbm19 {Mouse (Mus 98.39
d2bz2a179 Negative elongation factor E, NELF-E {Human (Homo 98.38
d1whya_97 Putative RNA-binding protein 15B, Rbm15b {Mouse (M 98.37
d1fjca_96 Nucleolin {Golden hamster (Mesocricetus auratus) [ 98.37
d2cqha180 IGF-II mRNA-binding protein 2 isoform A {Human (Ho 98.37
d1weza_102 Heterogeneous nuclear ribonucleoprotein H' {Human 98.35
d2adca1109 Polypyrimidine tract-binding protein {Human (Homo 98.34
d1u2fa_90 Splicing factor U2AF 65 KDa subunit {Human (Homo s 98.32
d2adba1108 Polypyrimidine tract-binding protein {Human (Homo 98.32
d2cpja186 Non-POU domain-containing octamer-binding protein, 98.32
d1u1qa_183 Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human 98.3
d1wi6a175 Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M 98.24
d1wela1112 RNA-binding protein 12 {Human (Homo sapiens) [TaxI 98.23
d3begb187 Splicing factor, arginine/serine-rich 1, SFRS1 {Hu 98.22
d1wg4a_98 Splicing factor, arginine/serine-rich 9 (SFRS9) {M 98.18
d1u1qa_183 Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human 98.15
d1wf2a_98 Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu 98.1
d1wg1a_88 Probable RNA-binding protein KIAA1579 {Human (Homo 98.07
d1wwha181 Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090 97.84
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_104 U2 97.79
d2cq2a1101 Alkylation repair AlkB homolog 8, ALKBH8 {Human (H 97.67
d1weya_104 Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090 97.53
d2dita199 HIV Tat-specific factor 1 {Human (Homo sapiens) [T 97.37
d1owxa_113 Lupus LA protein {Human (Homo sapiens) [TaxId: 960 97.33
d1o0pa_104 Splicing factor U2AF 65 KDa subunit {Human (Homo s 96.96
>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.92  E-value=1.3e-09  Score=101.39  Aligned_cols=79  Identities=18%  Similarity=0.192  Sum_probs=69.3

Q ss_pred             cccccEEEEeCCCccccHHHHHHHHHhccccEEEEEEeecCCCCCCCCCccccccccccccCCCCCccceEEEEecChHH
Q 041430            9 LLVDAQVSFGGFDRNVKAAELVKYLENEVGGVWRCRLKTSCTPSESYPDFYVTNTAEVRKTDDYEKVEPHAFVHFAMPTY   88 (1197)
Q Consensus         9 ~~~~~~i~v~gf~~~~~a~~l~~~le~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~V~F~~~~~   88 (1197)
                      +.-.+||+|+|+|..+++++|+++|+. +|.|..|+|..+                     ..++++++||||+|.++|+
T Consensus        15 ~~~~~tifV~nL~~~~te~~l~~~F~~-~G~V~~v~i~~d---------------------~~tg~~kG~afV~F~~~e~   72 (101)
T d2cq4a1          15 ERDARTVFCMQLAARIRPRDLEDFFSA-VGKVRDVRIISD---------------------RNSRRSKGIAYVEFCEIQS   72 (101)
T ss_dssp             HHHHTEEEEESCCTTCCHHHHHHHHTT-TSCEEEEEECCS---------------------CCSSSCCCCEEEEESCGGG
T ss_pred             ccCCCEEEEECCCCCCCHHHHHHHHcC-CCeEEEEEeeec---------------------CCCccccceEEEEECCHHH
Confidence            334579999999999999999999998 899999999875                     4468899999999999999


Q ss_pred             HHHHHHhccCCceeecCeeeeeec
Q 041430           89 VTRAVDAAGRTELFLNGRALKVSL  112 (1197)
Q Consensus        89 a~~a~~~a~~~~l~~~~~~lkv~~  112 (1197)
                      |..|+.+-   ...|+|++|+|..
T Consensus        73 a~~A~~l~---g~~~~G~~l~V~~   93 (101)
T d2cq4a1          73 VPLAIGLT---GQRLLGVPIIVQA   93 (101)
T ss_dssp             HHHHHHHT---TEEETTEEEEEEE
T ss_pred             HHHHHHHC---CCEECCEEEEEEE
Confidence            99999754   3478999999984
>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Back     information, alignment and structure
>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Back     information, alignment and structure
>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]} Back     information, alignment and structure
>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Back     information, alignment and structure
>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]} Back     information, alignment and structure
>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Back     information, alignment and structure
>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure