Citrus Sinensis ID: 048783

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------112

PEEREKTSVDTQVSVGGFDRDIKAVDLVKYLENEVGGVWRCRLKTSCTPSESYPNFFIENVAEVQKTDDYEKVEPHAFVHFATSTYITRAMDAAEHMELFLNGRALKVSLGPENPFRLNQRGGTSAPLKLPDVYVEIGSLVTQDEFFVSWRGPASGTDFLVDPFDGTCKFCFTKDTAFALKSSAEHAVIKCEFKVFLVREIDIVKQYSELPRVAILLWLASSPRICYRTAKDDIEVLVPFDLLDDDDPWIRTTDFSPSGAIGQCNSKQRVQEDCLSQPVTIREEPDFEVPVEDPFFCMHYKEGVSFEIMFLVNAVMHKGILNQHQLSDSFFDLLRCQPREVIVTALKHIYSYKRPVFDAYEKLKDVQECLIKNPKLNEGPKNIDDIAEVRRLVITPTKAYWFLESKDVADRFLRVTFMDEGLQTMNANVLSYYVAPIVKDITSNSFSQKTGVFKRVKSILSDGFNLCGRRYSFLAFSSNQLRDHSAWFFSKVGETSVLDIKNWMGEFTAKNIAKYAARMGLCFSSTHATVEIPPTEVDHELPDIKRNGYVFSDGIGKITPDLAMEVAQILKLDGSPPPSAYQIRYAGYKGVVACWPAKDDGIRMSLRGSMKKFKSCHTSLEICSWTRFQPGFLNRQIITLLSTLNVSDEIFWTVQASMASKLNLMLVASDVAFEVLTASCAEQGNTAAIMLSAGFKPQTEPHLQGMLTYELGELKECQCFIQVSESSLENCFSKHGSRFAETKKLQVINGFVVIAKNPCLRPGDVRILEAVDRPELHHLCDCLVFPQKGDRPHTNEASGSDLDGDLYYVTWDENLIPPSKKSCPPMECTPAEAKPLTCHVNHQNLGQICNAHVVHADRSEYGAFDENCILLAKLAATAVDSPKTGKIVTMPSHLKPKKYPDFMEIEEYQTYKSNKILGRLYRQIKGAYDENISVSSEVDINPVDIHYDTDLEVPGSVDFTADARNQKCSYDGQLNGLLGQYNVNRKEFRHIWSMPKYNSRKQGELQERLKHSYSAFRKEFRQVFEKMNSDFELSDNEKNVLYEQKASAWYQVTYHREWVKKSLDLLEQGSARSVVLLSFAWIANDYLARIKIKCQEMANIGKSKPVNNLARYVADRI

cccccccccEEEEEEEcccccccHHHHHHHHHHHcccEEEEEEccccccccccccccccHHHHHccccccccccccEEEEEccHHHHHHHHHHHHcccEEcccEEEccccccccccccccccccccccccccEEEEEEcEEcccEEEEEEEcccccEEEEEEccccEEEEEEEEcccccccccccccEEEEEEEEEEEEEEEEEEcccccccEEEEEEcccccccHHccccccccccccccccccccccEEEcccccccccccccccHHccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHcccccHHHccHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHccccccccccccccEEEEEEEEcccEEEEccccccccccEEEEEEEccccccccccccccccccccccccccccccccHHHHHHHHHHHcccEEcccEEEEccccccccccccEEEEEccccccHHHHHHHHcccccccHHHHHHHHcccccccccccccccccEEEEccccccccEEEccccccccHHHHHHHHHHHcccccccccEEEEEcccccEEEEEccccccccEEEEcccccccccccccEEEEEEccccccccHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHccccccHHHHHHHHHcccccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccEEEEEEEEEEEcccccccccEEEEEEEccccccccccEEEEccccccccccccccccccccEEEEEEcccccccccccccccccccccccccccccccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccEEEEccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHcccccccccccccccHHHHHHHHc

cccccccEEEEEEEEccccccccHHHHHHHHHHHccEEEEEEEEEccccccccccEEEccHHHHccccccccccccEEEEEccHHHHHHHHHHHHcccEEEcccEEEEccccccccccccccccccccEcccEEEEEEEEcccccEEEEEEcccccEEEEEcccccEEEEEEEEEEEEEEccccccEEEEEEEEEEEHEEEEEEcccccccccEEEEEEcccccEEEEccccccccccccccccccccEEEEEccccccccccccccccEEcccccccccccccccccccccccccccccccccccHHHHHHHHHHHcccccHHcccHHHHHHHHHccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHccccccccccccccEEEEEEEEcccEEEEEccEEEcccEEEEEEEEEccccEEEEEcccccccccEEccccccccccHHHHHHHHHHHHcccEEcccEEEEEEEccHHHHcccEEEEEccccccHHHHHHHHcccccccHHHHHHHHHHHcccccccEEcccccEEEEccccccccEEEccccccccHHHHHHHHHHccccccccccEEEEEEcccEEEEEEccccccccEEEEEcccHHcccccccEEEEEEcccccccccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHcccccHHHHHHHHccccccccHHHHHHHHHHHHHHHHcccEEEcccccEEEEEEccccccccccEEEEEEEEEEEEEccccccccEEEEEEEccHHHHHccEEEEEccccccccccccccccccccEEEEEEcccccccccccccccccccccHHHHHHHHHcccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHEHEHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHccHHHHHHcccccccccccccccccHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHcc

peerektsvdtqvsvggfdrdiKAVDLVKYLENEVggvwrcrlktsctpsesypnfFIENVAevqktddyekvephafvHFATSTYITRAMDAAEHMELFLNGRALkvslgpenpfrlnqrggtsaplklpDVYVEIGSlvtqdeffvswrgpasgtdflvdpfdgtckfcftKDTAFALKSSAEHAVIKCEFKVFLVREIDIVKQYSELPRVAILLWLAsspricyrtakddievlvpfdllddddpwirttdfspsgaigqcnskqrvqedclsqpvtireepdfevpvedpffcmhykegvsFEIMFLVNAVMHKGILNQHQLSDSFFDLLRCQPREVIVTALKHIYsykrpvfdAYEKLKDVQECliknpklnegpkniddIAEVRRLVITPTKAYWFLESKDVADRFLRVTFMDEGLQTMNANVLSYYVAPivkditsnsfsqktGVFKRVKSILSDGfnlcgrrysflafssnqlrdhSAWFFSKVGETSVLDIKNWMGEFTAKNIAKYAARMGlcfssthatveipptevdhelpdikrngyvfsdgigkitPDLAMEVAQILKldgspppsayqirYAGYKgvvacwpakddgirMSLRGSMkkfkschtsleicswtrfqpgflNRQIITLLSTLNVSDEIFWTVQASMASKLNLMLVASDVAFEVLTASCAEQGNTAAIMLSagfkpqtephlqgMLTYelgelkecqcfIQVSESSLENCFskhgsrfaetkklQVINGFVViaknpclrpgdvrileavdrpelhhlcdclvfpqkgdrphtneasgsdldgdlyyvtwdenlippskkscppmectpaeakpltchvnhqnlgqicNAHVVhadrseygafdeNCILLAKLAAtavdspktgkivtmpshlkpkkypdfmeieEYQTYKSNKILGRLYRQIKGaydenisvssevdinpvdihydtdlevpgsvdftadarnqkcsydgqlngllgqynvnrkefrhiwsmpkynsrkqgELQERLKHSYSAFRKEFRQVFEKMNsdfelsdnekNVLYEQKASAWYQVTYHREWVKKSLDLLEQGSARSVVLLSFAWIANDYLARIKIKCQEManigkskpvnnLARYVADRI

peerektsvdtqvsvggfdrdikAVDLVKYLEnevggvwrcrlktsctpsesypnFFIENVAEVQKTDDYEKVEPHAFVHFATSTYITRAMDAAEHMELFLNGRALKVSLGPENPFRLNQrggtsaplkLPDVYVEIGSLVTQDEFFVSWRGPASGTDFLVDPFDGTCKFCFTKDTAFALKSSAEHAVIKCEFKVFLVREIDIVKQYSELPRVAILLWLASSPRICYRTAKDDIEVLvpfdllddddpwIRTTDfspsgaigqcnskqrvqEDCLSQPVTIREEPDFEVPVEDPFFCMHYKEGVSFEIMFLVNAVMHKGILNQHQLSDSFFDLLRCQPREVIVTALKHIYSYKRPVFDAYEKLKDVQECLiknpklnegpkniddiaEVRRLVITPTkaywfleskdVADRFLRVTFMDEGLQTMNANVLSYYVAPIVKDITSNSFSQKTGVFKRVKSILSDGFNLCGRRYSFLAFSSNQLRDHSAWFFSKVGETSVLDIKNWMGEFTAKNIAKYAARMGLCFSSTHATVEipptevdhelpdiKRNGYVFSDGIGKITPDLAMEVAQILKLDGSPPPSAYQIRYAGYKGVVACWPAKDDGIRMSLRGSMKKFKSCHTSLEICSWTRFQPGFLNRQIITLLSTLNVSDEIFWTVQASMASKLNLMLVASDVAFEVLTASCAEQGNTAAIMLSAGFKPQTEPHLQGMLTYELGELKECQCFIQVSESSLENCFSKHGSRFAETKKLQVINGFVViaknpclrpGDVRILEAVDRPELHHLCDCLVFPQKGDRPHTNEASGSDLDGDLYYVTWDENLIPPSKKSCPPMECTPAEAKPLTCHVNHQNLGQICNAHVVHADRSEYGAFDENCILLAKLAAtavdspktgkivtmpshlkpkkypdFMEIEEYQTYKSNKILGRLYRQIKGAYDENISVSSEVDINPVDIHYDTDLEVPGSVDFTADARNQKCSYDGQLNGLLGQYNVNRKEFRHIWSMPKYNSRKQGELQERLKHSYSAFRKEFRQVFEKMNSDFELSDNEKNVLYEQKASAWYQVTYHREWVKKSLDLLEQGSARSVVLLSFAWIANDYLARIKIKCQemanigkskpvnnlaRYVADRI

PEEREKTSVDTQVSVGGFDRDIKAVDLVKYLENEVGGVWRCRLKTSCTPSESYPNFFIENVAEVQKTDDYEKVEPHAFVHFATSTYITRAMDAAEHMELFLNGRALKVSLGPENPFRLNQRGGTSAPLKLPDVYVEIGSLVTQDEFFVSWRGPASGTDFLVDPFDGTCKFCFTKDTAFALKSSAEHAVIKCEFKVFLVREIDIVKQYSELPRVAILLWLASSPRICYRTAKDDIEVLVPFdllddddPWIRTTDFSPSGAIGQCNSKQRVQEDCLSQPVTIReepdfevpvedpffCMHYKEGVSFEIMFLVNAVMHKGILNQHQLSDSFFDLLRCQPREVIVTALKHIYSYKRPVFDAYEKLKDVQECLIKNPKLNEGPKNIDDIAEVRRLVITPTKAYWFLESKDVADRFLRVTFMDEGLQTMNANVLSYYVAPIVKDITSNSFSQKTGVFKRVKSILSDGFNLCGRRYSFLAFSSNQLRDHSAWFFSKVGETSVLDIKNWMGEFTAKNIAKYAARMGLCFSSTHATVEIPPTEVDHELPDIKRNGYVFSDGIGKITPDLAMEVAQILKLDGSPPPSAYQIRYAGYKGVVACWPAKDDGIRMSLRGSMKKFKSCHTSLEICSWTRFQPGFLNRQIITLLSTLNVSDEIFWTVQASMASKLNLMLVASDVAFEVLTASCAEQGNTAAIMLSAGFKPQTEPHLQGMLTYELGELKECQCFIQVSESSLENCFSKHGSRFAETKKLQVINGFVVIAKNPCLRPGDVRILEAVDRPELHHLCDCLVFPQKGDRPHTNEASGSDLDGDLYYVTWDENLIPPSKKSCPPMECTPAEAKPLTCHVNHQNLGQICNAHVVHADRSEYGAFDENCILLAKLAATAVDSPKTGKIVTMPSHLKPKKYPDFMEIEEYQTYKSNKILGRLYRQIKGAYDENISVSSEVDINPVDIHYDTDLEVPGSVDFTADARNQKCSYDGQLNGLLGQYNVNRKEFRHIWSMPKYNSRKQGELQERLKHSYSAFRKEFRQVFEKMNSDFELSDNEKNVLYEQKASAWYQVTYHREWVKKSLDLLEQGSARSVVLLSFAWIANDYLARIKIKCQEMANIGKSKPVNNLARYVADRI

************VSVGGFDRDIKAVDLVKYLENEVGGVWRCRLKTSCTPSESYPNFFIENVAEVQKTDDYEKVEPHAFVHFATSTYITRAMDAAEHMELFLNGRALKVSLGPE**FRL******SAPLKLPDVYVEIGSLVTQDEFFVSWRGPASGTDFLVDPFDGTCKFCFTKDTAFALKSSAEHAVIKCEFKVFLVREIDIVKQYSELPRVAILLWLASSPRICYRTAKDDIEVLVPFDLLDDDDPWIRTTDFSPSGAIGQC*********CLSQPVTIREEPDFEVPVEDPFFCMHYKEGVSFEIMFLVNAVMHKGILNQHQLSDSFFDLLRCQPREVIVTALKHIYSYKRPVFDAYEKLKDVQECLIKNPKLNEGPKNIDDIAEVRRLVITPTKAYWFLESKDVADRFLRVTFMDEGLQTMNANVLSYYVAPIVKDITSNSFSQKTGVFKRVKSILSDGFNLCGRRYSFLAFSSNQLRDHSAWFFSKVGETSVLDIKNWMGEFTAKNIAKYAARMGLCFSSTHATVEIPPTEVDHELPDIKRNGYVFSDGIGKITPDLAMEVAQILKLDGSPPPSAYQIRYAGYKGVVACWPAKDDGIRMSLRGSMKKFKSCHTSLEICSWTRFQPGFLNRQIITLLSTLNVSDEIFWTVQASMASKLNLMLVASDVAFEVLTASCAEQGNTAAIMLSAGFKPQTEPHLQGMLTYELGELKECQCFIQVSESSLENCFSKHGSRFAETKKLQVINGFVVIAKNPCLRPGDVRILEAVDRPELHHLCDCLVFP****************DGDLYYVTWDENLI****************AKPLTCHVNHQNLGQICNAHVVHADRSEYGAFDENCILLAKLAATAVDSPKTGKIVTMPSHLKPKKYPDFMEIEEYQTYKSNKILGRLYRQIKGAYDENISVSSEVDINPVDIHYDTDLEVPGSVDFTADARNQKCSYDGQLNGLLGQYNVNRKEFRHIWSMPK******************AFRKEFRQVFE***********EKNVLYEQKASAWYQVTYHREWVKKSLDLLEQGSARSVVLLSFAWIANDYLARIKIKCQEMANIGK***************

**********TQVSVGGFDRDIKAVDLVKYLENEVGGVWRCRLKTSCTPSESYPNFFIENVAEVQKTDDYEKVEPHAFVHFATSTYITRAM*AAEHMELFLNGRAL********************PLKLPDVYVEIGSLVTQDEFFVSWRGPASGTDFLVDPFDGTCKFCFTKDTAFALKSSAEHAVIKCEFKVFLVREIDIVKQYSELPRVAILLWLASSPRICYRTAKDDIEVLVPFDLLDDDDPWIRTTDFSPSGAIGQCNSKQRVQEDCLSQPVTIREEPDFEVPVEDPFFCMHYKEGVSFEIMFLVNAVMHKGILNQHQLSDSFFDLLRCQPREVIVTALKHIYSYKRPVFDAYEKLKDVQECLIKNP******KNIDDIAEVRRLVITPTKAYWFLESKDVADRFLRVTFMDEGLQTMNANVLSYYVAPIVKDITSNSFSQKTGVFKRVKSILSDGFNLCGRRYSFLAFSS*******AWFFSKVGETSVLDIKNWMGEFTAKNIAKYAARMGLCFSSTHATVEIPPTEVDHELPDIKRNGYVFSDGIGKITPDLAMEVAQILKLDGSPPPSAYQIRYAGYKGVVACWPAKDDGIRMSLRGSMKKFKSCHTSLEICSWTRFQPGFLNRQIITLLSTLNVSDEIFWTVQASMASKLNLMLVASDVAFEVLTASCAEQGNTAAIMLSAGFKPQTEPHLQGMLTYELGELKECQCFIQVSESSLENCFSKHGSRFAETKKLQVINGFVVIAKNPCLRPGDVRILEAVDRPELHHLCDCLVFPQKGDRPHTNEASGSDLDGDLYYVTWDENLIPPSKKSCPPMECTPAEAKPLTCHVNHQNLGQICNAHVVHADRSEYGAFDENCILLAKLAATAVDSPK**********LKPKKYPDFMEIEEY*TYKSNKILGRLYRQIKGAYDENISVSSEVDINPVDIHYDTDLEVPGSVDFTADARNQKCSYDGQLNGLLGQYNVNRKEFRHIWSM*************RLKHSYSAFRKEFRQVFEKMNSDFELSDNEKNVLYEQKASAWYQVTYHREWV**************VVLLSFAWIANDYLARIK*********************V****

************VSVGGFDRDIKAVDLVKYLENEVGGVWRCRLKTSCTPSESYPNFFIENVAEVQKTDDYEKVEPHAFVHFATSTYITRAMDAAEHMELFLNGRALKVSLGPENPFRLNQRGGTSAPLKLPDVYVEIGSLVTQDEFFVSWRGPASGTDFLVDPFDGTCKFCFTKDTAFALKSSAEHAVIKCEFKVFLVREIDIVKQYSELPRVAILLWLASSPRICYRTAKDDIEVLVPFDLLDDDDPWIRTTDFSPSGAIGQCNSKQRVQEDCLSQPVTIREEPDFEVPVEDPFFCMHYKEGVSFEIMFLVNAVMHKGILNQHQLSDSFFDLLRCQPREVIVTALKHIYSYKRPVFDAYEKLKDVQECLIKNPKLNEGPKNIDDIAEVRRLVITPTKAYWFLESKDVADRFLRVTFMDEGLQTMNANVLSYYVAPIVKDITSNSFSQKTGVFKRVKSILSDGFNLCGRRYSFLAFSSNQLRDHSAWFFSKVGETSVLDIKNWMGEFTAKNIAKYAARMGLCFSSTHATVEIPPTEVDHELPDIKRNGYVFSDGIGKITPDLAMEVAQILKLDGSPPPSAYQIRYAGYKGVVACWPAKDDGIRMSLRGSMKKFKSCHTSLEICSWTRFQPGFLNRQIITLLSTLNVSDEIFWTVQASMASKLNLMLVASDVAFEVLTASCAEQGNTAAIMLSAGFKPQTEPHLQGMLTYELGELKECQCFIQVSESSLENCFSKHGSRFAETKKLQVINGFVVIAKNPCLRPGDVRILEAVDRPELHHLCDCLVFPQKGDRPHTNEASGSDLDGDLYYVTWDENLIPPSKKSCPPMECTPAEAKPLTCHVNHQNLGQICNAHVVHADRSEYGAFDENCILLAKLAATAVDSPKTGKIVTMPSHLKPKKYPDFMEIEEYQTYKSNKILGRLYRQIKGAYDENISVSSEVDINPVDIHYDTDLEVPGSVDFTADARNQKCSYDGQLNGLLGQYNVNRKEFRHIWSMPKYNSRKQGELQERLKHSYSAFRKEFRQVFEKMNSDFELSDNEKNVLYEQKASAWYQVTYHREWVKKSLDLLEQGSARSVVLLSFAWIANDYLARIKIKCQEMANIGKSKPVNNLARYVADRI

*****KTSVDTQVSVGGFDRDIKAVDLVKYLENEVGGVWRCRLKTSCTPSESYPNFFIENVAEVQKTDDYEKVEPHAFVHFATSTYITRAMDAAEHMELFLNGRALKVSLGPENPFRLNQRGGTSAPLKLPDVYVEIGSLVTQDEFFVSWRGPASGTDFLVDPFDGTCKFCFTKDTAFALKSSAEHAVIKCEFKVFLVREIDIVKQYSELPRVAILLWLASSPRICYRTAKDDIEVLVPFDLLDDDDPWIRTTDFSPSGAIGQCNSKQRVQEDCLSQPVTIREEPDFEVPVEDPFFCMHYKEGVSFEIMFLVNAVMHKGILNQHQLSDSFFDLLRCQPREVIVTALKHIYSYKRPVFDAYEKLKDVQECLIKNPKLNEGPKNIDDIAEVRRLVITPTKAYWFLESKDVADRFLRVTFMDEGLQTMNANVLSYYVAPIVKDITSNSFSQKTGVFKRVKSILSDGFNLCGRRYSFLAFSSNQLRDHSAWFFSKVGETSVLDIKNWMGEFTAKNIAKYAARMGLCFSSTHATVEIPPTEVDHELPDIKRNGYVFSDGIGKITPDLAMEVAQILKLDGSPPPSAYQIRYAGYKGVVACWPAKDDGIRMSLRGSMKKFKSCHTSLEICSWTRFQPGFLNRQIITLLSTLNVSDEIFWTVQASMASKLNLMLVASDVAFEVLTASCAEQGNTAAIMLSAGFKPQTEPHLQGMLTYELGELKECQCFIQVSESSLENCFSKHGSRFAETKKLQVINGFVVIAKNPCLRPGDVRILEAVDRPELHHLCDCLVFPQKGDRPHTNEASGSDLDGDLYYVTWDENLIPPSKKSCPPMECTPAEAKPLTCHVNHQNLGQICNAHVVHADRSEYGAFDENCILLAKLAATAVDSPKTGKIVTMPSHLKPKKYPDFMEIEEYQTYKSNKILGRLYRQIKGAYDENISVSSEVDINPVDIHYDTDLEVPGSVDFTADARNQKCSYDGQLNGLLGQYNVNRKEFRHIWSMPKYNSRKQGELQERLKHSYSAFRKEFRQVFEKMNSDFELSDNEKNVLYEQKASAWYQVTYHREWVKKSLDLLEQGSARSVVLLSFAWIANDYLARIKIKCQEMA***KSKPVNNLARYVADR*

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii

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no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		1117	2.2.26 [Sep-21-2011]
Q9SG02		1196	RNA-dependent RNA polymer	yes	no	0.997	0.931	0.624	0.0
Q8LHH9		1218	Probable RNA-dependent RN	yes	no	0.986	0.904	0.535	0.0
Q9LQV2		1107	RNA-dependent RNA polymer	no	no	0.748	0.755	0.337	1e-132
Q7XM31		1136	Probable RNA-dependent RN	yes	no	0.755	0.742	0.330	1e-125
Q0DXS3		740	Probable RNA-dependent RN	yes	no	0.589	0.889	0.401	1e-125
O82504		1133	RNA-dependent RNA polymer	no	no	0.722	0.712	0.329	1e-111
O14227		1215	RNA-dependent RNA polymer	yes	no	0.605	0.556	0.293	2e-73
O82188		977	Probable RNA-dependent RN	no	no	0.447	0.511	0.235	3e-18
O82189		927	Probable RNA-dependent RN	no	no	0.409	0.492	0.243	3e-16
O82190		992	Probable RNA-dependent RN	no	no	0.414	0.466	0.219	9e-16

>sp\|Q9SG02\|RDR6_ARATH RNA-dependent RNA polymerase 6 OS=Arabidopsis thaliana GN=RDR6 PE=1 SV=1	Back alignment and function desciption

 Score = 1432 bits (3707), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 746/1195 (62%), Positives = 884/1195 (73%), Gaps = 81/1195 (6%)

Query: 2    EEREKTSVDTQVSVGGFDRDIKAVDLVKYLENEVGGVWRCRLKTSCTPSESYPNFFIENV 61
            E   K SV TQVS+GGF     A  L  YLE+EVG VWRCRLKTS TP  SYPNF I + 
Sbjct: 4    EGNMKKSVVTQVSIGGFGESTTAKQLTDYLEDEVGIVWRCRLKTSWTPPGSYPNFEIADT 63

Query: 62   AEVQKTDDYEKVEPHAFVHFATSTYITRAMDAAEHMELFLNGRALKVSLGPENPFRLNQR 121
            + +   D+Y+KVEPHAFVHFA      RAMDAA    L L+G+ LKVSLGP+NP+ LNQR
Sbjct: 64   SNIPSIDEYKKVEPHAFVHFAVFESAGRAMDAAGQCNLILDGQPLKVSLGPKNPYSLNQR 123

Query: 122  GGTSAPLKLPDVYVEIGSLVTQDEFFVSWRGPASGTDFLVDPFDGTCKFCFTKDTAFALK 181
              T+ P KL  + +EIG+LV++D+FFVSWR  A G DFLVDPFD TCKFCF K TAF+ K
Sbjct: 124  RRTTVPYKLAGITLEIGTLVSRDDFFVSWR--AEGVDFLVDPFDNTCKFCFRKSTAFSFK 181

Query: 182  SSAEHAVIKCEFKV-FLVREIDIVKQYSELPRVAILLWLASSPRICYRTAKDDIEVLVPF 240
             +  HAVI C++K+  LVR+I  V+QY  L    ++L LASSPR+ YRTA DDI   VP 
Sbjct: 182  DAVMHAVINCDYKLELLVRDIQTVRQYKTLHGFVLILQLASSPRVWYRTADDDIYDTVPG 241

Query: 241  DLLDDDDPWIRTTDFSPSGAIGQCNS---------------------KQRVQEDCLSQPV 279
            DLLDDDDPWIRTTDF+  GAIG+C+S                      +RVQE+ +  P 
Sbjct: 242  DLLDDDDPWIRTTDFTQVGAIGRCHSYRVLISPRYENKLRTALDYFRMRRVQEERVRWPP 301

Query: 280  TIREEPDFEVPVEDPFFCMHYKEGVSFEIMFLVNAVMHKGILNQHQLSDSFFDLLRCQPR 339
             IR EP F  PV D FFC+H+KEG+SFEIMFLVN+V+H+G+ NQ QL++ FFDLLR QP+
Sbjct: 302  RIRNEPCFGEPVSDHFFCIHHKEGISFEIMFLVNSVLHRGVFNQFQLTERFFDLLRNQPK 361

Query: 340  EVIVTALKHIYSYKRPVFDAYEKLKDVQECLIKNPKLNEGPKNIDDIAEVRRLVITPTKA 399
            +V + +LKH+ +YKRPVFDAY++LK VQE + KNPKL    +  +DI+E+RRLVITPT+A
Sbjct: 362  DVNIASLKHLCTYKRPVFDAYKRLKLVQEWIQKNPKLLGSHEQSEDISEIRRLVITPTRA 421

Query: 400  YWF-----------LESKDVADRFLRVTFMDEGLQTMNANVLSYYVAPIVKDITSNSFSQ 448
            Y                K VA+RFLRVTFMDE +QT+N+NVLSY+VAPIVKD+TS+SFSQ
Sbjct: 422  YCLPPEVELSNRVLRRYKAVAERFLRVTFMDESMQTINSNVLSYFVAPIVKDLTSSSFSQ 481

Query: 449  KTGVFKRVKSILSDGFNLCGRRYSFLAFSSNQLRDHSAWFFSKVGETSVLDIKNWMGEFT 508
            KT VFKRVKSIL+DGF LCGR+YSFLAFS+NQLRD SAWFF++ G+T V DIK WMG+F 
Sbjct: 482  KTYVFKRVKSILTDGFKLCGRKYSFLAFSANQLRDRSAWFFAEDGKTRVSDIKTWMGKFK 541

Query: 509  AKNIAKYAARMGLCFSSTHATVEIPPTEVDHELPDIKRNGYVFSDGIGKITPDLAMEVAQ 568
             KN+AK AARMGLCFSST+ATV++ P EVD E+PDI+RNGYVFSDGIG ITPDLA EV +
Sbjct: 542  DKNVAKCAARMGLCFSSTYATVDVMPHEVDTEVPDIERNGYVFSDGIGTITPDLADEVME 601

Query: 569  ILKLDGSPPPSAYQIRYAGYKGVVACWPAKDDGIRMSLRGSMKKFKSCHTSLEICSWTRF 628
             LKLD    P AYQIRYAG+KGVVA WP+K DGIR++LR SMKKF S HT LEICSWTRF
Sbjct: 602  KLKLDVHYSPCAYQIRYAGFKGVVARWPSKSDGIRLALRDSMKKFFSKHTILEICSWTRF 661

Query: 629  QPGFLNRQIITLLSTLNVSDEIFWTVQASMASKLNLMLVASDVAFEVLTASCAEQGNTAA 688
            QPGFLNRQIITLLS L V DEIFW +Q SM  KLN +L  +DVAFEVLTASCAEQGNTAA
Sbjct: 662  QPGFLNRQIITLLSVLGVPDEIFWDMQESMLYKLNRILDDTDVAFEVLTASCAEQGNTAA 721

Query: 689  IMLSAGFKPQTEPHLQGMLTY----------------------------ELGELKECQCF 720
            IMLSAGFKP+TEPHL+GML+                             E G L+  QCF
Sbjct: 722  IMLSAGFKPKTEPHLRGMLSSVRIAQLWGLREKSRIFVTSGRWLMGCLDEAGILEHGQCF 781

Query: 721  IQVSESSLENCFSKHGSRFAETKK-LQVINGFVVIAKNPCLRPGDVRILEAVDRPELHHL 779
            IQVS+ S+ENCFSKHGSRF ETK  L+V+ G+V IAKNPCL PGDVRILEAVD P+LHH+
Sbjct: 782  IQVSKPSIENCFSKHGSRFKETKTDLEVVKGYVAIAKNPCLHPGDVRILEAVDVPQLHHM 841

Query: 780  CDCLVFPQKGDRPHTNEASGSDLDGDLYYVTWDENLIPPSKKSCPPMECTPAEAKPLTCH 839
             DCL+FPQKGDRPHTNEASGSDLDGDLY+V WD+ LIPP++KS P M    AE K L   
Sbjct: 842  YDCLIFPQKGDRPHTNEASGSDLDGDLYFVAWDQKLIPPNRKSYPAMHYDAAEEKSLGRA 901

Query: 840  VNHQN-------------LGQICNAHVVHADRSEYGAFDENCILLAKLAATAVDSPKTGK 886
            VNHQ+             LG ICNAHVVHADRSEYGA DE C+LLA+LAATAVD PKTGK
Sbjct: 902  VNHQDIIDFFARNLANEQLGTICNAHVVHADRSEYGAMDEECLLLAELAATAVDFPKTGK 961

Query: 887  IVTMPSHLKPKKYPDFMEIEEYQTYKSNKILGRLYRQIKGAYDENISVSSEVDINPVDIH 946
            IV+MP HLKPK YPDFM  E+YQTYKSNKILGRLYR++K  YDE+   SSE   +P  I 
Sbjct: 962  IVSMPFHLKPKLYPDFMGKEDYQTYKSNKILGRLYRRVKEVYDEDAEASSEESTDPSAIP 1021

Query: 947  YDTDLEVPGSVDFTADARNQKCSYDGQLNGLLGQYNVNRKE---FRHIWSMPKYNSRKQG 1003
            YD  LE+PG  D   +A   KC YDGQL GLLGQY V ++E     HIWSMPKY S+KQG
Sbjct: 1022 YDAVLEIPGFEDLIPEAWGHKCLYDGQLIGLLGQYKVQKEEEIVTGHIWSMPKYTSKKQG 1081

Query: 1004 ELQERLKHSYSAFRKEFRQVFEKMNSDFE-LSDNEKNVLYEQKASAWYQVTYHREWVKKS 1062
            EL+ERLKHSY++ +KEFR+VFE+   D E LS+ EKN+LYE+KASAWY VTYH EWVKKS
Sbjct: 1082 ELKERLKHSYNSLKKEFRKVFEETIPDHENLSEEEKNILYEKKASAWYHVTYHPEWVKKS 1141

Query: 1063 LDLLEQGSARSVVLLSFAWIANDYLARIKIKCQEMANIGKSKPVNNLARYVADRI 1117
            L+L +   +    +LSFAWIA DYLARIKI+ +EM +I  +KPV++LA+++A R+
Sbjct: 1142 LELQDPDESSHAAMLSFAWIAADYLARIKIRSREMGSIDSAKPVDSLAKFLAQRL 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\|O82189\|RDR4_ARATH Probable RNA-dependent RNA polymerase 4 OS=Arabidopsis thaliana GN=RDR4 PE=3 SV=2	Back alignment and function description

>sp\|O82190\|RDR3_ARATH Probable RNA-dependent RNA polymerase 3 OS=Arabidopsis thaliana GN=RDR3 PE=3 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
Query		1117
255548928		1203	RNA-dependent RNA polymerase, putative [	0.998	0.926	0.660	0.0
224141893		1200	rna-dependent RNA polymerase [Populus tr	0.998	0.929	0.654	0.0
224089239		1198	rna-dependent RNA polymerase [Populus tr	0.998	0.930	0.653	0.0
295885030		1196	RNA-dependent RNA polymerase 6 [Gossypiu	0.993	0.928	0.640	0.0
225430281		1197	PREDICTED: RNA-dependent RNA polymerase	0.996	0.929	0.644	0.0
356507732		1204	PREDICTED: RNA-dependent RNA polymerase	0.995	0.923	0.616	0.0
356515444		1204	PREDICTED: RNA-dependent RNA polymerase	0.995	0.923	0.617	0.0
449499234		1197	PREDICTED: RNA-dependent RNA polymerase	0.997	0.930	0.617	0.0
449441914		1197	PREDICTED: RNA-dependent RNA polymerase	0.997	0.930	0.617	0.0
297819596		1197	RNA-dependent RNA polymerase 6 [Arabidop	0.993	0.927	0.624	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 = 1562 bits (4044), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 793/1201 (66%), Positives = 925/1201 (77%), Gaps = 86/1201 (7%)

Query: 2    EEREKTSVDTQVSVGGFDRDIKAVDLVKYLENEVGGVWRCRLKTSCTPSESYPNFFIENV 61
            + REK +V TQVS GGFD+D+ A DLV YL+NE+G VWRCRLKTS TP ESYPNF I + 
Sbjct: 4    KRREKETVVTQVSFGGFDKDVTARDLVAYLDNEIGQVWRCRLKTSWTPPESYPNFEITDT 63

Query: 62   AEVQKTDDYEKVEPHAFVHFATSTYITRAMDAAEHMELFLNGRALKVSLGPENPFRLNQR 121
            A +Q+ D Y +VEPHAFVHFA+    T A +AA H ELF NGR +KVSLGPENPF LNQR
Sbjct: 64   AVIQRVDAYRRVEPHAFVHFASPDSATWAKNAAGHCELFFNGRPVKVSLGPENPFHLNQR 123

Query: 122  GGTSAPLKLPDVYVEIGSLVTQDEFFVSWRGPASGTDFLVDPFDGTCKFCFTKDTAFALK 181
              T+ P KL DV+VEIG+LV++DEF V WRGP SG DFLVDPFDG CKFCFT+DTAF+ K
Sbjct: 124  RRTTIPFKLSDVHVEIGTLVSRDEFLVGWRGPPSGVDFLVDPFDGKCKFCFTRDTAFSFK 183

Query: 182  SSAEHAVIKCEFKV-FLVREIDIVKQYSELPRVAILLWLASSPRICYRTAKDDIEVLVPF 240
             + EHAVI+C+FK+ FLVR+I+ +KQY++   + ILL LAS+P + YRTA DDIEVLVPF
Sbjct: 184  GTTEHAVIRCDFKLEFLVRDINEIKQYTDTSCLVILLQLASAPSVWYRTADDDIEVLVPF 243

Query: 241  DLLDDDDPWIRTTDFSPSGAIGQCNS---------------------KQRVQEDCLSQPV 279
            DLLDDDDPWIRTTDF+PSGAIG+CNS                     ++RVQEDCL +P+
Sbjct: 244  DLLDDDDPWIRTTDFTPSGAIGRCNSYRVSIPPRHGAKLKRALNFLRERRVQEDCLRRPL 303

Query: 280  TIREEPDFEVPVEDPFFCMHYKEGVSFEIMFLVNAVMHKGILNQHQLSDSFFDLLRCQPR 339
             +  EP++E+P+ DPFFC+H++EGV F +MFLVNAVMHKGI NQHQLSDSFFDLLR QP 
Sbjct: 304  HVTAEPEYEMPMSDPFFCIHHEEGVDFNLMFLVNAVMHKGIFNQHQLSDSFFDLLRNQPL 363

Query: 340  EVIVTALKHIYSYKRPVFDAYEKLKDVQECLIKNPKLNEGPKNIDDIAEVRRLVITPTKA 399
            +V + AL+HI SYK PVFDA+++LK VQ+ L+KNPKL    K +DDI E+RRL ITPT+A
Sbjct: 364  DVNIAALRHICSYKHPVFDAHKRLKAVQQWLLKNPKLFRSSKQLDDIVEIRRLAITPTRA 423

Query: 400  YW-----------FLESKDVADRFLRVTFMDEGLQTMNANVLSYYVAPIVKDITSNSFSQ 448
            Y                KD+AD+FLRVTFMDEGLQTMNAN L+YY APIV+DITSNSFSQ
Sbjct: 424  YCLPPEVELSNRVLRRYKDIADQFLRVTFMDEGLQTMNANTLTYYCAPIVRDITSNSFSQ 483

Query: 449  KTGVFKRVKSILSDGFNLCGRRYSFLAFSSNQLRDHSAWFFSKVGETSVLDIKNWMGEFT 508
            KT +FKRVKSIL+DGF LCGR+YSFLAFSSNQLRD SAWFF++ G+TSV  I+NWMG+FT
Sbjct: 484  KTRIFKRVKSILTDGFYLCGRKYSFLAFSSNQLRDRSAWFFAEDGKTSVSKIRNWMGKFT 543

Query: 509  AKNIAKYAARMGLCFSSTHATVEIPPTEVDHELPDIKRNGYVFSDGIGKITPDLAMEVAQ 568
             +NIAK AARMG CFSST+ATVE+P  E   +LPDI+RN Y+FSDGIG ITPDLA EVA+
Sbjct: 544  NRNIAKCAARMGQCFSSTYATVEVPSAEAILDLPDIERNNYIFSDGIGMITPDLAKEVAE 603

Query: 569  ILKLDGSPPPSAYQIRYAGYKGVVACWPAKDDGIRMSLRGSMKKFKSCHTSLEICSWTRF 628
             LKL+ + PP AYQIRYAG KGVVACWPA  DGIR+SLR SM KF S HT+LEICSWTRF
Sbjct: 604  KLKLEVN-PPCAYQIRYAGCKGVVACWPAHIDGIRLSLRVSMNKFHSNHTTLEICSWTRF 662

Query: 629  QPGFLNRQIITLLSTLNVSDEIFWTVQASMASKLNLMLVASDVAFEVLTASCAEQGNTAA 688
            QPGFLNRQIITLLSTL+V DEIFW +Q  M SKLN M + +DVAF+V+TASCAEQGNTAA
Sbjct: 663  QPGFLNRQIITLLSTLDVPDEIFWKMQIVMVSKLNQMFMDADVAFDVVTASCAEQGNTAA 722

Query: 689  IMLSAGFKPQTEPHLQGMLTY----------------------------ELGELKECQCF 720
            IMLSAGF P+TEPHL GMLT                             ELG L+  QCF
Sbjct: 723  IMLSAGFNPKTEPHLCGMLTCIRAAQLWGLREKTRIFVPSGRWLMGCLDELGVLEHGQCF 782

Query: 721  IQVSESSLENCFSKHGSRFAET-KKLQVINGFVVIAKNPCLRPGDVRILEAVDRPELHHL 779
            IQVS  SLE+CF KHGSRF+E+ KKLQV+ G VV+AKNPCL PGD+RILEAVD PELHHL
Sbjct: 783  IQVSNPSLESCFWKHGSRFSESKKKLQVVKGTVVVAKNPCLHPGDIRILEAVDAPELHHL 842

Query: 780  CDCLVFPQKGDRPHTNEASGSDLDGDLYYVTWDENLIPPSKKSCPPMECTPAEAKPLTCH 839
             DCLVFPQKGDRPHTNEASGSDLDGDLY+VTWDENLIPPSK+S  PM+   AEAK L   
Sbjct: 843  HDCLVFPQKGDRPHTNEASGSDLDGDLYFVTWDENLIPPSKRSWLPMQYDAAEAKQLNRP 902

Query: 840  VNHQ-------------NLGQICNAHVVHADRSEYGAFDENCILLAKLAATAVDSPKTGK 886
            VNHQ             NLG ICNAHVVHAD SEYGA DENCI LA+LAATAVD PKTGK
Sbjct: 903  VNHQDIIDFFAKNMVNENLGAICNAHVVHADLSEYGALDENCIKLAELAATAVDFPKTGK 962

Query: 887  IVTMPSHLKPKKYPDFMEIEEYQTYKSNKILGRLYRQIKGAYDENI------SVSSEVDI 940
            +VTMP HLKPK YPDFM  E+YQ+Y SNKILGRLYRQ+K  Y+++       + SSE+++
Sbjct: 963  LVTMPPHLKPKLYPDFMGKEDYQSYNSNKILGRLYRQVKDDYNDDDDDDDDAATSSELNL 1022

Query: 941  NPVDIHYDTDLEVPGSVDFTADARNQKCSYDGQLNGLLGQYNVNRKE---FRHIWSMPKY 997
               DI YD DLEV GS D+  DA +QKCSYDGQL GLL QY V R+E     HIWSMPK 
Sbjct: 1023 VRGDIPYDKDLEVSGSSDYILDAWDQKCSYDGQLKGLLAQYKVKREEEVVTGHIWSMPKC 1082

Query: 998  NSRKQGELQERLKHSYSAFRKEFRQVFEKMNSDFE-LSDNEKNVLYEQKASAWYQVTYHR 1056
            NSRKQGEL+ERLK SY + +KEFRQVFEKM+SDFE L+++EKN+LYEQKASAWYQV YH 
Sbjct: 1083 NSRKQGELKERLKQSYHSLKKEFRQVFEKMDSDFEQLTEDEKNLLYEQKASAWYQVAYHP 1142

Query: 1057 EWVKKSLDLLEQGSARSVVLLSFAWIANDYLARIKIKCQEMANIGKSKPVNNLARYVADR 1116
            +WV KS++L E  +A    +LSFAWIA DYLARIKI+C+    +  SKPVN+L +Y+ADR
Sbjct: 1143 KWVNKSMELQEPDAAGCASMLSFAWIAADYLARIKIRCRGFDGVDTSKPVNSLVKYLADR 1202

Query: 1117 I 1117
            I
Sbjct: 1203 I 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
Query		1117
TAIR\|locus:2114633		1196	RDR6 "AT3G49500" [Arabidopsis	0.433	0.404	0.628	0.0
UNIPROTKB\|Q8LHH9		1218	SHL2 "Probable RNA-dependent R	0.366	0.335	0.594	7.6999999977e-315
TAIR\|locus:2006822		1107	RDR1 "AT1G14790" [Arabidopsis	0.513	0.518	0.384	5e-104
TAIR\|locus:2136068		1133	RDR2 "RNA-dependent RNA polyme	0.370	0.365	0.353	6.4e-97
UNIPROTKB\|G4NJ50		1407	MGG_02748 "RNA-dependent RNA p	0.351	0.279	0.304	1.3e-75
POMBASE\|SPAC6F12.09		1215	rdp1 "RNA-directed RNA polymer	0.289	0.265	0.321	1.8e-66
WB\|WBGene00004510		1765	rrf-3 [Caenorhabditis elegans	0.256	0.162	0.300	1e-48
DICTYBASE\|DDB_G0291249		2403	rrpB "RNA-directed RNA polymer	0.522	0.243	0.303	8e-46
WB\|WBGene00004508		1601	rrf-1 [Caenorhabditis elegans	0.154	0.108	0.380	2.5e-43
DICTYBASE\|DDB_G0289659		2417	rrpA "RNA-directed RNA polymer	0.518	0.239	0.288	8.5e-38

TAIR\|locus:2114633 RDR6 "AT3G49500" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1539 (546.8 bits), Expect = 0., Sum P(3) = 0.
 Identities = 317/504 (62%), Positives = 380/504 (75%)

Query:   268 QRVQEDCLSQPVTIRXXXXXXXXXXXXXXCMHYKEGVSFEIMFLVNAVMHKGILNQHQLS 327
             +RVQE+ +  P  IR              C+H+KEG+SFEIMFLVN+V+H+G+ NQ QL+
Sbjct:   290 RRVQEERVRWPPRIRNEPCFGEPVSDHFFCIHHKEGISFEIMFLVNSVLHRGVFNQFQLT 349

Query:   328 DSFFDLLRCQPREVIVTALKHIYSYKRPVFDAYEKLKDVQECLIKNPKLNEGPKNIDDIA 387
             + FFDLLR QP++V + +LKH+ +YKRPVFDAY++LK VQE + KNPKL    +  +DI+
Sbjct:   350 ERFFDLLRNQPKDVNIASLKHLCTYKRPVFDAYKRLKLVQEWIQKNPKLLGSHEQSEDIS 409

Query:   388 EVRRLVITPTKAYWF-----LES------KDVADRFLRVTFMDEGLQTMNANVLSYYVAP 436
             E+RRLVITPT+AY       L +      K VA+RFLRVTFMDE +QT+N+NVLSY+VAP
Sbjct:   410 EIRRLVITPTRAYCLPPEVELSNRVLRRYKAVAERFLRVTFMDESMQTINSNVLSYFVAP 469

Query:   437 IVKDITSNSFSQKTGVFKRVKSILSDGFNLCGRRYSFLAFSSNQLRDHSAWFFSKVGETS 496
             IVKD+TS+SFSQKT VFKRVKSIL+DGF LCGR+YSFLAFS+NQLRD SAWFF++ G+T 
Sbjct:   470 IVKDLTSSSFSQKTYVFKRVKSILTDGFKLCGRKYSFLAFSANQLRDRSAWFFAEDGKTR 529

Query:   497 VLDIKNWMGEFTAKNIAKYAARMGLCFSSTHATVEIPPTEVDHELPDIKRNGYVFSDGIG 556
             V DIK WMG+F  KN+AK AARMGLCFSST+ATV++ P EVD E+PDI+RNGYVFSDGIG
Sbjct:   530 VSDIKTWMGKFKDKNVAKCAARMGLCFSSTYATVDVMPHEVDTEVPDIERNGYVFSDGIG 589

Query:   557 KITPDLAMEVAQILKLDGSPPPSAYQIRYAGYKGVVACWPAKDDGIRMSLRGSMKKFKSC 616
              ITPDLA EV + LKLD    P AYQIRYAG+KGVVA WP+K DGIR++LR SMKKF S 
Sbjct:   590 TITPDLADEVMEKLKLDVHYSPCAYQIRYAGFKGVVARWPSKSDGIRLALRDSMKKFFSK 649

Query:   617 HTSLEICSWTRFQPGFLNRQIITLLSTLNVSDEIFWTVQASMASKLNLMLVASDVAFEVL 676
             HT LEICSWTRFQPGFLNRQIITLLS L V DEIFW +Q SM  KLN +L  +DVAFEVL
Sbjct:   650 HTILEICSWTRFQPGFLNRQIITLLSVLGVPDEIFWDMQESMLYKLNRILDDTDVAFEVL 709

Query:   677 TASCAEQGNTAAIMLSAGFKPQTEPHLQGMLTY----ELGELKECQCFIQVSESSLENCF 732
             TASCAEQGNTAAIMLSAGFKP+TEPHL+GML+     +L  L+E       S   L  C 
Sbjct:   710 TASCAEQGNTAAIMLSAGFKPKTEPHLRGMLSSVRIAQLWGLREKSRIFVTSGRWLMGCL 769

Query:   733 SK-----HGSRFAETKKLQVINGF 751
              +     HG  F +  K  + N F
Sbjct:   770 DEAGILEHGQCFIQVSKPSIENCF 793

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:2006822 RDR1 "AT1G14790" [Arabidopsis thaliana (taxid:3702)]	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

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

WB\|WBGene00004508 rrf-1 [Caenorhabditis elegans (taxid:6239)]	Back alignment and assigned GO terms

DICTYBASE\|DDB_G0289659 rrpA "RNA-directed RNA polymerase" [Dictyostelium discoideum (taxid:44689)]	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)
Q9SG02	RDR6_ARATH	2, ., 7, ., 7, ., 4, 8	0.6242	0.9973	0.9314	yes	no
Q8LHH9	SHL2_ORYSJ	2, ., 7, ., 7, ., 4, 8	0.5350	0.9865	0.9047	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		1117
pfam05183		508	pfam05183, RdRP, RNA dependent RNA polymerase	1e-135

>gnl\|CDD\|218483 pfam05183, RdRP, RNA dependent RNA polymerase	Back alignment and domain information

 Score =  418 bits (1077), Expect = e-135
 Identities = 209/560 (37%), Positives = 283/560 (50%), Gaps = 110/560 (19%)

Query: 409 ADRFLRVTFMDEGLQTMNANVLSYYVAPIVKDITSNSFSQKTGVFKRVKSILSDGFNLCG 468
           ADRFLRV F DE L                      + S    V  RVK +L +G  +  
Sbjct: 23  ADRFLRVKFPDEDLSG--------------------AISNDEDVGDRVKRVLKNGIIIGD 62

Query: 469 RRYSFLAFSSNQLRDHSAWFFSKVGETSVLDIKNWMGEFTAKNI--AKYAARMGLCFSST 526
           R   +LAFS++QLR+HSAWFF      +  DI+NW+G+F       AKYAAR+G CFS+T
Sbjct: 63  R---YLAFSNSQLREHSAWFF-AEDRLTAEDIRNWLGDFENIEQVPAKYAARIGQCFSTT 118

Query: 527 HATVEIPPTEVDHELPDIKRN-GYVFSDGIGKITPDLAMEVAQILKLDGSPPPSAYQIRY 585
             T  I   ++   +PDI    GY+F+DG+GKI+ DLA ++A  L       PSAYQIR+
Sbjct: 119 RPTTGIRIRKI-ERIPDIPERNGYIFTDGVGKISRDLARKIADELGTL-EEDPSAYQIRF 176

Query: 586 AGYKGVVACWPAKDDGIRMSLRGSMKKFKSC----HTSLEICSWTRFQPGFLNRQIITLL 641
            GYKGV+   P    G  + +R SM KF         SLEI   ++  P +LNRQ+IT+L
Sbjct: 177 GGYKGVLVVDP-DLPGNEIHIRPSMLKFDLLGDAAVNSLEIIRSSKPTPAYLNRQLITVL 235

Query: 642 STLNVSDEIFWTVQASMASKLNLMLVASDVAFEVLTASCAEQGNTAAIMLSAGFKPQTEP 701
           STL V DE+F  +      +L   L   D A ++L     E        L+  F P  +P
Sbjct: 236 STLGVPDEVFIELLREALKELAEALTDWDQALDLLRKQADEND----FTLTLRFMPSEDP 291

Query: 702 HLQGMLTY----------------------------ELGELKECQCFIQVSESSLENCFS 733
            L+ +L                              E G LKE + F+QVS+ +    + 
Sbjct: 292 FLRKLLRALVKHTLKKLKEKLRIPVPKSAALFGVVDETGVLKEGEVFVQVSDGNDGGQY- 350

Query: 734 KHGSRFAETKKLQVINGFVVIAKNPCLRPGDVRILEAVDRPELHHLCDCLVFPQKGDRPH 793
                       + + G V++A+NPCL PGD+R++ AVD PEL HL D +VFP KGDRP 
Sbjct: 351 ------------EYLEGDVLVARNPCLHPGDIRVVRAVDVPELRHLKDVVVFPSKGDRPL 398

Query: 794 TNEASGSDLDGDLYYVTWDENLIPPSKKSCPPMECTPAEAKPLTCHVNHQNLGQICNAHV 853
            +E SG DLDGD+Y+V WD +L                             LG+I N+H+
Sbjct: 399 ASELSGGDLDGDIYFVCWDPDL-----------------------------LGRISNSHL 429

Query: 854 VHADRSEYGAFDENCILLAKLAATAVDSPKTGKIVTMPSHLKPKKYPDFMEIEEYQTYKS 913
             AD    G  D  C+ LAKL + AVD PKTG  V M   L+PK++PDFME +E ++YKS
Sbjct: 430 AIAD--PEGVGDPECLRLAKLHSQAVDYPKTGLPVEMKRLLRPKEWPDFMEKDEGKSYKS 487

Query: 914 NKILGRLYRQIKGAYDENIS 933
            +ILG+LYR +   Y    +
Sbjct: 488 TRILGKLYRSVLANYKGEST 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		1117
KOG0988		1145	consensus RNA-directed RNA polymerase QDE-1 requir	100.0
PF05183		579	RdRP: RNA dependent RNA polymerase; InterPro: IPR0	100.0
PLN03134		144	glycine-rich RNA-binding protein 4; Provisional	98.53
PF14259		70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	98.45
PF00076		70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	98.37
PLN03120		260	nucleic acid binding protein; Provisional	98.28
smart00360		71	RRM RNA recognition motif.	98.17
TIGR01661		352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	98.16
TIGR01661		352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	98.14
smart00362		72	RRM_2 RNA recognition motif.	98.13
TIGR01659		346	sex-lethal sex-lethal family splicing factor. This	98.09
cd00590		74	RRM RRM (RNA recognition motif), also known as RBD	98.0
KOG0117		506	consensus Heterogeneous nuclear ribonucleoprotein	97.99
TIGR01659		346	sex-lethal sex-lethal family splicing factor. This	97.97
TIGR01622		457	SF-CC1 splicing factor, CC1-like family. A homolog	97.94
TIGR01645		612	half-pint poly-U binding splicing factor, half-pin	97.85
TIGR01645		612	half-pint poly-U binding splicing factor, half-pin	97.83
PLN03121		243	nucleic acid binding protein; Provisional	97.8
TIGR01648		578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	97.68
TIGR01628		562	PABP-1234 polyadenylate binding protein, human typ	97.65
TIGR01642		509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	97.63
TIGR01622		457	SF-CC1 splicing factor, CC1-like family. A homolog	97.62
TIGR01628		562	PABP-1234 polyadenylate binding protein, human typ	97.62
COG0724		306	RNA-binding proteins (RRM domain) [General functio	97.6
TIGR01642		509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	97.57
TIGR01649		481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	97.5
KOG4208		214	consensus Nucleolar RNA-binding protein NIFK [Gene	97.43
TIGR01649		481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	97.39
smart00361		70	RRM_1 RNA recognition motif.	97.09
KOG0149		247	consensus Predicted RNA-binding protein SEB4 (RRM	97.08
TIGR01648		578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	96.86
KOG0148		321	consensus Apoptosis-promoting RNA-binding protein	96.76
KOG4212		608	consensus RNA-binding protein hnRNP-M [RNA process	96.71
KOG0122		270	consensus Translation initiation factor 3, subunit	96.71
PLN03213		759	repressor of silencing 3; Provisional	96.52
PF13893		56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	96.42
KOG0105		241	consensus Alternative splicing factor ASF/SF2 (RRM	96.39
KOG0153		377	consensus Predicted RNA-binding protein (RRM super	96.19
KOG0127		678	consensus Nucleolar protein fibrillarin NOP77 (RRM	96.12
KOG0117		506	consensus Heterogeneous nuclear ribonucleoprotein	96.07
KOG0108		435	consensus mRNA cleavage and polyadenylation factor	96.07
KOG0131		203	consensus Splicing factor 3b, subunit 4 [RNA proce	95.96
KOG0148		321	consensus Apoptosis-promoting RNA-binding protein	95.9
KOG0123		369	consensus Polyadenylate-binding protein (RRM super	95.86
KOG0124		544	consensus Polypyrimidine tract-binding protein PUF	95.08
KOG0144		510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	94.93
KOG0107		195	consensus Alternative splicing factor SRp20/9G8 (R	94.67
KOG4206		221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	94.46
KOG0111		298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	94.22
KOG0116		419	consensus RasGAP SH3 binding protein rasputin, con	94.06
KOG0127		678	consensus Nucleolar protein fibrillarin NOP77 (RRM	93.92
PF04059		97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	93.58
KOG4205		311	consensus RNA-binding protein musashi/mRNA cleavag	93.56
KOG0113		335	consensus U1 small nuclear ribonucleoprotein (RRM	93.38
KOG0129		520	consensus Predicted RNA-binding protein (RRM super	93.26
KOG4207		256	consensus Predicted splicing factor, SR protein su	93.05
PF14605		53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	92.22
KOG0145		360	consensus RNA-binding protein ELAV/HU (RRM superfa	92.16
KOG0123		369	consensus Polyadenylate-binding protein (RRM super	92.16
KOG0125		376	consensus Ataxin 2-binding protein (RRM superfamil	91.75
KOG0132		894	consensus RNA polymerase II C-terminal domain-bind	91.71
KOG0121		153	consensus Nuclear cap-binding protein complex, sub	91.41
KOG4205		311	consensus RNA-binding protein musashi/mRNA cleavag	91.38
KOG0109		346	consensus RNA-binding protein LARK, contains RRM a	90.85
KOG0110		725	consensus RNA-binding protein (RRM superfamily) [G	90.82
KOG4211		510	consensus Splicing factor hnRNP-F and related RNA-	89.46
KOG4209		231	consensus Splicing factor RNPS1, SR protein superf	89.06
PF11608		90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	88.93
PF08777		105	RRM_3: RNA binding motif; InterPro: IPR014886 This	88.41
KOG4211		510	consensus Splicing factor hnRNP-F and related RNA-	88.16
KOG0144		510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	87.64
KOG0114		124	consensus Predicted RNA-binding protein (RRM super	87.6
KOG0147		549	consensus Transcriptional coactivator CAPER (RRM s	85.38
KOG1457		284	consensus RNA binding protein (contains RRM repeat	85.03
KOG0130		170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	83.56
KOG0147		549	consensus Transcriptional coactivator CAPER (RRM s	81.57
KOG0146		371	consensus RNA-binding protein ETR-3 (RRM superfami	81.41
KOG0124		544	consensus Polypyrimidine tract-binding protein PUF	81.38
KOG0533		243	consensus RRM motif-containing protein [RNA proces	81.03
KOG0109		346	consensus RNA-binding protein LARK, contains RRM a	80.25

>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=1.1e-173  Score=1558.01  Aligned_cols=1033  Identities=33%  Similarity=0.480  Sum_probs=839.1

Q ss_pred             ccccCceeeEEEEeCCCccccHHHHHHHHHhccccEEEEEEEecCCCCC-CCCcccccccccccccCCCCCccceEEEEe
Q 048783            3 EREKTSVDTQVSVGGFDRDIKAVDLVKYLENEVGGVWRCRLKTSCTPSE-SYPNFFIENVAEVQKTDDYEKVEPHAFVHF   81 (1117)
Q Consensus         3 ~~~~~~~~~~v~v~gf~~~~~a~~l~~~lE~~~G~v~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~afV~F   81 (1117)
                      ..+...++.++.++||+.+.+|.++.+|+|..+|.+|+|.++.+||+|- +|++|.+.|...++....+ ...|+|+|+|
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            3455669999999999999999999999999999999999999999996 9999999999999998865 8899999999


Q ss_pred             cChHHHHHHHHhhcccceeccCeeeeeecCCCCCccccCCCCCCCCcccCCeEEEEeeeecC---CeEEEEecCCCCCee
Q 048783           82 ATSTYITRAMDAAEHMELFLNGRALKVSLGPENPFRLNQRGGTSAPLKLPDVYVEIGSLVTQ---DEFFVSWRGPASGTD  158 (1117)
Q Consensus        82 ~~~e~a~~a~~~a~~~~l~~~~~~Lkv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~---~~~~~~~~~~~~~v~  158 (1117)
                      ...+. ..+.+.++        ...+++....++..++|...+....+.+.++++++|+.+.   +.+.|-|..   .++
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            99886 33444433        2233332333555576666666677777899999999999   999999987   389


Q ss_pred             eEecCCCCceeeeeecccccccccccccceeeeeEEE-EeecccceeeeecCCCceEEEEEcccCCceeEEccCCCcccc
Q 048783          159 FLVDPFDGTCKFCFTKDTAFALKSSAEHAVIKCEFKV-FLVREIDIVKQYSELPRVAILLWLASSPRICYRTAKDDIEVL  237 (1117)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kl-~~~~~i~~~~~~~~~~~~~ll~~l~~~p~i~~~~~~~~~~~~  237 (1117)
                      +.+||+...|++|    ..|.+.-...+...+||++. .+.+ +-...+|-. ....+.+++...|.++....+     .
T Consensus       150 ~~~~p~~~~~~~~----v~f~~~~~~~i~~~~~D~~~~s~~~-~~~~~~~~~-~G~~k~~~~~~~p~~~~~~~~-----~  218 (1145)
T KOG0988|consen  150 IVESPVVEYCKLC----VPFEHSCRVLIETVSLDLDKPSIIR-YPKSRRYLD-NGGSKYFRFAFSPLLLALGDS-----E  218 (1145)
T ss_pred             eeecccccccccc----cchhhcchhheeeEEeccCcchhcc-Ccchhhhhh-cCccceeecccccHHHhhccc-----e
Confidence            9999999999932    23334444556678888888 4444 333333322 455578888888988666533     1


Q ss_pred             cccCCCC-CCCCeeEeeccCCCCCcccccccc---------ccccccC--------CCCeEEeeCCCCCccCCCcccccc
Q 048783          238 VPFDLLD-DDDPWIRTTDFSPSGAIGQCNSKQ---------RVQEDCL--------SQPVTIREEPDFEVPVEDPFFCMH  299 (1117)
Q Consensus       238 ~~~~~~~-~~~~W~R~td~~~~~~ig~~~~~~---------~~~~~~~--------~~~~~~~~~~~f~~~~~~~~~~~~  299 (1117)
                      .-|...+ ++++|+|+|||++..+||++++..         .+|..+.        +..+.+++++.|+....+. +.+.
T Consensus       219 ~Ef~k~~~~~~~~i~~~~~~~~~~v~~eta~~~eI~~~i~~~lP~~r~~~~~~~~~~~s~~ir~~~~~~~~~~~~-~~l~  297 (1145)
T KOG0988|consen  219 LEFKKDFLADLLYIRTTDLRSRTGVGIETASCDEIRVPIWKDLPYNRYNGSTAEEFRLSVWIRLGSKYDVSSAQL-VPLN  297 (1145)
T ss_pred             eeeecccccccceeeecceeccccccceeeccceecchhhccCCcccccccchhhhhhhhheeccccccccccee-eecc
Confidence            2233333 589999999999999999999922         2232111        3357788888888554433 3332


Q ss_pred             ccCCCcchHHHHHHHHHh------cCCCCcccchHHHHHHHhcCCc---HHHHHHHHHHHhCCCCccchhHHHHHHHHHH
Q 048783          300 YKEGVSFEIMFLVNAVMH------KGILNQHQLSDSFFDLLRCQPR---EVIVTALKHIYSYKRPVFDAYEKLKDVQECL  370 (1117)
Q Consensus       300 ~~~~l~f~v~fql~~lv~------~g~l~~~~l~~~f~~~l~~~~~---~~~~~~l~~l~~~~~~~~d~~~~l~~~~~~~  370 (1117)
                        ...+|.+.|.+|+|++      .|.+...+...+|+.++.....   .+..+.|++|.....+||||..+.+.++++.
T Consensus       298 --~~~~~git~~~e~l~~r~slv~dq~~~~~~~~~~f~~l~~~~~~~d~~v~~a~LekL~~~~~~cfd~~~~~k~i~~~~  375 (1145)
T KOG0988|consen  298 --DERDFGITHLYECLVSRGSLVKDQVLLEEAHLLEFLGLLRHKVLGDDNVLEAKLEKLLKLSTKCFDPYCQYKKIAKLN  375 (1145)
T ss_pred             --ccccccceeehhhhhcccchhhhhHHhhhhHHHHHHHHHhhhhccchhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHh
Confidence              2345555555555555      5555555566789999887654   6677889999999999999999999888776


Q ss_pred             HhCCCCCCCCCCCCCceEEEEEEEccCccccc-c----------CCCCCCCcEEEEEEecCCCCcccccccccccccccc
Q 048783          371 IKNPKLNEGPKNIDDIAEVRRLVITPTKAYWF-L----------ESKDVADRFLRVTFMDEGLQTMNANVLSYYVAPIVK  439 (1117)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~vrrv~iTPTri~~~-p----------~y~~~~drFLRV~F~DE~~~~l~~~~~~~~~~~~~r  439 (1117)
                      ..|.++.....+..+++.|+||+|||||+||+ |          +|..+++|||||+|+||+++ ++.+.++        
T Consensus       376 ~~ng~~~~~~~~~~g~~~vrk~v~TPtrv~~~~PE~~~gNRVlR~f~~~~t~~lRvtF~De~~~-~~ir~~S--------  446 (1145)
T KOG0988|consen  376 PSNGKLVTTKEIMEGLRRVRKVVFTPTRVYLLAPEVEMGNRVLRKFDKDSTRFLRVTFRDEDNK-LKIRTLS--------  446 (1145)
T ss_pred             cccCccccchhhhhcceeEEEEEEcCceeEecCchhhhcchhheeccccCceEEEEEEEccccc-cccccCC--------
Confidence            56766444444678999999999999999986 4          89999999999999999996 4433322        


Q ss_pred             ccccCCcccchhHHHHHHHHhcCCeeEcCeEEEEEEecccccccceEEEEecCCCCCHHHHHHHhcCCC-CCCHHHHHHH
Q 048783          440 DITSNSFSQKTGVFKRVKSILSDGFNLCGRRYSFLAFSSNQLRDHSAWFFSKVGETSVLDIKNWMGEFT-AKNIAKYAAR  518 (1117)
Q Consensus       440 ~~~~~~~~~~~~i~~Rv~~~L~~Gi~I~gR~y~FLafS~SQLR~~s~wFfa~~~~~t~~~Ir~wmG~F~-~~~vaK~aAR  518 (1117)
                            ...++.+|.||..+|++||+||+|.|+||||||||||+||.||++.....++++||.|||+|. +.|++|||||
T Consensus       447 ------~~~~t~l~~rv~~~L~~Gi~v~~r~y~FL~~s~sQlRdngy~m~~~s~~~~i~~iR~wmG~F~~i~nv~K~aAR  520 (1145)
T KOG0988|consen  447 ------TGSRTKLDMRVNSYLTDGISVANRRYEFLAFSNSQLRDNGYFMARFSDKTKIEDIREWMGDFRDIDNVPKLAAR  520 (1145)
T ss_pred             ------cchhhHHHHHHHHHHhcccEEccceeEEEEecccccccCceEEeecCCCccHHHHHHHhcchhhccCHHHHHhh
Confidence                  122689999999999999999999999999999999999999999988899999999999997 8999999999


Q ss_pred             hhccCCCcceeeee-CCCceeeecCccccC----CccccccccccCHHHHHHHHHHhCCCCCCCCceEEEeecCceeeEE
Q 048783          519 MGLCFSSTHATVEI-PPTEVDHELPDIKRN----GYVFSDGIGKITPDLAMEVAQILKLDGSPPPSAYQIRYAGYKGVVA  593 (1117)
Q Consensus       519 lgq~FSsT~~tv~v-~~~~i~~~I~DI~~~----g~~FSDG~G~IS~~lA~~I~~~l~l~~~~~PSAfQiR~gG~KGvL~  593 (1117)
                      ||||||+|+.|..+ +...+ ..+|||+++    +||||||||+||.++|++|++++++.. .+||||||||||+||||+
T Consensus       521 mGqCFs~Sr~T~~~~~~~~~-~~~~DI~~g~~g~~y~FSDGvG~iS~~~a~~vsq~~~~~~-~vPsaFQiR~~G~KGVva  598 (1145)
T KOG0988|consen  521 MGQCFSQSRGTGYVLERLDR-MCPPDIEGGKRGNNYCFSDGVGMISLQFAREVSQKRKFGK-AVPSAFQIRYGGYKGVVA  598 (1145)
T ss_pred             cCcceecccccccccccccc-ccCCcccccccCCceeecCCcccccHHHHHHHHHHHcccc-cCChheeeeccCCcceEE
Confidence            99999999999887 55566 589999976    899999999999999999999999974 599999999999999999


Q ss_pred             ecCCCCCCCeEEEcCCccCcccCCceeEEeecCCCCcCcccHHHHHHHhcCCCCHHHHHHHHHHHHHHH--HHHhhCHHH
Q 048783          594 CWPAKDDGIRMSLRGSMKKFKSCHTSLEICSWTRFQPGFLNRQIITLLSTLNVSDEIFWTVQASMASKL--NLMLVASDV  671 (1117)
Q Consensus       594 vdp~~~~g~~I~lR~Sm~KF~s~~~~LEIv~~S~~~p~~LNRQlI~lLs~lGVp~evF~~lq~~~l~~l--~~~l~d~~~  671 (1117)
                      |||...  ..+.+|.||.||.|.|..+||+.|++++||+||||+|+||+.+||++++|+++|+..++.-  ...+.....
T Consensus       599 v~Ps~~--~~~~~~~~~~~s~S~n~~~~v~~~~~f~~~~lnr~lI~Lls~~gv~n~~F~~il~~vle~~r~~~n~~e~~~  676 (1145)
T KOG0988|consen  599 VDPSMD--KVLKLRDSMNKSQSFNSLLEVTPSSKFQPAFLNRQLITLLSYLGVLNKPFINILDQVLEKQRRITNRIEELL  676 (1145)
T ss_pred             eCccHh--hhhhhhhhhhhhhhhcceeeeeeccCCccccccHHHHHHHHhcCccchHHHHHHHHHHHHHHhhhhhhhHHH
Confidence            999864  3788999999999999999999999999999999999999999999999999999999843  333444444


Q ss_pred             HHHHHHhcc-cccccHHHHHHHCCCCCCCchhhhhcch----------------------------hcccccCCCeEEEe
Q 048783          672 AFEVLTASC-AEQGNTAAIMLSAGFKPQTEPHLQGMLT----------------------------YELGELKECQCFIQ  722 (1117)
Q Consensus       672 A~~~L~~~~-~e~~~~~~~ml~~Gf~~~~ePflr~lL~----------------------------DetG~L~~GeVfvq  722 (1117)
                      +.+.|.-.+ .++++.++.++..++.+..||||++||.                            ||||+|++||||||
T Consensus       677 ~~~~l~~~~~m~~en~a~~~l~~~~~~D~EPflr~mL~~~~k~~~~~~kek~ripv~~Gr~lmGvvDETG~L~ygQVfVq  756 (1145)
T KOG0988|consen  677 DRAALNYGEQMDDENIAAMILKGFPRIDSEPFLRSMLSSLLKFTLQLLKEKIRIPVDLGRSLMGVVDETGILKYGQVFVQ  756 (1145)
T ss_pred             HHHHhhhhhhccchHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHhcccccCcCCceeEeeeccccccccCeEEEE
Confidence            555554333 3556667777777777888999999975                            99999999999999


Q ss_pred             ecccccccccccCCCccccccceeEEeeeEEEEeCCCCCCCCceEEEEecCCCCcccCCeEEeCCCCCCCCCcccCCCCC
Q 048783          723 VSESSLENCFSKHGSRFAETKKLQVINGFVVIAKNPCLRPGDVRILEAVDRPELHHLCDCLVFPQKGDRPHTNEASGSDL  802 (1117)
Q Consensus       723 ~s~~~~~~~~~~~g~~~~~~~~~~vi~G~VlVtRnPclHPGDIrvv~AVd~PeL~hL~dvIVFp~kG~Rplps~lSGGDL  802 (1117)
                      ++.+. .+         ...+...|++|+|+||||||||||||||++||++|+||||+|||||||||+||||+|||||||
T Consensus       757 ~t~~~-~~---------~~~~~~~vitG~VlvtKNPcLhpGDVRVl~AV~vp~L~h~~dvVvFPQkGpRphpdE~aGsDL  826 (1145)
T KOG0988|consen  757 YTKTI-RN---------SDSGRKEVITGKVLVTKNPCLHPGDVRVLKAVYVPALEHMVDVVVFPQKGPRPHPDEMAGSDL  826 (1145)
T ss_pred             Ecccc-cc---------cccCCceEEEeeEEEecCCCCCCCceEEEEeeccHHHHhhcCEEEcCCCCCCCCccccccCCC
Confidence            99862 21         112335899999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCeEEEeecCCCCCCCCCCCCCCCCCCCCCCccccccc-------------ccchhhHHHHHHHhhccCcCCCCChhHH
Q 048783          803 DGDLYYVTWDENLIPPSKKSCPPMECTPAEAKPLTCHVN-------------HQNLGQICNAHVVHADRSEYGAFDENCI  869 (1117)
Q Consensus       803 DGD~Y~ViWD~~Lip~~~~~~~P~~y~~~~~~~l~r~v~-------------~~~LG~IsnaHl~~AD~~~~G~~d~~Cl  869 (1117)
                      |||+|||||||+|+|+..  .+||+|++.+++.+.+.++             .++||+|+|||+++||+  +|++++.|+
T Consensus       827 DGDeYfViWDqkLL~~~~--~epmd~~~~~sk~~~~~~~~~~m~effv~yL~~DslG~isnAhl~~aD~--~G~~~~~Cl  902 (1145)
T KOG0988|consen  827 DGDEYFVIWDQKLLPPRN--EEPMDSSSEKSKILDGRVPLDEMSEFFVEYLKEDSLGLISNAHLANADV--YGLFSDVCL  902 (1145)
T ss_pred             CCceEEEEeChhhccCcC--CCccccCccccccccCCCCHHHHHHHHHHHHHHHHHHHHhhccccchhh--cchhhHHHH
Confidence            999999999999999974  4999999988877766554             34999999999999998  899999999


Q ss_pred             HHHHHHHhccCCCCCCCeeecCCCCCCCCCCCCCCcccCCcccccchhhHHHHHHhhhhccccccccccccCCCCCCCCC
Q 048783          870 LLAKLAATAVDSPKTGKIVTMPSHLKPKKYPDFMEIEEYQTYKSNKILGRLYRQIKGAYDENISVSSEVDINPVDIHYDT  949 (1117)
Q Consensus       870 ~LA~L~S~AVDf~KTG~~v~~p~~L~p~~~PdFM~k~~~~~Y~S~kiLG~LYr~v~~~~~~~~~~~~~~~~~~~~~~~D~  949 (1117)
                      .||++||+||||||||....||..++|++|||||++.++++|.|++++|||||+++.+ ++.. ..++....+.+++||+
T Consensus       903 ~LA~k~~~AVDF~KsG~d~~~~~~ek~e~~PDfm~~~d~p~Y~S~~l~GkLfR~~~ai-d~~~-~~~e~~~~~~~i~yD~  980 (1145)
T KOG0988|consen  903 ELAKKHSQAVDFPKSGADESMPEKEKPERYPDFMEKTDKPTYYSERLCGKLFREAKAI-DAPL-KGSEERSEQVEVEYDE  980 (1145)
T ss_pred             HHHHhhcccccccccCCcccccchhchhhcchhhhCCCCceeecchhhhHHHHHHHhh-cchh-hcCccccCcccccCCc
Confidence            9999999999999999999999999999999999999999999999999999988664 2221 2223223344588999


Q ss_pred             CCCCCChhhHHHHHHHHHHHHHHHHHHHHhhcCCCCCc---ee--EEecCCCcccchhHHHHHHHHHHHHHHHHHHHHHH
Q 048783          950 DLEVPGSVDFTADARNQKCSYDGQLNGLLGQYNVNRKE---FR--HIWSMPKYNSRKQGELQERLKHSYSAFRKEFRQVF 1024 (1117)
Q Consensus       950 ~l~v~g~~~~l~~A~~~k~~Yd~~l~~lm~~y~i~tE~---sG--~i~~~~~~~~~~~~~~~e~i~~~~~~l~~efr~~f 1024 (1117)
                      +|+++||++|++.|+++++.|+.+|++||++|||++|+   ||  .++.|+++++.+..+  +++...+.++++.|.++|
T Consensus       981 ~l~v~gFe~yme~a~~~~~~y~~qL~slm~~ygi~~E~eI~sG~~~~ddms~~~t~~~~e--~~~~~l~~~~r~~~~qef 1058 (1145)
T KOG0988|consen  981 DLEVDGFEHYMERAKKQVASYNGQLRSLMDFYGISTEGEIFSGILDQDDMSFYNTERMIE--LKLERLVLKLREKFFQEF 1058 (1145)
T ss_pred             ccCcCCcHHHHHHHHHHHhhhhhHHHHHHHHhCccchhhhhccCccccchhhhcccccch--hhhHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999998   88  667788888776554  677888888998888888


Q ss_pred             Hhh------cCCCccCchhhhhhHHHHHHHHHH-HhcchhhhhhhhhhhccCcCCCcceeeecchHHHHHHHHHhhcccc
Q 048783         1025 EKM------NSDFELSDNEKNVLYEQKASAWYQ-VTYHREWVKKSLDLLEQGSARSVVLLSFAWIANDYLARIKIKCQEM 1097 (1117)
Q Consensus      1025 ~~~------~~~~~~~~~e~~~~~~~kAsAwY~-Vty~~~~~~~~~~~~~~~~~~~~~~lSFpWi~~d~L~~Ik~~~~~~ 1097 (1117)
                      ...      .+.++-+..+  +.+.+||+|||+ ++|+...           ..+..+.+||||||+|+|++||+. .. 
T Consensus      1059 ~~y~~~~e~l~~fe~~~~e--E~~~kKa~aWY~v~~ye~~~-----------~~~~~~~~SF~wia~Dvl~~iK~~-~~- 1123 (1145)
T KOG0988|consen 1059 GAYKLEIEKLSCFEDSPEE--EFIMKKASAWYRVYRYEMAQ-----------AMRETRKLSFAWIAYDVLARIKQT-FL- 1123 (1145)
T ss_pred             hhhcchhhhccccccCchh--HHHHHHHHHHHHHHHhhhhc-----------ccccCcccchHHHHHHHHHHHHHH-HH-
Confidence            521      1222211111  226789999999 7776422           223456779999999999999998 32 


Q ss_pred             cccCCCchhHHHHHHhh
Q 048783         1098 ANIGKSKPVNNLARYVA 1114 (1117)
Q Consensus      1098 ~~~~~~~~~~~~~~~~~ 1114 (1117)
                      ..+...+|+.++.+-..
T Consensus      1124 ~~~g~a~p~~tl~e~~~ 1140 (1145)
T KOG0988|consen 1124 GAIGGANPVYTLEELHR 1140 (1145)
T ss_pred             HhhcccCchHHHHHhhH
Confidence            37889999999876543

>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

>PF00076 RRM_1: RNA recognition motif	Back alignment and domain information

>PLN03120 nucleic acid binding protein; Provisional	Back alignment and domain information

>smart00360 RRM RNA recognition motif	Back alignment and domain information

>TIGR01661 ELAV_HUD_SF ELAV/HuD 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

>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]	Back alignment and domain information

>TIGR01659 sex-lethal sex-lethal family splicing factor	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

>PLN03121 nucleic acid binding protein; Provisional	Back alignment and domain information

>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q 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

>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

>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]	Back alignment and domain information

>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor	Back alignment and domain information

>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family	Back alignment and domain information

>KOG4208 consensus Nucleolar RNA-binding protein NIFK [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

>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]	Back alignment and domain information

>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family	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

>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]	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

>PLN03213 repressor of silencing 3; Provisional	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

>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]	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

>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

>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

>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (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

>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [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

>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]	Back alignment and domain information

>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (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

>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

>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>KOG4207 consensus Predicted splicing factor, SR protein 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

>KOG0145 consensus RNA-binding protein ELAV/HU (RRM 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

>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]	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

>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

>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

>KOG0110 consensus RNA-binding protein (RRM superfamily) [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

>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

>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [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

>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]	Back alignment and domain information

>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]	Back alignment and domain information

>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]	Back alignment and domain information

>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]	Back alignment and domain information

>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]	Back alignment and domain information

>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]	Back alignment and domain information

>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]	Back alignment and domain information

>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]	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

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Alignment Graph	Length	Definition	E-value
Query		1117
2j7n_A		1022	Structure Of The Rnai Polymerase From Neurospora Cr		8e-15

>pdb|2J7N|A Chain A, Structure Of The Rnai Polymerase From Neurospora Crassa Length = 1022

Back alignment and structure

Iteration: 1

Score = 79.7 bits (195), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 85/365 (23%), Positives = 150/365 (41%), Gaps = 71/365 (19%) Query: 514 KYAARMGLCFSSTHATVEIPPTEVDHELPDI---KRNGYVFSDGIGKITPDLAMEVAQIL 570 K +R+ L S T+A + + P ++ H D+ G V +DG+G+++ +A + +L Sbjct: 287 KLFSRIQLGLSKTYAIMTLEPHQIRHHKTDLLSPSGTGEVMNDGVGRMSRSVAKRIRDVL 346 Query: 571 KLDGSPPPSAYQIRYAGYKGV-------------VACWPAK--------DDGIR-MSLRG 608 L P SA Q R+ KG+ + +P++ D R + +R Sbjct: 347 GLGDVP--SAVQGRFGSAKGMWVIDVDDTGDEDWIETYPSQRKWECDFVDKHQRTLEVRS 404 Query: 609 SMKKFKSCHTSLEIC--------SWTRFQPGF-------LNRQIITLLSTLNVSDEIFWT 653 + KS +L++ + + L RQ LN E Sbjct: 405 VASELKSAGLNLQLLPVLEDRARDKVKMRQAIGDRLINDLQRQFSEQKHALNRPVEFRQW 464 Query: 654 VQASMASKLNLMLVASDVAFEVLTASCAEQGNTAAIMLSAGFKPQTEPHLQGMLTYELGE 713 V S +S+ + S L Q T ++++GF P+ + +LQ + ++L + Sbjct: 465 VYESYSSRATRV---SHGRVPFLAGLPDSQEETLNFLMNSGFDPKKQKYLQD-IAWDLQK 520 Query: 714 LK----ECQCFIQVSESSLENCFSKHGSRFAETKKLQVINGF------------------ 751 K + + I+V S+ + E +V GF Sbjct: 521 RKCDTLKSKLNIRVGRSAYIYMIADFWGVLEEN---EVHVGFSSKFRDEEESFTLLSDCD 577 Query: 752 VVIAKNPCLRPGDVRILEAVDRPELHHLCDCLVFPQKGDRPHTNEASGSDLDGDLYYVTW 811 V++A++P P D++ + AV +PELH L D ++F KGD P + SG D DGD+ +V W Sbjct: 578 VLVARSPAHFPSDIQRVRAVFKPELHSLKDVIIFSTKGDVPLAKKLSGGDYDGDMAWVCW 637 Query: 812 DENLI 816 D ++ Sbjct: 638 DPEIV 642

PyMOL of 2j7n

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		1117
2j7n_A		1022	RNA-dependent RNA polymerase; RNAI response, RNA-d	1e-137
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-13
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-09
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-09

>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 =  440 bits (1133), Expect = e-137
 Identities = 134/844 (15%), Positives = 270/844 (31%), Gaps = 169/844 (20%)

Query: 409  ADRFLRVTFMDEGLQTMNANVLSYYVAPIVKDITSNSFSQKTGVFKRV---KSILSDGFN 465
             DRF  +        + +   +       V+++       +  +  R          G+ 
Sbjct: 152  PDRFFEILIPSPTSTSPSVPPVVSKQPAAVEEVIQWLTMGQHSLVGRQWRAFFAKDAGYR 211

Query: 466  LCGRRYSFLAFSSNQLRDHSAWFFSKVGET------------------------SVLDIK 501
               R +   A     +      FF++ G T                         V  + 
Sbjct: 212  KPLREFQLRAEDPKPIIKERVHFFAETGITFRPDVFKTRSVVPAEEPVEQRTEFKVSQML 271

Query: 502  NWMGEFTA---KNIAKYAARMGLCFSSTHATVEIPPTEVDHELPDI---KRNGYVFSDGI 555
            +W+ +      +   K  +R+ L  S T+A + + P ++ H   D+      G V +DG+
Sbjct: 272  DWLLQLDNNTWQPHLKLFSRIQLGLSKTYAIMTLEPHQIRHHKTDLLSPSGTGEVMNDGV 331

Query: 556  GKITPDLAMEVAQILKLDGSPPPSAYQIRYAGYKGVVACWP-AKDDGIRMSLRGSMKKFK 614
            G+++  +A  +  +L L     PSA Q R+   KG+         D   +    S +K++
Sbjct: 332  GRMSRSVAKRIRDVLGLG--DVPSAVQGRFGSAKGMWVIDVDDTGDEDWIETYPSQRKWE 389

Query: 615  SC-----HTSLEICS-WTRFQPGFLNRQIITLLSTLNV---------SDEIFWTVQASMA 659
                     +LE+ S  +  +   LN Q++ +L               D +   +Q   +
Sbjct: 390  CDFVDKHQRTLEVRSVASELKSAGLNLQLLPVLEDRARDKVKMRQAIGDRLINDLQRQFS 449

Query: 660  SK---LNLMLVASDVAFEVLTASCA---------------EQGNTAAIMLSAGFKPQTEP 701
             +   LN  +      +E  ++                   Q  T   ++++GF P+ + 
Sbjct: 450  EQKHALNRPVEFRQWVYESYSSRATRVSHGRVPFLAGLPDSQEETLNFLMNSGFDPKKQK 509

Query: 702  HLQGMLTY----------------------------ELGELKECQCFIQVSESSLENCFS 733
            +LQ +                                 G L+E +  +  S    +    
Sbjct: 510  YLQDIAWDLQKRKCDTLKSKLNIRVGRSAYIYMIADFWGVLEENEVHVGFSSKFRDE--- 566

Query: 734  KHGSRFAETKKLQVINGFVVIAKNPCLRPGDVRILEAVDRPELHHLCDCLVFPQKGDRPH 793
                   E     + +  V++A++P   P D++ + AV +PELH L D ++F  KGD P 
Sbjct: 567  -------EESFTLLSDCDVLVARSPAHFPSDIQRVRAVFKPELHSLKDVIIFSTKGDVPL 619

Query: 794  TNEASGSDLDGDLYYVTWDENLIPPSKKSCPPMECTPAE--------------------- 832
              + SG D DGD+ +V WD  ++     +  P+E   +                      
Sbjct: 620  AKKLSGGDYDGDMAWVCWDPEIVDGFVNAEMPLEPDLSRYLKKDKTTFKQLMASHGTGSA 679

Query: 833  ----------AKPLTCHVNHQNLGQICNAHVVHADRSEYGAFDENCILLAKLAATAVDSP 882
                       K     +    LG   N              ++  I+L+ L    VD  
Sbjct: 680  AKEQTTYDMIQKSFHFALQPNFLGMCTNYKERLCYI-NNSVSNKPAIILSSLVGNLVDQS 738

Query: 883  KTGKIVTMPS--HLKPKKYPDFMEIEEYQTYKSNK---------ILGRLYRQI-KGAYDE 930
            K G +    S   L+ +     + + +   YKS+          I+  L   I + A D+
Sbjct: 739  KQGIVFNEASWAQLRRELLGGALSLPD-PMYKSDSWLGRGEPTHIIDYLKFSIARPAIDK 797

Query: 931  NIS-----VSSEVDINPVDIHYDTDLEVPGSVDFTADARNQKCSYDGQLNGLLGQYNVNR 985
             +      + +  D       +D DL       F  +  ++  S       L  +     
Sbjct: 798  ELEAFHNAMKAAKDTEDGAHFWDPDLASYY--TFFKEISDKSRSSALLFTTLKNRIGEVE 855

Query: 986  KEFRHIWSMPKYNSRKQGELQERLKHSYSAFRKEFRQVFEKMNSDFELSDNEKNVLYEQK 1045
            KE+  +       +++  + ++      +   +++  +  +       + + K +   + 
Sbjct: 856  KEYGRL-----VKNKEMRDSKDPYPVRVNQVYEKWCAITPEAMDKSGANYDSKVIRLLEL 910

Query: 1046 ASAWYQVTYHREWVKKSLDLLEQGSARSVVLLSFAW-IANDYLARIKIKCQEMANIGKSK 1104
            +    +       ++ S                F W +A   LA IK +       G   
Sbjct: 911  SFLADREMNTWALLRASTAFKLYYHKSP----KFVWQMAGRQLAYIKAQMTSRPGEGAPA 966

Query: 1105 PVNN 1108
             +  
Sbjct: 967  LMTA 970

PyMOL of 2j7n

>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
Query		1117
2j7n_A		1022	RNA-dependent RNA polymerase; RNAI response, RNA-d	100.0
4fxv_A		99	ELAV-like protein 1; RNA recognition motif, putati	98.83
2lxi_A		91	RNA-binding protein 10; NMR {Homo sapiens}	98.81
3md1_A		83	Nuclear and cytoplasmic polyadenylated RNA-bindin	98.78
4f25_A		115	Polyadenylate-binding protein 1; RRM fold, transla	98.76
3bs9_A		87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	98.75
1whw_A		99	Hypothetical protein riken cDNA 1200009A02; RNA re	98.74
3s7r_A		87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	98.73
1uaw_A		77	Mouse-musashi-1; RNP-type structure, RNA binding p	98.71
3ucg_A		89	Polyadenylate-binding protein 2; ferredoxin-like,	98.71
1s79_A		103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	98.7
2x1f_A		96	MRNA 3'-END-processing protein RNA15; transcriptio	98.7
2cqc_A		95	Arginine/serine-rich splicing factor 10; RNA recog	98.69
2dnz_A		95	Probable RNA-binding protein 23; RNA recognition m	98.69
2cqd_A		116	RNA-binding region containing protein 1; RNA recog	98.68
3mdf_A		85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	98.67
2dgs_A		99	DAZ-associated protein 1; RRM domain, structural g	98.66
2jwn_A		124	Embryonic polyadenylate-binding protein 2-B; epabp	98.66
2lkz_A		95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	98.66
1x4h_A		111	RNA-binding protein 28; structural genomics, RRM d	98.65
2dnm_A		103	SRP46 splicing factor; RRM domain, RBD, structural	98.65
2dh8_A		105	DAZ-associated protein 1; RRM domain, structural g	98.64
2e5h_A		94	Zinc finger CCHC-type and RNA-binding motif- conta	98.64
2dng_A		103	Eukaryotic translation initiation factor 4H; RRM d	98.63
1x5u_A		105	Splicing factor 3B subunit 4 (spliceosome associat	98.63
2dgv_A		92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	98.63
3s8s_A		110	Histone-lysine N-methyltransferase SETD1A; chromat	98.63
1p27_B		106	RNA-binding protein 8A; nuclear protein, mRNA spli	98.63
3p5t_L		90	Cleavage and polyadenylation specificity factor S;	98.62
2dgo_A		115	Cytotoxic granule-associated RNA binding protein 1	98.62
2cq0_A		103	Eukaryotic translation initiation factor 3 subunit	98.62
2mss_A		75	Protein (musashi1); RNA-binding domain, RNA bindin	98.62
2jrs_A		108	RNA-binding protein 39; RNA binding motif of RBM39	98.61
2ywk_A		95	Putative RNA-binding protein 11; RRM-domain, struc	98.61
2rs2_A		109	Musashi-1, RNA-binding protein musashi homolog 1;	98.61
2dhg_A		104	TRNA selenocysteine associated protein (SECP43); R	98.61
2do4_A		100	Squamous cell carcinoma antigen recognized by T- c	98.61
1oo0_B		110	CG8781-PA, drosophila Y14; RNA recognition motif,	98.61
2cpf_A		98	RNA binding motif protein 19; RNA recognition moti	98.6
1x5t_A		96	Splicing factor 3B subunit 4; structure genomics,	98.6
1iqt_A		75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	98.6
2cq4_A		114	RNA binding motif protein 23; RRM domain, structur	98.6
1u6f_A		139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	98.6
4a8x_A		88	RNA-binding protein with serine-rich domain 1; tra	98.6
2cpe_A		113	RNA-binding protein EWS; RNA recognition motif, RR	98.59
1x4e_A		85	RNA binding motif, single-stranded interacting pro	98.59
2dgp_A		106	Bruno-like 4, RNA binding protein; RRM domain, str	98.59
2cq3_A		103	RNA-binding protein 9; RRM domain, structural geno	98.59
2la6_A		99	RNA-binding protein FUS; structural genomics, nort	98.59
2d9p_A		103	Polyadenylate-binding protein 3; RRM domain, struc	98.58
1x4a_A		109	Splicing factor, arginine/serine-rich 1 (splicing	98.58
2cpz_A		115	CUG triplet repeat RNA-binding protein 1; RRM doma	98.58
1x5s_A		102	Cold-inducible RNA-binding protein; structure geno	98.58
1x4b_A		116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	98.58
2cqi_A		103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	98.58
2cqg_A		103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	98.57
2cqb_A		102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	98.57
2khc_A		118	Testis-specific RNP-type RNA binding protein; RRM,	98.57
3ns6_A		100	Eukaryotic translation initiation factor 3 subuni;	98.57
1p1t_A		104	Cleavage stimulation factor, 64 kDa subunit; RNA r	98.56
2dnh_A		105	Bruno-like 5, RNA binding protein; RRM domain, RBD	98.56
2fy1_A		116	RNA-binding motif protein, Y chromosome, family 1	98.56
1l3k_A		196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	98.56
1wi8_A		104	EIF-4B, eukaryotic translation initiation factor 4	98.55
2ku7_A		140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	98.55
2xs2_A		102	Deleted in azoospermia-like; RNA binding protein-R	98.54
2cph_A		107	RNA binding motif protein 19; RNA recognition moti	98.54
2ki2_A		90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	98.53
2dis_A		109	Unnamed protein product; structural genomics, RRM	98.53
2cq1_A		101	PTB-like protein L; RRM domain, structural genomic	98.53
3ex7_B		126	RNA-binding protein 8A; protein-RNA complex, mRNA	98.53
2kn4_A		158	Immunoglobulin G-binding protein G, splicing FACT	98.52
3ulh_A		107	THO complex subunit 4; nuclear protein, RNA bindin	98.52
2cpy_A		114	RNA-binding protein 12; RRM domain, structural gen	98.52
2div_A		99	TRNA selenocysteine associated protein; structural	98.52
2ek1_A		95	RNA-binding protein 12; RNA recognition motif, dim	98.51
2krb_A		81	Eukaryotic translation initiation factor 3 subunit	98.51
2kt5_A		124	RNA and export factor-binding protein 2; chaperone	98.51
1fjc_A		96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	98.5
2j76_E		100	EIF-4B, EIF4B, eukaryotic translation initiation f	98.5
3n9u_C		156	Cleavage and polyadenylation specificity factor S;	98.5
2err_A		109	Ataxin-2-binding protein 1; protein-RNA complex, R	98.49
2nlw_A		105	Eukaryotic translation initiation factor 3 subunit	98.49
2kxn_B		129	Transformer-2 protein homolog beta; SR protein, RR	98.49
2dgx_A		96	KIAA0430 protein; RRM domain, structural genomics,	98.49
1sjq_A		105	Polypyrimidine tract-binding protein 1; babbab mot	98.48
1wg5_A		104	Heterogeneous nuclear ribonucleoprotein H; structu	98.48
2lmi_A		107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	98.48
3r27_A		100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	98.47
2dgw_A		91	Probable RNA-binding protein 19; RRM domain, struc	98.47
2do0_A		114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	98.46
1h2v_Z		156	20 kDa nuclear CAP binding protein; CAP-binding-co	98.46
1wez_A		102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	98.46
3lqv_A		115	PRE-mRNA branch site protein P14; cysless mutant,	98.45
3md3_A		166	Nuclear and cytoplasmic polyadenylated RNA-bindin	98.45
2cpi_A		111	CCR4-NOT transcription complex subunit 4; RNA reco	98.44
2cqp_A		98	RNA-binding protein 12; RNA recognition motif, RRM	98.44
4f02_A		213	Polyadenylate-binding protein 1; mRNA, eukaryotic	98.43
2dnn_A		109	RNA-binding protein 12; RRM domain, RBD, structura	98.43
1fxl_A		167	Paraneoplastic encephalomyelitis antigen HUD; prot	98.42
1wex_A		104	Hypothetical protein (riken cDNA 2810036L13); stru	98.42
2e5j_A		97	Methenyltetrahydrofolate synthetase domain contain	98.42
1nu4_A		97	U1A RNA binding domain; RNA recognition motif, U1	98.42
2db1_A		118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	98.42
2jvr_A		111	Nucleolar protein 3; RNA recognition motif, nucleu	98.41
2dnq_A		90	RNA-binding protein 4B; RRM domain,RBD, structural	98.39
2hvz_A		101	Splicing factor, arginine/serine-rich 7; RRM, RNA	98.39
2lea_A		135	Serine/arginine-rich splicing factor 2; SR protein	98.39
2ytc_A		85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	98.39
2hgl_A		136	HNRPF protein, heterogeneous nuclear ribonucleopro	98.39
2hgm_A		126	HNRPF protein, heterogeneous nuclear ribonucleopro	98.38
1fj7_A		101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	98.38
1rk8_A		165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	98.37
1b7f_A		168	Protein (SXL-lethal protein), RNA (5'-R(PGPUP*UP	98.37
2ad9_A		119	Polypyrimidine tract-binding protein 1; RBD, RRM,	98.36
3md3_A		166	Nuclear and cytoplasmic polyadenylated RNA-bindin	98.35
2hzc_A		87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	98.33
2qfj_A		216	FBP-interacting repressor; protein-DNA complex; HE	98.33
2fc9_A		101	NCL protein; structure genomics, RRM_1 domain, str	98.32
3d2w_A		89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	98.32
1x4d_A		102	Matrin 3; structural genomics, RRM domain, NPPSFA,	98.32
2cjk_A		167	Nuclear polyadenylated RNA-binding protein 4; HRP1	98.31
2e5g_A		94	U6 snRNA-specific terminal uridylyltransferase 1;	98.31
2cpx_A		115	Hypothetical protein FLJ11016; RRM domain, structu	98.31
2fc8_A		102	NCL protein; structure genomics, RRM_1 domain, str	98.31
1wg1_A		88	KIAA1579 protein, homolog EXC-7; RBD, structural g	98.31
2g4b_A		172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	98.3
2dnl_A		114	Cytoplasmic polyadenylation element binding protei	98.3
1x4g_A		109	Nucleolysin TIAR; structural genomics, RRM domain,	98.3
3nmr_A		175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	98.29
2cjk_A		167	Nuclear polyadenylated RNA-binding protein 4; HRP1	98.29
3q2s_C		229	Cleavage and polyadenylation specificity factor S;	98.28
2dha_A		123	FLJ20171 protein; RRM domain, structural genomics,	98.28
1why_A		97	Hypothetical protein riken cDNA 1810017N16; RNA re	98.28
2m2b_A		131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	98.28
2qfj_A		216	FBP-interacting repressor; protein-DNA complex; HE	98.27
1l3k_A		196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	98.27
1x5o_A		114	RNA binding motif, single-stranded interacting pro	98.27
2a3j_A		127	U1 small nuclear ribonucleoprotein A; computationa	98.26
1x4f_A		112	Matrin 3; structural genomics, RRM domain, NPPSFA,	98.26
2la4_A		101	Nuclear and cytoplasmic polyadenylated RNA-bindin	98.26
2cqh_A		93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	98.25
2voo_A		193	Lupus LA protein; RNA-binding protein, RNA recogni	98.25
2jvo_A		108	Nucleolar protein 3; nucleus, phosphorylation, rib	98.24
2dgt_A		92	RNA-binding protein 30; RRM domain, structural gen	98.24
2j8a_A		136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	98.23
1whx_A		111	Hypothetical protein riken cDNA 1200009A02; RNA re	98.23
2f3j_A		177	RNA and export factor binding protein 2; RRM domai	98.23
2hgn_A		139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	98.23
1wel_A		124	RNA-binding protein 12; structural genomics, NPPSF	98.22
2cpj_A		99	Non-POU domain-containing octamer-binding protein;	98.22
1x4c_A		108	Splicing factor, arginine/serine-rich 1; structura	98.21
2cpd_A		99	Apobec-1 stimulating protein; RNA recognition moti	98.2
3nmr_A		175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	98.19
2xnq_A		97	Nuclear polyadenylated RNA-binding protein 3; tran	98.19
2i2y_A		150	Fusion protein consists of immunoglobin G- binding	98.19
2yh0_A		198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	98.19
2dgu_A		103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	98.18
1wf1_A		110	RNA-binding protein RALY; structural genomics, RRM	98.16
2dnp_A		90	RNA-binding protein 14; RRM domain, RBD, structura	98.16
1b7f_A		168	Protein (SXL-lethal protein), RNA (5'-R(PGPUP*UP	98.14
2lcw_A		116	RNA-binding protein FUS; RRM, nucleic acid binding	97.43
1wf0_A		88	TDP-43, TAR DNA-binding protein-43; structural gen	98.14
3egn_A		143	RNA-binding protein 40; RNA recognition motif (RRM	98.12
4f02_A		213	Polyadenylate-binding protein 1; mRNA, eukaryotic	98.1
1fje_B		175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	98.1
1fje_B		175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	98.09
2e44_A		96	Insulin-like growth factor 2 mRNA binding protein	98.08
1x5p_A		97	Negative elongation factor E; structure genomics,	98.06
2kvi_A		96	Nuclear polyadenylated RNA-binding protein 3; RNA-	98.05
3pgw_S		437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	98.05
2ghp_A		292	U4/U6 snRNA-associated splicing factor PRP24; RNA	98.04
3smz_A		284	Protein raver-1, ribonucleoprotein PTB-binding 1;	98.02
2adc_A		229	Polypyrimidine tract-binding protein 1; RBD, RRM,	98.0
1fxl_A		167	Paraneoplastic encephalomyelitis antigen HUD; prot	97.99
2g4b_A		172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	97.97
2yh0_A		198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	97.97
2wbr_A		89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	97.96
1qm9_A		198	Polypyrimidine tract-binding protein; ribonucleopr	97.93
3pgw_A		282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	97.92
1sjr_A		164	Polypyrimidine tract-binding protein 1; extended b	97.9
3beg_B		115	Splicing factor, arginine/serine-rich 1; kinase, S	97.9
3u1l_A		240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	97.9
3tyt_A		205	Heterogeneous nuclear ribonucleoprotein L; ferredo	97.88
2cq2_A		114	Hypothetical protein LOC91801; RRM domain, structu	97.82
3sde_A		261	Paraspeckle component 1; RRM, anti parallel right	97.82
2ghp_A		292	U4/U6 snRNA-associated splicing factor PRP24; RNA	97.82
3sde_A		261	Paraspeckle component 1; RRM, anti parallel right	97.78
3smz_A		284	Protein raver-1, ribonucleoprotein PTB-binding 1;	97.77
2pe8_A		105	Splicing factor 45; RRM, protein binding; 2.00A {H	97.71
2bz2_A		121	Negative elongation factor E; NELF E, RNA recognit	97.7
1jmt_A		104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	97.67
3pgw_A		282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	97.6
1qm9_A		198	Polypyrimidine tract-binding protein; ribonucleopr	97.57
2adc_A		229	Polypyrimidine tract-binding protein 1; RBD, RRM,	97.56
3zzy_A		130	Polypyrimidine tract-binding protein 1; protein bi	97.45
2e5i_A		124	Heterogeneous nuclear ribonucleoprotein L-like; RR	97.39
2dit_A		112	HIV TAT specific factor 1 variant; structural geno	97.28
3tyt_A		205	Heterogeneous nuclear ribonucleoprotein L; ferredo	97.24
2diu_A		96	KIAA0430 protein; structural genomics, RRM domain,	97.22
2d9o_A		100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	97.18
3v4m_A		105	Splicing factor U2AF 65 kDa subunit; canonical RNA	97.07
3tht_A		345	Alkylated DNA repair protein ALKB homolog 8; struc	96.78
3ue2_A		118	Poly(U)-binding-splicing factor PUF60; RNA recogni	96.77
3s6e_A		114	RNA-binding protein 39; ferredoxin-like, structura	95.93
1owx_A		121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	95.86
2dhx_A		104	Poly (ADP-ribose) polymerase family, member 10 var	95.36
3dxb_A		222	Thioredoxin N-terminally fused to PUF60(UHM); spli	93.25
2dnr_A		91	Synaptojanin-1; RRM domain, RBD, structural genomi	92.25
1ufw_A		95	Synaptojanin 2; RNP domain, structural genomics, r	91.23

>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=1e-109  Score=1030.76  Aligned_cols=489  Identities=24%  Similarity=0.348  Sum_probs=382.2

Q ss_pred             CCCcEEEEEEecCCCCccccccccccccccccccccCCcccchhHHHHHHHHhcCC-eeEcCeEEEEEEec---------
Q 048783          408 VADRFLRVTFMDEGLQTMNANVLSYYVAPIVKDITSNSFSQKTGVFKRVKSILSDG-FNLCGRRYSFLAFS---------  477 (1117)
Q Consensus       408 ~~drFLRV~F~DE~~~~l~~~~~~~~~~~~~r~~~~~~~~~~~~i~~Rv~~~L~~G-i~I~gR~y~FLafS---------  477 (1117)
                      ++||||||+|.+++...       ++.++..+.        ....+++|.++|.+| +.++||+|+.+-.-         
T Consensus       151 GsDrFL~V~fp~~~~~~-------~~~~~~~~~--------~~~~~~~v~~~l~~~~~~~~gr~~r~f~~~d~~~r~~~~  215 (1022)
T 2j7n_A          151 GPDRFFEILIPSPTSTS-------PSVPPVVSK--------QPAAVEEVIQWLTMGQHSLVGRQWRAFFAKDAGYRKPLR  215 (1022)
T ss_dssp             CGGGEEEEEEECTTCCC-------SSSCTTSSS--------SSSCHHHHHHHHHSSCEEETTEEEEEEEEEECC------
T ss_pred             CCceeEEEEecCCcccc-------ccccchhcc--------chHHHHHHHHHHhcCcEEEecceeEEEeecccccccccc
Confidence            59999999999986531       111122211        112366777777666 44667766644321         


Q ss_pred             ccccc--------cceEEEEecCC------------------------CCCHHHHHHHhcCCC-C--CCHHHHHHHhhcc
Q 048783          478 SNQLR--------DHSAWFFSKVG------------------------ETSVLDIKNWMGEFT-A--KNIAKYAARMGLC  522 (1117)
Q Consensus       478 ~SQLR--------~~s~wFfa~~~------------------------~~t~~~Ir~wmG~F~-~--~~vaK~aARlgq~  522 (1117)
                      ..|+|        ...||||+++|                        .+|+++||+|||+|+ +  +++||||||||||
T Consensus       216 ~~~l~~~~~~~~~~~Rv~~f~~~G~~i~~~~f~fl~~s~lre~s~~~~~ls~~~ir~wmg~f~~n~~q~~aK~aARigq~  295 (1022)
T 2j7n_A          216 EFQLRAEDPKPIIKERVHFFAETGITFRPDVFKTRSVVPAEEPVEQRTEFKVSQMLDWLLQLDNNTWQPHLKLFSRIQLG  295 (1022)
T ss_dssp             --------CCCCCEEEEEEEEEEETTCBCCCC-------------CCBCCCHHHHHHHHHCGGGCTTSBHHHHHHTTHHH
T ss_pred             ccccccccccccccceEEEEeccCccccCccccccccccccccccccCCCCHHHHHHhccChhhcccchHHHHHHHhhhh
Confidence            12222        14566666432                        279999999999998 4  5699999999999


Q ss_pred             CCCcceeeeeCCCceeeecCcccc---CCccccccccccCHHHHHHHHHHhCCCCCCCCceEEEeecCceeeEEecCCCC
Q 048783          523 FSSTHATVEIPPTEVDHELPDIKR---NGYVFSDGIGKITPDLAMEVAQILKLDGSPPPSAYQIRYAGYKGVVACWPAKD  599 (1117)
Q Consensus       523 FSsT~~tv~v~~~~i~~~I~DI~~---~g~~FSDG~G~IS~~lA~~I~~~l~l~~~~~PSAfQiR~gG~KGvL~vdp~~~  599 (1117)
                      ||+|.+|+.|++++|...+|||++   |||+||||||+||++||++|++++++.  ..|||||||||||||||+|||++.
T Consensus       296 FS~T~~tv~v~~~~I~~~~dDI~~~~g~g~vFTDGvG~IS~~lA~~I~~~l~l~--~~PSAfQiR~gGaKGvl~vdp~~~  373 (1022)
T 2j7n_A          296 LSKTYAIMTLEPHQIRHHKTDLLSPSGTGEVMNDGVGRMSRSVAKRIRDVLGLG--DVPSAVQGRFGSAKGMWVIDVDDT  373 (1022)
T ss_dssp             HSBCEEEEECCGGGEEECSSCCBCTTSSCCBSSTTEEEECHHHHHHHHHHHTCS--SCCSEEEEEETTEEEEEEECTTCC
T ss_pred             hcCccCcEEechHHEEEcCCccccCCCCCCeecCCchHhhHHHHHHHHHHcCCC--CCCcEEEEEeccceEEEEECcccC
Confidence            999999999999999533589986   779999999999999999999999997  489999999999999999999863


Q ss_pred             -CCCeEEEcCCccCccc-----CCceeEEeecC-CCCcCcccHHHHHHHhcCCCCHHHHHHHHHHH-HHHH-------HH
Q 048783          600 -DGIRMSLRGSMKKFKS-----CHTSLEICSWT-RFQPGFLNRQIITLLSTLNVSDEIFWTVQASM-ASKL-------NL  664 (1117)
Q Consensus       600 -~g~~I~lR~Sm~KF~s-----~~~~LEIv~~S-~~~p~~LNRQlI~lLs~lGVp~evF~~lq~~~-l~~l-------~~  664 (1117)
                       ++.+|+|||||+||++     .+++||||+|| ++.|++||||+|+||+++||+.++|++++.++ .+.|       ..
T Consensus       374 ~~~~~I~lRpSm~KF~~~~~d~~~~~LEIv~~s~~~~~~~LNRQlI~lL~~lGV~~~~f~~~i~~~~~~~L~~~l~~~~~  453 (1022)
T 2j7n_A          374 GDEDWIETYPSQRKWECDFVDKHQRTLEVRSVASELKSAGLNLQLLPVLEDRARDKVKMRQAIGDRLINDLQRQFSEQKH  453 (1022)
T ss_dssp             SCCCCEEECTTTBCSCCCCCSGGGSEEEEEEECCCCCCCCBCTTTHHHHHHTBSSHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcceEEeCCcceeecCCCCCcccCeEEEEeecCCCCCceecHHHHHHHHhCCcCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             3357999999999986     46899999997 68999999999999999999999998875444 3333       34


Q ss_pred             HhhCHHHHHHHHHhcc-------------------cccccHHHHHHHCCCCCCCchhhhhcch-----------------
Q 048783          665 MLVASDVAFEVLTASC-------------------AEQGNTAAIMLSAGFKPQTEPHLQGMLT-----------------  708 (1117)
Q Consensus       665 ~l~d~~~A~~~L~~~~-------------------~e~~~~~~~ml~~Gf~~~~ePflr~lL~-----------------  708 (1117)
                      ++.++..+..++....                   ....+.+..|+.+||.|.++|||++++.                 
T Consensus       454 al~~~~~~r~~l~~~~~~~~~r~~~g~~~~~~glp~s~~~~l~~Ll~aGf~p~~epfL~~~l~~~~~~~l~~LK~k~rI~  533 (1022)
T 2j7n_A          454 ALNRPVEFRQWVYESYSSRATRVSHGRVPFLAGLPDSQEETLNFLMNSGFDPKKQKYLQDIAWDLQKRKCDTLKSKLNIR  533 (1022)
T ss_dssp             HTTSHHHHHHHHHHHSCCHHHHHHHTSCCEETTEESSHHHHHHHHHHTTCCTTTBHHHHHHHHHHHHHHHHHHHHHCCBC
T ss_pred             HhhCHHHHHHHHHhhccccccccccccchhhccCccchHHHHHHHHHcCCCccccHHHHHHHHHHHHHHHHHHHHhhccc
Confidence            5666666655553211                   0122467889999999999999987642                 


Q ss_pred             -----------hcccccCCCeEEEeecccccccccccCCCccccccceeEEe-eeEEEEeCCCCCCCCceEEEEecCCCC
Q 048783          709 -----------YELGELKECQCFIQVSESSLENCFSKHGSRFAETKKLQVIN-GFVVIAKNPCLRPGDVRILEAVDRPEL  776 (1117)
Q Consensus       709 -----------DetG~L~~GeVfvq~s~~~~~~~~~~~g~~~~~~~~~~vi~-G~VlVtRnPclHPGDIrvv~AVd~PeL  776 (1117)
                                 ||||+|+||||||+++....+           +.+...++. |+|+|+|||||||||||+|+||++|+|
T Consensus       534 V~~s~~L~GV~DetG~L~eGEVfv~~s~~~~~-----------~~~~~~~l~gg~VlVtRnP~lhPGDIrvv~AV~~PeL  602 (1022)
T 2j7n_A          534 VGRSAYIYMIADFWGVLEENEVHVGFSSKFRD-----------EEESFTLLSDCDVLVARSPAHFPSDIQRVRAVFKPEL  602 (1022)
T ss_dssp             CSSEEEEEEEECTTSCCCTTEEEEEEEEEEEE-----------TTEEEEEECSEEEEEECSSCCSGGGEEEEEECCCGGG
T ss_pred             cccceEEEEEecCCCccCCCeEEEEecccccc-----------CCCCceeecCceEEEEeCCCcCcCceeEEEeccChhh
Confidence                       999999999999999863110           012245565 699999999999999999999999999


Q ss_pred             cccCCeEEeCCCCCCCCCcccCCCCCCCCeEEEeecCCCCCCCCCCCCCCC-----CCCCCCCcc---------c---c-
Q 048783          777 HHLCDCLVFPQKGDRPHTNEASGSDLDGDLYYVTWDENLIPPSKKSCPPME-----CTPAEAKPL---------T---C-  838 (1117)
Q Consensus       777 ~hL~dvIVFp~kG~Rplps~lSGGDLDGD~Y~ViWD~~Lip~~~~~~~P~~-----y~~~~~~~l---------~---r-  838 (1117)
                      |||+|||||||+|+|||||||||||||||+|||||||+|||++.++..|..     |.+.+...+         +   + 
T Consensus       603 ~hL~DvIVFp~kG~Rplps~lSGGDLDGD~Y~ViWD~~Lv~~f~na~~p~~p~~~~y~~k~~~~~~~~~~~~~~g~~~~~  682 (1022)
T 2j7n_A          603 HSLKDVIIFSTKGDVPLAKKLSGGDYDGDMAWVCWDPEIVDGFVNAEMPLEPDLSRYLKKDKTTFKQLMASHGTGSAAKE  682 (1022)
T ss_dssp             TTCCSEEEECSCSSSCHHHHTTTCCSSSCEEEEECCHHHHHTBCCCCCCCCCCCTTTSEECCCBHHHHHTTTCSSHHHHH
T ss_pred             hccCCeEEccCCCCCCChhHhcCCCCCCCeEEEEechhhcccccCCCCCCCCchhhhccccccchhhhhhccccccccCc
Confidence            999999999999999999999999999999999999999998865433322     211111111         0   0 


Q ss_pred             -------------cccccchhhHHHHHHHhhccCcCCCCChhHHHHHHHHHhccCCCCCCCeeec--CCCCCCCCCCCCC
Q 048783          839 -------------HVNHQNLGQICNAHVVHADRSEYGAFDENCILLAKLAATAVDSPKTGKIVTM--PSHLKPKKYPDFM  903 (1117)
Q Consensus       839 -------------~v~~~~LG~IsnaHl~~AD~~~~G~~d~~Cl~LA~L~S~AVDf~KTG~~v~~--p~~L~p~~~PdFM  903 (1117)
                                   .+..+.||+|||+|+..+|. +.|+.|++|++||+|||+||||||||++|++  ++.|+|+.|||||
T Consensus       683 ~~~~d~i~~ff~~~m~~d~LG~is~~h~~~~~~-~~g~~~~~cl~LA~L~S~AVD~~KtG~pv~~~~~~~lr~~~~p~~m  761 (1022)
T 2j7n_A          683 QTTYDMIQKSFHFALQPNFLGMCTNYKERLCYI-NNSVSNKPAIILSSLVGNLVDQSKQGIVFNEASWAQLRRELLGGAL  761 (1022)
T ss_dssp             HHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-HTCSSSHHHHHHHHHHHHHTTHHHHTEECCHHHHHHHHHHHSCCSS
T ss_pred             hhHHHHHHHHHHHhcCcchHHHHHHHHHHHHhh-cCCCCCHHHHHHHHHHHHhhCccccCcccChhhhhhhhHhhCCCCC
Confidence                         01235899999999876654 6899999999999999999999999999998  7789999999999


Q ss_pred             CcccCCccccc---------chhhHHHHHHhh
Q 048783          904 EIEEYQTYKSN---------KILGRLYRQIKG  926 (1117)
Q Consensus       904 ~k~~~~~Y~S~---------kiLG~LYr~v~~  926 (1117)
                      + .++++|+|+         +||++|+++|..
T Consensus       762 ~-~~~p~Y~s~~~~g~~~~~~iid~l~f~va~  792 (1022)
T 2j7n_A          762 S-LPDPMYKSDSWLGRGEPTHIIDYLKFSIAR  792 (1022)
T ss_dssp             C-CCCCGGGSSSCCSSSSCCSHHHHHHHTTHH
T ss_pred             C-CCCCccccCcccCCCCccchhhheeeehhh
Confidence            9 556899996         456778877665

PyMOL of 2j7n

>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

>2lxi_A RNA-binding protein 10; NMR {Homo sapiens}	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

>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

>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

>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

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1	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

>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

>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

>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

>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

>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

>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

>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

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}	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

>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

>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

>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

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}	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

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_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

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {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

>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

>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

>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

>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

>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

>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

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}	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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}	Back alignment and structure

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_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

>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

>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

>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

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens}	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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3, eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo sapiens}	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

>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

>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

>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

>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

>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic initiation factor 3 complex, RNA recognition motif; NMR {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

>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

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; 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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}	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

>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

>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

>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

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens}	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

>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

>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

>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

>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

>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

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(PGPUPUPGPUPUPUPUPUPUPUPU)-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

>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

>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

>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

>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

>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

>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

>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

>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

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}	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

>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

>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

>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

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}	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

>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

>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

>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

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 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

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}	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

>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

>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

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens}	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

>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

>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

>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

>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A	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

>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

>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

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus}	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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(PGPUPUPGPUPUPUPUPUPUPUPU)-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

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens}	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

>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

>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

>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

>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}	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

>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae}	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

>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

>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

>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

>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

>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

>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster}	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

>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

>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

>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

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>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

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1	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

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
Query		1117
d2cq4a1		101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	98.88
d1l3ka2		79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.86
d1hd0a_		75	Heterogeneous nuclear ribonucleoprotein d0 {Human	98.86
d2cqda1		103	RNA-binding region containing protein 1 {Human (Ho	98.86
d1l3ka1		84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.86
d2cqga1		90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	98.85
d1b7fa1		82	Sex-lethal protein {Drosophila melanogaster [TaxId	98.84
d1b7fa2		85	Sex-lethal protein {Drosophila melanogaster [TaxId	98.83
d1cvja1		80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	98.82
d1fxla1		82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	98.82
d1whwa_		99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.81
d2cqca1		83	Arginine/serine-rich splicing factor 10 {Human (Ho	98.79
d1zh5a2		85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	98.78
d2cq3a1		93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	98.77
d2ghpa2		75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	98.77
d1x4ha1		98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	98.76
d2cqba1		89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	98.76
d1h2vz_		93	CBP20, 20KDa nuclear cap-binding protein {Human (H	98.75
d1x5ua1		93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	98.75
d2u2fa_		85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.74
d2cq0a1		90	Eukaryotic translation initiation factor 3 subunit	98.74
d1uawa_		77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	98.73
d2cqia1		90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	98.73
d1p1ta_		104	Cleavage stimulation factor, 64 kda subunit {Human	98.72
d1no8a_		78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	98.71
d1cvja2		89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	98.71
d1rk8a_		88	RNA-binding protein 8 {Fruit fly (Drosophila melan	98.71
d1x0fa1		75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	98.71
d1x5sa1		90	Cold-inducible RNA-binding protein {Human (Homo sa	98.71
d2ghpa1		81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	98.69
d1x4ba1		103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	98.69
d2msta_		75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	98.68
d2f9da1		114	Pre-mRNA branch site protein p14 {Human (Homo sapi	98.67
d2cpea1		101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	98.66
d1fxla2		85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	98.65
d1u6fa1		139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	98.65
d2cpha1		94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.65
d2ghpa3		86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	98.64
d2cpfa1		85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.64
d2cpza1		102	CUG triplet repeat RNA-binding protein 1 {Human (H	98.63
d2cpia1		89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	98.62
d1x5ta1		83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	98.6
d2cq1a1		88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	98.58
d2disa1		96	Hypothetical protein FLJ20273 {Human (Homo sapiens	98.58
d2adca2		88	Polypyrimidine tract-binding protein {Human (Homo	98.57
d1x4ea1		72	RNA-binding motif, single-stranded-interacting pro	98.56
d1wexa_		104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	98.56
d1x5oa1		101	RNA-binding motif, single-stranded-interacting pro	98.54
d1x4aa1		95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	98.54
d1fjeb1		91	Nucleolin {Golden hamster (Mesocricetus auratus) [	98.53
d2cpya1		103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	98.53
d2cqpa1		86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	98.49
d2b0ga1		83	Splicesomal U1A protein {Drosophila melanogaster [	98.48
d1whxa_		111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.48
d1x4ga1		96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	98.47
d1x4da1		89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	98.47
d1x4fa1		99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	98.47
d1wi8a_		104	Eukaryotic translation initiation factor 4B {Human	98.47
d2cpxa1		102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	98.45
d1nu4a_		91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	98.44
d2cpda1		86	APOBEC1 stimulating protein {Human (Homo sapiens)	98.43
d1fjca_		96	Nucleolin {Golden hamster (Mesocricetus auratus) [	98.43
d1wf0a_		88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	98.42
d1whya_		97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	98.41
d2bz2a1		79	Negative elongation factor E, NELF-E {Human (Homo	98.41
d2adba1		108	Polypyrimidine tract-binding protein {Human (Homo	98.39
d2cqha1		80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	98.39
d1wg5a_		104	Heterogeneous nuclear ribonucleoprotein H' {Human	98.39
d2adca1		109	Polypyrimidine tract-binding protein {Human (Homo	98.39
d2cpja1		86	Non-POU domain-containing octamer-binding protein,	98.34
d1u2fa_		90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.33
d1wi6a1		75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	98.3
d3begb1		87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	98.24
d1u1qa_		183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.24
d1weza_		102	Heterogeneous nuclear ribonucleoprotein H' {Human	98.17
d1u1qa_		183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.17
d1wg4a_		98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	98.16
d1wela1		112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	98.14
d1wf2a_		98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	98.1
d1wg1a_		88	Probable RNA-binding protein KIAA1579 {Human (Homo	98.09
d2cq2a1		101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	97.74
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	97.72
d1wwha1		81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	97.69
d1weya_		104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	97.6
d1owxa_		113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	97.38
d2dita1		99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	97.35
d1o0pa_		104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	96.74

>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=98.88  E-value=1.9e-09  Score=99.41  Aligned_cols=77  Identities=19%  Similarity=0.235  Sum_probs=68.0

Q ss_pred             eeeEEEEeCCCccccHHHHHHHHHhccccEEEEEEEecCCCCCCCCcccccccccccccCCCCCccceEEEEecChHHHH
Q 048783            9 VDTQVSVGGFDRDIKAVDLVKYLENEVGGVWRCRLKTSCTPSESYPNFFIENVAEVQKTDDYEKVEPHAFVHFATSTYIT   88 (1117)
Q Consensus         9 ~~~~v~v~gf~~~~~a~~l~~~lE~~~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~afV~F~~~e~a~   88 (1117)
                      -.+||+|+|+|..++.++|+++|+. +|.|..|+|..+                     ...+++++||||+|.++|+|.
T Consensus        17 ~~~tifV~nL~~~~te~~l~~~F~~-~G~V~~v~i~~d---------------------~~tg~~kG~afV~F~~~e~a~   74 (101)
T d2cq4a1          17 DARTVFCMQLAARIRPRDLEDFFSA-VGKVRDVRIISD---------------------RNSRRSKGIAYVEFCEIQSVP   74 (101)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHTT-TSCEEEEEECCS---------------------CCSSSCCCCEEEEESCGGGHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHcC-CCeEEEEEeeec---------------------CCCccccceEEEEECCHHHHH
Confidence            4579999999999999999999998 899999999875                     445789999999999999999


Q ss_pred             HHHHhhcccceeccCeeeeeec
Q 048783           89 RAMDAAEHMELFLNGRALKVSL  110 (1117)
Q Consensus        89 ~a~~~a~~~~l~~~~~~Lkv~~  110 (1117)
                      .|+.+-   ...|+|+.|+|..
T Consensus        75 ~A~~l~---g~~~~G~~l~V~~   93 (101)
T d2cq4a1          75 LAIGLT---GQRLLGVPIIVQA   93 (101)
T ss_dssp             HHHHHT---TEEETTEEEEEEE
T ss_pred             HHHHHC---CCEECCEEEEEEE
Confidence            999653   3678999999984

PyMOL of d2cq4a1

>d1l3ka2 d.58.7.1 (A:103-181) 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

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {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

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}	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

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {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

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}	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

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {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

>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

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]}	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

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {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

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {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

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	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

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {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

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {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

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {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

>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

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {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

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]}	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

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {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

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}	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

>d2cpfa1 d.58.7.1 (A:362-446) 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

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {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

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]}	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

>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

>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

>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

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}	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

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]}	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

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}	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

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {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

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {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

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}	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

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {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

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}	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

>d1wg5a_ 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

>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

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {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

>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

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {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

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {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

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {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

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]}	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

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}	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

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure